From b0a0af12eec2298ef448f4560dab4d7b03e8b4f7 Mon Sep 17 00:00:00 2001 From: Aleix Puig <94959119+aleixpuigb@users.noreply.github.com> Date: Wed, 15 May 2024 15:18:41 +0100 Subject: [PATCH] CL release v2024-05-15 (#2372) --- cl-base.owl | 5287 ++- cl.obo | 5223 +- src/ontology/components/cellxgene_subset.owl | 4 +- src/ontology/diffs/cl-diff.md | 39421 ++++------------ src/ontology/reports/basic-report.tsv | 1724 +- .../reports/cl-edit.owl-obo-report.tsv | 139 - .../subsets/blood_and_immune_upper_slim.json | 2239 +- .../subsets/blood_and_immune_upper_slim.obo | 952 +- .../subsets/blood_and_immune_upper_slim.owl | 3527 +- .../subsets/blood_and_immune_upper_slim.tsv | 777 +- src/ontology/subsets/eye_upper_slim.json | 2224 +- src/ontology/subsets/eye_upper_slim.obo | 942 +- src/ontology/subsets/eye_upper_slim.owl | 4054 +- src/ontology/subsets/eye_upper_slim.tsv | 632 +- .../general_cell_types_upper_slim.json | 2420 +- .../subsets/general_cell_types_upper_slim.obo | 1023 +- .../subsets/general_cell_types_upper_slim.owl | 3636 +- .../subsets/general_cell_types_upper_slim.tsv | 550 +- src/ontology/subsets/kidney_upper_slim.json | 2302 +- src/ontology/subsets/kidney_upper_slim.obo | 975 +- src/ontology/subsets/kidney_upper_slim.owl | 4075 +- src/ontology/subsets/kidney_upper_slim.tsv | 733 +- subsets/blood_and_immune_upper_slim.json | 2239 +- subsets/blood_and_immune_upper_slim.obo | 952 +- subsets/blood_and_immune_upper_slim.owl | 3527 +- subsets/blood_and_immune_upper_slim.tsv | 777 +- subsets/eye_upper_slim.json | 2224 +- subsets/eye_upper_slim.obo | 942 +- subsets/eye_upper_slim.owl | 4054 +- subsets/eye_upper_slim.tsv | 632 +- subsets/general_cell_types_upper_slim.json | 2420 +- subsets/general_cell_types_upper_slim.obo | 1023 +- subsets/general_cell_types_upper_slim.owl | 3636 +- subsets/general_cell_types_upper_slim.tsv | 550 +- subsets/kidney_upper_slim.json | 2302 +- subsets/kidney_upper_slim.obo | 975 +- subsets/kidney_upper_slim.owl | 4075 +- subsets/kidney_upper_slim.tsv | 733 +- 38 files changed, 39340 insertions(+), 74580 deletions(-) diff --git a/cl-base.owl b/cl-base.owl index 83cd211fd..3565ddfe4 100644 --- a/cl-base.owl +++ b/cl-base.owl @@ -3,17 +3,26 @@ xml:base="http://purl.obolibrary.org/obo/cl/cl-base.owl" xmlns:cl="http://purl.obolibrary.org/obo/cl#" xmlns:dc="http://purl.org/dc/elements/1.1/" + xmlns:go="http://purl.obolibrary.org/obo/go#" + xmlns:pr="http://purl.obolibrary.org/obo/pr#" xmlns:obo="http://purl.obolibrary.org/obo/" xmlns:owl="http://www.w3.org/2002/07/owl#" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:xml="http://www.w3.org/XML/1998/namespace" xmlns:xsd="http://www.w3.org/2001/XMLSchema#" + xmlns:core="http://purl.obolibrary.org/obo/uberon/core#" xmlns:foaf="http://xmlns.com/foaf/0.1/" + xmlns:pato="http://purl.obolibrary.org/obo/pato#" xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#" + xmlns:sssom="https://w3id.org/sssom/" xmlns:terms="http://purl.org/dc/terms/" - xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#"> + xmlns:uberon="http://purl.obolibrary.org/obo/uberon#" + xmlns:ubprop="http://purl.obolibrary.org/obo/ubprop#" + xmlns:subsets="http://purl.obolibrary.org/obo/ro/subsets#" + xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#" + xmlns:ncbitaxon="http://purl.obolibrary.org/obo/ncbitaxon#"> - + An ontology of cell types. Cell Ontology @@ -29,7 +38,7 @@ See PMID:15693950, PMID:12799354, PMID:20123131, PMID:21208450; Contact Alexander Diehl, addiehl@buffalo.edu, University at Buffalo. - 2024-04-05 + 2024-05-15 @@ -311,6 +320,12 @@ + + + + + + + + + + + @@ -611,6 +632,12 @@ + + + + + + @@ -626,6 +653,7 @@ A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane. CALOHA:TS-2035 + FBbt:00007002 FMA:68646 GO:0005623 KUPO:0000002 @@ -633,7 +661,7 @@ VHOG:0001533 WBbt:0004017 XAO:0003012 - FBbt:00007002 + ZFA:0009000 The definition of cell is intended to represent all cells, and thus a cell is defined as a material entity and not an anatomical structure, which implies that it is part of an organism (or the entirety of one). @@ -645,6 +673,18 @@ A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane. CARO:mah + + + + FBbt:00007002 + + + + + + ZFA:0009000 + + @@ -785,10 +825,24 @@ Covers cells actively being cultured or stored in a quiescent state for future u + Any sensory receptor cell that is a(n) neuron and is capable of some detection of stimulus involved in sensory perception. + ZFA:0009001 neuronal receptor cell (sensu Animalia) neuronal receptor cell + + + + Any sensory receptor cell that is a(n) neuron and is capable of some detection of stimulus involved in sensory perception. + FBC:Autogenerated + + + + + ZFA:0009001 + + @@ -797,6 +851,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A cell found in the embryo before the formation of all the gem layers is complete. + ZFA:0009002 early embryonic cell (metazoa) @@ -805,6 +860,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u A cell found in the embryo before the formation of all the gem layers is complete. GOC:tfm + + + + ZFA:0009002 + + @@ -813,6 +874,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u Cell that is part of the migratory cranial neural crest population. Migratory cranial neural crest cells develop from premigratory cranial neural crest cells and have undergone epithelial to mesenchymal transition and delamination. + ZFA:0007091 migratory cranial neural crest cell @@ -822,6 +884,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u ZFA:0007091 https://orcid.org/0000-0001-5208-3432 + + + + ZFA:0007091 + + @@ -867,6 +935,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u Cell that is part of the migratory trunk neural crest population. Migratory trunk neural crest cells develop from premigratory trunk neural crest cells and have undergone epithelial to mesenchymal transition and delamination. + ZFA:0007095 migratory trunk neural crest cell @@ -876,6 +945,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u ZFA:0007095 https://orcid.org/0000-0001-5208-3432 + + + + ZFA:0007095 + + @@ -920,6 +995,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A stem cell that is the precursor of gametes. FBbt:00004861 + ZFA:0005956 germline stem cell germ line stem cell @@ -935,6 +1011,18 @@ Covers cells actively being cultured or stored in a quiescent state for future u A stem cell that is the precursor of gametes. doi:10.1016/j.stem.2012.05.016 + + + + FBbt:00004861 + + + + + + ZFA:0005956 + + @@ -988,6 +1076,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u A stem cell that is the precursor of male gametes. doi:10.1016/j.stem.2012.05.016 + + + + FBbt:00004929 + + @@ -1005,6 +1099,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u + @@ -1022,9 +1117,10 @@ Covers cells actively being cultured or stored in a quiescent state for future u BTO:0001275 CALOHA:TS-0951 EMAPA:31484 + FBbt:00004936 FMA:84049 WBbt:0006799 - FBbt:00004936 + ZFA:0009005 spermatocyte @@ -1034,6 +1130,18 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:tfm MESH:D013090 + + + + FBbt:00004936 + + + + + + ZFA:0009005 + + @@ -1063,6 +1171,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u + @@ -1093,9 +1202,10 @@ Covers cells actively being cultured or stored in a quiescent state for future u BTO:0001274 CALOHA:TS-0950 EMAPA:31486 + FBbt:00004942 FMA:72294 WBbt:0006800 - FBbt:00004942 + ZFA:0005769 nematoblast spermatid @@ -1105,12 +1215,25 @@ Covers cells actively being cultured or stored in a quiescent state for future u A male germ cell that develops from the haploid secondary spermatocytes. Without further division, spermatids undergo structural changes and give rise to spermatozoa. MESH:D013087 + + + + FBbt:00004942 + + + + + + ZFA:0005769 + + + @@ -1122,9 +1245,10 @@ Covers cells actively being cultured or stored in a quiescent state for future u BTO:0001277 BTO:0002046 CALOHA:TS-0949 + FBbt:00004954 FMA:67338 WBbt:0006798 - FBbt:00004954 + ZFA:0009006 sperm cell spermatozoid spermatozoon @@ -1144,6 +1268,18 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:tfm MESH:D013094 + + + + FBbt:00004954 + + + + + + ZFA:0009006 + + @@ -1182,9 +1318,10 @@ Covers cells actively being cultured or stored in a quiescent state for future u BTO:0000958 CALOHA:TS-2193 EMAPA:31482 - FMA:72291 FBbt:00004934 FBbt:00004935 + FMA:72291 + ZFA:0009007 spermatogonial cell spermatogonium @@ -1194,6 +1331,24 @@ Covers cells actively being cultured or stored in a quiescent state for future u An euploid male germ cell of an early stage of spermatogenesis. MESH:D013093 + + + + FBbt:00004934 + + + + + + FBbt:00004935 + + + + + + ZFA:0009007 + + @@ -1280,12 +1435,19 @@ Covers cells actively being cultured or stored in a quiescent state for future u A stem cell that is the precursor of female gametes. doi:10.1016/j.stem.2012.05.016 + + + + FBbt:00004873 + + + @@ -1303,14 +1465,27 @@ Covers cells actively being cultured or stored in a quiescent state for future u A female germ cell that has entered meiosis. BTO:0000964 CALOHA:TS-0711 + FBbt:00004886 FMA:18644 MESH:D009865 WBbt:0006797 - FBbt:00004886 + ZFA:0001109 oogonium oocyte + + + + FBbt:00004886 + + + + + + ZFA:0001109 + + @@ -1341,6 +1516,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u + @@ -1356,6 +1532,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u An undifferentiated germ cell that proliferates rapidly and gives rise to oocytes. FMA:83673 + ZFA:0005878 oogonial cell @@ -1372,12 +1549,19 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:tfm ISBN:0721662544 + + + + ZFA:0005878 + + + @@ -1395,9 +1579,10 @@ Covers cells actively being cultured or stored in a quiescent state for future u BTO:0000369 BTO:0003801 CALOHA:TS-2191 + FBbt:00057012 FMA:67343 MESH:D010063 - FBbt:00057012 + ZFA:0001570 mature oocyte ovum egg cell @@ -1416,12 +1601,25 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:tfm ISBN:0721662544 + + + + FBbt:00057012 + + + + + + ZFA:0001570 + + + @@ -1443,6 +1641,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:tfm PMID:15848391 + + + + FBbt:00004878 + + @@ -1488,6 +1692,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u + @@ -1520,6 +1725,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u + @@ -1527,6 +1733,8 @@ Covers cells actively being cultured or stored in a quiescent state for future u + Any neuron that develops from some migratory neural crest cell. + ZFA:0009009 neuron neural crest derived neural crest derived neuron @@ -1536,12 +1744,25 @@ Covers cells actively being cultured or stored in a quiescent state for future u true + + + + Any neuron that develops from some migratory neural crest cell. + FBC:Autogenerated + + + + + ZFA:0009009 + + + @@ -1549,9 +1770,16 @@ Covers cells actively being cultured or stored in a quiescent state for future u + ZFA:0009010 glioblast + + + + ZFA:0009010 + + @@ -1569,6 +1797,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A cell that will develop into a neuron often after a migration phase. BTO:0000930 FMA:70563 + ZFA:0009011 neuroblast neuroblast (sensu Vertebrata) @@ -1580,12 +1809,19 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:NV http://en.wikipedia.org/wiki/Neuroblast + + + + ZFA:0009011 + + + @@ -1594,6 +1830,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A cell of a platelike structure, especially a thickened plate of ectoderm in the early embryo, from which a sense organ develops. + ZFA:0009012 neural placode cell neuroplacodal cell @@ -1604,6 +1841,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:tfm ISBN:0618947256 + + + + ZFA:0009012 + + @@ -1658,6 +1901,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u CALOHA:TS-2086 FMA:63368 + ZFA:0005957 animal stem cell @@ -1672,6 +1916,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:tfm MESH:D013234 + + + + ZFA:0005957 + + @@ -1702,6 +1952,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A stem cell that self-renews as well as give rise to a single mature cell type. FMA:70569 + ZFA:0009013 unipotent stem cell unipotential stem cell single fate stem cell @@ -1712,6 +1963,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u A stem cell that self-renews as well as give rise to a single mature cell type. GOC:tfm + + + + ZFA:0009013 + + @@ -1888,6 +2145,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u FMA:86475 MESH:D006412 VHOG:0001485 + ZFA:0009014 blood forming stem cell hemopoietic stem cell HSC @@ -1908,6 +2166,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u PMID:19022770 http://en.wikipedia.org/wiki/Hematopoietic_stem_cell + + + + ZFA:0009014 + + @@ -1930,6 +2194,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A progenitor cell committed to the erythroid lineage. BTO:0004911 + ZFA:0009015 BFU-E CFU-E blast forming unit erythroid @@ -1953,6 +2218,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:add ISBN:0721601464 + + + + ZFA:0009015 + + @@ -1979,6 +2250,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A cell that is within the developmental lineage of gametes and is able to pass along its genetic material to offspring. + ZFA:0009016 Originally this term had some plant germ line cell children. @@ -1991,6 +2263,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:tfm ISBN:0721662544 + + + + ZFA:0009016 + + @@ -2026,7 +2304,6 @@ Covers cells actively being cultured or stored in a quiescent state for future u - @@ -2060,6 +2337,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A myeloid progenitor cell committed to the monocyte lineage. This cell is CD11b-positive, has basophilic cytoplasm, euchromatin, and the presence of a nucleolus. CALOHA:TS-1195 FMA:83553 + ZFA:0009017 CFU-M colony forming unit macrophage colony forming unit monocyte @@ -2082,6 +2360,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u http://en.wikipedia.org/wiki/Monoblast http://www.copewithcytokines.de + + + + ZFA:0009017 + + @@ -2343,6 +2627,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A myeloblast committed to the neutrophil lineage. This cell type is GATA-1 positive, C/EBPa-positive, AML-1-positive, c-myb-positive and has low expression of PU.1 transcription factor. + ZFA:0009018 neutrophilic granuloblast These cells are CD11b-negative, CD15-negative, CD16-negative, CD35-negative, CD49d-positive, CD68-positive, lactotransferrin-negative, and fMLP receptor-negative. They are found in the Band 3 fraction. neutrophilic myeloblast @@ -2362,6 +2647,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u PMID:12560239 PMID:15514007 + + + + ZFA:0009018 + + @@ -2544,6 +2835,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u + @@ -2555,6 +2847,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u BTO:0002881 CALOHA:TS-2360 FMA:86684 + ZFA:0009019 NSC neuronal stem cell @@ -2566,6 +2859,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u An undifferentiated neural cell that originates from the neuroectoderm and has the capacity both to perpetually self-renew without differentiating and to generate multiple central nervous system neuronal and glial cell types. PMID:30639325 + + + + ZFA:0009019 + + @@ -2602,6 +2901,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A stem cell that can give rise to multiple lineages of cells. FMA:84789 + ZFA:0009020 multi-fate stem cell multifate stem cell multipotent cell @@ -2614,6 +2914,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u A stem cell that can give rise to multiple lineages of cells. GOC:add + + + + ZFA:0009020 + + @@ -2627,6 +2933,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A progenitor cell committed to myeloid lineage, including the megakaryocyte and erythroid lineages. BTO:0004730 + ZFA:0009021 common myeloid precursor CFU-GEMM CFU-S @@ -2654,6 +2961,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u ISBN:0878932437 MESH:D023461 + + + + ZFA:0009021 + + @@ -2739,6 +3052,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A progenitor cell committed to the megakaryocyte and erythroid lineages. + ZFA:0009022 CFU-EM CFU-MegE MEP @@ -2768,6 +3082,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u PMID:16647566 http://en.wikipedia.org/wiki/Megakaryocyte-erythroid_progenitor_cell + + + + ZFA:0009022 + + @@ -2795,6 +3115,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A oligopotent progenitor cell committed to the lymphoid lineage. + ZFA:0009023 common lymphocyte precursor common lymphocyte progenitor common lymphoid precursor @@ -2825,6 +3146,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u PMID:10407577 PMID:16551251 + + + + ZFA:0009023 + + @@ -2847,6 +3174,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A stem cell from which all cells of the body can form. FMA:84790 MESH:D039901 + ZFA:0009024 totipotential stem cell totipotent stem cell @@ -2857,6 +3185,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:add GOC:tfm + + + + ZFA:0009024 + + @@ -2907,9 +3241,10 @@ Covers cells actively being cultured or stored in a quiescent state for future u A cell that is commited to differentiating into a muscle cell. Embryonic myoblasts develop from the mesoderm. They undergo proliferation, migrate to their various sites, and then differentiate into the appropriate form of myocytes. Myoblasts also occur as transient populations of cells in muscles undergoing repair. BTO:0000222 CALOHA:TS-0650 + FBbt:00005083 FMA:70335 VHOG:0001529 - FBbt:00005083 + ZFA:0009025 myoblast @@ -2920,12 +3255,25 @@ Covers cells actively being cultured or stored in a quiescent state for future u MESH:D032446 PMID:21849021 + + + + FBbt:00005083 + + + + + + ZFA:0009025 + + + @@ -2940,6 +3288,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u FMA:63877 NCIT:C12482 VHOG:0001482 + ZFA:0009026 @@ -2954,12 +3303,19 @@ Covers cells actively being cultured or stored in a quiescent state for future u MESH:D005347 http://en.wikipedia.org/wiki/Fibroblast + + + + ZFA:0009026 + + + @@ -2977,6 +3333,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u Skeletogenic cell that is typically non-terminally differentiated, secretes an avascular, GAG rich matrix; is not buried in cartilage tissue matrix, retains the ability to divide, located adjacent to cartilage tissue (including within the perichondrium), and develops from prechondroblast (and thus prechondrogenic) cell. BTO:0003607 FMA:66783 + ZFA:0009027 chrondoplast chondroblast @@ -2988,6 +3345,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GO_REF:0000034 ISBN:0618947256 + + + + ZFA:0009027 + + @@ -3076,6 +3439,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u CALOHA:TS-0696 FMA:62999 MESH:D009804 + ZFA:0009029 legacy def: One of the cells forming the outer surface of dental pulp that produces tooth dentin. odontoblast @@ -3086,6 +3450,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GO_REF:0000034 ISBN:0618947256 + + + + ZFA:0009029 + + @@ -3115,6 +3485,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u Skeletogenic cell that produces cementum (a bony substance that covers the root of a tooth), is part of the odontogenic papilla, and develops from a precementoblast cell. CALOHA:TS-1164 FMA:63002 + ZFA:0009030 cementum secreting cell Legacy def: A cell of ectomesenchymal origin that aids in the formation the cementum layer on the roots of teeth. cementoblast @@ -3126,6 +3497,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GO_REF:0000034 ISBN:0781733901 + + + + ZFA:0009030 + + @@ -3151,6 +3528,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u BTO:0001593 CALOHA:TS-0720 FMA:66780 + ZFA:0009031 non-encoded relationships from VSAO - capable_of_producing VSAO:0000020 osteoblast @@ -3162,6 +3540,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GO_REF:0000034 MESH:D010006 + + + + ZFA:0009031 + + @@ -3201,7 +3585,6 @@ Covers cells actively being cultured or stored in a quiescent state for future u - @@ -3211,6 +3594,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A cell that has a filiform extrusion of the cell surface. VHOG:0001532 XAO:0000031 + ZFA:0009032 ciliated cell @@ -3220,6 +3604,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u A cell that has a filiform extrusion of the cell surface. GOC:tfm + + + + ZFA:0009032 + + @@ -3232,6 +3622,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u BTO:0001724 FMA:70550 + ZFA:0009033 ependymocyte @@ -3245,6 +3636,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u JB:jb PMID:9550134 + + + + ZFA:0009033 + + @@ -3264,9 +3661,10 @@ Covers cells actively being cultured or stored in a quiescent state for future u BTO:0000414 CALOHA:TS-2026 CARO:0000077 + FBbt:00000124 FMA:66768 WBbt:0003672 - FBbt:00000124 + ZFA:0009034 epitheliocyte @@ -3282,6 +3680,18 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:tfm MESH:D004847 + + + + FBbt:00000124 + + + + + + ZFA:0009034 + + @@ -3303,6 +3713,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u An epithelial cell that has a cilia. FMA:70605 + ZFA:0009035 ciliated epithelial cell @@ -3312,6 +3723,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u An epithelial cell that has a cilia. GOC:tfm + + + + ZFA:0009035 + + @@ -3337,6 +3754,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u An epithelial cell that is part of a duct. + ZFA:0009372 duct epithelial cell @@ -3346,6 +3764,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u An epithelial cell that is part of a duct. https://orcid.org/0000-0001-5208-3432 + + + + ZFA:0009372 + + @@ -3397,6 +3821,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u An endothelial cell that lines the vasculature. + ZFA:0009036 cuboidal endothelial cell of vascular tree @@ -3414,6 +3839,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u An endothelial cell that lines the vasculature. GOC:tfm + + + + ZFA:0009036 + + @@ -3462,6 +3893,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube. + ZFA:0009038 columnar/cuboidal epithelial cell @@ -3473,6 +3905,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GO:0002065 https://orcid.org/0000-0001-5208-3432 + + + + ZFA:0009038 + + @@ -3481,9 +3919,16 @@ Covers cells actively being cultured or stored in a quiescent state for future u CALOHA:TS-1249 + ZFA:0009039 squamous epithelial cell + + + + ZFA:0009039 + + @@ -3496,6 +3941,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A flattened epithelial cell of mesenchymal origin that lines the serous cavity. FMA:66773 + ZFA:0009040 mesotheliocyte @@ -3508,6 +3954,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:tfm ISBN:0721662544 + + + + ZFA:0009040 + + @@ -3515,14 +3967,22 @@ Covers cells actively being cultured or stored in a quiescent state for future u + ZFA:0009041 peridermal cell + + + + ZFA:0009041 + + + @@ -3530,9 +3990,16 @@ Covers cells actively being cultured or stored in a quiescent state for future u + ZFA:0009042 stratified epithelial cell + + + + ZFA:0009042 + + @@ -3558,6 +4025,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A cell which moves among different tissues of the body, via blood, lymph, or other medium. + ZFA:0009043 circulating cell @@ -3566,6 +4034,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u A cell which moves among different tissues of the body, via blood, lymph, or other medium. GOC:add + + + + ZFA:0009043 + + @@ -3593,6 +4067,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A cell found predominately in the blood. FMA:62844 MESH:D001773 + ZFA:0009044 blood cell @@ -3610,6 +4085,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:add GOC:tfm + + + + ZFA:0009044 + + @@ -3663,6 +4144,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u + @@ -3678,6 +4160,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u An epithelial cell of the pancreas. BTO:0000028 + ZFA:0009045 pancreas epithelial cell pancreatic epithelial cell epithelial cell of pancreas @@ -3688,6 +4171,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u An epithelial cell of the pancreas. GOC:tfm + + + + ZFA:0009045 + + @@ -3726,6 +4215,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u FMA:62870 MESH:D013601 VHOG:0001479 + ZFA:0009046 T lymphocyte T-cell T-lymphocyte @@ -3750,6 +4240,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:tfm ISBN:0781735149 + + + + ZFA:0009046 + + @@ -3860,7 +4356,6 @@ Covers cells actively being cultured or stored in a quiescent state for future u - @@ -3982,7 +4477,6 @@ Covers cells actively being cultured or stored in a quiescent state for future u - @@ -4042,6 +4536,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u CALOHA:TS-0721 FMA:66781 MESH:D010010 + ZFA:0009047 chondroclast Morphology: Highly vesicular; markers: Surface: RANK, cFMS (MCSF receptor); Secreted: cathepsin K and TRAP (tartate resistant acid phosphatase); transcription factors: PU.1, cFOS, MITF, NFkB (p52); role or process: tissue remodelling: bone resorption; lineage: hematopoietic, myeloid. @@ -4071,6 +4566,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u PMID:15055519 PMID:17380158 + + + + ZFA:0009047 + + @@ -4133,7 +4634,6 @@ Covers cells actively being cultured or stored in a quiescent state for future u - @@ -4188,6 +4688,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u BTO:0001026 CALOHA:TS-0422 FMA:62854 + ZFA:0009048 granular leucocyte granular leukocyte polymorphonuclear leukocyte @@ -4210,12 +4711,19 @@ Covers cells actively being cultured or stored in a quiescent state for future u MESH:D006098 http://en.wikipedia.org/wiki/Granulocyte + + + + ZFA:0009048 + + + @@ -4425,6 +4933,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u polymorphonuclear leucocyte polymorphonuclear leukocyte BTO:0003473 + ZFA:0009049 PMN mature neutrocyte mature neutrophil leucocyte @@ -4457,6 +4966,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u PMID:7880385 http://www.cap.org + + + + ZFA:0009049 + + @@ -4520,7 +5035,6 @@ Covers cells actively being cultured or stored in a quiescent state for future u - @@ -4677,6 +5191,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A specialized epithelial cell involved in sensory perception. Restricted to special sense organs of the olfactory, gustatory, and vestibulocochlear receptor systems; contain sensory cells surrounded by supportive, non-receptive cells. neuroepithelial cell BTO:0004301 + ZFA:0009050 The term "neuroepithelial cell" is used to describe both this cell type and neurecto-epithelial cell (CL:0000710). sensory epithelial cell @@ -4688,6 +5203,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u ISBN:0517223651 ISBN:0721662544 + + + + ZFA:0009050 + + @@ -4698,9 +5219,10 @@ Covers cells actively being cultured or stored in a quiescent state for future u Most generally any neuron which is not motor or sensory. Interneurons may also refer to neurons whose axons remain within a particular brain region as contrasted with projection neurons which have axons projecting to other brain regions. BTO:0003811 + FBbt:00005125 FMA:67313 WBbt:0005113 - FBbt:00005125 + ZFA:0009051 interneuron @@ -4712,6 +5234,18 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:tfm MESH:D007395 + + + + FBbt:00005125 + + + + + + ZFA:0009051 + + @@ -4722,9 +5256,10 @@ Covers cells actively being cultured or stored in a quiescent state for future u An efferent neuron that passes from the central nervous system or a ganglion toward or to a muscle and conducts an impulse that causes or inhibits movement. BTO:0000312 + FBbt:00005123 FMA:83617 WBbt:0005409 - FBbt:00005123 + ZFA:0009052 motoneuron @@ -4737,6 +5272,18 @@ Covers cells actively being cultured or stored in a quiescent state for future u MESH:D009046 PMID:16875686 + + + + FBbt:00005123 + + + + + + ZFA:0009052 + + @@ -4762,11 +5309,14 @@ Covers cells actively being cultured or stored in a quiescent state for future u Any neuron having a sensory function; an afferent neuron conveying sensory impulses. + BTO:0001037 + FBbt:00005124 FMA:84649 MESH:D011984 WBbt:0005759 - FBbt:00005124 + ZFA:0009053 + sensory neuron @@ -4775,6 +5325,18 @@ Covers cells actively being cultured or stored in a quiescent state for future u Any neuron having a sensory function; an afferent neuron conveying sensory impulses. ISBN:0721662544 + + + + FBbt:00005124 + + + + + + ZFA:0009053 + + @@ -4782,8 +5344,15 @@ Covers cells actively being cultured or stored in a quiescent state for future u + ZFA:0009054 polymodal neuron + + + + ZFA:0009054 + + @@ -4810,6 +5379,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A type of interneuron that has two neurites, usually an axon and a dendrite, extending from opposite poles of an ovoid cell body. FMA:67282 + ZFA:0009055 bipolar neuron @@ -4821,6 +5391,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:tfm ISBN:0444009442 + + + + ZFA:0009055 + + @@ -4847,6 +5423,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A neuron with three or more neurites, usually an axon and multiple dendrites. FMA:67287 + ZFA:0009056 multipolar neuron @@ -4857,6 +5434,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u FMA:67287 GOC:tfm + + + + ZFA:0009056 + + @@ -4866,6 +5449,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u Neuron with two neurites that are fused grossly when they protrude from the soma and bifurcate a short distance from the soma. FMA:67305 + ZFA:0009057 pseudounipolar neuron @@ -4875,6 +5459,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u FMA:67305 GOC:tfm + + + + ZFA:0009057 + + @@ -4884,6 +5474,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u Neuron with one neurite that extends from the cell body. FMA:67278 + ZFA:0009058 unipolar neuron @@ -4894,6 +5485,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u FMA:67278 GOC:nv + + + + ZFA:0009058 + + @@ -4920,6 +5517,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A neuron whose cell body is within an autonomic ganglion. FMA:80121 + ZFA:0009059 autonomic neuron @@ -4928,6 +5526,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u A neuron whose cell body is within an autonomic ganglion. GOC:tfm + + + + ZFA:0009059 + + @@ -4955,10 +5559,11 @@ Covers cells actively being cultured or stored in a quiescent state for future u A neuron that uses acetylcholine as a vesicular neurotransmitter. BTO:0004902 + FBbt:00007173 FMA:84796 MESH:D059329 WBbt:0006840 - FBbt:00007173 + ZFA:0009060 cholinergic neuron @@ -4967,6 +5572,18 @@ Covers cells actively being cultured or stored in a quiescent state for future u A neuron that uses acetylcholine as a vesicular neurotransmitter. GOC:tfm + + + + FBbt:00007173 + + + + + + ZFA:0009060 + + @@ -4975,8 +5592,15 @@ Covers cells actively being cultured or stored in a quiescent state for future u MESH:D059331 + ZFA:0009061 adrenergic neuron + + + + ZFA:0009061 + + @@ -4992,6 +5616,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A neuron that uses neuropeptides as transmitters. FBbt:00004101 + ZFA:0009062 peptidergic neuron @@ -5001,6 +5626,18 @@ Covers cells actively being cultured or stored in a quiescent state for future u PMID:23040809 doi:10.1016/B978-012589762-4/50021-9 + + + + FBbt:00004101 + + + + + + ZFA:0009062 + + @@ -5054,6 +5691,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A vertebrate phagocyte with a single nucleus. BTO:0001433 + ZFA:0009064 mononuclear phagocyte @@ -5072,6 +5710,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:tfm ISBN:0781735149 + + + + ZFA:0009064 + + @@ -5098,6 +5742,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u BTO:0001176 CALOHA:TS-0278 FMA:66772 + ZFA:0009065 endotheliocyte @@ -5114,6 +5759,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u http://en.wikipedia.org/wiki/Endothelial_cell https://sourceforge.net/tracker/?func=detail&atid=440764&aid=3364936&group_id=36855 + + + + ZFA:0009065 + + @@ -5123,6 +5774,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u Pioneer neurons establish a pathway in the developing central nervous system and then undergo programmed cell death once the adult axons, which follow them, have made connections with the target site. Thus, they are a transient cell type involved in axon guidance. FBbt:00005128 + ZFA:0009066 pioneer neuron @@ -5132,12 +5784,25 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:cvs GOC:tfm + + + + FBbt:00005128 + + + + + + ZFA:0009066 + + + @@ -5151,8 +5816,15 @@ Covers cells actively being cultured or stored in a quiescent state for future u + ZFA:0009067 CNS neuron (sensu Vertebrata) + + + + ZFA:0009067 + + @@ -5184,6 +5856,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u Basket cells are inhibitory GABAergic interneurons of the brain. In general, dendrites of basket cells are free branching and contain smooth spines. Axons are highly branched. The branched axonal arborizations give rise to basket-like structures that surround the soma of the target cell. Basket cells form axo-somatic synapses, meaning their synapses target somas of other cells. + ZFA:0009068 basket cell @@ -5193,6 +5866,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u Basket cells are inhibitory GABAergic interneurons of the brain. In general, dendrites of basket cells are free branching and contain smooth spines. Axons are highly branched. The branched axonal arborizations give rise to basket-like structures that surround the soma of the target cell. Basket cells form axo-somatic synapses, meaning their synapses target somas of other cells. WikipediaVersioned:Basket_cell&oldid=951703880 + + + + ZFA:0009068 + + @@ -5202,6 +5881,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u Large intrinsic neuron located in the granule layer of the cerebellar cortex that extends its dendrites into the molecular layer where they receive contact from parallel fibers. The axon of the Golgi cell ramifies densely in the granule layer and enters into a complex arrangement with mossy fiber terminals and granule cell dendrites to form the cerebellar glomerulus. Llinas, Walton and Lang. In The Synaptic Organization of the Brain. 5th ed. 2004. MESH:D000080906 + ZFA:0009069 Golgi cell Golgi neuron cerebellar Golgi neuron @@ -5215,6 +5895,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u Large intrinsic neuron located in the granule layer of the cerebellar cortex that extends its dendrites into the molecular layer where they receive contact from parallel fibers. The axon of the Golgi cell ramifies densely in the granule layer and enters into a complex arrangement with mossy fiber terminals and granule cell dendrites to form the cerebellar glomerulus. Llinas, Walton and Lang. In The Synaptic Organization of the Brain. 5th ed. 2004. NIFSTD:sao1415726815 + + + + ZFA:0009069 + + @@ -5224,6 +5910,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A neuron of the vertebrate central nervous system that is small in size. This general class includes small neurons in the granular layer of the cerebellar cortex, cerebral cortex neurons that are not pyramidal cells and small neurons without axons found in the olfactory bulb. BTO:0003393 + ZFA:0009070 granule cell @@ -5233,6 +5920,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u A neuron of the vertebrate central nervous system that is small in size. This general class includes small neurons in the granular layer of the cerebellar cortex, cerebral cortex neurons that are not pyramidal cells and small neurons without axons found in the olfactory bulb. + + + + ZFA:0009070 + + @@ -5252,6 +5945,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u BTO:0001011 CALOHA:TS-0845 FMA:67969 + ZFA:0009071 Purkinje neuron Purkinje's cell cerebellar Purkinje cell @@ -5265,6 +5959,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u The output neuron of the cerebellar cortex. MESH:D011689 + + + + ZFA:0009071 + + @@ -5292,6 +5992,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A neuron that has dendritic processes radiating from the cell body forming a star-like shape. BTO:0002316 + ZFA:0009072 stellate neuron @@ -5302,6 +6003,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u A neuron that has dendritic processes radiating from the cell body forming a star-like shape. ISBN:9780123973481 + + + + ZFA:0009072 + + @@ -5344,14 +6051,17 @@ Covers cells actively being cultured or stored in a quiescent state for future u A non-neuronal cell of the nervous system. They not only provide physical support, but also respond to injury, regulate the ionic and chemical composition of the extracellular milieu. Guide neuronal migration during development, and exchange metabolites with neurons. + BTO:0002606 CALOHA:TS-0415 - FMA:54536 FBbt:00005144 + FMA:54536 + ZFA:0009073 neuroglial cell neuroglia + Not all glial cells develop from glioblasts, with microglia developing from the mesoderm instead. See https://github.com/obophenotype/cell-ontology/issues/1571 glial cell @@ -5361,6 +6071,18 @@ Covers cells actively being cultured or stored in a quiescent state for future u A non-neuronal cell of the nervous system. They not only provide physical support, but also respond to injury, regulate the ionic and chemical composition of the extracellular milieu. Guide neuronal migration during development, and exchange metabolites with neurons. MESH:D009457 + + + + FBbt:00005144 + + + + + + ZFA:0009073 + + @@ -5378,6 +6100,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u BTO:0000771 CALOHA:TS-2027 FMA:54538 + ZFA:0009074 macrogliocyte macroglia @@ -5390,6 +6113,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:tfm ISBN:0721662544 + + + + ZFA:0009074 + + @@ -5409,6 +6138,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u BTO:0000099 CALOHA:TS-0060 FMA:54537 + ZFA:0009075 astrocytic glia @@ -5428,6 +6158,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u PMID:20942978 http://en.wikipedia.org/wiki/Astrocyte + + + + ZFA:0009075 + + @@ -5453,6 +6189,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u BTO:0000962 CALOHA:TS-0709 FMA:54540 + ZFA:0009076 OLs oligodendroglia @@ -5473,6 +6210,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u MESH:D009836 http://en.wikipedia.org/wiki/Oligodendrocyte + + + + ZFA:0009076 + + @@ -5514,7 +6257,6 @@ Covers cells actively being cultured or stored in a quiescent state for future u - @@ -5567,6 +6309,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u BTO:0000078 BTO:0000962 FMA:54539 + ZFA:0009077 brain-resident macrophage hortega cells microgliocyte @@ -5595,6 +6338,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u PMID:2089275 http://en.wikipedia.org/wiki/Microglia + + + + ZFA:0009077 + + @@ -5649,9 +6398,16 @@ Covers cells actively being cultured or stored in a quiescent state for future u + ZFA:0009078 gut endothelial cell + + + + ZFA:0009078 + + @@ -5676,6 +6432,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u CALOHA:TS-0172 FMA:70614 + ZFA:0009079 @@ -5691,6 +6448,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u PMID:34741068 PMID:36769303 + + + + ZFA:0009079 + + @@ -5699,6 +6462,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u Ectoderm destined to be nervous tissue. + ZFA:0009080 neurectoderm cell neurectodermal cell @@ -5709,6 +6473,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:tfm ISBN:068340007X + + + + ZFA:0009080 + + @@ -5721,6 +6491,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u BTO:0002625 BTO:0003298 FMA:70546 + ZFA:0009081 bone marrow stromal cells colony-forming unit-fibroblast marrow stromal cells @@ -5758,6 +6529,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u http://en.wikipedia.org/wiki/Mesenchymal_stem_cell http://www.copewithcytokines.de/cope.cgi?key=mesenchymal%20stem%20cells + + + + ZFA:0009081 + + @@ -5877,6 +6654,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u + @@ -5890,6 +6668,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u BTO:0000443 CALOHA:TS-0012 FMA:63880 + ZFA:0009082 adipose cell fat cell @@ -5903,12 +6682,19 @@ Covers cells actively being cultured or stored in a quiescent state for future u A fat-storing cell found mostly in the abdominal cavity and subcutaneous tissue of mammals. Fat is usually stored in the form of triglycerides. MESH:D017667 + + + + ZFA:0009082 + + + @@ -5929,6 +6715,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u CALOHA:TS-1167 FMA:66779 VSAO:0000124 + ZFA:0009083 VSAO relationship simplified OBO_REL:integral_part_of VSAO:0000118 osteocyte @@ -5939,6 +6726,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:tfm MESH:D010011 + + + + ZFA:0009083 + + @@ -5963,6 +6756,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u BTO:0000249 CALOHA:TS-0138 FMA:66782 + ZFA:0009084 cartilage cell chondrocyte @@ -5974,6 +6768,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GO_REF:0000034 MESH:D019902 + + + + ZFA:0009084 + + @@ -5990,6 +6790,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u + @@ -6010,6 +6811,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u Skeletogenic cell that secretes dentine matrix, is derived from odontogenic papilla. Embedded in dentine tissue, and is the transformation of a non-terminally differentiated odontoblast cell. + ZFA:0009086 odontocyte @@ -6018,6 +6820,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u Skeletogenic cell that secretes dentine matrix, is derived from odontogenic papilla. Embedded in dentine tissue, and is the transformation of a non-terminally differentiated odontoblast cell. GO_REF:0000034 + + + + ZFA:0009086 + + @@ -6039,6 +6847,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u An osteocytelike cell with numerous processes, trapped in a lacuna in the cement of the tooth. FMA:63003 + ZFA:0009087 CHECK: wikipedia says that cementocytes no longer produce cementum, but the phenoscape def is: Skeletogenic cell that produces cementum, is part of the odontogenic papilla, and is a transformation of a cementoblast cell (no change to existing def). cementocyte @@ -6048,6 +6857,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u An osteocytelike cell with numerous processes, trapped in a lacuna in the cement of the tooth. ISBN:0781733901 + + + + ZFA:0009087 + + @@ -6122,6 +6937,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A cell capable of processing and presenting lipid and protein antigens to T cells in order to initiate an immune response. + ZFA:0009088 APC @@ -6135,6 +6951,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:add ISBN:0781735149 + + + + ZFA:0009088 + + @@ -6149,9 +6971,16 @@ Covers cells actively being cultured or stored in a quiescent state for future u + ZFA:0009089 simple columnar epithelial cell + + + + ZFA:0009089 + + @@ -6161,6 +6990,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A pigment cell is a cell that contains pigment granules. VHOG:0001678 + ZFA:0009090 chromatocyte chromatophore pigment cell @@ -6171,6 +7001,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u A pigment cell is a cell that contains pigment granules. GOC:tfm + + + + ZFA:0009090 + + @@ -6192,6 +7028,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u + @@ -6212,6 +7049,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u FMA:70545 MESH:D008544 VHOG:0001679 + ZFA:0009091 melanophore @@ -6224,6 +7062,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u A pigment cell derived from the neural crest. Contains melanin-filled pigment granules, which gives a brown to black appearance. SANBI:mhl + + + + ZFA:0009091 + + @@ -6323,6 +7167,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A cell of an exocrine gland; i.e. a gland that discharges its secretion via a duct. FMA:16014 + ZFA:0009092 exocrine cell @@ -6332,6 +7177,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u A cell of an exocrine gland; i.e. a gland that discharges its secretion via a duct. ISBN:0198547684 + + + + ZFA:0009092 + + @@ -6341,6 +7192,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A cell that secretes glycosaminoglycans. + ZFA:0009093 GAG secreting cell hyaluronic acid secreting cell glycosaminoglycan secreting cell @@ -6351,6 +7203,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u A cell that secretes glycosaminoglycans. GOC:tfm + + + + ZFA:0009093 + + @@ -6375,8 +7233,15 @@ Covers cells actively being cultured or stored in a quiescent state for future u + Any secretory cell that is capable of some protein secretion. protein secreting cell + + + + Any secretory cell that is capable of some protein secretion. + FBC:Autogenerated + @@ -6506,6 +7371,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A cell of the epithelial lining that produce and secrete mucins. BTO:0001540 FMA:13148 + ZFA:0009094 http://en.wikipedia.org/wiki/Goblet_cell chalice cell @@ -6517,6 +7383,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u A cell of the epithelial lining that produce and secrete mucins. MESH:D020397 + + + + ZFA:0009094 + + @@ -6608,6 +7480,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A cell of an endocrine gland, ductless glands that secrete substances which are released directly into the circulation and which influence metabolism and other body functions. FMA:83809 + ZFA:0009096 endocrinocyte @@ -6620,6 +7493,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u A cell of an endocrine gland, ductless glands that secrete substances which are released directly into the circulation and which influence metabolism and other body functions. MESH:D055098 + + + + ZFA:0009096 + + @@ -6632,6 +7511,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u BTO:0003865 FMA:62930 MESH:D019858 + ZFA:0009097 enteroendocrine cell @@ -6642,6 +7522,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:tfm SANBI:mhl + + + + ZFA:0009097 + + @@ -6665,8 +7551,9 @@ Covers cells actively being cultured or stored in a quiescent state for future u A neuron that is capable of some hormone secretion in response to neuronal signals. BTO:0002691 - FMA:83810 FBbt:00005130 + FMA:83810 + ZFA:0009098 neurosecretory cell neurosecretory neuron @@ -6682,6 +7569,18 @@ The modern definition of neurosecretion has evolved to include the release of an A neuron that is capable of some hormone secretion in response to neuronal signals. MESH:D055099 + + + + FBbt:00005130 + + + + + + ZFA:0009098 + + @@ -6702,6 +7601,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell that stores epinephrine secretory vesicles. During times of stress, the nervous system signals the vesicles to secrete their hormonal content. Their name derives from their ability to stain a brownish color with chromic salts. Characteristically, they are located in the adrenal medulla and paraganglia of the sympathetic nervous system. BTO:0000259 FMA:69263 + ZFA:0009099 phaeochromocyte chromaffin cell @@ -6712,6 +7612,12 @@ The modern definition of neurosecretion has evolved to include the release of an A cell that stores epinephrine secretory vesicles. During times of stress, the nervous system signals the vesicles to secrete their hormonal content. Their name derives from their ability to stain a brownish color with chromic salts. Characteristically, they are located in the adrenal medulla and paraganglia of the sympathetic nervous system. MESH:D019439 + + + + ZFA:0009099 + + @@ -6736,8 +7642,22 @@ The modern definition of neurosecretion has evolved to include the release of an + Any secretory cell that is capable of some peptide hormone secretion. + ZFA:0009100 peptide hormone secreting cell + + + + Any secretory cell that is capable of some peptide hormone secretion. + FBC:Autogenerated + + + + + ZFA:0009100 + + @@ -6763,9 +7683,23 @@ The modern definition of neurosecretion has evolved to include the release of an + Any secretory cell that is capable of some insulin secretion. BTO:0000783 + ZFA:0009101 insulin secreting cell + + + + Any secretory cell that is capable of some insulin secretion. + FBC:Autogenerated + + + + + ZFA:0009101 + + @@ -6808,6 +7742,7 @@ The modern definition of neurosecretion has evolved to include the release of an EV:0200009 FMA:70586 MA:0002419 + ZFA:0009102 ncithesaurus:Beta_Cell B-cell of pancreatic islet beta cell of pancreatic islet @@ -6843,6 +7778,12 @@ The modern definition of neurosecretion has evolved to include the release of an beta cell ZFA:0009102 + + + + ZFA:0009102 + + @@ -6917,6 +7858,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell that secretes glucagon. FMA:84045 + ZFA:0009103 glucagon-secreting cell glucagon secreting cell @@ -6926,6 +7868,12 @@ The modern definition of neurosecretion has evolved to include the release of an A cell that secretes glucagon. GOC:tfm + + + + ZFA:0009103 + + @@ -6962,6 +7910,7 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0000990 FMA:70585 MESH:D050416 + ZFA:0009104 alpha cell of islet of Langerhans pancreatic alpha cell @@ -6975,6 +7924,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm ISBN:0721662544 + + + + ZFA:0009104 + + @@ -6999,8 +7954,22 @@ The modern definition of neurosecretion has evolved to include the release of an + Any secretory cell that is capable of some somatostatin secretion. + ZFA:0009105 somatostatin secreting cell + + + + Any secretory cell that is capable of some somatostatin secretion. + FBC:Autogenerated + + + + + ZFA:0009105 + + @@ -7036,6 +8005,7 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0000803 FMA:70587 + ZFA:0005743 D-cell of pancreatic islet delta cell of islet delta cell of pancreatic islet @@ -7053,6 +8023,12 @@ The modern definition of neurosecretion has evolved to include the release of an FMA:0517223651 GOC:tfm + + + + ZFA:0005743 + + @@ -7077,8 +8053,22 @@ The modern definition of neurosecretion has evolved to include the release of an + Any secretory cell that is capable of some steroid hormone secretion. + ZFA:0009106 steroid hormone secreting cell + + + + Any secretory cell that is capable of some steroid hormone secretion. + FBC:Autogenerated + + + + + ZFA:0009106 + + @@ -7138,8 +8128,15 @@ The modern definition of neurosecretion has evolved to include the release of an + Any secretory cell that is capable of some ecdysteroid secretion. ecdysteroid secreting cell + + + + Any secretory cell that is capable of some ecdysteroid secretion. + FBC:Autogenerated + @@ -7164,14 +8161,29 @@ The modern definition of neurosecretion has evolved to include the release of an + Any secretory cell that is capable of some testosterone secretion. + ZFA:0009107 testosterone secreting cell + + + + Any secretory cell that is capable of some testosterone secretion. + FBC:Autogenerated + + + + + ZFA:0009107 + + + @@ -7193,6 +8205,7 @@ The modern definition of neurosecretion has evolved to include the release of an EMAPA:29655 FMA:72297 MESH:D007985 + ZFA:0009108 interstitial cell of Leydig Note that the Amphibian Anatomy Ontology (AA) has a class 'leydig cells' but this is unrelated @@ -7205,6 +8218,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm PMID:12050120 + + + + ZFA:0009108 + + @@ -7229,8 +8248,22 @@ The modern definition of neurosecretion has evolved to include the release of an + Any secretory cell that is capable of some progesterone secretion. + ZFA:0009109 progesterone secreting cell + + + + Any secretory cell that is capable of some progesterone secretion. + FBC:Autogenerated + + + + + ZFA:0009109 + + @@ -7256,6 +8289,7 @@ The modern definition of neurosecretion has evolved to include the release of an A steroid hormone secreting cell that secretes estradiol. + ZFA:0009110 estradiol secreting cell @@ -7264,6 +8298,12 @@ The modern definition of neurosecretion has evolved to include the release of an A steroid hormone secreting cell that secretes estradiol. https://orcid.org/0000-0001-5208-3432 + + + + ZFA:0009110 + + @@ -7288,6 +8328,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -7319,6 +8360,7 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0000575 CALOHA:TS-0454 FMA:14515 + ZFA:0009111 Hepatocytes are reportedly MHC Class I-positive and MHC Class II-positive. @@ -7334,6 +8376,12 @@ The modern definition of neurosecretion has evolved to include the release of an PMID:19717280 http://en.wikipedia.org/wiki/Hepatocyte + + + + ZFA:0009111 + + @@ -7369,11 +8417,11 @@ The modern definition of neurosecretion has evolved to include the release of an - Contractile cells resembling smooth muscle cells that are present in glands, notably the mammary gland, and aid in secretion. This cell has long weaving dendritic processes containing myofilament. BTO:0002309 CALOHA:TS-2379 FMA:67799 + ZFA:0009113 basket epithelial cell myoepitheliocyte @@ -7386,6 +8434,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm ISBN:0721662544 + + + + ZFA:0009113 + + @@ -7425,6 +8479,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -7437,9 +8492,10 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0000888 BTO:0000902 CALOHA:TS-2032 + FBbt:00005074 FMA:67328 WBbt:0003675 - FBbt:00005074 + ZFA:0009114 muscle fiber myocyte @@ -7452,6 +8508,18 @@ The modern definition of neurosecretion has evolved to include the release of an A mature contractile cell, commonly known as a myocyte. This cell has as part of its cytoplasm myofibrils organized in various patterns. MESH:D032342 + + + + FBbt:00005074 + + + + + + ZFA:0009114 + + @@ -7481,6 +8549,7 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0004392 CALOHA:TS-2158 FMA:9727 + ZFA:0009115 skeletal muscle cell @@ -7493,6 +8562,12 @@ The modern definition of neurosecretion has evolved to include the release of an A somatic cell located in skeletal muscle. GOC:tfm + + + + ZFA:0009115 + + @@ -7507,6 +8582,7 @@ The modern definition of neurosecretion has evolved to include the release of an A muscle cell that develops tension more slowly than a fast-twitch fiber. + ZFA:0009116 slow muscle fiber slow muscle cell @@ -7518,6 +8594,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm ISBN:0323052908 + + + + ZFA:0009116 + + @@ -7538,6 +8620,7 @@ The modern definition of neurosecretion has evolved to include the release of an A muscle cell that can develop high tension rapidly. It is usually innervated by a single alpha neuron. + ZFA:0009117 glycolytic muscle fiber fast muscle cell @@ -7549,6 +8632,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm ISBN:0323052908 + + + + ZFA:0009117 + + @@ -7579,6 +8668,7 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0004576 CALOHA:TS-2159 FMA:14072 + ZFA:0009118 SMCs myocytes, smooth muscle smooth muscle fiber @@ -7595,6 +8685,12 @@ The modern definition of neurosecretion has evolved to include the release of an PMID:9315361 http://en.wikipedia.org/wiki/Smooth_muscle_cell + + + + ZFA:0009118 + + @@ -7676,6 +8772,12 @@ The modern definition of neurosecretion has evolved to include the release of an A muscle cell that is involved in the mechanism of insect flight. This encompasses both, cells that power flight and cells that control flight. doi:10.2142/biophysics.7.21 + + + + FBbt:00003360 + + @@ -7723,6 +8825,7 @@ The modern definition of neurosecretion has evolved to include the release of an The peripheral receptor for pain. Includes receptors which are sensitive to painful mechanical stimuli, extreme heat or cold, and chemical stimuli. All mammalian nociceptors are free nerve endings. + ZFA:0009119 nociceptor nocireceptor Editor note: request detection of stimulus involved in sensory perception of pain; add develops_from relationship @@ -7734,6 +8837,12 @@ The modern definition of neurosecretion has evolved to include the release of an The peripheral receptor for pain. Includes receptors which are sensitive to painful mechanical stimuli, extreme heat or cold, and chemical stimuli. All mammalian nociceptors are free nerve endings. MESH:D009619 + + + + ZFA:0009119 + + @@ -7771,6 +8880,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell specialized to transduce mechanical stimuli and relay that information centrally in the nervous system. + ZFA:0009120 mechanoreceptor mechanoreceptor cell @@ -7780,6 +8890,12 @@ The modern definition of neurosecretion has evolved to include the release of an A cell specialized to transduce mechanical stimuli and relay that information centrally in the nervous system. MESH:D008465 + + + + ZFA:0009120 + + @@ -7810,8 +8926,15 @@ The modern definition of neurosecretion has evolved to include the release of an + Any neuron that is capable of some detection of mechanical stimulus involved in sensory perception of touch. touch receptor cell + + + + Any neuron that is capable of some detection of mechanical stimulus involved in sensory perception of touch. + FBC:Autogenerated + @@ -7836,6 +8959,7 @@ The modern definition of neurosecretion has evolved to include the release of an A mechanoreceptor cell of the auditory or vestibular system that is sensitive to auditory stimuli. The accessory sensory structures are arranged so that appropriate stimuli cause movement of the hair-like projections (stereocilia and kinocilia) which relay the information centrally in the nervous system. + ZFA:0009121 auditory receptor cell In mammals these cells are located in the organ of Corti. auditory hair cell @@ -7847,6 +8971,12 @@ The modern definition of neurosecretion has evolved to include the release of an MESH:D006198 WikipediaVersioned:Hair_cell&oldid=1045345915 + + + + ZFA:0009121 + + @@ -7872,8 +9002,15 @@ The modern definition of neurosecretion has evolved to include the release of an + Any neuronal receptor cell that is capable of some detection of mechanical stimulus involved in sensory perception of gravity. gravity sensitive cell + + + + Any neuronal receptor cell that is capable of some detection of mechanical stimulus involved in sensory perception of gravity. + FBC:Autogenerated + @@ -7908,6 +9045,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cellular receptor which mediates the sense of temperature. Thermoreceptor cells in vertebrates are mostly located under the skin. In mammals there are separate types of thermoreceptors for cold and for warmth and pain receptor cells which detect cold or heat extreme enough to cause pain. + ZFA:0009123 thermoreceptor cell @@ -7918,6 +9056,12 @@ The modern definition of neurosecretion has evolved to include the release of an MESH:D013823 MP:0000971 + + + + ZFA:0009123 + + @@ -7943,6 +9087,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell specialized to detect chemical substances and relay that information centrally in the nervous system. Chemoreceptors may monitor external stimuli, as in taste and olfaction, or internal stimuli, such as the concentrations of oxygen and carbon dioxide in the blood. + ZFA:0009124 chemoreceptor cell @@ -7951,6 +9096,12 @@ The modern definition of neurosecretion has evolved to include the release of an A cell specialized to detect chemical substances and relay that information centrally in the nervous system. Chemoreceptors may monitor external stimuli, as in taste and olfaction, or internal stimuli, such as the concentrations of oxygen and carbon dioxide in the blood. MESH:D002628 + + + + ZFA:0009124 + + @@ -7982,16 +9133,30 @@ The modern definition of neurosecretion has evolved to include the release of an + Any neuron that is capable of some detection of chemical stimulus involved in sensory perception of smell. BTO:0004185 FMA:67860 MESH:D018034 Wikipedia:Olfactory_receptor_neuron + ZFA:0009125 Schultze's cell odorant receptor cell olfactory receptor neuron olfactory sensory neuron olfactory receptor cell + + + + Any neuron that is capable of some detection of chemical stimulus involved in sensory perception of smell. + FBC:Autogenerated + + + + + ZFA:0009125 + + @@ -8029,6 +9194,7 @@ The modern definition of neurosecretion has evolved to include the release of an A specialized cell involved in gustatory sensory perception. FMA:67910 + ZFA:0009126 taste bud cell taste receptor cell @@ -8040,6 +9206,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm ISBN:0618947256 + + + + ZFA:0009126 + + @@ -8067,7 +9239,9 @@ The modern definition of neurosecretion has evolved to include the release of an A cell specialized to detect and transduce light. BTO:0001060 CALOHA:TS-0868 + FBbt:00004211 FMA:86740 + ZFA:0009127 photoreceptor cell https://www.swissbiopics.org/api/image/Photoreceptor_cell.svg @@ -8084,6 +9258,18 @@ The modern definition of neurosecretion has evolved to include the release of an A cell specialized to detect and transduce light. MESH:D010786 + + + + FBbt:00004211 + + + + + + ZFA:0009127 + + @@ -8092,6 +9278,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell whose function is determined by the generation or the reception of an electric signal. + ZFA:0009128 electrically active cell @@ -8100,6 +9287,12 @@ The modern definition of neurosecretion has evolved to include the release of an A cell whose function is determined by the generation or the reception of an electric signal. FB:ma + + + + ZFA:0009128 + + @@ -8109,6 +9302,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell that takes up and metabolizes substances. + ZFA:0009129 absorptive cell @@ -8118,6 +9312,12 @@ The modern definition of neurosecretion has evolved to include the release of an A cell that takes up and metabolizes substances. CL:CVS + + + + ZFA:0009129 + + @@ -8126,6 +9326,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism. + ZFA:0009130 boundary cell lining cell @@ -8135,6 +9336,12 @@ The modern definition of neurosecretion has evolved to include the release of an A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism. JB:jb + + + + ZFA:0009130 + + @@ -8151,6 +9358,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell located in the synovial joint. CALOHA:TS-0995 + ZFA:0009131 synoviocyte synovial cell @@ -8160,6 +9368,12 @@ The modern definition of neurosecretion has evolved to include the release of an true + + + + ZFA:0009131 + + @@ -8168,6 +9382,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell whose primary function is to prevent the transport of stuff across compartments. + ZFA:0009132 barrier cell @@ -8176,6 +9391,12 @@ The modern definition of neurosecretion has evolved to include the release of an A cell whose primary function is to prevent the transport of stuff across compartments. JB:jb + + + + ZFA:0009132 + + @@ -8201,6 +9422,7 @@ The modern definition of neurosecretion has evolved to include the release of an CALOHA:TS-0922 FMA:72298 VHOG:0001348 + ZFA:0009133 Sertoli cell @@ -8216,6 +9438,12 @@ The modern definition of neurosecretion has evolved to include the release of an A supporting cell projecting inward from the basement membrane of seminiferous tubules. They surround and nourish the developing male germ cells and secrete androgen binding protein. Their tight junctions with the spermatogonia and spermatocytes provide a blood-testis barrier. MESH:D012708 + + + + ZFA:0009133 + + @@ -8223,8 +9451,15 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009134 insulating cell + + + + ZFA:0009134 + + @@ -8245,6 +9480,7 @@ The modern definition of neurosecretion has evolved to include the release of an peripheral neuroglial cell CALOHA:TS-0898 FMA:62121 + ZFA:0009135 neurilemmal cell myelinating Schwann cell @@ -8256,6 +9492,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm MESH:D012583 + + + + ZFA:0009135 + + @@ -8281,6 +9523,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell that moves by its own activities. + ZFA:0009136 motile cell @@ -8289,6 +9532,12 @@ The modern definition of neurosecretion has evolved to include the release of an A cell that moves by its own activities. FB:ma + + + + ZFA:0009136 + + @@ -8317,6 +9566,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell of the outer of the three germ layers of the embryo. FMA:72549 + ZFA:0009137 ectoderm cell ectodermal cell @@ -8326,6 +9576,12 @@ The modern definition of neurosecretion has evolved to include the release of an A cell of the outer of the three germ layers of the embryo. MESH:D004475 + + + + ZFA:0009137 + + @@ -8341,6 +9597,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell of the middle germ layer of the embryo. FMA:72554 + ZFA:0009138 mesoblast mesoderm cell @@ -8352,6 +9609,12 @@ The modern definition of neurosecretion has evolved to include the release of an A cell of the middle germ layer of the embryo. MESH:D008648 + + + + ZFA:0009138 + + @@ -8367,6 +9630,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell of the inner of the three germ layers of the embryo. FMA:72555 + ZFA:0009139 endoderm cell endodermal cell @@ -8376,6 +9640,12 @@ The modern definition of neurosecretion has evolved to include the release of an A cell of the inner of the three germ layers of the embryo. MESH:D004707 + + + + ZFA:0009139 + + @@ -8491,8 +9761,15 @@ The modern definition of neurosecretion has evolved to include the release of an + Any cell that has characteristic some binucleate. binucleate cell + + + + Any cell that has characteristic some binucleate. + FBC:Autogenerated + @@ -8742,6 +10019,7 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0001044 FMA:83806 MESH:D010586 + ZFA:0009140 phagocyte @@ -8752,6 +10030,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:add ISBN:0721601464 + + + + ZFA:0009140 + + @@ -8799,6 +10083,7 @@ The modern definition of neurosecretion has evolved to include the release of an FMA:63261 FMA:83585 MESH:D008264 + ZFA:0009141 histiocyte @@ -8823,6 +10108,12 @@ The modern definition of neurosecretion has evolved to include the release of an PMID:16213494 PMID:1919437 + + + + ZFA:0009141 + + @@ -8854,6 +10145,7 @@ The modern definition of neurosecretion has evolved to include the release of an FMA:62869 MESH:D001402 VHOG:0001480 + ZFA:0009142 B lymphocyte B-cell B-lymphocyte @@ -8878,6 +10170,12 @@ The modern definition of neurosecretion has evolved to include the release of an GO_REF:0000031 ISBN:0781735149 + + + + ZFA:0009142 + + @@ -8912,8 +10210,15 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009143 brush border epithelial cell + + + + ZFA:0009143 + + @@ -8923,9 +10228,16 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009144 stratified squamous epithelial cell + + + + ZFA:0009144 + + @@ -8935,9 +10247,16 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009145 stratified cuboidal epithelial cell + + + + ZFA:0009145 + + @@ -8956,6 +10275,7 @@ The modern definition of neurosecretion has evolved to include the release of an A modified epidermal cell located in the stratum basale. They are found mostly in areas where sensory perception is acute. Merkel cells are closely associated with an expanded terminal bulb of an afferent myelinated nerve fiber. FMA:70548 + ZFA:0009146 Merkel's cell @@ -8973,6 +10293,12 @@ The modern definition of neurosecretion has evolved to include the release of an A modified epidermal cell located in the stratum basale. They are found mostly in areas where sensory perception is acute. Merkel cells are closely associated with an expanded terminal bulb of an afferent myelinated nerve fiber. MESH:D018862 + + + + ZFA:0009146 + + @@ -9001,6 +10327,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell characteristically found lining hollow organs that are subject to great mechanical change due to contraction and distention; originally thought to represent a transition between stratified squamous and columnar epithelium. FMA:66778 + ZFA:0009148 transitional epithelial cell @@ -9011,6 +10338,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm ISBN:0721662544 + + + + ZFA:0009148 + + @@ -9035,8 +10368,15 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009149 Mauthner neuron + + + + ZFA:0009149 + + @@ -9062,6 +10402,12 @@ The modern definition of neurosecretion has evolved to include the release of an Type of neuron that is a primary mechanosensory cell, with peripheral neurites innervating the skin with free nerve endings. VHOG:0001484 + + + + ZFA:0009150 + + @@ -9100,8 +10446,15 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009151 hatching gland cell + + + + ZFA:0009151 + + @@ -9126,8 +10479,15 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009152 extramedullary cell + + + + ZFA:0009152 + + @@ -9152,9 +10512,16 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009153 eurydendroid cell + + + + ZFA:0009153 + + @@ -9198,10 +10565,17 @@ The modern definition of neurosecretion has evolved to include the release of an + Any cell that only exists in Eukaryota. MESH:D005057 eukaryotic cell + + + + Any cell that only exists in Eukaryota. + FBC:Autogenerated + @@ -9235,8 +10609,15 @@ The modern definition of neurosecretion has evolved to include the release of an + Any cell that only exists in Eumycetozoa. Eumycetozoan cell + + + + Any cell that only exists in Eumycetozoa. + FBC:Autogenerated + @@ -9659,12 +11040,26 @@ The modern definition of neurosecretion has evolved to include the release of an + Any photoreceptor cell that is part of some eye. + ZFA:0009154 eye photoreceptor cell + + + + Any photoreceptor cell that is part of some eye. + FBC:Autogenerated + + + + + ZFA:0009154 + + @@ -9745,6 +11140,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell whose primary function is to provide structural support, to provide strength and physical integrity to the organism. + ZFA:0005745 structural cell @@ -9753,6 +11149,12 @@ The modern definition of neurosecretion has evolved to include the release of an A cell whose primary function is to provide structural support, to provide strength and physical integrity to the organism. TAIR:sr + + + + ZFA:0005745 + + @@ -9794,6 +11196,7 @@ The modern definition of neurosecretion has evolved to include the release of an A peptide hormone secreting cell that produces growth hormone, somatotropin. + ZFA:0009155 growth hormone secreting cell somatotrophin secreting cell somatotropin secreting cell @@ -9805,6 +11208,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm SANBI:mhl + + + + ZFA:0009155 + + @@ -9905,8 +11314,9 @@ The modern definition of neurosecretion has evolved to include the release of an A mature sexual reproductive cell having a single set of unpaired chromosomes. CALOHA:TS-0395 - FMA:18649 FBbt:00005412 + FMA:18649 + ZFA:0009156 haploid nucleated cell haploid germ cell gamete @@ -9924,6 +11334,18 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm ISBN:0721662544 + + + + FBbt:00005412 + + + + + + ZFA:0009156 + + @@ -9941,6 +11363,12 @@ The modern definition of neurosecretion has evolved to include the release of an A primordial germ cell of insects. Such cells form at the posterior pole of the early embryo. doi:10.1017/CBO9780511818202.015 + + + + FBbt:00000092 + + @@ -10079,8 +11507,15 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009157 keratin accumulating cell + + + + ZFA:0009157 + + @@ -10129,6 +11564,7 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0000667 CALOHA:TS-0500 FMA:62879 + ZFA:0009158 keratinized cell of epidermis malpighian cell @@ -10159,6 +11595,12 @@ The modern definition of neurosecretion has evolved to include the release of an PMID:19727116 http://en.wikipedia.org/wiki/Keratinocyte + + + + ZFA:0009158 + + @@ -10301,11 +11743,25 @@ The modern definition of neurosecretion has evolved to include the release of an + Any secretory cell that is capable of some mucus secretion. BTO:0003689 + ZFA:0009159 mucous cell mucus secreting cell + + + + Any secretory cell that is capable of some mucus secretion. + FBC:Autogenerated + + + + + ZFA:0009159 + + @@ -10381,6 +11837,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -10423,8 +11880,15 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009162 extracellular matrix secreting cell + + + + ZFA:0009162 + + @@ -10461,8 +11925,22 @@ The modern definition of neurosecretion has evolved to include the release of an + Any cell that is capable of some oxygen transport. + ZFA:0009164 oxygen accumulating cell + + + + Any cell that is capable of some oxygen transport. + FBC:Autogenerated + + + + + ZFA:0009164 + + @@ -10532,6 +12010,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body. FMA:86667 + ZFA:0007086 migratory neural crest cell @@ -10540,6 +12019,12 @@ The modern definition of neurosecretion has evolved to include the release of an A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body. doi:10.1016/j.stem.2015.02.017 + + + + ZFA:0007086 + + @@ -10560,6 +12045,7 @@ The modern definition of neurosecretion has evolved to include the release of an A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors. + ZFA:0009166 mesenchyme condensation cell @@ -10569,6 +12055,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm PMID:5025404 + + + + ZFA:0009166 + + @@ -10602,6 +12094,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell found within the adrenal medulla that secrete biogenic amine hormones upon stimulation. FMA:69262 + ZFA:0009167 medullary chromaffin cell of adrenal gland adrenal medulla chromaffin cell @@ -10612,6 +12105,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm http://www.britannica.com/EBchecked/topic/6405/adrenal-gland + + + + ZFA:0009167 + + @@ -10653,6 +12152,12 @@ The modern definition of neurosecretion has evolved to include the release of an A neural precursor of the central nervous system. PMID:1295739 + + + + FBbt:00005146 + + @@ -10664,6 +12169,7 @@ The modern definition of neurosecretion has evolved to include the release of an An early neural cell developing from the early ependymal cell of the neural tube. FMA:70564 + ZFA:0009169 spongioblast glioblast (sensu Vertebrata) @@ -10674,6 +12180,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm ISBN:0618947256 + + + + ZFA:0009169 + + @@ -10692,6 +12204,12 @@ The modern definition of neurosecretion has evolved to include the release of an A precursor of the central nervous system that gives rise to glial cells only. doi:10.1002/glia.21162 + + + + FBbt:00005145 + + @@ -10717,6 +12235,7 @@ The modern definition of neurosecretion has evolved to include the release of an Any animal cell containing pigment granules. + ZFA:0009170 pigment cell (sensu Vertebrata) @@ -10726,6 +12245,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm ISBN:0721662544 + + + + ZFA:0009170 + + @@ -10753,6 +12278,7 @@ The modern definition of neurosecretion has evolved to include the release of an A pigment cell that is capable of detecting light stimulus that is involved in visual perception. FMA:63846 + ZFA:0009171 visual pigment cell (sensu Vertebrata) @@ -10767,6 +12293,12 @@ The modern definition of neurosecretion has evolved to include the release of an A pigment cell that is capable of detecting light stimulus that is involved in visual perception. GOC:tfm + + + + ZFA:0009171 + + @@ -10782,6 +12314,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -10796,6 +12329,7 @@ The modern definition of neurosecretion has evolved to include the release of an A mesenchymal cell that is part of a small mass of condensed mesenchyme in the enamel organ; it differentiates into the dentin and dental pulp. + ZFA:0009173 Merge with odontoblast? dental papilla cell @@ -10806,6 +12340,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm ISBN:0721662544 + + + + ZFA:0009173 + + @@ -10871,6 +12411,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -10885,6 +12426,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell of the sclera of the eye. + ZFA:0009174 scleral cell @@ -10894,6 +12436,12 @@ The modern definition of neurosecretion has evolved to include the release of an A cell of the sclera of the eye. GOC:add + + + + ZFA:0009174 + + @@ -10911,6 +12459,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -10925,6 +12474,7 @@ The modern definition of neurosecretion has evolved to include the release of an A structural cell that is part of optic choroid. + ZFA:0009175 choroidal cell of the eye @@ -10934,6 +12484,12 @@ The modern definition of neurosecretion has evolved to include the release of an A structural cell that is part of optic choroid. GOC:add + + + + ZFA:0009175 + + @@ -10958,9 +12514,23 @@ The modern definition of neurosecretion has evolved to include the release of an + Any cell that is part of some extraembryonic structure. + ZFA:0009176 extraembryonic cell + + + + Any cell that is part of some extraembryonic structure. + FBC:Autogenerated + + + + + ZFA:0009176 + + @@ -10985,8 +12555,15 @@ The modern definition of neurosecretion has evolved to include the release of an + Any extraembryonic cell that is part of some amnioserosa. amnioserosal cell + + + + Any extraembryonic cell that is part of some amnioserosa. + FBC:Autogenerated + @@ -11045,6 +12622,7 @@ The modern definition of neurosecretion has evolved to include the release of an An undifferentiated cell produced by early cleavages of the fertilized egg (zygote). BTO:0001473 FMA:72551 + ZFA:0009177 blastomere blastoderm cell @@ -11054,6 +12632,12 @@ The modern definition of neurosecretion has evolved to include the release of an An undifferentiated cell produced by early cleavages of the fertilized egg (zygote). MESH:D001756 + + + + ZFA:0009177 + + @@ -11061,10 +12645,17 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009178 ncithesaurus:Blastemal_Cell blastema cell blastemal cell + + + + ZFA:0009178 + + @@ -11086,6 +12677,7 @@ The modern definition of neurosecretion has evolved to include the release of an A multifate stem cell found in skeletal muscle than can differentiate into many different cell types, including muscle. Distinct cell type from satellite cell. FMA:86767 + ZFA:0009179 Multi-potency demonstrated ex vivo. At the time of writing, it is unclear whether the endogenous population differentiates into multiple cell types in vivo. multi-potent skeletal muscle stem cell @@ -11101,6 +12693,12 @@ The modern definition of neurosecretion has evolved to include the release of an A multifate stem cell found in skeletal muscle than can differentiate into many different cell types, including muscle. Distinct cell type from satellite cell. PMID:18282570 + + + + ZFA:0009179 + + @@ -11117,8 +12715,15 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009180 stratified epithelial stem cell + + + + ZFA:0009180 + + @@ -11185,6 +12790,7 @@ The modern definition of neurosecretion has evolved to include the release of an A smooth muscle cell associated with the vasculature. + ZFA:0009181 VSMC vascular smooth muscle cell @@ -11204,6 +12810,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:dsd GOC:tfm + + + + ZFA:0009181 + + @@ -11240,6 +12852,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell of the embryo in the early stage following the blastula, characterized by morphogenetic cell movements, cell differentiation, and the formation of the three germ layers. + ZFA:0009182 gastrula cell @@ -11248,6 +12861,12 @@ The modern definition of neurosecretion has evolved to include the release of an A cell of the embryo in the early stage following the blastula, characterized by morphogenetic cell movements, cell differentiation, and the formation of the three germ layers. MESH:D005775 + + + + ZFA:0009182 + + @@ -11277,6 +12896,7 @@ The modern definition of neurosecretion has evolved to include the release of an CALOHA:TS-0283 FMA:62411 MESH:D000078404 + ZFA:0009183 cell of epidermis epithelial cell of skin @@ -11289,6 +12909,12 @@ The modern definition of neurosecretion has evolved to include the release of an Flybase:dsj MA:ma + + + + ZFA:0009183 + + @@ -11490,6 +13116,12 @@ The modern definition of neurosecretion has evolved to include the release of an socket cell ISBN:978-0801481253 + + + + FBbt:00005171 + + @@ -11514,6 +13146,12 @@ The modern definition of neurosecretion has evolved to include the release of an A progenitor cell found in the larval epidermis of insects and that gives rise to the adult abdominal epidermis. doi:10.1016/j.cub.2022.01.045 + + + + FBbt:00001789 + + @@ -11533,6 +13171,12 @@ The modern definition of neurosecretion has evolved to include the release of an An epidermal cell that is part of a cell cluster organ of the insect integument (such as a sensillum) and that secretes a cuticular specialization, often in the form of a hair, bristle, peg or scale. The base of this specialization is often surrounded by a socket produced by a closely associated tormogen cell. ISBN:978-0801481253 + + + + FBbt:00005169 + + @@ -11579,8 +13223,15 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009185 sensory processing neuron + + + + ZFA:0009185 + + @@ -11599,6 +13250,12 @@ The modern definition of neurosecretion has evolved to include the release of an The support cell that makes the thecogen dendritic cap - a cuticle-like matrix around the tip of the eo-dendrite and which encloses the soma of the eo-neuron. Fbbt:00005173 + + + + FBbt:00005173 + + @@ -11636,6 +13293,12 @@ The modern definition of neurosecretion has evolved to include the release of an doi:10.1016/B978-012369493-5.50012-2 doi:10.1017/CBO9780511818202.024 + + + + FBbt:00005219 + + @@ -11656,8 +13319,15 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009187 nephrogenic mesenchyme stem cell + + + + ZFA:0009187 + + @@ -11665,8 +13335,15 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009188 ligament cell + + + + ZFA:0009188 + + @@ -11685,6 +13362,12 @@ The modern definition of neurosecretion has evolved to include the release of an A precursor of mature hemocytes. doi:10.1016/B978-012369493-5.50008-0 + + + + FBbt:00005062 + + @@ -11700,6 +13383,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -11724,6 +13408,12 @@ The modern definition of neurosecretion has evolved to include the release of an A blood cell of the circulatory system of arthropods. doi:10.1016/B978-012369493-5.50008-0 + + + + FBbt:00005063 + + @@ -11750,6 +13440,7 @@ The modern definition of neurosecretion has evolved to include the release of an An elongated fibrocyte that is part of a tendon. The cytoplasm is stretched between the collagen fibres of the tendon. They have a central cell nucleus with a prominent nucleolus. Tendon cells have a well-developed rough endoplasmic reticulum and they are responsible for synthesis and turnover of tendon fibres and ground substance. + ZFA:0009189 muscle attachment cell tenocyte @@ -11769,6 +13460,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm PMID:957445 + + + + ZFA:0009189 + + @@ -11831,6 +13528,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell whose function is determined by its response to an electric signal. + ZFA:0009190 electrically responsive cell @@ -11839,6 +13537,12 @@ The modern definition of neurosecretion has evolved to include the release of an A cell whose function is determined by its response to an electric signal. FB:ma + + + + ZFA:0009190 + + @@ -11864,6 +13568,12 @@ The modern definition of neurosecretion has evolved to include the release of an A phagocytic hemocyte, responsible for the engulfment of small particles, microbes, and apoptotic tissue debris. It may also secretes antimicrobial peptides and contribute to the production and secretion of proteins of the hemolymph. https://doi.org/10.1016/B978-012369493-5.50008-0 + + + + FBbt:00001685 + + @@ -11881,6 +13591,12 @@ The modern definition of neurosecretion has evolved to include the release of an A precursor of mature crystal cells. doi:10.1016/B978-012369493-5.50008-0 + + + + FBbt:00001689 + + @@ -11898,6 +13614,12 @@ The modern definition of neurosecretion has evolved to include the release of an A hemocyte found in immuno-stimulated larvae. doi:10.1016/B978-012369493-5.50008-0 + + + + FBbt:00001687 + + @@ -11922,6 +13644,7 @@ The modern definition of neurosecretion has evolved to include the release of an + Any interneuron that has its soma located in some ganglion. ganglion interneuron @@ -11931,6 +13654,12 @@ The modern definition of neurosecretion has evolved to include the release of an true + + + + Any interneuron that has its soma located in some ganglion. + FBC:Autogenerated + @@ -11939,7 +13668,6 @@ The modern definition of neurosecretion has evolved to include the release of an - FBbt:00001691 Obsoleted as this is actually the same thing as prohemocytes. obsolete polygonal cell true @@ -12010,6 +13738,7 @@ The modern definition of neurosecretion has evolved to include the release of an An interneuron that has its cell body in a central nervous system. + ZFA:0009191 Interneurons are commonly described as being only found in the central nervous system. However, in CL we define 'interneuron' more broadly as any neuron that is neither a motor neuron nor a sensory neuron, regardless of its location, so we need this term to refer strictly to interneurons of the central nervous system. CNS interneuron @@ -12020,6 +13749,12 @@ The modern definition of neurosecretion has evolved to include the release of an An interneuron that has its cell body in a central nervous system. doi:10.1016/B978-0-12-817424-1.00001-X + + + + ZFA:0009191 + + @@ -12038,6 +13773,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell that initiates an electrical signal and passes that signal to another cell. + ZFA:0009193 electrically signaling cell @@ -12046,6 +13782,12 @@ The modern definition of neurosecretion has evolved to include the release of an A cell that initiates an electrical signal and passes that signal to another cell. FB:ma + + + + ZFA:0009193 + + @@ -12064,8 +13806,15 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009194 CNS short range interneuron + + + + ZFA:0009194 + + @@ -12090,6 +13839,12 @@ The modern definition of neurosecretion has evolved to include the release of an doi:10.1016/B978-0-12-408088-1.00002-6 doi:10.1023/a:1018564904170 + + + + FBbt:00005221 + + @@ -12113,6 +13868,7 @@ The modern definition of neurosecretion has evolved to include the release of an + Any male germ cell that has characteristic some haploid and is capable of some fertilization. BTO:0001277 CALOHA:TS-0949 male gamete @@ -12129,6 +13885,12 @@ The modern definition of neurosecretion has evolved to include the release of an true + + + + Any male germ cell that has characteristic some haploid and is capable of some fertilization. + FBC:Autogenerated + @@ -12147,8 +13909,15 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009195 CNS long range interneuron + + + + ZFA:0009195 + + @@ -12166,6 +13935,7 @@ The modern definition of neurosecretion has evolved to include the release of an An epithelial cell of the hypodermis of Caenorhabditis. roundworm hypodermal cell WBbt:0007846 + ZFA:0009196 This term was originally added to CL for parity with the Worm anatomy ontology, which is dedicated to C elegans. It is not clear if it makes sense to try and generalize the concept and include in CL, and this term may be obsoleted in future. Note there is no similarity to the hypodermis in vertebrates. Caenorhabditis hypodermal cell @@ -12176,6 +13946,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm http://www.wormatlas.org/hermaphrodite/hypodermis/mainframe.htm + + + + ZFA:0009196 + + @@ -12469,8 +14245,15 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0000084 yolk cell + + + + ZFA:0000084 + + @@ -12502,12 +14285,19 @@ The modern definition of neurosecretion has evolved to include the release of an A columnar epithelial cell that is part of an insect imaginal disc. doi:10.1007/s00412-016-0595-4 + + + + FBbt:00007108 + + + @@ -12516,6 +14306,7 @@ The modern definition of neurosecretion has evolved to include the release of an A pigment cell derived from the neural crest. Contains cartenoid pigments in structures called pterinosomes or xanthosomes. This gives an appearance ranging from a golden yellow to orange and red. + ZFA:0009198 xanthophore xanthophore cell @@ -12525,12 +14316,19 @@ The modern definition of neurosecretion has evolved to include the release of an A pigment cell derived from the neural crest. Contains cartenoid pigments in structures called pterinosomes or xanthosomes. This gives an appearance ranging from a golden yellow to orange and red. SANBI:mhl + + + + ZFA:0009198 + + + @@ -12539,6 +14337,7 @@ The modern definition of neurosecretion has evolved to include the release of an A pigment cell derived from the neural crest. The cell contains flat light-reflecting platelets, probably of guanine, in stacks called reflecting platelets or iridisomes. The color-generating components produce a silver, gold, or iridescent color. + ZFA:0009199 guanophore iridophore @@ -12548,6 +14347,12 @@ The modern definition of neurosecretion has evolved to include the release of an A pigment cell derived from the neural crest. The cell contains flat light-reflecting platelets, probably of guanine, in stacks called reflecting platelets or iridisomes. The color-generating components produce a silver, gold, or iridescent color. SANBI:mhl + + + + ZFA:0009199 + + @@ -12558,6 +14363,7 @@ The modern definition of neurosecretion has evolved to include the release of an A fibroblast that synthesizes collagen and uses it to produce reticular fibers, thus providing structural support. Reticular cells are found in many organs, including the spleen, lymph nodes and kidneys. Subtypes of reticular cells include epithelial, mesenchymal, and fibroblastic reticular cells. Fibroblastic reticular cells are involved in directing B cells and T cells to specific regions within a tissue, whereas epithelial and mesenchymal reticular cells are associated with certain areas of the brain. FMA:62877 + ZFA:0009200 reticulum cell @@ -12572,6 +14378,12 @@ The modern definition of neurosecretion has evolved to include the release of an ISBN:0517223651 http://en.wikipedia.org/wiki/Reticular_cell + + + + ZFA:0009200 + + @@ -12614,8 +14426,15 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009201 alkali secreting cell + + + + ZFA:0009201 + + @@ -12642,6 +14461,7 @@ The modern definition of neurosecretion has evolved to include the release of an A rounded cell that is usually situated next to sinusoids; secretes follicular stimulating hormone (FSH) and luteinizing hormone (LH). BTO:0002482 FMA:83100 + ZFA:0009202 delta basophil follicle stimulating hormone secreting cell gonadotrope @@ -12659,6 +14479,12 @@ The modern definition of neurosecretion has evolved to include the release of an ISBN:0517223651 http://en.wikipedia.org/wiki/Gonadotroph + + + + ZFA:0009202 + + @@ -12684,6 +14510,7 @@ The modern definition of neurosecretion has evolved to include the release of an A peptide hormone secreting cell pituitary that produces luteinizing hormone. + ZFA:0009203 luteinizing hormone secreting cell @@ -12692,6 +14519,12 @@ The modern definition of neurosecretion has evolved to include the release of an A peptide hormone secreting cell pituitary that produces luteinizing hormone. GOC:tfm + + + + ZFA:0009203 + + @@ -12718,6 +14551,7 @@ The modern definition of neurosecretion has evolved to include the release of an A peptide hormone cell that secretes prolactin. + ZFA:0009204 prolactin secreting cell @@ -12727,6 +14561,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm SANBI:mhl + + + + ZFA:0009204 + + @@ -12753,6 +14593,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell of the intermediate pituitary that produces melanocyte stimulating hormone. BTO:0002277 + ZFA:0009205 melanotrope melanotroph melanocyte stimulating hormone secreting cell @@ -12763,6 +14604,12 @@ The modern definition of neurosecretion has evolved to include the release of an A cell of the intermediate pituitary that produces melanocyte stimulating hormone. SANBI:mhl + + + + ZFA:0009205 + + @@ -12771,20 +14618,20 @@ The modern definition of neurosecretion has evolved to include the release of an - + A stem cell that gives rise to the follicle cells that surround the oocyte in female arthropods. somatic stem cell FBbt:00004903 follicle stem cell (sensu Arthropoda) - + - + https://github.com/obophenotype/cell-ontology/issues/1943 @@ -12801,6 +14648,12 @@ The modern definition of neurosecretion has evolved to include the release of an somatic stem cell doi:10.1016/j.devcel.2005.08.012 + + + + FBbt:00004903 + + @@ -12848,8 +14701,22 @@ The modern definition of neurosecretion has evolved to include the release of an + Any secretory cell that is capable of some calcitonin secretion. + ZFA:0009206 calcitonin secreting cell + + + + Any secretory cell that is capable of some calcitonin secretion. + FBC:Autogenerated + + + + + ZFA:0009206 + + @@ -13067,7 +14934,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -13123,6 +14989,7 @@ The modern definition of neurosecretion has evolved to include the release of an CALOHA:TS-0194 FMA:83036 MESH:D003713 + ZFA:0009209 interdigitating cell veiled cell @@ -13137,6 +15004,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:add ISBN:0781735149 + + + + ZFA:0009209 + + @@ -13144,8 +15017,15 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009210 thyroid hormone secreting cell + + + + ZFA:0009210 + + @@ -13242,6 +15122,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell capable of producing epinephrine. Epiniphrine is synthesized from norepiniphrine by the actions of the phenylethanolamine N-methyltransferase enzyme, which is expressed in the adrenal glands, androgenic neurons, and in other cell types. + ZFA:0009211 adrenaline secreting cell epinephrin secreting cell epinephrine secreting cell @@ -13253,6 +15134,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm PMID:12438093 + + + + ZFA:0009211 + + @@ -13300,8 +15187,15 @@ The modern definition of neurosecretion has evolved to include the release of an + Any secretory cell that is capable of some mineralocorticoid secretion. mineralocorticoid secreting cell + + + + Any secretory cell that is capable of some mineralocorticoid secretion. + FBC:Autogenerated + @@ -13309,8 +15203,15 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009212 biogenic amine secreting cell + + + + ZFA:0009212 + + @@ -13336,6 +15237,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell type that secretes 5-Hydroxytryptamine (serotonin). + ZFA:0009213 5-HT secreting cell 5-Hydroxytryptamine secreting cell serotonin secreting cell @@ -13347,6 +15249,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm PMID:19630576 + + + + ZFA:0009213 + + @@ -13372,6 +15280,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell capable of producting norepiniphrine. Norepiniphrine is a catecholamine with multiple roles including as a hormone and a neurotransmitter. In addition, epiniphrine is synthesized from norepiniphrine by the actions of the phenylethanolamine N-methyltransferase enzyme. + ZFA:0009214 noradrenaline secreting cell norepinephrin secreting cell norepinephrine secreting cell @@ -13384,6 +15293,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm ISBN:068340007X + + + + ZFA:0009214 + + @@ -13408,8 +15323,22 @@ The modern definition of neurosecretion has evolved to include the release of an + Any secretory cell that is capable of some glucocorticoid secretion. + ZFA:0009215 glucocorticoid secreting cell + + + + Any secretory cell that is capable of some glucocorticoid secretion. + FBC:Autogenerated + + + + + ZFA:0009215 + + @@ -13444,6 +15373,12 @@ The modern definition of neurosecretion has evolved to include the release of an A cell of mesodermal origin that is closely associated with the epithelium of an imaginal disc. It is a precursor of some of the insect's adult muscles. doi:10.1016/S0925-4773(97)00654-0 + + + + FBbt:00003219 + + @@ -13477,6 +15412,12 @@ The modern definition of neurosecretion has evolved to include the release of an FlyBase:ds ISBN:ISBN:978-0801481253 + + + + FBbt:00007325 + + @@ -13502,6 +15443,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm PMID:7576311 + + + + FBbt:00004994 + + @@ -13526,6 +15473,12 @@ The modern definition of neurosecretion has evolved to include the release of an A precursor of the cells that form the dorsal vessel of arthropods. doi:10.1007/BF00360522 + + + + FBbt:00001666 + + @@ -13561,6 +15514,7 @@ The modern definition of neurosecretion has evolved to include the release of an A peptide hormone secreting cell that produces adrenocorticotropin, or corticotropin. + ZFA:0009216 ACTH secreting cell adrenocorticotrophic hormone secreting cell corticotrophin hormone secreting cell @@ -13575,6 +15529,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm SANBI:mhl + + + + ZFA:0009216 + + @@ -13613,12 +15573,19 @@ The modern definition of neurosecretion has evolved to include the release of an A precursor of the central nervous system that gives rise to both neurons and glial cells. doi:10.1002/glia.21162 + + + + FBbt:00005147 + + + @@ -13630,6 +15597,12 @@ The modern definition of neurosecretion has evolved to include the release of an FBbt:00005149 ganglion mother cell + + + + FBbt:00005149 + + @@ -13637,8 +15610,15 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009217 digestive enzyme secreting cell + + + + ZFA:0009217 + + @@ -13704,6 +15684,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm PMID:19783135 + + + + FBbt:00005058 + + @@ -13744,6 +15730,7 @@ The modern definition of neurosecretion has evolved to include the release of an A basophil cell of the anterior pituitary that produces thyroid stimulating hormone, thyrotrophin. This cell type is elongated, polygonal and lie in clusters towards the adenohypophyseal center. FMA:83099 MESH:D052684 + ZFA:0009218 beta-basophil thyroid stimulating hormone secreting cell thyrotrope @@ -13756,16 +15743,23 @@ The modern definition of neurosecretion has evolved to include the release of an ISBN:0517223651 SANBI:mhl + + + + ZFA:0009218 + + + - + @@ -13778,16 +15772,22 @@ The modern definition of neurosecretion has evolved to include the release of an FBbt:00004904 follicle cell of egg chamber - + - + + + + + FBbt:00004904 + + @@ -13886,6 +15886,12 @@ The modern definition of neurosecretion has evolved to include the release of an An endocrine cell that secretes juvenile hormone. GO:tfm + + + + FBbt:00058020 + + @@ -14034,6 +16040,12 @@ The modern definition of neurosecretion has evolved to include the release of an garland nephrocyte GO:0061321 + + + + FBbt:00005059 + + @@ -14063,6 +16075,12 @@ The modern definition of neurosecretion has evolved to include the release of an PMID:34208190 https://www.merriam-webster.com/dictionary/oenocyte + + + + FBbt:00004995 + + @@ -14095,6 +16113,7 @@ The modern definition of neurosecretion has evolved to include the release of an A photoreceptor cell that detects visible light. + ZFA:0009219 visible light photoreceptor cell @@ -14103,6 +16122,12 @@ The modern definition of neurosecretion has evolved to include the release of an A photoreceptor cell that detects visible light. GOC:tfm + + + + ZFA:0009219 + + @@ -14119,8 +16144,15 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009220 photopic photoreceptor cell + + + + ZFA:0009220 + + @@ -14233,6 +16265,7 @@ The modern definition of neurosecretion has evolved to include the release of an A photoreceptor cell that detects ultraviolet light. + ZFA:0009221 UV sensitive photoreceptor cell @@ -14241,6 +16274,12 @@ The modern definition of neurosecretion has evolved to include the release of an A photoreceptor cell that detects ultraviolet light. GOC:tfm + + + + ZFA:0009221 + + @@ -14249,6 +16288,7 @@ The modern definition of neurosecretion has evolved to include the release of an A photoreceptor cell that is sensitive to blue light. + ZFA:0009222 blue sensitive photoreceptor cell @@ -14257,6 +16297,12 @@ The modern definition of neurosecretion has evolved to include the release of an A photoreceptor cell that is sensitive to blue light. GO:tfm + + + + ZFA:0009222 + + @@ -14265,6 +16311,7 @@ The modern definition of neurosecretion has evolved to include the release of an A photoreceptor cell that is sensitive to green light. + ZFA:0009223 green sensitive photoreceptor cell @@ -14273,6 +16320,12 @@ The modern definition of neurosecretion has evolved to include the release of an A photoreceptor cell that is sensitive to green light. GO:tfm + + + + ZFA:0009223 + + @@ -14281,6 +16334,7 @@ The modern definition of neurosecretion has evolved to include the release of an A photoreceptor cell that is sensitive to red light. + ZFA:0009224 red sensitive photoreceptor cell @@ -14289,6 +16343,12 @@ The modern definition of neurosecretion has evolved to include the release of an A photoreceptor cell that is sensitive to red light. GO:tfm + + + + ZFA:0009224 + + @@ -14298,6 +16358,7 @@ The modern definition of neurosecretion has evolved to include the release of an An interneuron (also called relay neuron, association neuron or local circuit neuron) is a multipolar neuron which connects afferent neurons and efferent neurons in neural pathways. Like motor neurons, interneuron cell bodies are always located in the central nervous system (CNS). FMA:84776 + ZFA:0009225 inhibitory interneuron @@ -14308,12 +16369,19 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm http://en.wikipedia.org/wiki/Interneuron + + + + ZFA:0009225 + + + @@ -14325,6 +16393,7 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0002064 FMA:83624 + ZFA:0009226 @@ -14337,6 +16406,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm MESH:D017154 + + + + ZFA:0009226 + + @@ -14359,6 +16434,7 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0000542 CALOHA:TS-0729 FMA:18718 + ZFA:0009227 granulosa cell of ovary granulosa cell @@ -14369,6 +16445,12 @@ The modern definition of neurosecretion has evolved to include the release of an A supporting cell for the developing female gamete in the ovary of mammals. They develop from the coelomic epithelial cells of the gonadal ridge. Granulosa cells form a single layer around the mammalian oocyte in the primordial ovarian follicle and advance to form a multilayered cumulus oophorus surrounding the ovum in the Graafian follicle. The major functions of granulosa cells include the production of steroids and LH receptors. MESH:D006107 + + + + ZFA:0009227 + + @@ -14379,6 +16461,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell found throughout the gastrointestinal tract and in the pancreas. They secrete somatostatin in both an endocrine and paracrine manner. Somatostatin inhibits gastrin, cholecystokinin, insulin, glucagon, pancreatic enzymes, and gastric hydrochloric acid. A variety of substances which inhibit gastric acid secretion (vasoactive intestinal peptide, calcitonin gene-related peptide, cholecystokinin, beta-adrenergic agonists, and gastric inhibitory peptide) are thought to act by releasing somatostatin. FMA:62935 + ZFA:0009228 D cell type D enteroendocrine cell @@ -14389,6 +16472,12 @@ The modern definition of neurosecretion has evolved to include the release of an A cell found throughout the gastrointestinal tract and in the pancreas. They secrete somatostatin in both an endocrine and paracrine manner. Somatostatin inhibits gastrin, cholecystokinin, insulin, glucagon, pancreatic enzymes, and gastric hydrochloric acid. A variety of substances which inhibit gastric acid secretion (vasoactive intestinal peptide, calcitonin gene-related peptide, cholecystokinin, beta-adrenergic agonists, and gastric inhibitory peptide) are thought to act by releasing somatostatin. MESH:D019864 + + + + ZFA:0009228 + + @@ -14406,6 +16495,7 @@ The modern definition of neurosecretion has evolved to include the release of an A flattened stroma cell forming a sheath or theca outside the basal lamina lining the mature ovarian follicle. Thecal interstitial or stromal cells are steroidogenic, and produce primarily androgens which serve as precusors of estrogens in the granulosa cells. BTO:0002850 + ZFA:0009229 theca cell @@ -14416,6 +16506,12 @@ The modern definition of neurosecretion has evolved to include the release of an A flattened stroma cell forming a sheath or theca outside the basal lamina lining the mature ovarian follicle. Thecal interstitial or stromal cells are steroidogenic, and produce primarily androgens which serve as precusors of estrogens in the granulosa cells. MESH:D013799 + + + + ZFA:0009229 + + @@ -14445,6 +16541,7 @@ The modern definition of neurosecretion has evolved to include the release of an A peptide hormone secreting cell that secretes substance P. + ZFA:0009230 substance P secreting cell @@ -14453,6 +16550,12 @@ The modern definition of neurosecretion has evolved to include the release of an A peptide hormone secreting cell that secretes substance P. GO:tfm + + + + ZFA:0009230 + + @@ -14461,6 +16564,7 @@ The modern definition of neurosecretion has evolved to include the release of an An endorphine cell that secretes enkephalin. + ZFA:0009231 enkephalin secreting cell @@ -14469,6 +16573,12 @@ The modern definition of neurosecretion has evolved to include the release of an An endorphine cell that secretes enkephalin. GO:tfm + + + + ZFA:0009231 + + @@ -14477,6 +16587,7 @@ The modern definition of neurosecretion has evolved to include the release of an A peptide hormone secreting cell that secretes endorphin. + ZFA:0009232 endorphin secreting cell @@ -14485,6 +16596,12 @@ The modern definition of neurosecretion has evolved to include the release of an A peptide hormone secreting cell that secretes endorphin. GO:tfm + + + + ZFA:0009232 + + @@ -14595,6 +16712,7 @@ The modern definition of neurosecretion has evolved to include the release of an A paracrine cell is a secretory cell that secretes an agonist into intercellular spaces in which it diffuses to a target cell other than that which produced it. + ZFA:0009233 paracrine cell @@ -14604,6 +16722,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm ISBN:0198529171 + + + + ZFA:0009233 + + @@ -14635,6 +16759,7 @@ The modern definition of neurosecretion has evolved to include the release of an A precursor cell destined to differentiate into cardiac muscle cell. FMA:84797 + ZFA:0009234 cardiac muscle progenitor cell cardiomyocyte progenitor cell @@ -14647,6 +16772,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm MESH:D032386 + + + + ZFA:0009234 + + @@ -14673,6 +16804,7 @@ The modern definition of neurosecretion has evolved to include the release of an A precursor cell destined to differentiate into smooth muscle myocytes. FMA:84798 + ZFA:0009235 myoblast, smooth muscle satellite cell @@ -14685,6 +16817,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm MESH:D032390 + + + + ZFA:0009235 + + @@ -14724,6 +16862,7 @@ The modern definition of neurosecretion has evolved to include the release of an A myoblast that differentiates into skeletal muscle fibers. FMA:84799 + ZFA:0009236 skeletal myoblast skeletal muscle myoblast @@ -14733,6 +16872,12 @@ The modern definition of neurosecretion has evolved to include the release of an A myoblast that differentiates into skeletal muscle fibers. SANBI:mhl + + + + ZFA:0009236 + + @@ -14747,10 +16892,13 @@ The modern definition of neurosecretion has evolved to include the release of an A non-neuronal cell that surrounds the neuronal cell bodies of the ganglia. + FMA:54550 + ZFA:0009237 perineural satellite cell perineuronal satellite oligodendroglial cell satellite oligodendrocyte + perineuronal satellite cell @@ -14760,12 +16908,19 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm MESH:D027161 + + + + ZFA:0009237 + + + @@ -14859,8 +17014,15 @@ The modern definition of neurosecretion has evolved to include the release of an + Any cell that only exists in Fungi. fungal cell + + + + Any cell that only exists in Fungi. + FBC:Autogenerated + @@ -14980,6 +17142,7 @@ The modern definition of neurosecretion has evolved to include the release of an A neuron which conveys sensory information centrally from the periphery. FMA:87653 + ZFA:0009238 input neuron afferent neuron @@ -14991,6 +17154,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm MESH:D009475 + + + + ZFA:0009238 + + @@ -14999,6 +17168,7 @@ The modern definition of neurosecretion has evolved to include the release of an A neuron which sends impulses peripherally to activate muscles or secretory cells. + ZFA:0009239 output neuron efferent neuron @@ -15008,6 +17178,12 @@ The modern definition of neurosecretion has evolved to include the release of an A neuron which sends impulses peripherally to activate muscles or secretory cells. MESH:D009476 + + + + ZFA:0009239 + + @@ -15017,6 +17193,7 @@ The modern definition of neurosecretion has evolved to include the release of an A nerve cell where transmission is mediated by nitric oxide. FMA:84792 + ZFA:0009240 nitrergic neuron @@ -15025,6 +17202,12 @@ The modern definition of neurosecretion has evolved to include the release of an A nerve cell where transmission is mediated by nitric oxide. MESH:D026602 + + + + ZFA:0009240 + + @@ -15032,29 +17215,38 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009241 pigmented epithelial cell + + + + ZFA:0009241 + + + - + A neuron that develops during the early segmentation stages in teleosts, before the neural tube is formed. + ZFA:0009242 primary neuron (sensu Teleostei) - + - + https://github.com/obophenotype/cell-ontology/pull/1950 @@ -15064,6 +17256,12 @@ The modern definition of neurosecretion has evolved to include the release of an PMID:1842357 doi:10.1242/dev.108.1.121 + + + + ZFA:0009242 + + @@ -15097,8 +17295,15 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009243 CAP motoneuron + + + + ZFA:0009243 + + @@ -15108,6 +17313,7 @@ The modern definition of neurosecretion has evolved to include the release of an A primary neuron (sensu Teleostei) that has a motor function. + ZFA:0009244 primary motor neuron (sensu Teleostei) @@ -15116,6 +17322,12 @@ The modern definition of neurosecretion has evolved to include the release of an A primary neuron (sensu Teleostei) that has a motor function. PMID:1842357 + + + + ZFA:0009244 + + @@ -15125,6 +17337,7 @@ The modern definition of neurosecretion has evolved to include the release of an A primary neuron (sensu Teleostei) that is neither a sensory neuron or a motor neuron. + ZFA:0009245 primary interneuron (sensu Teleostei) @@ -15133,26 +17346,34 @@ The modern definition of neurosecretion has evolved to include the release of an A primary neuron (sensu Teleostei) that is neither a sensory neuron or a motor neuron. PMID:1842357 + + + + ZFA:0009245 + + + - + A neuron of teleosts that develops later than a primary neuron, typically during the larval stages. + ZFA:0009246 secondary neuron (sensu Teleostei) - + - + https://github.com/obophenotype/cell-ontology/pull/1950 @@ -15162,6 +17383,12 @@ The modern definition of neurosecretion has evolved to include the release of an PMID:1842357 doi:10.1242/dev.108.1.121 + + + + ZFA:0009246 + + @@ -15179,6 +17406,7 @@ The modern definition of neurosecretion has evolved to include the release of an A secondary neuron (sensu Teleostei) that has a motor function. + ZFA:0009247 secondary motor neuron (sensu Teleostei) @@ -15187,6 +17415,12 @@ The modern definition of neurosecretion has evolved to include the release of an A secondary neuron (sensu Teleostei) that has a motor function. PMID:1842357 + + + + ZFA:0009247 + + @@ -15256,10 +17490,11 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0000938 CALOHA:TS-0683 + FBbt:00005106 FMA:54527 VHOG:0001483 WBbt:0003679 - FBbt:00005106 + ZFA:0009248 nerve cell @@ -15275,6 +17510,18 @@ The modern definition of neurosecretion has evolved to include the release of an MESH:D009474 http://en.wikipedia.org/wiki/Neuron + + + + FBbt:00005106 + + + + + + ZFA:0009248 + + @@ -15292,6 +17539,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell that originates from the neural crest and differentiates into a pigment cell. BTO:0003217 FMA:83377 + ZFA:0009249 Derived from UBERON:0002342 neural crest. melanoblast @@ -15302,6 +17550,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm SANBI:mhl + + + + ZFA:0009249 + + @@ -15332,7 +17586,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -15365,6 +17618,7 @@ The modern definition of neurosecretion has evolved to include the release of an FMA:62863 MESH:D008214 VHOG:0001535 + ZFA:0009250 Editors note: consider adding taxon constraint to vertebrata (PMID:18025161) @@ -15378,6 +17632,12 @@ The modern definition of neurosecretion has evolved to include the release of an ISBN:0683073696 ISBN:0781735149 + + + + ZFA:0009250 + + @@ -15671,7 +17931,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -15837,7 +18096,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -15858,6 +18116,7 @@ The modern definition of neurosecretion has evolved to include the release of an A nucleated immature erythrocyte, having cytoplasm generally similar to that of the earlier proerythroblast but sometimes even more basophilic, and usually regular in outline. The nucleus is still relatively large, but the chromatin strands are thicker and more deeply staining, giving a coarser appearance; the nucleoli have disappeared. This cell is CD71-positive and lacks hematopoeitic lineage markers. FMA:83505 + ZFA:0005236 basophilic normoblast early erythroblast early normoblast @@ -15877,6 +18136,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm ISBN:0721601464 + + + + ZFA:0005236 + + @@ -15927,7 +18192,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -15954,6 +18218,7 @@ The modern definition of neurosecretion has evolved to include the release of an A nucleated, immature erythrocyte in which the nucleus occupies a relatively smaller part of the cell than in its precursor, the basophilic erythroblast. The cytoplasm is beginning to acquire hemoglobin and thus is no longer a purely basophilic, but takes on acidophilic aspects, which becomes progressively more marked as the cell matures. The chromatin of the nucleus is arranged in coarse, deeply staining clumps. This cell is CD71-positive and lacks hematopoeitic lineage markers. FMA:83506 + ZFA:0005241 intermediate erythroblast intermediate normoblast polychromatic erythroblast @@ -15974,6 +18239,12 @@ The modern definition of neurosecretion has evolved to include the release of an A nucleated, immature erythrocyte in which the nucleus occupies a relatively smaller part of the cell than in its precursor, the basophilic erythroblast. The cytoplasm is beginning to acquire hemoglobin and thus is no longer a purely basophilic, but takes on acidophilic aspects, which becomes progressively more marked as the cell matures. The chromatin of the nucleus is arranged in coarse, deeply staining clumps. This cell is CD71-positive and lacks hematopoeitic lineage markers. ISBN:0721601464 + + + + ZFA:0005241 + + @@ -16449,7 +18720,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -16495,6 +18765,7 @@ The modern definition of neurosecretion has evolved to include the release of an A hematopoietic progenitor cell that is committed to the granulocyte and monocyte lineages. These cells are CD123-positive, and do not express Gata1 or Gata2 but do express C/EBPa, and Pu.1. CFU-C , Colony forming unit in culture + ZFA:0009251 colony forming unit granulocyte macrophage granulocyte-macrophage progenitor granulocyte/monocyte precursor @@ -16529,6 +18800,12 @@ The modern definition of neurosecretion has evolved to include the release of an CFU-C , Colony forming unit in culture http://www.copewithcytokines.de + + + + ZFA:0009251 + + @@ -16629,7 +18906,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -16718,6 +18994,7 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0001173 CALOHA:TS-0864 MESH:D012156 + ZFA:0009252 reticulocyte @@ -16737,6 +19014,12 @@ The modern definition of neurosecretion has evolved to include the release of an PMID:15946868 PMID:2037622 + + + + ZFA:0009252 + + @@ -16764,7 +19047,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -16787,6 +19069,7 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0004657 FMA:83551 + ZFA:0009253 Morphology: Mononuclear cell, diameter 14-18 _M, fine azurophilic granules; markers: CD11b (shared with many other myeloid cells); location: Adult: bone marrow; Fetal: Liver, Yolk Sac; role or process: hematopoiesis, monocyte development; lineage: hematopoietic, myeloid. @@ -16805,6 +19088,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm ISBN:0721601464 + + + + ZFA:0009253 + + @@ -16922,6 +19211,7 @@ The modern definition of neurosecretion has evolved to include the release of an band cell band form stab cell + ZFA:0009254 rod neutrophil Found in the Band 1 fraction. band form neutrophil @@ -16945,12 +19235,19 @@ The modern definition of neurosecretion has evolved to include the release of an PMID:15514007 http://www.cap.org + + + + ZFA:0009254 + + + @@ -16975,6 +19272,7 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0004044 FMA:67766 + ZFA:0009255 amacrine neuron AC ACs @@ -16991,6 +19289,12 @@ The modern definition of neurosecretion has evolved to include the release of an MESH:D025042 WikipediaVersioned:Amacrine_cell&oldid=1023572246 + + + + ZFA:0009255 + + @@ -17034,6 +19338,7 @@ The modern definition of neurosecretion has evolved to include the release of an An erythrocyte having a nucleus. RBC red blood cell + ZFA:0009256 nucleate erythrocyte @@ -17049,6 +19354,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:add GOc:tfm + + + + ZFA:0009256 + + @@ -17155,6 +19466,7 @@ The modern definition of neurosecretion has evolved to include the release of an A promyelocyte committed to the neutrophil lineage. This cell type is GATA-1-positive, C/EBPa-positive, AML-1-positive, MPO-positive, has low expression of PU.1 transcription factor and lacks lactotransferrin expression. FMA:84196 + ZFA:0009257 neutrophilic premyelocyte neutrophilic progranulocyte These cells are CD11b-negative, CD15-positive, CD16-negative, CD49d-positive, CD68-positive, CD35-negative, and fMLP receptor-negative. They are found in the Band 3 fraction. @@ -17177,6 +19489,12 @@ The modern definition of neurosecretion has evolved to include the release of an PMID:12560239 PMID:15514007 + + + + ZFA:0009257 + + @@ -17220,7 +19538,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -17246,6 +19563,7 @@ The modern definition of neurosecretion has evolved to include the release of an A mesenchymal stem cell capable of developing into blood vessel endothelium. + ZFA:0009258 angioblast chondroplast These cells are reportedly CD31-positive, CD34-positive, CD144-positive, CD309-positive, and TAL1-positive. @@ -17265,6 +19583,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm PMID:12768659 + + + + ZFA:0009258 + + @@ -17321,6 +19645,7 @@ The modern definition of neurosecretion has evolved to include the release of an A mesenchymal cell found in the developing heart and that develops into some part of the heart. These cells derive from intra- and extra-cardiac sources, including the endocardium, epicardium, neural crest, and second heart field. + ZFA:0009259 cardiac mesenchymal cell @@ -17330,6 +19655,12 @@ The modern definition of neurosecretion has evolved to include the release of an A mesenchymal cell found in the developing heart and that develops into some part of the heart. These cells derive from intra- and extra-cardiac sources, including the endocardium, epicardium, neural crest, and second heart field. PMID:18816864 + + + + ZFA:0009259 + + @@ -17362,7 +19693,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -17390,6 +19720,7 @@ The modern definition of neurosecretion has evolved to include the release of an A neuroepithelial cells that occurs singly or in small groups, close to the outer follicular borders but within the follicular basement membrane of the thyroid. Expresses a form of the neural cell adhesion molecule (N-CAM) on their surface. Secretes calcitonin, 5-hydroxytryptamine and dopamine. FMA:68653 SCTID:176770005 + ZFA:0009260 C cell C cell of thyroid gland clear cell of thyroid gland @@ -17416,6 +19747,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm ISBN:0517223651 + + + + ZFA:0009260 + + @@ -17446,6 +19783,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -17454,6 +19792,7 @@ The modern definition of neurosecretion has evolved to include the release of an A pigment cell derived from the neural crest. Contains uric acid or other purine crystals deposited in stacks called leucosomes. The crystals reflect light and this gives a white appearance under white light. + ZFA:0009261 leucophore @@ -17462,6 +19801,12 @@ The modern definition of neurosecretion has evolved to include the release of an A pigment cell derived from the neural crest. Contains uric acid or other purine crystals deposited in stacks called leucosomes. The crystals reflect light and this gives a white appearance under white light. SANBI:mhl + + + + ZFA:0009261 + + @@ -17490,6 +19835,7 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0001036 CALOHA:TS-0866 FMA:67748 + ZFA:0009262 cone @@ -17501,6 +19847,12 @@ The modern definition of neurosecretion has evolved to include the release of an One of the two photoreceptor cell types in the vertebrate retina. In cones the photopigment is in invaginations of the cell membrane of the outer segment. Cones are less sensitive to light than rods, but they provide vision with higher spatial and temporal acuity, and the combination of signals from cones with different pigments allows color vision. MESH:D017949 + + + + ZFA:0009262 + + @@ -17513,6 +19865,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -17521,6 +19874,7 @@ The modern definition of neurosecretion has evolved to include the release of an A pigment cell derived from the neural crest. Contains pteridine and/or carotenoid pigments in structures called pterinosomes or erythrosomes. This gives an orange to red appearance. + ZFA:0009263 erythrophore @@ -17529,6 +19883,12 @@ The modern definition of neurosecretion has evolved to include the release of an A pigment cell derived from the neural crest. Contains pteridine and/or carotenoid pigments in structures called pterinosomes or erythrosomes. This gives an orange to red appearance. SANBI:mhl + + + + ZFA:0009263 + + @@ -17559,6 +19919,7 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0004298 CALOHA:TS-0173 FMA:70551 + ZFA:0009264 epithelial cell of cornea @@ -17571,6 +19932,12 @@ The modern definition of neurosecretion has evolved to include the release of an An epithelial cell of the cornea. GOC:tfm + + + + ZFA:0009264 + + @@ -17638,6 +20005,7 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0000876 CALOHA:TS-0638 FMA:62864 + ZFA:0009265 @@ -17658,6 +20026,12 @@ The modern definition of neurosecretion has evolved to include the release of an GO_REF:0000031 MESH:D009000 + + + + ZFA:0009265 + + @@ -17728,6 +20102,12 @@ The modern definition of neurosecretion has evolved to include the release of an A follicle cell that migrates from the anterior pole of the insect egg chamber to the anterior of the oocyte where they participate in the formation of the micropyle. FBbt:00004905 + + + + FBbt:00004905 + + @@ -17891,6 +20271,7 @@ The modern definition of neurosecretion has evolved to include the release of an A neutrophil precursor in the granulocytic series, being a cell intermediate in development between a promyelocyte and a metamyelocyte; in this stage, production of primary granules is complete and neutrophil-specific granules has started. No nucleolus is present. This cell type is CD13-positive, CD16-negative, integrin alpha-M-positive, CD15-positive, CD33-positive, CD24-positive, C/EBP-a-positive, C/EBPe-positive, PU.1-positive, lactotransferrin-positive, myeloperoxidase-positive and NGAL-positive. BTO:0003455 FMA:83540 + ZFA:0009266 These cells are also CD15-positive, CD35-negative, CD49d-positive, and fMLP receptor-negative. They are found in the Band 2 fraction. neutrophilic myelocyte @@ -17913,6 +20294,12 @@ The modern definition of neurosecretion has evolved to include the release of an PMID:15514007 http://www.cap.org + + + + ZFA:0009266 + + @@ -17963,7 +20350,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -18021,6 +20407,7 @@ The modern definition of neurosecretion has evolved to include the release of an A macrophage resident in the peritoneum under non-inflammatory conditions. Markers include F4/80-high, CD11b-high, CD68-positive, SIGNR1-positive, CD115-high, MHC-II-negative, and Dectin-1-positive. BTO:0001034 FMA:83025 + ZFA:0009267 Markers: Mouse: F4/80-high, CD11b-high, CD68+, SIGNR1+, Dectin-1+. peritoneal macrophage @@ -18038,6 +20425,12 @@ The modern definition of neurosecretion has evolved to include the release of an PMID:15771589 PMID:19201820 + + + + ZFA:0009267 + + @@ -18235,6 +20628,7 @@ The modern definition of neurosecretion has evolved to include the release of an A neutrophil precursor in the granulocytic series, being a cell intermediate in development between a myelocyte and the band form neutrophil. The protein synthesis seen in earlier stages decreases or stops; the nucleus becomes indented where the indentation is smaller than half the distance to the farthest nuclear margin; chromatin becomes coarse and clumped; specific granules predominate while primary granules are rare; and the cytoplasm becomes amphophilic like that of a mature granulocyte. This cell type is integrin alpha-M-positive, CD13-negative, CD15-positive, CD16-positive, CD33-positive, CD24-positive, fMLP receptor-negative and has expression of C/EBP-a, C/EBP-e, PU.1 transcription factor, lactotransferrin, myeloperoxidase and neutrophil gelatinase associated lipocalin. FMA:84197 + ZFA:0009268 juvenile neutrophil These cells are also CD35-negative, CD49d-positive, and fMLP receptor-negative. They are found in the Band 2 fraction. neutrophilic metamyelocyte @@ -18258,6 +20652,12 @@ The modern definition of neurosecretion has evolved to include the release of an PMID:15514007 http://www.cap.org + + + + ZFA:0009268 + + @@ -18313,7 +20713,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -18410,6 +20809,7 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0000398 FMA:62122 MESH:D020895 + ZFA:0009269 differentiated enterocyte mature enterocyte @@ -18422,6 +20822,12 @@ The modern definition of neurosecretion has evolved to include the release of an An epithelial cell that has its apical plasma membrane folded into microvilli to provide ample surface for the absorption of nutrients from the intestinal lumen. SANBI:mhl + + + + ZFA:0009269 + + @@ -18523,6 +20929,7 @@ The modern definition of neurosecretion has evolved to include the release of an A specialized osteoclast associated with the absorption and removal of cementum. BTO:0002516 FMA:83027 + ZFA:0009270 odontoclast @@ -18537,6 +20944,12 @@ The modern definition of neurosecretion has evolved to include the release of an A specialized osteoclast associated with the absorption and removal of cementum. GOC:add + + + + ZFA:0009270 + + @@ -18652,6 +21065,7 @@ The modern definition of neurosecretion has evolved to include the release of an A steroid hormone secreting cell that secretes androgen. + ZFA:0009271 androgen secreting cell @@ -18660,6 +21074,12 @@ The modern definition of neurosecretion has evolved to include the release of an A steroid hormone secreting cell that secretes androgen. GOC:tfm + + + + ZFA:0009271 + + @@ -18669,6 +21089,7 @@ The modern definition of neurosecretion has evolved to include the release of an An elongated, spindle-shaped, cell that is located between the basal lamina and the plasmalemma of a muscle fiber. These cells are mostly quiescent, but upon activation they divide to produce cells that generate new muscle fibers. + ZFA:0009272 Skeletal muscle satellite cells are not traditionally referred to as myoblasts. They are a heterogeneous population whose division, following activiation, contributes to the formation of skeletal muscle fibers and to maintenance of the skeletal muscle statelite cell population. skeletal muscle satellite cell @@ -18682,6 +21103,12 @@ The modern definition of neurosecretion has evolved to include the release of an PMID:21849021 PMID:23303905 + + + + ZFA:0009272 + + @@ -18801,6 +21228,7 @@ The modern definition of neurosecretion has evolved to include the release of an FMA:67310 FMA:86775 NIFSTD:sao862606388 + ZFA:0009273 projection neuron pyramidal cell @@ -18814,6 +21242,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm MESH:D017966 + + + + ZFA:0009273 + + @@ -18878,6 +21312,7 @@ The modern definition of neurosecretion has evolved to include the release of an A receptor in the vascular system, particularly the aorta and carotid sinus, which is sensitive to stretch of the vessel walls. + ZFA:0009274 pressoreceptor cell @@ -18886,6 +21321,12 @@ The modern definition of neurosecretion has evolved to include the release of an A receptor in the vascular system, particularly the aorta and carotid sinus, which is sensitive to stretch of the vessel walls. MESH:D011311 + + + + ZFA:0009274 + + @@ -18921,6 +21362,7 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0001024 CALOHA:TS-0870 FMA:67747 + ZFA:0009275 rod @@ -18932,6 +21374,12 @@ The modern definition of neurosecretion has evolved to include the release of an One of the two photoreceptor cell types of the vertebrate retina. In rods the photopigment is in stacks of membranous disks separate from the outer cell membrane. Rods are more sensitive to light than cones, but rod mediated vision has less spatial and temporal resolution than cone vision. MESH:D017948 + + + + ZFA:0009275 + + @@ -19145,7 +21593,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -19278,6 +21725,7 @@ The modern definition of neurosecretion has evolved to include the release of an + Any granulocytopoietic cell that has part some transcription factor PU.1 and has part some CCAAT/enhancer-binding protein alpha and has part some erythroid transcription factor and lacks plasma membrane part some CD19 molecule and lacks plasma membrane part some CD4 molecule and lacks plasma membrane part some integrin alpha-M and lacks plasma membrane part some CD3 epsilon and lacks plasma membrane part some neural cell adhesion molecule 1 and lacks plasma membrane part some CD2 molecule and lacks plasma membrane part some T-cell surface glycoprotein CD8 alpha chain and lacks plasma membrane part some membrane-spanning 4-domains subfamily A member 1 and lacks plasma membrane part some T-cell surface glycoprotein CD5 and lacks plasma membrane part some CD14 molecule and lacks plasma membrane part some lymphocyte antigen 6G and lacks plasma membrane part some lymphocyte antigen 76 (mouse) and has plasma membrane part some CD34 molecule and has plasma membrane part some ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 and has plasma membrane part some interleukin-3 receptor class 2 alpha chain and has plasma membrane part some interleukin-5 receptor subunit alpha and has plasma membrane part some mast/stem cell growth factor receptor and is capable of some eosinophil differentiation. CFU-Eo EoP colony forming unit eosinophil @@ -19291,6 +21739,12 @@ The modern definition of neurosecretion has evolved to include the release of an true + + + + Any granulocytopoietic cell that has part some transcription factor PU.1 and has part some CCAAT/enhancer-binding protein alpha and has part some erythroid transcription factor and lacks plasma membrane part some CD19 molecule and lacks plasma membrane part some CD4 molecule and lacks plasma membrane part some integrin alpha-M and lacks plasma membrane part some CD3 epsilon and lacks plasma membrane part some neural cell adhesion molecule 1 and lacks plasma membrane part some CD2 molecule and lacks plasma membrane part some T-cell surface glycoprotein CD8 alpha chain and lacks plasma membrane part some membrane-spanning 4-domains subfamily A member 1 and lacks plasma membrane part some T-cell surface glycoprotein CD5 and lacks plasma membrane part some CD14 molecule and lacks plasma membrane part some lymphocyte antigen 6G and lacks plasma membrane part some lymphocyte antigen 76 (mouse) and has plasma membrane part some CD34 molecule and has plasma membrane part some ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 and has plasma membrane part some interleukin-3 receptor class 2 alpha chain and has plasma membrane part some interleukin-5 receptor subunit alpha and has plasma membrane part some mast/stem cell growth factor receptor and is capable of some eosinophil differentiation. + FBC:Autogenerated + @@ -19507,7 +21961,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -19833,10 +22286,11 @@ The modern definition of neurosecretion has evolved to include the release of an A neuron that uses GABA as a vesicular neurotransmitter + FBbt:00007228 FMA:84788 MESH:D059330 WBbt:0005190 - FBbt:00007228 + ZFA:0009276 GABA-ergic neuron GABAergic neuron @@ -19847,6 +22301,18 @@ The modern definition of neurosecretion has evolved to include the release of an A neuron that uses GABA as a vesicular neurotransmitter GOC:tfm + + + + FBbt:00007228 + + + + + + ZFA:0009276 + + @@ -19916,6 +22382,7 @@ The modern definition of neurosecretion has evolved to include the release of an A secretory cell that is grouped together with other cells of the same type to form grape shaped clusters known as acini (singular acinus). FMA:83625 MESH:D061354 + ZFA:0009277 acinic cell acinous cell @@ -19928,6 +22395,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm http://www.copewithcytokines.de + + + + ZFA:0009277 + + @@ -20007,6 +22480,7 @@ The modern definition of neurosecretion has evolved to include the release of an FMA:83601 MESH:D007694 VHOG:0001697 + ZFA:0009278 NK cell @@ -20021,6 +22495,12 @@ The modern definition of neurosecretion has evolved to include the release of an ISBN:0781735149 PMID:15771571 + + + + ZFA:0009278 + + @@ -20192,6 +22672,7 @@ The modern definition of neurosecretion has evolved to include the release of an A granule cell that has a soma located in an olfactory bulb granule cell layer. An olfactory granule cell is an interneuron that lacks an axon, makes reciprocal dendro-dendritic synapses with mitral cells and tufted cells and is involved in the fine spatio-temporal tuning of the responses of these principal olfactory bulb neurons to odors. + ZFA:0001694 olfactory bulb granule cell Granule cells are the most abundant neuronal population in the olfactory bulb and are continuously renewed throughout life. olfactory granule cell @@ -20203,6 +22684,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:mah doi:10.1038/s41598-018-27692-8 + + + + ZFA:0001694 + + @@ -20279,6 +22766,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell whose primary function is to support other cell types. BTO:0002315 + ZFA:0009387 supportive cell supporting cell @@ -20290,6 +22778,12 @@ The modern definition of neurosecretion has evolved to include the release of an FB:ma GOC:tfm + + + + ZFA:0009387 + + @@ -20329,7 +22823,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -20347,6 +22840,7 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0002741 CALOHA:TS-0452 FMA:67763 + ZFA:0009279 Ito cell hepatic perisinusoidal cell perisinusoidal cell @@ -20370,6 +22864,12 @@ The modern definition of neurosecretion has evolved to include the release of an PMID:9302568 http://en.wikipedia.org/wiki/Hepatic_stellate_cell + + + + ZFA:0009279 + + @@ -20455,6 +22955,7 @@ The modern definition of neurosecretion has evolved to include the release of an Astrocyte-like radial glial cell that extends vertically throughout the retina, with the nucleus are usually in the middle of the inner nuclear layer. BTO:0003064 + ZFA:0009280 Muller cell Muller glia Müller cell @@ -20470,6 +22971,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:NV PMID:21911394 + + + + ZFA:0009280 + + @@ -20606,6 +23113,7 @@ The modern definition of neurosecretion has evolved to include the release of an An agranular supporting cell of the anterior pituitary (adenohypophysis) that is characterized by a star-like morphology and ability to form follicles. Folliculostellate cells communicate with each other and with endocrine cells via gap junctions. + ZFA:0009281 folliculo-stellate cell pituitary folliculostellate cell FS cell @@ -20623,6 +23131,12 @@ The modern definition of neurosecretion has evolved to include the release of an PMID:15961560 doi:10.23937/2572-407X.1510006 + + + + ZFA:0009281 + + @@ -20684,6 +23198,7 @@ The modern definition of neurosecretion has evolved to include the release of an Type of radial astrocyte in the cerebellar cortex that have their cell bodies in the Purkinje cell layer and processes that extend into the molecular layer, terminating with bulbous endfeet at the pial surface. Bergmann glia express high densities of glutamate transporters that limit diffusion of the neurotransmitter glutamate during its release from synaptic terminals. Besides their role in early development of the cerebellum, Bergmann glia are also required for the pruning or addition of synapses. FMA:54559 + ZFA:0009282 Bergmann astrocyte Bergmann glial cell of cerebellum @@ -20697,6 +23212,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm http://www.neurolex.org/wiki/Category:Bergmann_Glial_Cell + + + + ZFA:0009282 + + @@ -20889,6 +23410,7 @@ The modern definition of neurosecretion has evolved to include the release of an juxtaglomerular cell FMA:84138 + ZFA:0005238 JG cell renin secreting cell @@ -20902,6 +23424,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm PMID:11457727 + + + + ZFA:0005238 + + @@ -20937,6 +23465,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -20949,6 +23478,7 @@ The modern definition of neurosecretion has evolved to include the release of an CALOHA:TS-0617 FMA:70972 MESH:D050527 + ZFA:0009283 kidney mesangial cell Do all of these cells really develop from some mesenchymal stem cell? @@ -20961,6 +23491,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm http://www.copewithcytokines.de/cope.cgi?key=mesangial%20cells + + + + ZFA:0009283 + + @@ -21004,6 +23540,7 @@ The modern definition of neurosecretion has evolved to include the release of an This cell type produces and secretes melatonin and forms the pineal parenchyma. Extending from each cell body, which has a spherical, oval or lobulated mucleus, are one or more tortuous basophilic processes, containing parallel microtubules known as synaptic ribbons. These processes end in expanded terminal buds near capillaries or less, frequently, ependymal cells of the pineal recess. The terminal buds contain granular endoplasmic reticulum, mitochondria and electron-dense cored vesicles, which store monoamines and polypeptide hormones, release of which appears to require sympathetic innervation. BTO:0001068 FMA:83417 + ZFA:0009284 pinealocyte @@ -21015,6 +23552,12 @@ The modern definition of neurosecretion has evolved to include the release of an PMID:16687276 http://en.wikipedia.org/wiki/Pinealocyte + + + + ZFA:0009284 + + @@ -21045,6 +23588,7 @@ The modern definition of neurosecretion has evolved to include the release of an epithelial cell of visceral layer of glomerular capsule BTO:0002295 FMA:70967 + ZFA:0009285 glomerular podocyte glomerular visceral epithelial cell kidney podocyte @@ -21067,6 +23611,12 @@ The modern definition of neurosecretion has evolved to include the release of an epithelial cell of visceral layer of glomerular capsule FMA:70967 + + + + ZFA:0009285 + + @@ -21258,8 +23808,8 @@ The modern definition of neurosecretion has evolved to include the release of an One of the two haploid cells into which a primary spermatocyte divides, and which in turn gives origin to spermatids. BTO:0000709 CALOHA:TS-2195 - FMA:72293 FBbt:00004941 + FMA:72293 secondary spermatocyte @@ -21269,6 +23819,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm ISBN:0721662544 + + + + FBbt:00004941 + + @@ -21378,10 +23934,17 @@ The modern definition of neurosecretion has evolved to include the release of an + ZFA:0009286 window cell fenestrated cell + + + + ZFA:0009286 + + @@ -21390,6 +23953,7 @@ The modern definition of neurosecretion has evolved to include the release of an An extracellular matrix secreting cell that secretes collagen. + ZFA:0009287 collagen secreting cell @@ -21399,6 +23963,12 @@ The modern definition of neurosecretion has evolved to include the release of an An extracellular matrix secreting cell that secretes collagen. GOC:tfm + + + + ZFA:0009287 + + @@ -21432,6 +24002,7 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0002441 FMA:63174 + ZFA:0009112 ARC adventitial reticular cell cell of Rouget @@ -21455,6 +24026,12 @@ The modern definition of neurosecretion has evolved to include the release of an PMID:17986482 PMID:20024907 + + + + ZFA:0009112 + + @@ -21492,6 +24069,7 @@ The modern definition of neurosecretion has evolved to include the release of an A primordial germ cell is a diploid germ cell precursors that transiently exist in the embryo before they enter into close association with the somatic cells of the gonad and become irreversibly committed as germ cells. FMA:70567 + ZFA:0009288 gonocyte primitive germ cell @@ -21516,6 +24094,12 @@ The modern definition of neurosecretion has evolved to include the release of an GOC:tfm PMID:1381289 + + + + ZFA:0009288 + + @@ -21534,6 +24118,12 @@ The modern definition of neurosecretion has evolved to include the release of an A follicle cell that migrates from the dorso-anterior part of the oocyte associated follicular epithelium, in between the nurse cells and the oocyte, and participates in the formation of the operculum. PMID:36807509 + + + + FBbt:00004906 + + @@ -21576,6 +24166,12 @@ The modern definition of neurosecretion has evolved to include the release of an An intrinsic neuron of the mushroom body of arthropods and annelids. They have tightly packed, cytoplasm-poor cell bodies. doi:10.1016/S1467-8039(03)00009-4 + + + + FBbt:00003686 + + @@ -21595,6 +24191,12 @@ The modern definition of neurosecretion has evolved to include the release of an A follicle cell that is part of the stalk connecting adjacent egg chambers. PMID:36531940 + + + + FBbt:00004910 + + @@ -21642,6 +24244,7 @@ The modern definition of neurosecretion has evolved to include the release of an Cell of the intestinal epithelium with a brush border made up of many parallel packed microvilli; associated with absorption, particularly of macromolecules. + ZFA:0009289 gut absorptive cell @@ -21651,6 +24254,12 @@ The modern definition of neurosecretion has evolved to include the release of an Cell of the intestinal epithelium with a brush border made up of many parallel packed microvilli; associated with absorption, particularly of macromolecules. JB:jb + + + + ZFA:0009289 + + @@ -21687,12 +24296,25 @@ The modern definition of neurosecretion has evolved to include the release of an A neuron that is capable of some neurotansmission by glutamate secretion. - WBbt:0006829 FBbt:00100291 + WBbt:0006829 + ZFA:0009290 glutamatergic neuron + + + + FBbt:00100291 + + + + + + ZFA:0009290 + + @@ -21710,6 +24332,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -21724,6 +24347,7 @@ The modern definition of neurosecretion has evolved to include the release of an A non-terminally differentiated cell that is capable of developing into a muscle cell. + ZFA:0009291 muscle precursor cell @@ -21733,6 +24357,12 @@ The modern definition of neurosecretion has evolved to include the release of an A non-terminally differentiated cell that is capable of developing into a muscle cell. GOC:add + + + + ZFA:0009291 + + @@ -21747,6 +24377,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cell present in the developing CNS. Functions as both a precursor cell and as a scaffold to support neuronal migration. + ZFA:0009292 forebrain radial glial cell Unlike that of mammals, the brain of adult teleost fish exhibits an intense and widespread neurogenic activity as a result of the persistence of @@ -21759,6 +24390,12 @@ radial glial cells acting as neural progenitors throughout life. A cell present in the developing CNS. Functions as both a precursor cell and as a scaffold to support neuronal migration. GOC:dph + + + + ZFA:0009292 + + @@ -21779,6 +24416,7 @@ radial glial cells acting as neural progenitors throughout life. M cell BTO:0003600 FMA:62929 + ZFA:0009293 M-cell microfold cell @@ -21793,6 +24431,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:jb GOC:tfm + + + + ZFA:0009293 + + @@ -21802,6 +24446,7 @@ radial glial cells acting as neural progenitors throughout life. A cell that transports hormones from neurosecretory cells. This nerve cell is characterized by bipolar shape and endfeet that contact a basal lamina around blood vessels, and/or the pia mater or vitreous body of the eye and additionally contact the ventricular surface or sub-retinal space. MESH:D063928 + ZFA:0009294 ependymal astrocyte ependymoglial cell @@ -21812,6 +24457,12 @@ radial glial cells acting as neural progenitors throughout life. JB:jb http://neurolex.org/wiki/Category:Ependymoglial_Cell + + + + ZFA:0009294 + + @@ -21876,6 +24527,7 @@ radial glial cells acting as neural progenitors throughout life. A columnar/cuboidal epithelial cell that secretes cerebrospinal fluid. + ZFA:0009295 cerebrospinal fluid secreting cell @@ -21890,6 +24542,12 @@ radial glial cells acting as neural progenitors throughout life. A columnar/cuboidal epithelial cell that secretes cerebrospinal fluid. GOC:tfm + + + + ZFA:0009295 + + @@ -21904,9 +24562,16 @@ radial glial cells acting as neural progenitors throughout life. + FBbt:00004213 R1 cell R1 photoreceptor cell + + + + FBbt:00004213 + + @@ -21916,6 +24581,7 @@ radial glial cells acting as neural progenitors throughout life. A fibroblast-like cell that provides support at neuromuscular junctions in vertebrates and are localized outside the synaptic basal lamina. + ZFA:0009296 perijunctional fibroblast @@ -21924,6 +24590,12 @@ radial glial cells acting as neural progenitors throughout life. A fibroblast-like cell that provides support at neuromuscular junctions in vertebrates and are localized outside the synaptic basal lamina. JB:jb + + + + ZFA:0009296 + + @@ -21954,9 +24626,16 @@ radial glial cells acting as neural progenitors throughout life. + FBbt:00004215 R2 cell R2 photoreceptor cell + + + + FBbt:00004215 + + @@ -21982,9 +24661,23 @@ radial glial cells acting as neural progenitors throughout life. + Any interneuron that has characteristic some stellate morphology. + ZFA:0009297 stellate interneuron + + + + Any interneuron that has characteristic some stellate morphology. + FBC:Autogenerated + + + + + ZFA:0009297 + + @@ -21995,6 +24688,10 @@ radial glial cells acting as neural progenitors throughout life. A neuroglial cell of the peripheral nervous system inside the basal lamina of the neuromuscular junction providing chemical and physical support to the synapse. Schwann cell + ZFA:0009298 + perisynaptic Schwann cell + teloglia + tSC terminal Schwann cell @@ -22004,6 +24701,31 @@ radial glial cells acting as neural progenitors throughout life. JB:jb PMID:16136171 + + + + ZFA:0009298 + + + + + + perisynaptic Schwann cell + PMID:18803315 + + + + + teloglia + PMID:18803315 + + + + + tSC + PMID:18803315 + + @@ -22030,6 +24752,7 @@ radial glial cells acting as neural progenitors throughout life. An interneuron that has spider-like appearance with a small round soma, a large number (7-10) of short, smooth, or slightly beaded primary dendrites that give rise to only a few secondary branches, and a branched axon that establishes a dense axonal mesh with thin shafts. + ZFA:0009299 NGF cell neuroglioform cell spiderweb cell @@ -22043,6 +24766,12 @@ radial glial cells acting as neural progenitors throughout life. JB:jb PMID:17122314 + + + + ZFA:0009299 + + @@ -22069,9 +24798,16 @@ radial glial cells acting as neural progenitors throughout life. + FBbt:00004217 R3 cell R3 photoreceptor cell + + + + FBbt:00004217 + + @@ -22094,6 +24830,7 @@ radial glial cells acting as neural progenitors throughout life. A neuron of the human embryonic marginal zone which display, as a salient feature, radial ascending processes that contact the pial surface, and a horizontal axon plexus located in the deep marginal zone. One feature of these cells in mammals is that they express the Reelin gene. + ZFA:0009300 CR cells Horizontal cells of Cajal @@ -22107,6 +24844,12 @@ radial glial cells acting as neural progenitors throughout life. PMID:10600995 PMID:9728912 + + + + ZFA:0009300 + + @@ -22162,9 +24905,16 @@ radial glial cells acting as neural progenitors throughout life. + FBbt:00004219 R4 cell R4 photoreceptor cell + + + + FBbt:00004219 + + @@ -22216,10 +24966,11 @@ radial glial cells acting as neural progenitors throughout life. A neuron that releases dopamine as a neurotransmitter. BTO:0004032 + FBbt:00005131 FMA:84787 MESH:D059290 WBbt:0006746 - FBbt:00005131 + ZFA:0009301 dopaminergic cell dopaminergic neuron @@ -22230,6 +24981,18 @@ radial glial cells acting as neural progenitors throughout life. A neuron that releases dopamine as a neurotransmitter. GOC:dhill + + + + FBbt:00005131 + + + + + + ZFA:0009301 + + @@ -22260,9 +25023,16 @@ radial glial cells acting as neural progenitors throughout life. + FBbt:00004221 R5 cell R5 photoreceptor cell + + + + FBbt:00004221 + + @@ -22272,6 +25042,7 @@ radial glial cells acting as neural progenitors throughout life. Cell that provides some or all mechanical, nutritional and phagocytic support to their neighbors. BTO:0002315 + ZFA:0009302 sustentacular cell @@ -22280,6 +25051,12 @@ radial glial cells acting as neural progenitors throughout life. Cell that provides some or all mechanical, nutritional and phagocytic support to their neighbors. JB:jb + + + + ZFA:0009302 + + @@ -22288,6 +25065,7 @@ radial glial cells acting as neural progenitors throughout life. A specialized endothelial cell that senses extracellular signals and guides the directed growth of blood vessels. + ZFA:0009303 endothelial tip cell @@ -22297,6 +25075,12 @@ radial glial cells acting as neural progenitors throughout life. A specialized endothelial cell that senses extracellular signals and guides the directed growth of blood vessels. PMID:15376331 + + + + ZFA:0009303 + + @@ -22311,9 +25095,16 @@ radial glial cells acting as neural progenitors throughout life. + FBbt:00004223 R6 cell R6 photoreceptor cell + + + + FBbt:00004223 + + @@ -22345,6 +25136,7 @@ radial glial cells acting as neural progenitors throughout life. 2023-08-04T08:48:30Z choroid plexus cell FMA:70549 + ZFA:0009304 epithelial cell of choroid plexus @@ -22365,17 +25157,36 @@ radial glial cells acting as neural progenitors throughout life. choroid plexus cell DOI:10.1101/2022.10.12.511898 + + + + ZFA:0009304 + + - + + + + + + + + FBbt:00004225 R7 cell R7 photoreceptor cell + + + + FBbt:00004225 + + @@ -22402,6 +25213,7 @@ radial glial cells acting as neural progenitors throughout life. Stromal cell that forms the internal covering of the vertebrate brain and produces ECM for this and the choroid plexus. + ZFA:0009305 leptomemingeal cell leptomeningeal cell @@ -22418,6 +25230,12 @@ radial glial cells acting as neural progenitors throughout life. Stromal cell that forms the internal covering of the vertebrate brain and produces ECM for this and the choroid plexus. JB:jb + + + + ZFA:0009305 + + @@ -22432,9 +25250,16 @@ radial glial cells acting as neural progenitors throughout life. + FBbt:00004227 R8 cell R8 photoreceptor cell + + + + FBbt:00004227 + + @@ -22525,8 +25350,15 @@ radial glial cells acting as neural progenitors throughout life. + Any epidermal cell that is part of some stratum granulosum of epidermis. stratum granulosum cell + + + + Any epidermal cell that is part of some stratum granulosum of epidermis. + FBC:Autogenerated + @@ -22558,6 +25390,12 @@ radial glial cells acting as neural progenitors throughout life. FBbt:00001690 embryonic crystal cell + + + + FBbt:00001690 + + @@ -22616,6 +25454,12 @@ radial glial cells acting as neural progenitors throughout life. PMID:34343526 doi:10.1017/CBO9780511818202.023 + + + + FBbt:00004193 + + @@ -22692,6 +25536,7 @@ radial glial cells acting as neural progenitors throughout life. A stem cell that can give rise to cell types of the body other than those of the germ-line. CALOHA:TS-2086 MESH:D053687 + ZFA:0009307 somatic stem cell @@ -22700,6 +25545,12 @@ radial glial cells acting as neural progenitors throughout life. A stem cell that can give rise to cell types of the body other than those of the germ-line. GO:0048103 + + + + ZFA:0009307 + + @@ -22742,8 +25593,15 @@ radial glial cells acting as neural progenitors throughout life. + Any cell that is capable of some nitrogen fixation. nitrogen fixing cell + + + + Any cell that is capable of some nitrogen fixation. + FBC:Autogenerated + @@ -22837,6 +25695,7 @@ radial glial cells acting as neural progenitors throughout life. A cell of a layer of transitional epithelium in the wall of the proximal urethra, bladder, ureter or renal pelvis, external to the lamina propria. FMA:84127 + ZFA:0009308 urinary tract transitional epithelial cell urothelial cell @@ -22849,6 +25708,12 @@ radial glial cells acting as neural progenitors throughout life. MA:ma doi:10.1038/s41385-022-00565-0 + + + + ZFA:0009308 + + @@ -22897,6 +25762,12 @@ radial glial cells acting as neural progenitors throughout life. A hemocyte that derives from the larval lymph gland. doi:10.1242/dev.00702 + + + + FBbt:00005917 + + @@ -22947,6 +25818,7 @@ radial glial cells acting as neural progenitors throughout life. BTO:0002916 CALOHA:TS-2157 FMA:86936 + ZFA:0005784 striated muscle cell @@ -22956,6 +25828,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm ISBN:0721662544 + + + + ZFA:0005784 + + @@ -22977,6 +25855,7 @@ radial glial cells acting as neural progenitors throughout life. + @@ -23012,6 +25891,7 @@ radial glial cells acting as neural progenitors throughout life. FMA:62852 MESH:D007962 NCIT:C12529 + ZFA:0009309 leucocyte white blood cell immune cell @@ -23033,6 +25913,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm ISBN:978-0-323-05290-0 + + + + ZFA:0009309 + + @@ -23061,6 +25947,7 @@ radial glial cells acting as neural progenitors throughout life. BTO:0001800 FMA:67765 MESH:D012165 + ZFA:0009310 gangliocyte ganglion cell of retina RGC @@ -23076,6 +25963,12 @@ radial glial cells acting as neural progenitors throughout life. The set of neurons that receives neural inputs via bipolar, horizontal and amacrine cells. The axons of these cells make up the optic nerve. GOC:dph + + + + ZFA:0009310 + + @@ -23099,6 +25992,7 @@ radial glial cells acting as neural progenitors throughout life. A motor neuron that is located in the cervical region of the spinal cord and selectively innervates the sternocleidmastoid or trapezius muscle. Unlike other motor neurons, they extend axons dorsally along lateral margins of the spinal cord. + ZFA:0009311 SACMN spinal accessory motor neuron @@ -23108,6 +26002,12 @@ radial glial cells acting as neural progenitors throughout life. A motor neuron that is located in the cervical region of the spinal cord and selectively innervates the sternocleidmastoid or trapezius muscle. Unlike other motor neurons, they extend axons dorsally along lateral margins of the spinal cord. PMID:16267219 + + + + ZFA:0009311 + + @@ -23116,6 +26016,7 @@ radial glial cells acting as neural progenitors throughout life. A round chondrocyte that first differentiates in the late embryonic growth plate of bone. + ZFA:0009312 periarticular chondrocyte @@ -23124,6 +26025,12 @@ radial glial cells acting as neural progenitors throughout life. A round chondrocyte that first differentiates in the late embryonic growth plate of bone. PMID:15951842 + + + + ZFA:0009312 + + @@ -23133,6 +26040,7 @@ radial glial cells acting as neural progenitors throughout life. Chondrocyte that is terminally differentiated, produces type X collagen, is large in size, and often associated with the replacement of cartilage by bone (endochondral ossification). + ZFA:0009313 is hypertrophic pathological or normal? and can it be described using a pato term? hypertrophic chondrocyte @@ -23144,6 +26052,12 @@ radial glial cells acting as neural progenitors throughout life. GO_REF:0000034 PMID:15951842 + + + + ZFA:0009313 + + @@ -23152,6 +26066,7 @@ radial glial cells acting as neural progenitors throughout life. A columnar chondrocyte that differentiates in the late embryonic growth plate of bone. Columnar chondrocytes vigorously proliferate and form columns in the growth plate. + ZFA:0009314 columnar chondrocyte @@ -23160,6 +26075,12 @@ radial glial cells acting as neural progenitors throughout life. A columnar chondrocyte that differentiates in the late embryonic growth plate of bone. Columnar chondrocytes vigorously proliferate and form columns in the growth plate. PMID:15951842 + + + + ZFA:0009314 + + @@ -23176,6 +26097,7 @@ radial glial cells acting as neural progenitors throughout life. A neuron that laterally connects other neurons in the inner nuclear layer of the retina. BTO:0004120 + ZFA:0009315 horizontal cell HC HCs @@ -23190,6 +26112,12 @@ radial glial cells acting as neural progenitors throughout life. A neuron that laterally connects other neurons in the inner nuclear layer of the retina. ISBN:0195088433 + + + + ZFA:0009315 + + @@ -23262,6 +26190,7 @@ radial glial cells acting as neural progenitors throughout life. CALOHA:TS-0115 FMA:14067 MESH:D032383 + ZFA:0009316 cardiac muscle fiber cardiac myocyte cardiomyocyte @@ -23282,6 +26211,12 @@ radial glial cells acting as neural progenitors throughout life. PMID:22426062 PMID:4711263 + + + + ZFA:0009316 + + @@ -23294,6 +26229,7 @@ radial glial cells acting as neural progenitors throughout life. + @@ -23302,6 +26238,7 @@ radial glial cells acting as neural progenitors throughout life. A pigment cell derived from the neural crest. Contains blue pigment of unknown chemical composition in fibrous organelles termed cyanosomes. This gives a blue appearance. + ZFA:0009317 blue chromatophore cyanophore @@ -23311,6 +26248,12 @@ radial glial cells acting as neural progenitors throughout life. A pigment cell derived from the neural crest. Contains blue pigment of unknown chemical composition in fibrous organelles termed cyanosomes. This gives a blue appearance. SANBI:mhl + + + + ZFA:0009317 + + @@ -23356,6 +26299,7 @@ radial glial cells acting as neural progenitors throughout life. A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the inner plexiform layer. + ZFA:0009318 BC BCs BPs @@ -23370,6 +26314,12 @@ radial glial cells acting as neural progenitors throughout life. A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the inner plexiform layer. PMID:14689473 + + + + ZFA:0009318 + + @@ -23402,6 +26352,7 @@ radial glial cells acting as neural progenitors throughout life. A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the inner half of the inner plexiform layer. These cells depolarize in response to light stimulation of their corresponding photoreceptors. + ZFA:0009319 ON-bipolar cell @@ -23412,6 +26363,12 @@ radial glial cells acting as neural progenitors throughout life. A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the inner half of the inner plexiform layer. These cells depolarize in response to light stimulation of their corresponding photoreceptors. PMID:14689473 + + + + ZFA:0009319 + + @@ -23421,6 +26378,7 @@ radial glial cells acting as neural progenitors throughout life. A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the outer half of the inner plexiform layer. These cells depolarize in response to light to dark transition. + ZFA:0009320 OFF-bipolar cell @@ -23431,12 +26389,19 @@ radial glial cells acting as neural progenitors throughout life. A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the outer half of the inner plexiform layer. These cells depolarize in response to light to dark transition. PMID:14689473 + + + + ZFA:0009320 + + + @@ -23466,6 +26431,7 @@ radial glial cells acting as neural progenitors throughout life. A bipolar neuron found in the retina that is synapsed by rod photoreceptor cells but not by cone photoreceptor cells. These neurons depolarize in response to light. FMA:67750 + ZFA:0009321 rod bipolar cell @@ -23477,6 +26443,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm PMID:14689473 + + + + ZFA:0009321 + + @@ -23502,6 +26474,7 @@ radial glial cells acting as neural progenitors throughout life. A bipolar neuron found in the retina and having connections with cone photoreceptor cells and neurons in the inner plexiform layer. + ZFA:0009322 cone retinal bipolar cell @@ -23510,6 +26483,12 @@ radial glial cells acting as neural progenitors throughout life. A bipolar neuron found in the retina and having connections with cone photoreceptor cells and neurons in the inner plexiform layer. PMID:14689473 + + + + ZFA:0009322 + + @@ -23539,7 +26518,8 @@ radial glial cells acting as neural progenitors throughout life. - + + @@ -23569,7 +26549,7 @@ radial glial cells acting as neural progenitors throughout life. FMB cone bipolar cell type 2 cone bipolar cell (sensu Mus) - + @@ -23589,7 +26569,7 @@ radial glial cells acting as neural progenitors throughout life. - + PMID:27565351 @@ -23820,6 +26800,7 @@ radial glial cells acting as neural progenitors throughout life. A nucleated blood cell involved in coagulation, typically seen in birds and other non-mammalian vertebrates. + ZFA:0009323 Note that this is a non-mammalian cell type. Use platelet ; CL:0000233 for thrombocytes (platelets) in mammals. nucleated thrombocyte @@ -23838,6 +26819,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm PMID:16360205 + + + + ZFA:0009323 + + @@ -23855,6 +26842,7 @@ radial glial cells acting as neural progenitors throughout life. + @@ -23866,6 +26854,7 @@ radial glial cells acting as neural progenitors throughout life. BTO:0001441 CALOHA:TS-0647 MESH:D022423 + ZFA:0009324 myeloid cell @@ -23881,6 +26870,12 @@ radial glial cells acting as neural progenitors throughout life. A cell of the monocyte, granulocyte, mast cell, megakaryocyte, or erythroid lineage. GOC:add + + + + ZFA:0009324 + + @@ -23893,6 +26888,7 @@ radial glial cells acting as neural progenitors throughout life. CALOHA:TS-0290 FMA:62845 FMA:83516 + ZFA:0009325 erythropoietic cell @@ -23906,6 +26902,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:add GOC:tfm + + + + ZFA:0009325 + + @@ -24072,6 +27074,7 @@ radial glial cells acting as neural progenitors throughout life. CALOHA:TS-0289 FMA:83504 MESH:D004900 + ZFA:0005237 normoblast @@ -24091,6 +27094,12 @@ radial glial cells acting as neural progenitors throughout life. ISBN:0721601464 PMID:18174176 + + + + ZFA:0005237 + + @@ -24111,6 +27120,7 @@ radial glial cells acting as neural progenitors throughout life. A cell of the monocyte, granulocyte, or mast cell lineage. + ZFA:0009326 myeloid leukocyte @@ -24126,6 +27136,12 @@ radial glial cells acting as neural progenitors throughout life. A cell of the monocyte, granulocyte, or mast cell lineage. GOC:add + + + + ZFA:0009326 + + @@ -24845,6 +27861,7 @@ radial glial cells acting as neural progenitors throughout life. CALOHA:TS-0688 FMA:62860 MESH:D009504 + ZFA:0009327 neutrocyte neutrophil leucocyte neutrophil leukocyte @@ -24870,6 +27887,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm ISBN:0721601464 + + + + ZFA:0009327 + + @@ -24901,6 +27924,7 @@ radial glial cells acting as neural progenitors throughout life. Any of the immature forms of a neutrophil in which neutrophilic specific granules are present but other phenotypic features of the mature form may be lacking. + ZFA:0009328 immatuer neutrophilic leukocyte immature neutrocyte immature neutrophil leucocyte @@ -24922,6 +27946,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:add ISBN:0721601464 + + + + ZFA:0009328 + + @@ -25001,6 +28031,7 @@ radial glial cells acting as neural progenitors throughout life. A specialized mononuclear osteoclast associated with the absorption and removal of bone, precursor of multinuclear osteoclasts. + ZFA:0009329 Morphology: mononuclear, highly vesicular. mononuclear osteoclast @@ -25021,6 +28052,12 @@ radial glial cells acting as neural progenitors throughout life. PMID:17380158 PMID:9415452 + + + + ZFA:0009329 + + @@ -25128,6 +28165,7 @@ radial glial cells acting as neural progenitors throughout life. A specialized mononuclear osteoclast associated with the absorption and removal of cementum. + ZFA:0009330 Morphology: Mononuclear, highly vesicular; location: roots of deciduous (milk) teeth. mononuclear odontoclast @@ -25150,6 +28188,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:add PMID:9415452 + + + + ZFA:0009330 + + @@ -25354,6 +28398,7 @@ radial glial cells acting as neural progenitors throughout life. A B cell that is mature, having left the bone marrow. Initially, these cells are IgM-positive and IgD-positive, and they can be activated by antigen. + ZFA:0009331 mature B lymphocyte mature B-cell mature B-lymphocyte @@ -25375,6 +28420,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:dsd ISBN:0781735149 + + + + ZFA:0009331 + + @@ -25460,6 +28511,7 @@ radial glial cells acting as neural progenitors throughout life. BTO:0000392 FMA:70574 MESH:D010950 + ZFA:0009332 plasma B cell plasma B-cell plasmacyte @@ -25493,6 +28545,12 @@ radial glial cells acting as neural progenitors throughout life. PMID:20951740 http://en.wikipedia.org/wiki/Plasma_cell + + + + ZFA:0009332 + + @@ -25549,6 +28607,7 @@ radial glial cells acting as neural progenitors throughout life. A memory B cell is a mature B cell that is long-lived, readily activated upon re-encounter of its antigenic determinant, and has been selected for expression of higher affinity immunoglobulin. This cell type has the phenotype CD19-positive, CD20-positive, MHC Class II-positive, and CD138-negative. + ZFA:0009333 memory B lymphocyte memory B-cell memory B-lymphocyte @@ -25576,6 +28635,12 @@ radial glial cells acting as neural progenitors throughout life. PMID:20839338 http://en.wikipedia.org/wiki/Memory_B_cell + + + + ZFA:0009333 + + @@ -25642,6 +28707,7 @@ radial glial cells acting as neural progenitors throughout life. A naive B cell is a mature B cell that has the phenotype surface IgD-positive, surface IgM-positive, CD20-positive, CD27-negative and that has not yet been activated by antigen in the periphery. + ZFA:0009334 naive B lymphocyte naive B-cell naive B-lymphocyte @@ -25671,6 +28737,12 @@ radial glial cells acting as neural progenitors throughout life. PMID:20933013 PMID:22343568 + + + + ZFA:0009334 + + @@ -25697,6 +28769,7 @@ radial glial cells acting as neural progenitors throughout life. A T cell that expresses an alpha-beta T cell receptor complex. + ZFA:0009335 alpha-beta T lymphocyte alpha-beta T-cell alpha-beta T-lymphocyte @@ -25718,6 +28791,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm ISBN:0781735149 + + + + ZFA:0009335 + + @@ -26204,6 +29283,7 @@ radial glial cells acting as neural progenitors throughout life. A T cell that expresses a gamma-delta T cell receptor complex. + ZFA:0009336 gamma-delta T lymphocyte gamma-delta T-cell gamma-delta T-lymphocyte @@ -26229,6 +29309,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm ISBN:0781735149 + + + + ZFA:0009336 + + @@ -26271,6 +29357,7 @@ radial glial cells acting as neural progenitors throughout life. A gamma-delta T cell that has an immature phenotype. + ZFA:0009337 immature gamma-delta T lymphocyte immature gamma-delta T-cell immature gamma-delta T-lymphocyte @@ -26290,6 +29377,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:add ISBN:0781735149 + + + + ZFA:0009337 + + @@ -26316,6 +29409,7 @@ radial glial cells acting as neural progenitors throughout life. A gamma-delta T cell that has a mature phenotype. These cells can be found in tissues and circulation where they express unique TCR repertoire depending on their location. + ZFA:0009338 mature gamma-delta T lymphocyte mature gamma-delta T-cell mature gamma-delta T-lymphocyte @@ -26336,6 +29430,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm ISBN:0781735149 + + + + ZFA:0009338 + + @@ -26362,6 +29462,7 @@ radial glial cells acting as neural progenitors throughout life. A mature gamma-delta T cell that is found in the columnar epithelium of the gastrointestinal tract. These cells participate in mucosal immune responses. IEL intraepithelial lymphocyte + ZFA:0009339 gamma-delta intraepithelial T lymphocyte gamma-delta intraepithelial T-cell gamma-delta intraepithelial T-lymphocyte @@ -26381,6 +29482,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm ISBN:0781735149 + + + + ZFA:0009339 + + @@ -27092,6 +30199,7 @@ radial glial cells acting as neural progenitors throughout life. A long-lived, antigen-experienced T cell that has acquired a memory phenotype including distinct surface markers and the ability to differentiate into an effector T cell upon antigen reexposure. BTO:0003435 + ZFA:0009342 memory T lymphocyte memory T-cell memory T-lymphocyte @@ -27114,6 +30222,12 @@ radial glial cells acting as neural progenitors throughout life. GO_REF:0000031 ISBN:0781735149 + + + + ZFA:0009342 + + @@ -27318,6 +30432,7 @@ radial glial cells acting as neural progenitors throughout life. An immature B cell is a B cell that has the phenotype surface IgM-positive and surface IgD-negative, and have not undergone class immunoglobulin class switching or peripheral encounter with antigen and activation. + ZFA:0009343 immature B lymphocyte immature B-cell immature B-lymphocyte @@ -27341,6 +30456,12 @@ radial glial cells acting as neural progenitors throughout life. PMID:20081059 PMID:20839338 + + + + ZFA:0009343 + + @@ -27386,6 +30507,7 @@ radial glial cells acting as neural progenitors throughout life. BTO:0001133 CALOHA:TS-0819 + ZFA:0009344 pre-B cell @@ -27405,6 +30527,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm GO_REF:0000031 + + + + ZFA:0009344 + + @@ -27477,6 +30605,7 @@ radial glial cells acting as neural progenitors throughout life. An immature B cell of an intermediate stage between the pre-B cell stage and the mature naive stage with the phenotype surface IgM-positive and CD19-positive, and are subject to the process of B cell selection. A transitional B cell migrates from the bone marrow into the peripheral circulation, and then to the spleen. + ZFA:0009345 transitional B cell transitional stage B lymphocyte transitional stage B-cell @@ -27505,6 +30634,12 @@ radial glial cells acting as neural progenitors throughout life. PMID:12810111 PMID:22343568 + + + + ZFA:0009345 + + @@ -27801,6 +30936,7 @@ radial glial cells acting as neural progenitors throughout life. A natural killer cell that is developmentally immature and expresses natural killer cell receptors (NKR). + ZFA:0009346 immature NK cell p-NK @@ -27816,6 +30952,12 @@ radial glial cells acting as neural progenitors throughout life. ISBN:0781735149 PMID:12457618 + + + + ZFA:0009346 + + @@ -27839,6 +30981,7 @@ radial glial cells acting as neural progenitors throughout life. LAK cell lymphokine activated killer cell + ZFA:0009347 mature NK cell mature natural killer cell @@ -27864,6 +31007,12 @@ radial glial cells acting as neural progenitors throughout life. lymphokine activated killer cell PMID:14685782 + + + + ZFA:0009347 + + @@ -27902,7 +31051,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -27946,6 +31094,7 @@ radial glial cells acting as neural progenitors throughout life. A lymphoid progenitor cell that is committed to the natural killer cell lineage, expressing CD122 (IL-15) receptor, but lacking many of the phenotypic characteristics of later stages of natural killer cell development such as expression of NK activating and inhibitory molecules. In human this cell has the phenotype CD34-positive, CD45RA-positive, CD10-positive, CD117-negative, and CD161 negative. + ZFA:0009348 NKP natural killer cell progenitor pro-natural killer cell @@ -27972,6 +31121,12 @@ radial glial cells acting as neural progenitors throughout life. PMID:15032583 PMID:15766674 + + + + ZFA:0009348 + + @@ -28018,7 +31173,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -28047,6 +31201,7 @@ radial glial cells acting as neural progenitors throughout life. pre-pro B cell BTO:0003104 + ZFA:0009349 pro-B lymphocyte pro-B-cell pro-B-lymphocyte @@ -28083,6 +31238,12 @@ radial glial cells acting as neural progenitors throughout life. pre-pro B cell PMID:17582343 + + + + ZFA:0009349 + + @@ -28120,6 +31281,7 @@ radial glial cells acting as neural progenitors throughout life. A lymphoid progenitor cell of the T cell lineage, with some lineage specific marker expression, but not yet fully committed to the T cell lineage. + ZFA:0009350 pro-T lymphocyte progenitor T cell DN1 cell @@ -28141,6 +31303,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:add ISBN:0781735149 + + + + ZFA:0009350 + + @@ -28178,6 +31346,7 @@ radial glial cells acting as neural progenitors throughout life. A progenitor cell of the thrombocyte, a nucleated blood cell involved in coagulation typically seen in birds and other non-mammalian vertebrates. + ZFA:0009351 Note that this is a non-mammalian cell type. thromboblast @@ -28195,6 +31364,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm PMID:7758949 + + + + ZFA:0009351 + + @@ -28399,7 +31574,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -28701,6 +31875,7 @@ radial glial cells acting as neural progenitors throughout life. A progenitor cell of the neutrophil lineage. + ZFA:0009352 neutrophil stem cell neutrophil progenitor cell @@ -28719,6 +31894,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm ISBN:0721601464 + + + + ZFA:0009352 + + @@ -28750,7 +31931,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -28784,6 +31964,7 @@ radial glial cells acting as neural progenitors throughout life. The most primitive precursor in the granulocytic series, having fine, evenly distributed chromatin, several nucleoli, a high nuclear-to-cytoplasmic ration (5:1-7:1), and a nongranular basophilic cytoplasm. They reside in the bone marrow. BTO:0000187 FMA:83524 + ZFA:0009353 myeloblast @@ -28801,6 +31982,12 @@ radial glial cells acting as neural progenitors throughout life. http://en.wikipedia.org/wiki/Myeloblast http://www.cap.org + + + + ZFA:0009353 + + @@ -28852,7 +32039,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -29004,8 +32190,8 @@ radial glial cells acting as neural progenitors throughout life. + - @@ -29107,6 +32293,7 @@ radial glial cells acting as neural progenitors throughout life. BTO:0000725 CALOHA:TS-0448 + ZFA:0009354 MPP hemopoietic progenitor cell @@ -29123,6 +32310,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm PMID:19022770 + + + + ZFA:0009354 + + @@ -29154,6 +32347,7 @@ radial glial cells acting as neural progenitors throughout life. BTO:0004731 CALOHA:TS-2025 FMA:70338 + ZFA:0009355 Note that this is a class of cell types, not an identified single cell type. lymphoid lineage restricted progenitor cell @@ -29171,6 +32365,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:add GOC:tfm + + + + ZFA:0009355 + + @@ -29202,6 +32402,7 @@ radial glial cells acting as neural progenitors throughout life. BTO:0004730 CALOHA:TS-2099 FMA:70339 + ZFA:0009356 Note that this is a class of cell types, not an identified single cell type. @@ -29221,6 +32422,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm PMID:19022770 + + + + ZFA:0009356 + + @@ -29403,6 +32610,7 @@ radial glial cells acting as neural progenitors throughout life. BTO:0000878 CALOHA:TS-0768 FMA:86713 + ZFA:0009357 mononuclear leukocyte peripheral blood mononuclear cell @@ -29421,6 +32629,12 @@ radial glial cells acting as neural progenitors throughout life. A leukocyte with a single non-segmented nucleus in the mature form. GOC:add + + + + ZFA:0009357 + + @@ -29749,6 +32963,7 @@ radial glial cells acting as neural progenitors throughout life. An olfactory receptor cell in which the apical ending of the dendrite is a pronounced ciliated olfactory knob. + ZFA:0009358 ciliated olfactory sensory neuron ciliated sensory neuron ciliated olfactory receptor neuron @@ -29759,6 +32974,12 @@ radial glial cells acting as neural progenitors throughout life. An olfactory receptor cell in which the apical ending of the dendrite is a pronounced ciliated olfactory knob. PMID:16841163 + + + + ZFA:0009358 + + @@ -29767,6 +32988,7 @@ radial glial cells acting as neural progenitors throughout life. An olfactory receptor cell in which the apical ending of the dendrite is a knob that bears numerous microvilli. + ZFA:0009359 microvillous olfactory sensory neuron microvillous sensory neuron microvillous olfactory receptor neuron @@ -29777,6 +32999,12 @@ radial glial cells acting as neural progenitors throughout life. An olfactory receptor cell in which the apical ending of the dendrite is a knob that bears numerous microvilli. PMID:16841163 + + + + ZFA:0009359 + + @@ -29785,6 +33013,7 @@ radial glial cells acting as neural progenitors throughout life. An olfactory receptor cell with short cilia growing in an invagination bordered by microvilli. + ZFA:0009360 crypt cell crypt olfactory sensory neuron crypt sensory neuron @@ -29796,6 +33025,12 @@ radial glial cells acting as neural progenitors throughout life. An olfactory receptor cell with short cilia growing in an invagination bordered by microvilli. PMID:16841163 + + + + ZFA:0009360 + + @@ -29822,9 +33057,10 @@ radial glial cells acting as neural progenitors throughout life. A neuron that releases serotonin as a neurotransmitter. + FBbt:00005133 MESH:D059326 WBbt:0006837 - FBbt:00005133 + ZFA:0009361 5-HT neuron 5-hydroxytryptamine neuron serotinergic neuron @@ -29836,6 +33072,18 @@ radial glial cells acting as neural progenitors throughout life. A neuron that releases serotonin as a neurotransmitter. SANBI:mhl + + + + FBbt:00005133 + + + + + + ZFA:0009361 + + @@ -29851,6 +33099,7 @@ radial glial cells acting as neural progenitors throughout life. Neuromast mantle cell is a non-sensory cell. Neuromast mantle cells surround the neuromast support cells and neuromast hair cells, separating the neuromast from the epidermis, and secrete cupula in which the ciliary bundles of all the hair cells are embedded. + ZFA:0009362 neuromast mantle cell @@ -29859,6 +33108,12 @@ radial glial cells acting as neural progenitors throughout life. Neuromast mantle cell is a non-sensory cell. Neuromast mantle cells surround the neuromast support cells and neuromast hair cells, separating the neuromast from the epidermis, and secrete cupula in which the ciliary bundles of all the hair cells are embedded. ISBN:0125296509 + + + + ZFA:0009362 + + @@ -29874,6 +33129,7 @@ radial glial cells acting as neural progenitors throughout life. Neuromast support cell is a non-sensory cell of the neuromast that extend between the sensory hair cells from the basement membrane to the apical surface; neuromast support cells are surrounded by neuromast mantle cells. + ZFA:0009363 neuromast support cell neuromast supporting cell @@ -29883,6 +33139,12 @@ radial glial cells acting as neural progenitors throughout life. Neuromast support cell is a non-sensory cell of the neuromast that extend between the sensory hair cells from the basement membrane to the apical surface; neuromast support cells are surrounded by neuromast mantle cells. ISBN:0125296509 + + + + ZFA:0009363 + + @@ -29904,6 +33166,7 @@ radial glial cells acting as neural progenitors throughout life. Olfactory epithelial support cell is a columnar cell that extends from the epithelial free margin to the basement membrane of the olfactory epithelium. This cell type has a large, vertically, elongate, euchromatic nucleus, along with other nuclei, forms a layer superficial to the cell body of the receptor cell; sends long somewhat irregular microvilli into the mucus layer; at the base, with expanded end-feet containing numerous lamellated dense bodies resembling lipofuscin of neurons. FMA:62302 + ZFA:0009364 olfactory epithelial support cell olfactory sustentacular cell supporting cell of olfactory epithelium @@ -29918,12 +33181,19 @@ radial glial cells acting as neural progenitors throughout life. ISBN:0517223651 SANBI:mhl + + + + ZFA:0009364 + + + @@ -29932,6 +33202,7 @@ radial glial cells acting as neural progenitors throughout life. Interneuromast cell is a neuroectodermal cell deposited by the migrating lateral line primordium between the neuromasts. Interneuromast cells proliferate and migrate to form additional neuromasts. + ZFA:0009365 interneuromast cell @@ -29940,6 +33211,12 @@ radial glial cells acting as neural progenitors throughout life. Interneuromast cell is a neuroectodermal cell deposited by the migrating lateral line primordium between the neuromasts. Interneuromast cells proliferate and migrate to form additional neuromasts. SANBI:mhl + + + + ZFA:0009365 + + @@ -29950,6 +33227,7 @@ radial glial cells acting as neural progenitors throughout life. Hair cell is a mechanoreceptor cell that is sensitive to movement of the hair-like projections (stereocilia and kinocilia) which relay the information centrally in the nervous system. hair cell BTO:0004744 + ZFA:0009366 sensory hair cell @@ -29958,6 +33236,12 @@ radial glial cells acting as neural progenitors throughout life. Hair cell is a mechanoreceptor cell that is sensitive to movement of the hair-like projections (stereocilia and kinocilia) which relay the information centrally in the nervous system. SANBI:mhl + + + + ZFA:0009366 + + @@ -29975,6 +33259,7 @@ radial glial cells acting as neural progenitors throughout life. + @@ -29984,6 +33269,7 @@ radial glial cells acting as neural progenitors throughout life. Neuromast hair cell is a hair cell that acts as a sensory receptor of the neuromast; it is morphologically polarized as a result of the relative position of the single kinocilium and the clusters of stereocilia on its apical surface. + ZFA:0009367 neuromast hair cell @@ -29992,6 +33278,12 @@ radial glial cells acting as neural progenitors throughout life. Neuromast hair cell is a hair cell that acts as a sensory receptor of the neuromast; it is morphologically polarized as a result of the relative position of the single kinocilium and the clusters of stereocilia on its apical surface. SANBI:mhl + + + + ZFA:0009367 + + @@ -30017,6 +33309,7 @@ radial glial cells acting as neural progenitors throughout life. A skeletal muscle myoblast that differentiates into slow muscle fibers. + ZFA:0009368 slow muscle myoblast @@ -30025,6 +33318,12 @@ radial glial cells acting as neural progenitors throughout life. A skeletal muscle myoblast that differentiates into slow muscle fibers. SANBI:mhl + + + + ZFA:0009368 + + @@ -30050,6 +33349,7 @@ radial glial cells acting as neural progenitors throughout life. A skeletal muscle myoblast that differentiates into fast muscle fibers. + ZFA:0009369 fast muscle myoblast @@ -30058,6 +33358,12 @@ radial glial cells acting as neural progenitors throughout life. A skeletal muscle myoblast that differentiates into fast muscle fibers. SANBI:mhl + + + + ZFA:0009369 + + @@ -30110,7 +33416,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -30202,7 +33507,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -30426,13 +33730,11 @@ radial glial cells acting as neural progenitors throughout life. A macrophage constitutively resident in a particular tissue under non-inflammatory conditions, and capable of phagocytosing a variety of extracellular particulate material, including immune complexes, microorganisms, and dead cells. - FMA:84642 FMA:84644 fixed macrophage resting histiocyte - tissue-resident macrophage @@ -30591,7 +33893,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -30808,7 +34109,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -30899,7 +34199,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -31002,7 +34301,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -31119,7 +34417,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -31220,7 +34517,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -31536,7 +34832,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -31977,7 +35272,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -32110,6 +35404,7 @@ radial glial cells acting as neural progenitors throughout life. + @@ -32218,7 +35513,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -38619,6 +41913,7 @@ radial glial cells acting as neural progenitors throughout life. CALOHA:TS-2017 FMA:70366 FMA:83598 + ZFA:0005830 haematopoietic cell haemopoietic cell hemopoietic cell @@ -38632,6 +41927,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:add GO_REF:0000031 + + + + ZFA:0005830 + + @@ -39927,7 +43228,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -40577,7 +43877,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -40657,7 +43956,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -40840,7 +44138,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -40965,7 +44262,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -41161,7 +44457,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -41231,7 +44526,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -41352,7 +44646,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -41526,6 +44819,7 @@ radial glial cells acting as neural progenitors throughout life. An excitatory granule cell with a soma located in the granular layer of cerebellar cortex. A mature cerebellar granule cell has short dendrites with a characteristic claw-like appearance and a long axon that ascends to the molecular layer where it bifurcates (except in non-teleost fish, where it does not bifurcate) and extends mediolaterally to form parallel fibers. BTO:0004278 + ZFA:0001691 granule cell of the cerebellum It has been noted in at least some mammalian species that granule cells are the most numerous cell type in the cerebellum and in the brain, with at least 99% of all cerebellar neurons being granule cells. @@ -41539,6 +44833,12 @@ radial glial cells acting as neural progenitors throughout life. doi:10.12688/f1000research.15021.1 doi:10.3389/fncir.2020.611841 + + + + ZFA:0001691 + + @@ -42473,7 +45773,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -42748,7 +46047,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -43369,7 +46667,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -44699,6 +47996,12 @@ radial glial cells acting as neural progenitors throughout life. FBbt:00004230 visual pigment cell (sensu Nematoda and Protostomia) + + + + FBbt:00004230 + + @@ -45159,7 +48462,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -45246,7 +48548,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -45575,7 +48876,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -45725,7 +49025,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -46180,7 +49479,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -46259,7 +49557,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -46416,7 +49713,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -46467,7 +49763,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -46526,7 +49821,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -46613,7 +49907,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -46708,7 +50001,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -46779,7 +50071,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -46846,7 +50137,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -46930,7 +50220,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -47162,6 +50451,7 @@ radial glial cells acting as neural progenitors throughout life. + @@ -47206,6 +50496,7 @@ radial glial cells acting as neural progenitors throughout life. + @@ -49724,6 +53015,7 @@ radial glial cells acting as neural progenitors throughout life. + @@ -49804,6 +53096,7 @@ radial glial cells acting as neural progenitors throughout life. BTO:0000028 CALOHA:TS-0737 FMA:63032 + ZFA:0005739 acinar cell of pancreas @@ -49824,6 +53117,12 @@ radial glial cells acting as neural progenitors throughout life. PMID:20395539 http://www.copewithcytokines.de/cope.cgi?key=pancreatic%20acinar%20cells + + + + ZFA:0005739 + + @@ -50118,7 +53417,7 @@ radial glial cells acting as neural progenitors throughout life. 2010-06-29T03:22:46Z pulmonary brush cell - brush cell of trachebronchial tree + brush cell of tracheobronchial tree @@ -50134,6 +53433,7 @@ radial glial cells acting as neural progenitors throughout life. + @@ -50145,6 +53445,7 @@ radial glial cells acting as neural progenitors throughout life. 2010-06-29T03:38:14Z FMA:69075 + ZFA:0009383 endo-epithelial cell @@ -50154,6 +53455,12 @@ radial glial cells acting as neural progenitors throughout life. FMA:69075 GOC:tfm + + + + ZFA:0009383 + + @@ -50171,6 +53478,7 @@ radial glial cells acting as neural progenitors throughout life. + @@ -50182,6 +53490,7 @@ radial glial cells acting as neural progenitors throughout life. 2010-06-29T03:38:22Z FMA:69074 + ZFA:0009385 ecto-epithelial cell @@ -50191,6 +53500,12 @@ radial glial cells acting as neural progenitors throughout life. FMA:69074 GOC:tfm + + + + ZFA:0009385 + + @@ -50208,6 +53523,7 @@ radial glial cells acting as neural progenitors throughout life. + @@ -50219,6 +53535,7 @@ radial glial cells acting as neural progenitors throughout life. 2010-06-29T03:49:14Z FMA:69076 + ZFA:0009388 epithelial mesenchymal cell meso-epithelial cell @@ -50229,6 +53546,12 @@ radial glial cells acting as neural progenitors throughout life. FMA:69076 GOC:tfm + + + + ZFA:0009388 + + @@ -50269,6 +53592,7 @@ radial glial cells acting as neural progenitors throughout life. 2010-06-30T08:49:43Z FMA:63099 + ZFA:0009380 pancreatic ductal cell @@ -50281,6 +53605,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm PMID:14740223 + + + + ZFA:0009380 + + @@ -50320,6 +53650,7 @@ radial glial cells acting as neural progenitors throughout life. 2010-06-30T08:49:52Z FMA:62455 + ZFA:0005740 centroacinar cell of Langerhans pancreatic centroacinar cell @@ -50334,6 +53665,12 @@ radial glial cells acting as neural progenitors throughout life. PMID:20018761 PMID:8185160 + + + + ZFA:0005740 + + @@ -53325,6 +56662,7 @@ radial glial cells acting as neural progenitors throughout life. + @@ -55432,6 +58770,7 @@ radial glial cells acting as neural progenitors throughout life. + @@ -55507,6 +58846,7 @@ radial glial cells acting as neural progenitors throughout life. + @@ -56352,6 +59692,7 @@ radial glial cells acting as neural progenitors throughout life. 2010-09-08T09:28:20Z FMA:63071 + ZFA:0009400 epithelial cell of esophagus @@ -56367,6 +59708,12 @@ radial glial cells acting as neural progenitors throughout life. An epithelial cell of the esophagus. GOC:tfm + + + + ZFA:0009400 + + @@ -57080,6 +60427,7 @@ radial glial cells acting as neural progenitors throughout life. BTO:0000805 FMA:70588 MESH:D050418 + ZFA:0005742 PP cell of pancreatic islet PP-cell of pancreatic islet pancreatic polypeptide-secreting cell @@ -57094,6 +60442,12 @@ radial glial cells acting as neural progenitors throughout life. A PP cell located in the islets of the pancreas. GOC:tfm + + + + ZFA:0005742 + + @@ -57768,7 +61122,7 @@ radial glial cells acting as neural progenitors throughout life. - + A synovial cell that is macrophage-like, characterized by surface ruffles or lamellipodia, plasma membrane invaginations and associated micropinocytotic vesicles, Golgi apparatus and little granular endoplasmic reticulum. 2010-09-13T03:39:17Z @@ -57777,14 +61131,14 @@ radial glial cells acting as neural progenitors throughout life. Type A cells are usually round and located in the upper part of the synovial intima. type A synovial cell - + - + PMID:10770586 @@ -58311,6 +61665,7 @@ radial glial cells acting as neural progenitors throughout life. + @@ -58400,6 +61755,7 @@ radial glial cells acting as neural progenitors throughout life. CALOHA:TS-2096 FMA:63875 MESH:D003239 + ZFA:0009392 connective tissue cell @@ -58410,6 +61766,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm ISBN:0618947256 + + + + ZFA:0009392 + + @@ -58423,6 +61785,7 @@ radial glial cells acting as neural progenitors throughout life. CALOHA:TS-0263 FMA:82840 WBbt:0007028 + ZFA:0007089 embryonic cell (metazoa) @@ -58431,6 +61794,12 @@ radial glial cells acting as neural progenitors throughout life. A cell of the embryo. FMA:0618947256 + + + + ZFA:0007089 + + @@ -58699,6 +62068,7 @@ radial glial cells acting as neural progenitors throughout life. + @@ -59866,7 +63236,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -59978,7 +63347,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -60070,7 +63438,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -60200,7 +63567,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -60362,7 +63728,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -60832,6 +64197,12 @@ radial glial cells acting as neural progenitors throughout life. ISBN:0323052908 PMID:22274696 + + + + FBbt:00005812 + + @@ -60975,6 +64346,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm ISBN:0721662544 + + + + ZFA:0001725 + + @@ -62299,6 +65676,7 @@ radial glial cells acting as neural progenitors throughout life. + @@ -62633,7 +66011,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -63965,6 +67342,7 @@ radial glial cells acting as neural progenitors throughout life. A specialized hair cell that has an elongated kinocilium upon which an otolith accretes. The tether cell then anchors the otolith in place. 2010-11-10T01:41:00Z + ZFA:0005565 tether cell @@ -63975,6 +67353,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm PMID:9398434 + + + + ZFA:0005565 + + @@ -65224,7 +68608,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -65307,7 +68690,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -66917,6 +70299,7 @@ radial glial cells acting as neural progenitors throughout life. 2011-02-08T10:46:34Z KUPO:0001019 + ZFA:0009374 kidney epithelial cell @@ -66933,6 +70316,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm KUPO:SJ + + + + ZFA:0009374 + + @@ -67808,6 +71197,7 @@ radial glial cells acting as neural progenitors throughout life. An epithelial cell of the intrahepatic portion of the bile duct. These cells are flattened or cuboidal in shape, and have a small nuclear-to-cytoplasmic ratio relative to large/extrahepatic cholangiocytes. 2011-02-28T01:20:20Z + ZFA:0009379 small bile duct cholangiocyte intrahepatic cholangiocyte @@ -67825,6 +71215,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm PMID:23720296 + + + + ZFA:0009379 + + @@ -67923,10 +71319,8 @@ radial glial cells acting as neural progenitors throughout life. A mesenchymal stem cell of the chorionic membrane. - 2011-02-28T03:04:35Z - chorionic membrane mesenchymal stem cell @@ -68065,6 +71459,7 @@ radial glial cells acting as neural progenitors throughout life. An endothelial progenitor cell that participates in angiogenesis during development. 2011-02-28T04:20:39Z + ZFA:0005773 See CL:0002619. embryonic blood vessel endothelial progenitor cell @@ -68074,6 +71469,12 @@ radial glial cells acting as neural progenitors throughout life. An endothelial progenitor cell that participates in angiogenesis during development. GOC:tfm + + + + ZFA:0005773 + + @@ -68266,6 +71667,7 @@ radial glial cells acting as neural progenitors throughout life. + Any skin fibroblast that is part of some dermis. 2011-02-28T05:05:33Z fibroblast of dermis @@ -68276,6 +71678,12 @@ radial glial cells acting as neural progenitors throughout life. true + + + + Any skin fibroblast that is part of some dermis. + FBC:Autogenerated + @@ -68300,6 +71708,7 @@ radial glial cells acting as neural progenitors throughout life. + Any fibroblast that is part of some gingiva. 2011-02-28T05:09:12Z fibroblast of gingiva @@ -68310,6 +71719,12 @@ radial glial cells acting as neural progenitors throughout life. true + + + + Any fibroblast that is part of some gingiva. + FBC:Autogenerated + @@ -68736,6 +72151,7 @@ radial glial cells acting as neural progenitors throughout life. An epithelial cell of the intestine. 2011-03-01T05:18:31Z + ZFA:0009399 intestinal epithelial cell @@ -68745,6 +72161,12 @@ radial glial cells acting as neural progenitors throughout life. An epithelial cell of the intestine. GOC:tfm + + + + ZFA:0009399 + + @@ -70027,6 +73449,7 @@ radial glial cells acting as neural progenitors throughout life. + Any smooth muscle cell that is part of some bronchus. 2011-03-06T05:46:39Z @@ -70035,6 +73458,12 @@ radial glial cells acting as neural progenitors throughout life. bronchial smooth muscle cell + + + + Any smooth muscle cell that is part of some bronchus. + FBC:Autogenerated + @@ -70178,6 +73607,7 @@ radial glial cells acting as neural progenitors throughout life. + Any connective tissue cell that is part of some annulus fibrosus disci intervertebralis. 2011-03-06T06:50:53Z anulus pulposus cell @@ -70189,6 +73619,12 @@ radial glial cells acting as neural progenitors throughout life. true + + + + Any connective tissue cell that is part of some annulus fibrosus disci intervertebralis. + FBC:Autogenerated + @@ -70886,10 +74322,17 @@ radial glial cells acting as neural progenitors throughout life. + Any epithelial cell that is part of some gingival epithelium. 2011-03-14T12:46:28Z gingival epithelial cell + + + + Any epithelial cell that is part of some gingival epithelium. + FBC:Autogenerated + @@ -71254,6 +74697,7 @@ radial glial cells acting as neural progenitors throughout life. + Any respiratory epithelial cell that is part of some upper respiratory tract. 2011-06-21T12:28:55Z epithelial cell of upper respiratory tract @@ -71264,6 +74708,12 @@ radial glial cells acting as neural progenitors throughout life. true + + + + Any respiratory epithelial cell that is part of some upper respiratory tract. + FBC:Autogenerated + @@ -71288,6 +74738,7 @@ radial glial cells acting as neural progenitors throughout life. + Any respiratory epithelial cell that is part of some lower respiratory tract. 2011-06-21T12:29:31Z @@ -71299,6 +74750,12 @@ radial glial cells acting as neural progenitors throughout life. true + + + + Any respiratory epithelial cell that is part of some lower respiratory tract. + FBC:Autogenerated + @@ -72229,6 +75686,12 @@ radial glial cells acting as neural progenitors throughout life. type III spiral ligament fibrocyte type 3 otic fibrocyte + + + + type III spiral ligament fibrocyte + MP:0004489 + @@ -72236,12 +75699,6 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm PMID:18353863 - - - - type III spiral ligament fibrocyte - MP:0004489 - @@ -72295,6 +75752,7 @@ radial glial cells acting as neural progenitors throughout life. + @@ -74024,7 +77482,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -74085,7 +77542,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -75927,6 +79383,7 @@ radial glial cells acting as neural progenitors throughout life. A CNS interneuron located in the spinal cord. + ZFA:0000778 Is_a interneuron, part_of UBERON:0002240. spinal cord interneuron @@ -75942,6 +79399,12 @@ radial glial cells acting as neural progenitors throughout life. A CNS interneuron located in the spinal cord. CL:CVS + + + + ZFA:0000778 + + @@ -75957,6 +79420,7 @@ radial glial cells acting as neural progenitors throughout life. A non-terminally differentiated cell that originates from the neural crest and differentiates into an iridophore. + ZFA:0005328 Derived from UBERON:0002342 neural crest. iridoblast @@ -75966,6 +79430,12 @@ radial glial cells acting as neural progenitors throughout life. A non-terminally differentiated cell that originates from the neural crest and differentiates into an iridophore. CL:CVS + + + + ZFA:0005328 + + @@ -75981,6 +79451,7 @@ radial glial cells acting as neural progenitors throughout life. A non-terminally differentiated cell that differentiates into a xanthophore. + ZFA:0005245 xanthoblast @@ -75989,6 +79460,12 @@ radial glial cells acting as neural progenitors throughout life. A non-terminally differentiated cell that differentiates into a xanthophore. CL:CVS + + + + ZFA:0005245 + + @@ -76004,6 +79481,7 @@ radial glial cells acting as neural progenitors throughout life. A non-terminally differentiated cell that originates from the neural crest and differentiates into a leucophore. + ZFA:0005329 leucoblast @@ -76012,6 +79490,12 @@ radial glial cells acting as neural progenitors throughout life. A non-terminally differentiated cell that originates from the neural crest and differentiates into a leucophore. CL:CVS + + + + ZFA:0005329 + + @@ -76027,6 +79511,7 @@ radial glial cells acting as neural progenitors throughout life. A non-terminally differentiated cell that originates from the neural crest and differentiates into an erythrophore. + ZFA:0005331 pigment erythroblast @@ -76035,6 +79520,12 @@ radial glial cells acting as neural progenitors throughout life. A non-terminally differentiated cell that originates from the neural crest and differentiates into an erythrophore. CL:CVS + + + + ZFA:0005331 + + @@ -76050,6 +79541,7 @@ radial glial cells acting as neural progenitors throughout life. A non-terminally differentiated cell that originates from the neural crest and differentiates into a cyanophore. + ZFA:0005332 cyanoblast @@ -76058,6 +79550,12 @@ radial glial cells acting as neural progenitors throughout life. A non-terminally differentiated cell that originates from the neural crest and differentiates into a cyanophore. CL:CVS + + + + ZFA:0005332 + + @@ -76067,6 +79565,7 @@ radial glial cells acting as neural progenitors throughout life. Specialized epithelial cells involved in the maintenance of osmotic homeostasis. They are characterized by abundant mitochondria and ion transporters. In amniotes, they are present in the renal system. In freshwater fish, ionocytes in the skin and gills help maintain osmotic homeostasis by absorbing salt from the external environment. + ZFA:0005323 ionocyte @@ -76078,6 +79577,12 @@ radial glial cells acting as neural progenitors throughout life. PMID:17555741 PMID:19268451 + + + + ZFA:0005323 + + @@ -76087,6 +79592,7 @@ radial glial cells acting as neural progenitors throughout life. Kolmer-Agduhr neurons are ciliated GABAergic neurons that contact the central canal of the spinal cord and have ipsilateral ascending axons. + ZFA:0005240 KA cell KA interneuron KA neuron @@ -76099,6 +79605,12 @@ radial glial cells acting as neural progenitors throughout life. Kolmer-Agduhr neurons are ciliated GABAergic neurons that contact the central canal of the spinal cord and have ipsilateral ascending axons. PMID:18680739 + + + + ZFA:0005240 + + @@ -76154,6 +79666,7 @@ radial glial cells acting as neural progenitors throughout life. A cuboidal epithelial cell of the kidney which regulates sodium and potassium balance. The activity of sodium and potassium channels on the apical membrane of the cell is regulated by aldosterone and vasopressin. In mammals this cell type is located in the renal collecting duct system. + ZFA:0005322 renal principal cell @@ -76163,6 +79676,12 @@ radial glial cells acting as neural progenitors throughout life. A cuboidal epithelial cell of the kidney which regulates sodium and potassium balance. The activity of sodium and potassium channels on the apical membrane of the cell is regulated by aldosterone and vasopressin. In mammals this cell type is located in the renal collecting duct system. CL:CVS + + + + ZFA:0005322 + + @@ -76174,6 +79693,7 @@ radial glial cells acting as neural progenitors throughout life. A cuboidal epithelial cell of the kidney that regulates acid/base balance. FMA:86560 + ZFA:0009375 intercalated cell Intercalated cells are also called “mitochondria-rich cells”, reflecting the high levels of round mitochondria at their apical pole, or in their cytoplasm, a distribution that is quite different from that of other kidney tubule cells, which accumulated mitochondria around the basolateral membrane. These cells also have numerous irregular apical microvilli compared with the surrounding segment-specific cells. Intercalated cells lack a central cilium, at least in the cortex, which also differentiates them from the adjacent principal cells. @@ -76185,6 +79705,12 @@ radial glial cells acting as neural progenitors throughout life. A cuboidal epithelial cell of the kidney that regulates acid/base balance. CL:CVS + + + + ZFA:0009375 + + @@ -76205,6 +79731,7 @@ radial glial cells acting as neural progenitors throughout life. A cuboidal epithelial cell of the kidney which secretes acid and reabsorbs base to regulate acid/base balance. + ZFA:0009376 type A intercalated cell type A-IC @@ -76217,6 +79744,12 @@ radial glial cells acting as neural progenitors throughout life. A cuboidal epithelial cell of the kidney which secretes acid and reabsorbs base to regulate acid/base balance. CL:CVS + + + + ZFA:0009376 + + @@ -76245,6 +79778,7 @@ radial glial cells acting as neural progenitors throughout life. A ciliated epithelial cell with many cilia. multi-ciliated cell multiciliated cell + ZFA:0005242 multiciliated epithelial cell MCC @@ -76256,6 +79790,12 @@ radial glial cells acting as neural progenitors throughout life. A ciliated epithelial cell with many cilia. CL:CVS + + + + ZFA:0005242 + + @@ -76270,6 +79810,7 @@ radial glial cells acting as neural progenitors throughout life. A ciliated epithelial cell with a single cilium. + ZFA:0005243 single ciliated epithelial cell @@ -76278,6 +79819,12 @@ radial glial cells acting as neural progenitors throughout life. A ciliated epithelial cell with a single cilium. CL:CVS + + + + ZFA:0005243 + + @@ -76288,6 +79835,7 @@ radial glial cells acting as neural progenitors throughout life. A non-sensory cell that extends from the basement membrane to the apical surface of the auditory epithelium and provides support for auditory hair cells. + ZFA:0005244 auditory epithelial support cell auditory epithelial supporting cell @@ -76298,6 +79846,12 @@ radial glial cells acting as neural progenitors throughout life. CL:CVS GOC:tfm + + + + ZFA:0005244 + + @@ -76374,6 +79928,7 @@ radial glial cells acting as neural progenitors throughout life. A cell that secretes ghrelin, the peptide hormone that stimulates hunger. + ZFA:0005599 ghrelin secreting cell @@ -76382,6 +79937,12 @@ radial glial cells acting as neural progenitors throughout life. A cell that secretes ghrelin, the peptide hormone that stimulates hunger. CL:curator + + + + ZFA:0005599 + + @@ -76403,6 +79964,7 @@ radial glial cells acting as neural progenitors throughout life. Ghrelin secreting cells found in the endocrine pancreas. + ZFA:0005598 pancreatic E cell @@ -76415,6 +79977,12 @@ radial glial cells acting as neural progenitors throughout life. Ghrelin secreting cells found in the endocrine pancreas. PMID:14970313 + + + + ZFA:0005598 + + @@ -76443,6 +80011,7 @@ radial glial cells acting as neural progenitors throughout life. Lymphatic progenitor cells. 2012-01-12T04:44:34Z + ZFA:0009393 Usually express Prox1, or prox1b. lymphangioblast @@ -76458,6 +80027,12 @@ radial glial cells acting as neural progenitors throughout life. Lymphatic progenitor cells. CL:CVS + + + + ZFA:0009393 + + @@ -76469,6 +80044,7 @@ radial glial cells acting as neural progenitors throughout life. Mesenchymal derived lymphatic progenitor cells that give rise to the superficial lymphatics. 2012-01-12T05:01:22Z + ZFA:0009394 mesenchymal lymphangioblast @@ -76479,6 +80055,12 @@ radial glial cells acting as neural progenitors throughout life. PMID:15624319 PMID:18430230 + + + + ZFA:0009394 + + @@ -76506,6 +80088,7 @@ radial glial cells acting as neural progenitors throughout life. Lymphatic progenitor cells, derived from the veins, that give rise to lymphatic endothelial cells. 2012-01-12T05:21:09Z + ZFA:0009395 parachordal lymphangioblast vascular lymphangioblast @@ -76522,6 +80105,12 @@ radial glial cells acting as neural progenitors throughout life. Lymphatic progenitor cells, derived from the veins, that give rise to lymphatic endothelial cells. CL:CVS + + + + ZFA:0009395 + + @@ -76548,6 +80137,7 @@ radial glial cells acting as neural progenitors throughout life. Cranial motor neuron which innervates muscles derived from the branchial (pharyngeal) arches. PMID:14699587 + ZFA:0005731 branchi motor neuron special visceral motor neuron branchiomotor neuron @@ -76558,6 +80148,12 @@ radial glial cells acting as neural progenitors throughout life. Cranial motor neuron which innervates muscles derived from the branchial (pharyngeal) arches. ZFIN:CVS + + + + ZFA:0005731 + + @@ -76584,6 +80180,7 @@ radial glial cells acting as neural progenitors throughout life. A motor neuron that innervates a skeletal muscle. These motor neurons are all excitatory and cholinergic. + ZFA:0005733 somatic motor neuron somatomotor neuron @@ -76593,6 +80190,12 @@ radial glial cells acting as neural progenitors throughout life. A motor neuron that innervates a skeletal muscle. These motor neurons are all excitatory and cholinergic. ZFIN:CVS + + + + ZFA:0005733 + + @@ -76607,6 +80210,7 @@ radial glial cells acting as neural progenitors throughout life. A motor neuron that synapses to parasympathetic neurons that innervate tear glands, sweat glands, and the smooth muscles and glands of the pulmonary, cardiovascular, and gastrointestinal systems. + ZFA:0005732 general visceral motor neuron Note that these neurons do not synapse directly onto muscles @@ -76618,6 +80222,12 @@ radial glial cells acting as neural progenitors throughout life. A motor neuron that synapses to parasympathetic neurons that innervate tear glands, sweat glands, and the smooth muscles and glands of the pulmonary, cardiovascular, and gastrointestinal systems. ZFIN:CVS + + + + ZFA:0005732 + + @@ -76646,6 +80256,7 @@ radial glial cells acting as neural progenitors throughout life. + @@ -76765,6 +80376,7 @@ radial glial cells acting as neural progenitors throughout life. + @@ -76781,6 +80393,7 @@ radial glial cells acting as neural progenitors throughout life. Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells. 2012-06-27T08:27:35Z + ZFA:0007084 premigratory neural crest cell @@ -76789,12 +80402,19 @@ radial glial cells acting as neural progenitors throughout life. Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells. UBERONREF:0000002 + + + + ZFA:0007084 + + + @@ -76855,6 +80475,7 @@ radial glial cells acting as neural progenitors throughout life. Notochordal cell that is part of the outer epithelium of the notochord and surrounds the vacuolated notochord cells. 2012-06-27T09:26:37Z + ZFA:0005744 notochordal sheath cell @@ -76863,6 +80484,12 @@ radial glial cells acting as neural progenitors throughout life. Notochordal cell that is part of the outer epithelium of the notochord and surrounds the vacuolated notochord cells. CL:MAH + + + + ZFA:0005744 + + @@ -76994,6 +80621,7 @@ radial glial cells acting as neural progenitors throughout life. Neuron that is part of the enteric nervous system. 2012-06-28T08:20:31Z + ZFA:0005775 enteric neuron @@ -77003,6 +80631,12 @@ radial glial cells acting as neural progenitors throughout life. Neuron that is part of the enteric nervous system. CL:MAH + + + + ZFA:0005775 + + @@ -77099,6 +80733,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u Muscle precursor cell that is adjacent to the notochord and part of the presomitic mesoderm. 2012-12-30T12:43:15Z + ZFA:0000003 In teleosts, adaxial cells give rise to slow muscle myoblasts. adaxial cell @@ -77108,6 +80743,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u Muscle precursor cell that is adjacent to the notochord and part of the presomitic mesoderm. PMID:8951054 + + + + ZFA:0000003 + + @@ -77246,6 +80887,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A specialized pore forming cell of the follicle, located adjacent to the animal pole of the oocyte. The micropylar cell makes the single micropyle (pore) through the chorion through which the sperm fertilizes the egg. + ZFA:0005239 plug cell micropylar cell @@ -77256,6 +80898,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u PMID:18582455 ZFA:0005239 + + + + ZFA:0005239 + + @@ -77415,6 +81063,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u A muscle cell that is part of some somatic muscle. GOC:dos + + + + FBbt:00005073 + + @@ -77502,6 +81156,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u A muscle cell that is part of some visceral muscle. GOC:dos + + + + FBbt:00005070 + + @@ -77724,18 +81384,18 @@ Covers cells actively being cultured or stored in a quiescent state for future u - + A skeletal muscle satellite cell that has become mitotically active - typically following muscle damage. activated skeletal muscle satellite cell - + - + More accurately - transformation_of ? @@ -77885,8 +81545,15 @@ Covers cells actively being cultured or stored in a quiescent state for future u + Any neuron that has its soma located in some anterior lateral line ganglion. anterior lateral line ganglion neuron + + + + Any neuron that has its soma located in some anterior lateral line ganglion. + FBC:Autogenerated + @@ -77989,6 +81656,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A neuron that release noradrenaline (noriphinephrine) as a neurotransmitter. + ZFA:0005873 noradrenergic neuron @@ -77997,6 +81665,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u A neuron that release noradrenaline (noriphinephrine) as a neurotransmitter. GOC:dos + + + + ZFA:0005873 + + @@ -78031,6 +81705,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u An epithelial cell that is part of the epithelium of a tracheal tube in an open tracheal system, such as that found in insects. GOC:dos + + + + FBbt:00005038 + + @@ -78067,10 +81747,17 @@ Covers cells actively being cultured or stored in a quiescent state for future u + Any neuron that is capable of part of some visual perception. 2017-07-09T19:12:36Z visual system neuron + + + + Any neuron that is capable of part of some visual perception. + FBC:Autogenerated + @@ -78127,6 +81814,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u + @@ -78226,6 +81914,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u 2020-02-29T17:33:55Z + ZFA:0005944 @@ -78237,6 +81926,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u Mural cells are pericytes and the vascular smooth muscle cells (vSMCs) of the microcirculation. Wiki:Mural_cell&oldid=930603194 + + + + ZFA:0005944 + + @@ -78262,10 +81957,17 @@ Covers cells actively being cultured or stored in a quiescent state for future u + Any vascular associated smooth muscle cell that is part of some microcirculatory vessel. 2020-02-29T17:37:00Z microcirculation associated smooth muscle cell + + + + Any vascular associated smooth muscle cell that is part of some microcirculatory vessel. + FBC:Autogenerated + @@ -78361,6 +82063,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u + @@ -78856,6 +82559,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u + @@ -81406,7 +85110,6 @@ Covers cells actively being cultured or stored in a quiescent state for future u 2021-11-25T09:30:45Z - There is growing evidence that molecular markers characterizing double negative thymocytes are different across species, especially in human versus mouse thymus. This term is restricted for use with human data. committed double negative thymocyte (Homo sapiens) @@ -82732,8 +86435,15 @@ Covers cells actively being cultured or stored in a quiescent state for future u + Any blood vessel endothelial cell that is part of some heart. cardiac blood vessel endothelial cell + + + + Any blood vessel endothelial cell that is part of some heart. + FBC:Autogenerated + @@ -82758,8 +86468,15 @@ Covers cells actively being cultured or stored in a quiescent state for future u + Any cell that is part of some His-Purkinje system. His-Purkinje system cell + + + + Any cell that is part of some His-Purkinje system. + FBC:Autogenerated + @@ -82785,11 +86502,18 @@ Covers cells actively being cultured or stored in a quiescent state for future u + Any endothelial cell that is part of some heart. cardiac endothelial cell + + + + Any endothelial cell that is part of some heart. + FBC:Autogenerated + @@ -82807,22 +86531,30 @@ Covers cells actively being cultured or stored in a quiescent state for future u + - + + Any photoreceptor cell that is part of some camera-type eye. camera type eye photoreceptor cell camera-type eye photoreceptor cell - + - + https://github.com/obophenotype/cell-ontology/issues/2245 + + + + Any photoreceptor cell that is part of some camera-type eye. + FBC:Autogenerated + @@ -82842,8 +86574,15 @@ Covers cells actively being cultured or stored in a quiescent state for future u + Any stellate neuron that has its soma located in some cerebellum. cerebellar stellate cell + + + + Any stellate neuron that has its soma located in some cerebellum. + FBC:Autogenerated + @@ -83006,8 +86745,15 @@ Covers cells actively being cultured or stored in a quiescent state for future u + Any glial cell that is part of some heart. cardiac glial cell + + + + Any glial cell that is part of some heart. + FBC:Autogenerated + @@ -83032,9 +86778,16 @@ Covers cells actively being cultured or stored in a quiescent state for future u + Any myoblast that develops into some cardiac muscle cell. MESH:D032386 cardiac myoblast + + + + Any myoblast that develops into some cardiac muscle cell. + FBC:Autogenerated + @@ -83206,6 +86959,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u A vetebrate lens cell that is any of the elongated, tightly packed cells that make up the bulk of the mature lens in a camera-type eye. + ZFA:0009401 lens fibre cell @@ -83218,6 +86972,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GO:0070307 GOC:nv + + + + ZFA:0009401 + + @@ -83670,7 +87430,6 @@ Covers cells actively being cultured or stored in a quiescent state for future u - @@ -83763,6 +87522,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u + @@ -84023,6 +87783,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u Parasympathetic neurons are part of the parasympathetic nervous sysem and the cell bodies lie in the brain and sacral region of the spinal cord. The neurons are mainly cholinergic. + ZFA:0005776 parasympathetic neuron @@ -84032,6 +87793,12 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:NV isbn:0080923437 + + + + ZFA:0005776 + + @@ -84041,6 +87808,7 @@ Covers cells actively being cultured or stored in a quiescent state for future u Sympathetic neurons are part of the sympathetic nervous system and are primarily adrenergic producing the neurotransmitter noradrenalin along with other neuropeptides. + ZFA:0005777 sympathetic neuron @@ -84052,12 +87820,19 @@ Covers cells actively being cultured or stored in a quiescent state for future u GOC:NV isbn:0080923437 + + + + ZFA:0005777 + + + @@ -84232,6 +88007,7 @@ plexiform layer using GABA. A neuron that releases hypocretin as a neurotransmitter. + ZFA:0005778 orexin hypocretin-secreting neuron @@ -84242,6 +88018,12 @@ plexiform layer using GABA. GOC:NV PMID:23848055 + + + + ZFA:0005778 + + @@ -84278,6 +88060,12 @@ plexiform layer using GABA. GOC:NV PMID:22677810 + + + + FBbt:00007367 + + @@ -84508,9 +88296,16 @@ plexiform layer using GABA. + Any radial glial cell that is part of some forebrain. forebrain radial glial cell + + + + Any radial glial cell that is part of some forebrain. + FBC:Autogenerated + @@ -84520,6 +88315,7 @@ plexiform layer using GABA. Motor neuron that innervate muscles that control eye, jaw, and facial movements of the vertebrate head and parasympathetic neurons that innervate certain glands and organs. PMID:14699587 + ZFA:0005730 cranial motoneuron cranial motor neuron @@ -84529,6 +88325,12 @@ plexiform layer using GABA. Motor neuron that innervate muscles that control eye, jaw, and facial movements of the vertebrate head and parasympathetic neurons that innervate certain glands and organs. ZFIN:CVS + + + + ZFA:0005730 + + @@ -85134,8 +88936,15 @@ plexiform layer using GABA. + Any nucleus that has characteristic some alobate. alobate nucleus + + + + Any nucleus that has characteristic some alobate. + FBC:Autogenerated + @@ -85813,8 +89622,15 @@ plexiform layer using GABA. + Any neuron that has its soma located in some retrotrapezoid nucleus. retrotrapezoid nucleus neuron + + + + Any neuron that has its soma located in some retrotrapezoid nucleus. + FBC:Autogenerated + @@ -85840,8 +89656,15 @@ plexiform layer using GABA. + Any epithelial cell that is part of some mesonephric nephron tubule. mesonephric nephron tubule epithelial cell + + + + Any epithelial cell that is part of some mesonephric nephron tubule. + FBC:Autogenerated + @@ -85877,8 +89700,15 @@ plexiform layer using GABA. + Any neuroblast (sensu Vertebrata) that is part of some forebrain. forebrain neuroblast + + + + Any neuroblast (sensu Vertebrata) that is part of some forebrain. + FBC:Autogenerated + @@ -85903,8 +89733,15 @@ plexiform layer using GABA. + Any glial cell that is part of some lateral line nerve. lateral line nerve glial cell + + + + Any glial cell that is part of some lateral line nerve. + FBC:Autogenerated + @@ -85929,8 +89766,15 @@ plexiform layer using GABA. + Any radial glial cell that is part of some spinal cord. spinal cord radial glial cell + + + + Any radial glial cell that is part of some spinal cord. + FBC:Autogenerated + @@ -85938,8 +89782,15 @@ plexiform layer using GABA. + ZFA:0009370 stretch receptor cell + + + + ZFA:0009370 + + @@ -85947,8 +89798,15 @@ plexiform layer using GABA. + ZFA:0009371 stratified keratinized epithelial stem cell + + + + ZFA:0009371 + + @@ -85983,8 +89841,15 @@ plexiform layer using GABA. + Any epithelial cell that is part of some pronephric nephron tubule. pronephric nephron tubule epithelial cell + + + + Any epithelial cell that is part of some pronephric nephron tubule. + FBC:Autogenerated + @@ -86010,8 +89875,15 @@ plexiform layer using GABA. + Any epithelial cell that is part of some metanephric nephron tubule. metanephric nephron tubule epithelial cell + + + + Any epithelial cell that is part of some metanephric nephron tubule. + FBC:Autogenerated + @@ -86032,9 +89904,16 @@ plexiform layer using GABA. + Any goblet cell that is part of some lung. lung goblet cell + + + + Any goblet cell that is part of some lung. + FBC:Autogenerated + @@ -86060,6 +89939,7 @@ plexiform layer using GABA. A cell that is part of a cardiac valve. + ZFA:0009402 heart valve cell cardiac valve cell @@ -86070,6 +89950,12 @@ plexiform layer using GABA. A cell that is part of a cardiac valve. PMID:25311230 + + + + ZFA:0009402 + + @@ -86100,6 +89986,12 @@ plexiform layer using GABA. A specialized epithelial secretory cell that moves chloride ions and water across the tubule epithelium. GO:0061330 + + + + FBbt:00005797 + + @@ -86130,8 +90022,15 @@ plexiform layer using GABA. + Any tip cell that is part of some Malpighian tubule. malpighian tubule tip cell + + + + Any tip cell that is part of some Malpighian tubule. + FBC:Autogenerated + @@ -86178,8 +90077,15 @@ plexiform layer using GABA. + Any chondrocyte that is part of some growth plate cartilage. growth plate cartilage chondrocyte + + + + Any chondrocyte that is part of some growth plate cartilage. + FBC:Autogenerated + @@ -86200,8 +90106,15 @@ plexiform layer using GABA. + Any neuroendocrine cell that is part of some stomach. stomach neuroendocrine cell + + + + Any neuroendocrine cell that is part of some stomach. + FBC:Autogenerated + @@ -86291,8 +90204,15 @@ plexiform layer using GABA. + Any glial cell that is part of some posterior lateral line nerve. posterior lateral line nerve glial cell + + + + Any glial cell that is part of some posterior lateral line nerve. + FBC:Autogenerated + @@ -86317,8 +90237,15 @@ plexiform layer using GABA. + Any glial cell that is part of some anterior lateral line nerve. anterior lateral line nerve glial cell + + + + Any glial cell that is part of some anterior lateral line nerve. + FBC:Autogenerated + @@ -86343,8 +90270,15 @@ plexiform layer using GABA. + Any neuron that has its soma located in some posterior lateral line ganglion. posterior lateral line ganglion neuron + + + + Any neuron that has its soma located in some posterior lateral line ganglion. + FBC:Autogenerated + @@ -86369,11 +90303,18 @@ plexiform layer using GABA. + Any ciliated cell that is part of some lung. lung ciliated cell + + + + Any ciliated cell that is part of some lung. + FBC:Autogenerated + @@ -86398,9 +90339,16 @@ plexiform layer using GABA. + Any secretory cell that is part of some lung. lung secretory cell + + + + Any secretory cell that is part of some lung. + FBC:Autogenerated + @@ -91059,6 +95007,7 @@ plexiform layer using GABA. A somatic stem cell that is part of the epidermis. FMA:70541 + ZFA:0007122 epidermal stem cell stem cell of epidermis @@ -91075,6 +95024,12 @@ plexiform layer using GABA. A somatic stem cell that is part of the epidermis. GOC:tfm + + + + ZFA:0007122 + + @@ -92715,6 +96670,7 @@ plexiform layer using GABA. + @@ -92746,6 +96702,7 @@ plexiform layer using GABA. An epithelial cell that is part of the bile duct. Cholangiocytes contribute to bile secretion via net release of bicarbonate and water. They are cuboidal epithelium in the small interlobular bile ducts, but become columnar and mucus secreting in larger bile ducts approaching the porta hepatis and the extrahepatic ducts. FMA:86481 + ZFA:0009397 epithelial cell of bile duct cholangiocyte @@ -92764,6 +96721,12 @@ plexiform layer using GABA. PMID:16550043 PMID:18356246 + + + + ZFA:0009397 + + @@ -93066,9 +97029,16 @@ plexiform layer using GABA. A cell that is part of a kidney. KUPO:0001010 + ZFA:0009389 kidney cell + + + + ZFA:0009389 + + @@ -93096,10 +97066,17 @@ plexiform layer using GABA. A cell that is part of kidney interstitium. KUPO:0001013 + ZFA:0009390 kidney interstitial cell + + + + ZFA:0009390 + + @@ -93126,6 +97103,7 @@ plexiform layer using GABA. A cell that is part of a renal medulla. KUPO:0001017 + ZFA:0009391 kidney medulla cell @@ -93134,6 +97112,12 @@ plexiform layer using GABA. A cell that is part of a renal medulla. PMID:22343825 + + + + ZFA:0009391 + + @@ -93216,10 +97200,17 @@ plexiform layer using GABA. + Any kidney epithelial cell that is part of some glomerular epithelium. KUPO:0001023 kidney glomerular epithelial cell + + + + Any kidney epithelial cell that is part of some glomerular epithelium. + FBC:Autogenerated + @@ -93361,10 +97352,17 @@ plexiform layer using GABA. + Any kidney cell that is part of some papillary duct. KUPO:0001064 kidney papillary duct principal epithelial cell + + + + Any kidney cell that is part of some papillary duct. + FBC:Autogenerated + @@ -93389,9 +97387,16 @@ plexiform layer using GABA. + Any kidney cell that is part of some juxtamedullary cortex. KUPO:0001111 inner renal cortex cell + + + + Any kidney cell that is part of some juxtamedullary cortex. + FBC:Autogenerated + @@ -93448,9 +97453,16 @@ plexiform layer using GABA. + Any cell that is part of some lower urinary tract. KUPO:0001115 lower urinary tract cell + + + + Any cell that is part of some lower urinary tract. + FBC:Autogenerated + @@ -93475,9 +97487,16 @@ plexiform layer using GABA. + Any cell that is part of some ureter. KUPO:0001116 ureteral cell + + + + Any cell that is part of some ureter. + FBC:Autogenerated + @@ -93495,6 +97514,7 @@ plexiform layer using GABA. + @@ -93503,9 +97523,16 @@ plexiform layer using GABA. + Any neuron that has its soma located in some kidney. KUPO:0001015 kidney nerve cell + + + + Any neuron that has its soma located in some kidney. + FBC:Autogenerated + @@ -93531,6 +97558,7 @@ plexiform layer using GABA. + Any renal cortical epithelial cell that is part of some renal corpuscle. KUPO:0001021 kidney corpuscule cell @@ -93541,6 +97569,12 @@ plexiform layer using GABA. true + + + + Any renal cortical epithelial cell that is part of some renal corpuscle. + FBC:Autogenerated + @@ -93567,6 +97601,7 @@ plexiform layer using GABA. + Any kidney tubule cell that is part of some renal cortex tubule. KUPO:0001024 kidney cortex tubule cell @@ -93577,6 +97612,12 @@ plexiform layer using GABA. true + + + + Any kidney tubule cell that is part of some renal cortex tubule. + FBC:Autogenerated + @@ -93601,6 +97642,7 @@ plexiform layer using GABA. + Any kidney medulla cell that is part of some outer medulla of kidney. KUPO:0001025 kidney outer medulla cell @@ -93610,6 +97652,12 @@ plexiform layer using GABA. true + + + + Any kidney medulla cell that is part of some outer medulla of kidney. + FBC:Autogenerated + @@ -93634,6 +97682,7 @@ plexiform layer using GABA. + Any kidney medulla cell that is part of some inner medulla of kidney. KUPO:0001026 kidney inner medulla cell @@ -93643,6 +97692,12 @@ plexiform layer using GABA. true + + + + Any kidney medulla cell that is part of some inner medulla of kidney. + FBC:Autogenerated + @@ -93667,6 +97722,7 @@ plexiform layer using GABA. + Any kidney cortical cell that is part of some juxtaglomerular apparatus. KUPO:0001028 juxtaglomerulus cell @@ -93678,6 +97734,12 @@ plexiform layer using GABA. true + + + + Any kidney cortical cell that is part of some juxtaglomerular apparatus. + FBC:Autogenerated + @@ -93919,6 +97981,7 @@ plexiform layer using GABA. + Any smooth muscle cell that is part of some kidney pelvis smooth muscle. KUPO:0001113 kidney pelvis smooth muscle cell @@ -93934,6 +97997,12 @@ plexiform layer using GABA. true + + + + Any smooth muscle cell that is part of some kidney pelvis smooth muscle. + FBC:Autogenerated + @@ -93960,6 +98029,7 @@ plexiform layer using GABA. + Any kidney epithelial cell that is part of some kidney pelvis urothelium. KUPO:0001114 kidney pelvis urothelial cell @@ -93976,6 +98046,12 @@ plexiform layer using GABA. true + + + + Any kidney epithelial cell that is part of some kidney pelvis urothelium. + FBC:Autogenerated + @@ -94001,6 +98077,7 @@ plexiform layer using GABA. + Any urothelial cell that is part of some urothelium of ureter. KUPO:0001117 ureter urothelial cell @@ -94016,6 +98093,12 @@ plexiform layer using GABA. true + + + + Any urothelial cell that is part of some urothelium of ureter. + FBC:Autogenerated + @@ -94042,6 +98125,7 @@ plexiform layer using GABA. + Any ureteral cell that is part of some adventitia of ureter. KUPO:0001119 @@ -94053,6 +98137,12 @@ plexiform layer using GABA. true + + + + Any ureteral cell that is part of some adventitia of ureter. + FBC:Autogenerated + @@ -94072,6 +98162,7 @@ plexiform layer using GABA. + Any renal principal cell that is part of some cortical collecting duct. KUPO:0001130 @@ -94083,6 +98174,12 @@ plexiform layer using GABA. true + + + + Any renal principal cell that is part of some cortical collecting duct. + FBC:Autogenerated + @@ -94102,6 +98199,7 @@ plexiform layer using GABA. + Any renal intercalated cell that is part of some cortical collecting duct. KUPO:0001131 @@ -94113,6 +98211,12 @@ plexiform layer using GABA. true + + + + Any renal intercalated cell that is part of some cortical collecting duct. + FBC:Autogenerated + @@ -94206,6 +98310,7 @@ plexiform layer using GABA. + Any renal principal cell that is part of some inner medullary collecting duct. KUPO:0001134 @@ -94217,6 +98322,12 @@ plexiform layer using GABA. true + + + + Any renal principal cell that is part of some inner medullary collecting duct. + FBC:Autogenerated + @@ -94236,6 +98347,7 @@ plexiform layer using GABA. + Any renal intercalated cell that is part of some inner medullary collecting duct. KUPO:0001135 kidney inner medulla collecting duct intercalated cell @@ -94245,6 +98357,12 @@ plexiform layer using GABA. true + + + + Any renal intercalated cell that is part of some inner medullary collecting duct. + FBC:Autogenerated + @@ -94264,6 +98382,7 @@ plexiform layer using GABA. + Any renal intercalated cell that is part of some papillary duct. KUPO:0001136 kidney papillary duct intercalated cell @@ -94273,6 +98392,12 @@ plexiform layer using GABA. true + + + + Any renal intercalated cell that is part of some papillary duct. + FBC:Autogenerated + @@ -94292,6 +98417,7 @@ plexiform layer using GABA. + Any renal principal cell that is part of some papillary duct. KUPO:0001137 kidney papillary duct principal cell @@ -94301,6 +98427,12 @@ plexiform layer using GABA. true + + + + Any renal principal cell that is part of some papillary duct. + FBC:Autogenerated + @@ -94375,6 +98507,7 @@ plexiform layer using GABA. + Any kidney corpuscule cell that is part of some renal glomerulus. KUPO:0001036 glomerular cell @@ -94384,6 +98517,12 @@ plexiform layer using GABA. true + + + + Any kidney corpuscule cell that is part of some renal glomerulus. + FBC:Autogenerated + @@ -94409,6 +98548,7 @@ plexiform layer using GABA. + Any nephron tubule epithelial cell that is part of some renal connecting tubule. KUPO:0001058 @@ -94422,6 +98562,12 @@ plexiform layer using GABA. true + + + + Any nephron tubule epithelial cell that is part of some renal connecting tubule. + FBC:Autogenerated + @@ -94540,6 +98686,7 @@ plexiform layer using GABA. + Any epithelial cell of proximal tubule that is part of some proximal convoluted tubule. KUPO:0001045 kidney proximal convoluted tubule epithelial cell @@ -94550,6 +98697,12 @@ plexiform layer using GABA. true + + + + Any epithelial cell of proximal tubule that is part of some proximal convoluted tubule. + FBC:Autogenerated + @@ -94576,6 +98729,7 @@ plexiform layer using GABA. + Any epithelial cell of proximal tubule that is part of some proximal straight tubule. KUPO:0001046 kidney proximal straight tubule epithelial cell @@ -94592,6 +98746,12 @@ plexiform layer using GABA. true + + + + Any epithelial cell of proximal tubule that is part of some proximal straight tubule. + FBC:Autogenerated + @@ -94616,6 +98776,7 @@ plexiform layer using GABA. + Any epithelial cell of distal tubule that is part of some distal convoluted tubule. KUPO:0001056 @@ -94629,6 +98790,12 @@ plexiform layer using GABA. true + + + + Any epithelial cell of distal tubule that is part of some distal convoluted tubule. + FBC:Autogenerated + @@ -94654,6 +98821,7 @@ plexiform layer using GABA. + Any epithelial cell of distal tubule that is part of some macula densa. KUPO:0001057 @@ -94672,6 +98840,12 @@ plexiform layer using GABA. true + + + + Any epithelial cell of distal tubule that is part of some macula densa. + FBC:Autogenerated + @@ -94689,6 +98863,7 @@ plexiform layer using GABA. + @@ -94743,6 +98918,7 @@ plexiform layer using GABA. + Any kidney blood vessel cell that is part of some kidney arterial blood vessel. KUPO:0001029 kidney arterial blood vessel cell @@ -94753,6 +98929,12 @@ plexiform layer using GABA. true + + + + Any kidney blood vessel cell that is part of some kidney arterial blood vessel. + FBC:Autogenerated + @@ -94778,11 +98960,18 @@ plexiform layer using GABA. + Any kidney blood vessel cell that is part of some kidney capillary. KUPO:0001030 kidney capillary endothelial cell + + + + Any kidney blood vessel cell that is part of some kidney capillary. + FBC:Autogenerated + @@ -94807,6 +98996,7 @@ plexiform layer using GABA. + Any kidney blood vessel cell that is part of some renal vein. KUPO:0001031 kidney venous blood vessel cell @@ -94817,6 +99007,12 @@ plexiform layer using GABA. true + + + + Any kidney blood vessel cell that is part of some renal vein. + FBC:Autogenerated + @@ -94851,6 +99047,7 @@ plexiform layer using GABA. + Any nephron tubule epithelial cell that is part of some loop of Henle. KUPO:0001047 kidney loop of Henle epithelial cell @@ -94861,6 +99058,12 @@ plexiform layer using GABA. true + + + + Any nephron tubule epithelial cell that is part of some loop of Henle. + FBC:Autogenerated + @@ -94886,7 +99089,10 @@ plexiform layer using GABA. + Any smooth muscle cell that is part of some muscular coat of ureter. + KUPO:0001118 + ureter smooth muscle cell @@ -94901,6 +99107,12 @@ plexiform layer using GABA. true + + + + Any smooth muscle cell that is part of some muscular coat of ureter. + FBC:Autogenerated + @@ -94928,6 +99140,7 @@ plexiform layer using GABA. + Any kidney capillary endothelial cell that is part of some glomerular capillary endothelium. KUPO:0001037 @@ -94940,6 +99153,12 @@ plexiform layer using GABA. true + + + + Any kidney capillary endothelial cell that is part of some glomerular capillary endothelium. + FBC:Autogenerated + @@ -94965,6 +99184,7 @@ plexiform layer using GABA. + Any kidney arterial blood vessel cell that is part of some renal afferent arteriole. KUPO:0001038 kidney afferent arteriole cell @@ -94974,6 +99194,12 @@ plexiform layer using GABA. true + + + + Any kidney arterial blood vessel cell that is part of some renal afferent arteriole. + FBC:Autogenerated + @@ -94999,6 +99225,7 @@ plexiform layer using GABA. + Any kidney arterial blood vessel cell that is part of some renal efferent arteriole. KUPO:0001041 kidney efferent arteriole cell @@ -95008,6 +99235,12 @@ plexiform layer using GABA. true + + + + Any kidney arterial blood vessel cell that is part of some renal efferent arteriole. + FBC:Autogenerated + @@ -95033,6 +99266,7 @@ plexiform layer using GABA. + Any kidney loop of Henle epithelial cell that is part of some ascending limb of loop of Henle. KUPO:0001048 @@ -95044,6 +99278,12 @@ plexiform layer using GABA. true + + + + Any kidney loop of Henle epithelial cell that is part of some ascending limb of loop of Henle. + FBC:Autogenerated + @@ -95068,6 +99308,7 @@ plexiform layer using GABA. + Any kidney loop of Henle epithelial cell that is part of some descending limb of loop of Henle. KUPO:0001053 kidney loop of Henle descending limb epithelial cell @@ -95078,6 +99319,12 @@ plexiform layer using GABA. true + + + + Any kidney loop of Henle epithelial cell that is part of some descending limb of loop of Henle. + FBC:Autogenerated + @@ -95183,6 +99430,7 @@ plexiform layer using GABA. + Any kidney arterial blood vessel cell that is part of some renal cortex artery. KUPO:0001077 kidney cortex artery cell @@ -95193,6 +99441,12 @@ plexiform layer using GABA. true + + + + Any kidney arterial blood vessel cell that is part of some renal cortex artery. + FBC:Autogenerated + @@ -95217,6 +99471,7 @@ plexiform layer using GABA. + Any kidney venous blood vessel cell that is part of some renal cortex vein. KUPO:0001084 kidney cortex vein cell @@ -95226,6 +99481,12 @@ plexiform layer using GABA. true + + + + Any kidney venous blood vessel cell that is part of some renal cortex vein. + FBC:Autogenerated + @@ -95285,6 +99546,7 @@ plexiform layer using GABA. + Any endothelial cell that is part of some renal afferent arteriole. KUPO:0001039 @@ -95297,6 +99559,12 @@ plexiform layer using GABA. true + + + + Any endothelial cell that is part of some renal afferent arteriole. + FBC:Autogenerated + @@ -95317,9 +99585,16 @@ plexiform layer using GABA. + Any smooth muscle cell that is part of some renal afferent arteriole. KUPO:0001040 kidney afferent arteriole smooth muscle cell + + + + Any smooth muscle cell that is part of some renal afferent arteriole. + FBC:Autogenerated + @@ -95339,6 +99614,7 @@ plexiform layer using GABA. + Any endothelial cell that is part of some renal efferent arteriole. KUPO:0001042 @@ -95351,6 +99627,12 @@ plexiform layer using GABA. true + + + + Any endothelial cell that is part of some renal efferent arteriole. + FBC:Autogenerated + @@ -95371,9 +99653,16 @@ plexiform layer using GABA. + Any smooth muscle cell that is part of some renal efferent arteriole. KUPO:0001043 kidney efferent arteriole smooth muscle cell + + + + Any smooth muscle cell that is part of some renal efferent arteriole. + FBC:Autogenerated + @@ -95589,6 +99878,7 @@ plexiform layer using GABA. + Any peritubular capillary endothelial cell that is part of some outer renal medulla peritubular capillary. KUPO:0001066 kidney outer medulla peritubular capillary cell @@ -95604,6 +99894,12 @@ plexiform layer using GABA. true + + + + Any peritubular capillary endothelial cell that is part of some outer renal medulla peritubular capillary. + FBC:Autogenerated + @@ -95628,6 +99924,7 @@ plexiform layer using GABA. + Any peritubular capillary endothelial cell that is part of some renal cortex peritubular capillary. KUPO:0001067 kidney cortex peritubular capillary cell @@ -95637,6 +99934,12 @@ plexiform layer using GABA. true + + + + Any peritubular capillary endothelial cell that is part of some renal cortex peritubular capillary. + FBC:Autogenerated + @@ -95662,6 +99965,7 @@ plexiform layer using GABA. + Any vasa recta cell that is part of some inner renal medulla vasa recta. KUPO:0001069 inner renal medulla vasa recta cell @@ -95677,6 +99981,12 @@ plexiform layer using GABA. true + + + + Any vasa recta cell that is part of some inner renal medulla vasa recta. + FBC:Autogenerated + @@ -95702,6 +100012,7 @@ plexiform layer using GABA. + Any vasa recta cell that is part of some outer renal medulla vasa recta. KUPO:0001070 outer renal medulla vasa recta cell @@ -95717,6 +100028,12 @@ plexiform layer using GABA. true + + + + Any vasa recta cell that is part of some outer renal medulla vasa recta. + FBC:Autogenerated + @@ -95787,6 +100104,7 @@ plexiform layer using GABA. + Any kidney cortex artery cell that is part of some kidney arcuate artery. KUPO:0001078 arcuate artery cell @@ -95796,6 +100114,12 @@ plexiform layer using GABA. true + + + + Any kidney cortex artery cell that is part of some kidney arcuate artery. + FBC:Autogenerated + @@ -95820,6 +100144,7 @@ plexiform layer using GABA. + Any kidney cortex artery cell that is part of some interlobular artery. KUPO:0001081 interlobular artery cell @@ -95829,6 +100154,12 @@ plexiform layer using GABA. true + + + + Any kidney cortex artery cell that is part of some interlobular artery. + FBC:Autogenerated + @@ -95853,6 +100184,7 @@ plexiform layer using GABA. + Any kidney cortex vein cell that is part of some kidney arcuate vein. KUPO:0001085 arcuate vein cell @@ -95862,6 +100194,12 @@ plexiform layer using GABA. true + + + + Any kidney cortex vein cell that is part of some kidney arcuate vein. + FBC:Autogenerated + @@ -95886,6 +100224,7 @@ plexiform layer using GABA. + Any kidney cortex vein cell that is part of some renal interlobular vein. KUPO:0001088 interlobular vein cell @@ -95895,6 +100234,12 @@ plexiform layer using GABA. true + + + + Any kidney cortex vein cell that is part of some renal interlobular vein. + FBC:Autogenerated + @@ -95920,6 +100265,7 @@ plexiform layer using GABA. + Any vasa recta ascending limb cell that is part of some inner medulla vasa recta ascending limb. KUPO:0001075 inner medulla vasa recta ascending limb cell @@ -95935,6 +100281,12 @@ plexiform layer using GABA. true + + + + Any vasa recta ascending limb cell that is part of some inner medulla vasa recta ascending limb. + FBC:Autogenerated + @@ -95960,6 +100312,7 @@ plexiform layer using GABA. + Any vasa recta ascending limb cell that is part of some outer medulla vasa recta ascending limb. KUPO:0001076 outer medulla vasa recta ascending limb cell @@ -95975,6 +100328,12 @@ plexiform layer using GABA. true + + + + Any vasa recta ascending limb cell that is part of some outer medulla vasa recta ascending limb. + FBC:Autogenerated + @@ -95994,6 +100353,7 @@ plexiform layer using GABA. + Any endothelial cell that is part of some kidney arcuate artery. KUPO:0001079 arcuate artery endothelial cell @@ -96003,6 +100363,12 @@ plexiform layer using GABA. true + + + + Any endothelial cell that is part of some kidney arcuate artery. + FBC:Autogenerated + @@ -96022,9 +100388,16 @@ plexiform layer using GABA. + Any smooth muscle cell that is part of some kidney arcuate artery. KUPO:0001080 arcuate artery smooth muscle cell + + + + Any smooth muscle cell that is part of some kidney arcuate artery. + FBC:Autogenerated + @@ -96044,9 +100417,16 @@ plexiform layer using GABA. + Any endothelial cell that is part of some interlobular artery. KUPO:0001082 interlobulary artery endothelial cell + + + + Any endothelial cell that is part of some interlobular artery. + FBC:Autogenerated + @@ -96066,9 +100446,16 @@ plexiform layer using GABA. + Any smooth muscle cell that is part of some interlobular artery. KUPO:0001083 interlobulary artery smooth muscle cell + + + + Any smooth muscle cell that is part of some interlobular artery. + FBC:Autogenerated + @@ -96088,9 +100475,16 @@ plexiform layer using GABA. + Any endothelial cell that is part of some kidney arcuate vein. KUPO:0001086 arcuate vein endothelial cell + + + + Any endothelial cell that is part of some kidney arcuate vein. + FBC:Autogenerated + @@ -96110,9 +100504,16 @@ plexiform layer using GABA. + Any smooth muscle cell that is part of some kidney arcuate vein. KUPO:0001087 arcuate vein smooth muscle cell + + + + Any smooth muscle cell that is part of some kidney arcuate vein. + FBC:Autogenerated + @@ -96132,9 +100533,16 @@ plexiform layer using GABA. + Any endothelial cell that is part of some renal interlobular vein. KUPO:0001089 interlobulary vein endothelial cell + + + + Any endothelial cell that is part of some renal interlobular vein. + FBC:Autogenerated + @@ -96154,9 +100562,16 @@ plexiform layer using GABA. + Any smooth muscle cell that is part of some renal interlobular vein. KUPO:0001090 interlobulary vein smooth muscle cell + + + + Any smooth muscle cell that is part of some renal interlobular vein. + FBC:Autogenerated + @@ -96258,6 +100673,7 @@ plexiform layer using GABA. + Any vasa recta descending limb cell that is part of some inner medulla vasa recta descending limb. KUPO:0001072 inner medulla vasa recta descending limb cell @@ -96273,6 +100689,12 @@ plexiform layer using GABA. true + + + + Any vasa recta descending limb cell that is part of some inner medulla vasa recta descending limb. + FBC:Autogenerated + @@ -96298,6 +100720,7 @@ plexiform layer using GABA. + Any vasa recta descending limb cell that is part of some outer medulla vasa recta descending limb. KUPO:0001073 outer medulla vasa recta descending limb cell @@ -96313,6 +100736,12 @@ plexiform layer using GABA. true + + + + Any vasa recta descending limb cell that is part of some outer medulla vasa recta descending limb. + FBC:Autogenerated + @@ -96369,12 +100798,19 @@ plexiform layer using GABA. + Any cell that is part of some urinary bladder. KUPO:0001120 bladder cell + + + + Any cell that is part of some urinary bladder. + FBC:Autogenerated + @@ -96399,9 +100835,16 @@ plexiform layer using GABA. + Any cell that is part of some urethra. KUPO:0001123 urethra cell + + + + Any cell that is part of some urethra. + FBC:Autogenerated + @@ -96468,6 +100911,7 @@ plexiform layer using GABA. + Any urothelial cell that is part of some urethra urothelium. KUPO:0001124 urethra urothelial cell @@ -96478,6 +100922,12 @@ plexiform layer using GABA. true + + + + Any urothelial cell that is part of some urethra urothelium. + FBC:Autogenerated + @@ -96497,6 +100947,7 @@ plexiform layer using GABA. + Any renal principal cell that is part of some collecting duct of renal tubule. KUPO:0001128 @@ -96509,6 +100960,12 @@ plexiform layer using GABA. true + + + + Any renal principal cell that is part of some collecting duct of renal tubule. + FBC:Autogenerated + @@ -96528,6 +100985,7 @@ plexiform layer using GABA. + Any renal intercalated cell that is part of some collecting duct of renal tubule. KUPO:0001129 http://en.wikipedia.org/wiki/Collecting_duct_system#Intercalated_cells @@ -96541,6 +100999,12 @@ plexiform layer using GABA. true + + + + Any renal intercalated cell that is part of some collecting duct of renal tubule. + FBC:Autogenerated + @@ -96596,6 +101060,7 @@ plexiform layer using GABA. + @@ -96835,6 +101300,7 @@ plexiform layer using GABA. + @@ -96910,6 +101376,7 @@ plexiform layer using GABA. The neurons that utilize glycine as a neurotransmitter. FBbt:00048032 + ZFA:0009396 glycinergic neuron @@ -96918,6 +101385,18 @@ plexiform layer using GABA. The neurons that utilize glycine as a neurotransmitter. MP:0010385 + + + + FBbt:00048032 + + + + + + ZFA:0009396 + + @@ -97068,10 +101547,17 @@ plexiform layer using GABA. + Any endothelial cell of vascular tree that is part of some lung. endothelial cell of lung pulmonary vessel endothelial cell lung endothelial cell + + + + Any endothelial cell of vascular tree that is part of some lung. + FBC:Autogenerated + @@ -97096,6 +101582,7 @@ plexiform layer using GABA. + Any endothelial cell of vascular tree that is part of some pulmonary artery. BTO:0001141 PAEC cell @@ -97103,6 +101590,12 @@ plexiform layer using GABA. pulmonary artery endothelial cell + + + + Any endothelial cell of vascular tree that is part of some pulmonary artery. + FBC:Autogenerated + @@ -97155,6 +101648,7 @@ plexiform layer using GABA. + @@ -99532,7 +104026,7 @@ plexiform layer using GABA. Any photoreceptor cell that is part of a compound eye. 2014-06-24T23:16:45Z - FBbt:00004211 + FBbt:00006009 CL:2000019 compound eye photoreceptor cell @@ -99542,6 +104036,12 @@ plexiform layer using GABA. Any photoreceptor cell that is part of a compound eye. GOC:TermGenie + + + + FBbt:00006009 + + @@ -99974,6 +104474,7 @@ plexiform layer using GABA. A neuron that is part of a peripheral nervous system. + 2014-06-25T02:28:17Z FMA:84664 @@ -99981,6 +104482,7 @@ plexiform layer using GABA. peripheral neuron CL:2000032 + peripheral nervous system neuron @@ -100434,31 +104936,33 @@ plexiform layer using GABA. - + - + - + - + - Any melanocyte that is part of a prepuce of penis. + Any melanocyte of skin that is part of a skin of prepuce of penis. + 2014-07-09T00:45:07Z + melanocyte of foreskin CL:2000045 foreskin melanocyte - Any melanocyte that is part of a prepuce of penis. + Any melanocyte of skin that is part of a skin of prepuce of penis. GOC:TermGenie @@ -101046,9 +105550,11 @@ plexiform layer using GABA. Any capillary endothelial cell that is part of a placenta. + 2014-10-07T17:55:56Z CL:2000062 + http://www.ncbi.nlm.nih.gov/books/NBK53245/ placental villus capillary endothelial cell @@ -101775,35 +106281,20 @@ plexiform layer using GABA. - - - - - - - - - - - - - - - - - - - - Any melanocyte of skin that is part of a skin of prepuce of penis. + OBSOLETE. Any melanocyte of skin that is part of a skin of prepuce of penis. + + 2014-12-02T19:10:45Z CL:2000082 - melanocyte of foreskin + Term was merged into foreskin melanocyte CL_2000045 + obsolete melanocyte of foreskin + true - Any melanocyte of skin that is part of a skin of prepuce of penis. + OBSOLETE. Any melanocyte of skin that is part of a skin of prepuce of penis. GOC:TermGenie @@ -102403,12 +106894,14 @@ plexiform layer using GABA. A tissue-resident macrophage that is part of the placenta. A Hofbauer cell expresses high levels of growth factors and metalloproteinases that support vasculogenesis, angiogenesis, branching morphogenesis and tissue remodeling. A Hofbauer cell has a fetal origin and is present throughout pregnancy. + 2019-02-18T19:41:20Z HBC CL:3000001 + Hofbauer cells are a heterogenic group of macrophages that resemble M2-like cells. Initially described in chorionic villi in humans, a Hofbauer cell is now often used to describe any fetal-derived placental macrophage that resides within the placental villous core, amnion, and chorion laeve. Hofbauer cell @@ -102796,12 +107289,12 @@ plexiform layer using GABA. - IT glut + IT neuron A glutamatergic neuron located in the cerebral cortex that projects to structures of telencephalic origins. ILX:0770100 - IT projecting neuron + IT neuron intratelencephalic-projecting glutamatergic cortical neuron @@ -102810,7 +107303,13 @@ plexiform layer using GABA. A glutamatergic neuron located in the cerebral cortex that projects to structures of telencephalic origins. - DOI:10.1101/2020.10.19.343129 + PMID:34616075 + + + + + IT neuron + doi:10.1038/s41467-021-24565-z @@ -102863,6 +107362,7 @@ plexiform layer using GABA. + @@ -102924,6 +107424,7 @@ plexiform layer using GABA. + @@ -102944,6 +107445,7 @@ plexiform layer using GABA. A GABAergic neuron located in the cerebral cortex that expresses Lamp5 PMID:30382198 + PMID:37824655 @@ -103100,6 +107602,7 @@ plexiform layer using GABA. + @@ -103120,6 +107623,7 @@ plexiform layer using GABA. A GABAergic neuron located in the cerebral cortex that expresses Gamma-synuclein PMID:33186530 + PMID:37824655 @@ -103146,6 +107650,7 @@ plexiform layer using GABA. + @@ -103166,6 +107671,7 @@ plexiform layer using GABA. A GABAergic neuron located in the cerebral cortex that expresses vasoactive intestinal polypeptide PMID:33186530 + PMID:37824655 @@ -103192,6 +107698,7 @@ plexiform layer using GABA. + @@ -103212,6 +107719,7 @@ plexiform layer using GABA. A GABAergic neuron located in the cerebral cortex that expresses somatostatin (sst) PMID:27477017 + PMID:37824655 @@ -103238,6 +107746,7 @@ plexiform layer using GABA. + @@ -103258,6 +107767,7 @@ plexiform layer using GABA. A GABAergic interneuron located in the cerebral cortex that expresses Parvalbumin. PMID:27477017 + PMID:37824655 @@ -103480,6 +107990,7 @@ plexiform layer using GABA. + @@ -103606,6 +108117,7 @@ plexiform layer using GABA. + @@ -103803,6 +108315,7 @@ plexiform layer using GABA. + @@ -103897,6 +108410,7 @@ plexiform layer using GABA. A glutamatergic neuron with a soma found in cortical layer 6b. They are transcriptomically related to corticothalamic-projecting neurons but have differential projections to the thalamus or anterior cingulate. DOI:10.1101/2020.10.19.34312 PMID:30382198 + PMID:37824655 @@ -103927,12 +108441,19 @@ plexiform layer using GABA. + Any neuron that has its soma located in some amygdala and is capable of some glutamate secretion, neurotransmission. An excitatory neuron that is located in the amygdala. amygdala excitatory neuron + + + + Any neuron that has its soma located in some amygdala and is capable of some glutamate secretion, neurotransmission. + FBC:Autogenerated + @@ -103947,7 +108468,7 @@ plexiform layer using GABA. L2/3-6 IT glut - A intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layers L2/3-6 + An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layers L2/3-6. L2/3-6 IT projecting neuron @@ -103957,8 +108478,9 @@ plexiform layer using GABA. - A intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layers L2/3-6 - DOI:10.1101/2020.10.19.343129 + An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layers L2/3-6. + PMID:34616075 + https://cellxgene.cziscience.com/e/c3aa4f95-7a18-4a7d-8dd8-ca324d714363.cxg/ @@ -104002,7 +108524,8 @@ plexiform layer using GABA. A glutamatergic neuron, with a soma found in the deeper portion of L5, that has long-range axonal projections including deep subcortical targets outside of the telencephalon and, in some cases, the spinal cord. While the L5 ET neuron projections are not limited to ET targets, they are clearly differentiated from the neuron subclasses whose projections are constrained to intratelencephalic (IT) targets. L5 ET neurons are generally the largest excitatory cortical neurons, typically having a thick apical dendrite with a prominent dendritic tuft in layer 1 and displaying burst-firing physiological characteristics. - DOI:10.1101/2020.10.19.343129 + PMID:34616075 + PMID:37824655 @@ -104014,7 +108537,7 @@ plexiform layer using GABA. Pyramidal tract-like (PT-l) - DOI:10.1016/j.cell.2019.09.023 + PMID:31626774 pyramidal tract-like is used because, unlike pyramidal tract neurons in the motor cortex, neurons in the structures like the auditory cortex do not project to the spinal cord. @@ -104084,7 +108607,15 @@ plexiform layer using GABA. A corticothalamic-projecting neuron with a soma found in cortical layer 6. - DOI:10.1101/2020.10.19.343129 + PMID:34616075 + PMID:37824655 + + + + + L6 CT + PMID:28625486 + PMID:34616075 @@ -104124,8 +108655,8 @@ plexiform layer using GABA. A near-projecting glutamatergic neuron with a soma found in layer 5/6 of the primary motor cortex. - DOI:10.1101/2020.10.19.343129 PMID:31209381 + PMID:34616075 @@ -104251,7 +108782,19 @@ plexiform layer using GABA. An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 2/3 of the primary motor cortex. - DOI:10.1101/2020.10.19.343129 + PMID:34616075 + + + + + L2/3 IT M1 + PMID:34616075 + + + + + L2/3 IT MOp + PMID:34616075 @@ -104371,6 +108914,9 @@ plexiform layer using GABA. An intratelencephalic-projecting glutamatergic neuron with a soma found in L6 of the primary motor cortex. These cells are short untufted pyramidal cells, which could be stellate or inverted. + PMID:33184512 + PMID:34616063 + PMID:34616075 PMID:9236245 @@ -104401,6 +108947,7 @@ plexiform layer using GABA. PMID:27284195 PMID:29443965 PMID:30096314 + PMID:37824655 @@ -104521,9 +109068,9 @@ plexiform layer using GABA. - - - + + + A type of mouse mesothelial fibroblast that is derived from the neural crest, is localized on blood vessels, and is a key component of the pia and arachnoid membranes surrounding the brain. VLMC (Mus musculus) @@ -104531,34 +109078,34 @@ plexiform layer using GABA. vascular leptomeningeal cell (Mmus) - + - + - + - + PMID:30096314 - + PMID:30096314 - + PMID:30096314 @@ -104593,12 +109140,19 @@ plexiform layer using GABA. + Any GABAergic interneuron that has its soma located in some cerebellar cortex. A GABAergic interneuron whose soma is located in the cerebellar cortex. cerebellar inhibitory GABAergic interneuron + + + + Any GABAergic interneuron that has its soma located in some cerebellar cortex. + FBC:Autogenerated + @@ -104767,6 +109321,7 @@ plexiform layer using GABA. + @@ -104805,6 +109360,7 @@ plexiform layer using GABA. + @@ -104832,6 +109388,7 @@ plexiform layer using GABA. + @@ -105036,6 +109593,7 @@ plexiform layer using GABA. + @@ -105436,6 +109994,7 @@ plexiform layer using GABA. A GABAergic interneuron that selectively innervates the axon initial segment of pyramidal cells. Their local axonal clusters are formed by high-frequency branching at shallow angles, often ramifying around, above or below their somata with a high bouton density. The characteristic terminal portions of the axon form short vertical rows of boutons, resembling the candlesticks and candles of a chandelier. Chandelier cells can be multipolar or bitufted. PMID:15378039 PMID:27199673 + PMID:37824655 @@ -106495,6 +111054,7 @@ plexiform layer using GABA. + @@ -106542,6 +111102,7 @@ plexiform layer using GABA. PMID:15845086 PMID:31209381 PMID:33372656 + PMID:37824655 @@ -106835,6 +111396,7 @@ plexiform layer using GABA. + @@ -108562,6 +113124,7 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances + @@ -109499,6 +114062,7 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances + @@ -109573,6 +114137,7 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances + @@ -109632,6 +114197,7 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances + @@ -109754,6 +114320,7 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances + @@ -109813,10 +114380,12 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances A urothelial cell that is part of the regenerative layer(s) of cells directly superficial to basal cells in urothelium. The layer of intermediate cells in the urothelium ranges from one to several layers thick depending on the species with intermediate cells attached to adjacent cell layers and one another via desmosomes. + https://orcid.org/0000-0003-3065-9183 2023-06-16T07:53:43Z FMA:84155 urothelial intermediate cell + It has been noted in at least some mammalian species that the urothelial intermediate cell type is similar to basal cells by expressing CK17 and (unlike umbrella cells) p63 but is positive for uroplakins (UPK) and negative for CK5. Urothelial intermediate cells have also been noted to be larger in diameter than urothelial basal cells. intermediate cell of urothelium @@ -109846,11 +114415,13 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances A urothelial cell that is terminally differentiated and part of the urothelial apical surface that forms the high-resistance barrier of urothelium. Umbrella cells have been described as the largest of urothelial cell types, highly polarized, and, in some species, multinucleated. In the relaxed state, these cells form a dome-shaped structure at the apical pole and can also cover multiple underlying intermediate cells, leading to the name umbrella cells. In contrast, these cells flatten when the bladder is filled. + https://orcid.org/0000-0003-3065-9183 2023-06-16T07:59:43Z FMA:84149 facet cell of urothelium superficial cell of urothelium + Umbrella cells are attached to sub-superficial cell layers via desmosomes, while tight junctions localized between superficial cells aid in forming a high-resistance barrier function. Another distinguishing feature of an umbrella cell type is the presence of subapical discoidal/fusiform-shaped vesicles contributing to the plasticity in urothelial cell surface area through a regulated process of endocytosis/exocytosis. It has been noted in at least some mammalian species that the urothelial umbrella cell type expresses UPK1A, UPK1B, UPK2 and UPK3A. Unlike intermediate and basal cells of the urothelium, CK17 is reported to be completely absent and p63 not expressed in umbrella cells. umbrella cell of urothelium @@ -109953,7 +114524,6 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances - @@ -110018,18 +114588,24 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances - An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 2/3. + L2/3 IT + A transcriptomically distinct intratelencephalic-projecting glutamatergic neuron with a soma found between cortical layer 2-4. This intratelencephalic-projecting glutamatergic neuron has thin-tufted apical dendrites and extends its axonal projection into L5 in the neocortex. This neuronal type has a hyperpolarised resting membrane potential. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', clusters L2/3 IT. 2023-10-10T14:10:21Z + ILX:0770156 L2/3 IT + Hystorically, the L2/3 intratelencephalic projectic glutametergic neuron was known to have its soma in cortical layer 2/3. MERFISH data showed that this intratelencephalic-projecting glutametergic neuron can have its soma in layer 2/3, 4B, 4C. The position of the soma in layer 4b and 4C is less frequent for this neuronal type in comparison to cortical layer 2/3. L2/3 intratelencephalic projecting glutamatergic neuron - An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 2/3. + A transcriptomically distinct intratelencephalic-projecting glutamatergic neuron with a soma found between cortical layer 2-4. This intratelencephalic-projecting glutamatergic neuron has thin-tufted apical dendrites and extends its axonal projection into L5 in the neocortex. This neuronal type has a hyperpolarised resting membrane potential. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', clusters L2/3 IT. + PMID:25622573 PMID:34004146 PMID:37292694 + PMID:37824655 + https://cellxgene.cziscience.com/e/c3aa4f95-7a18-4a7d-8dd8-ca324d714363.cxg/ @@ -110038,6 +114614,12 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances PMID:34004146 + + + + Hystorically, the L2/3 intratelencephalic projectic glutametergic neuron was known to have its soma in cortical layer 2/3. MERFISH data showed that this intratelencephalic-projecting glutametergic neuron can have its soma in layer 2/3, 4B, 4C. The position of the soma in layer 4b and 4C is less frequent for this neuronal type in comparison to cortical layer 2/3. + PMID:37824655 + @@ -110062,6 +114644,7 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances + L2 IT An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 2. 2023-10-10T14:10:36Z @@ -110105,6 +114688,7 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances + L3 IT An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 3. 2023-10-10T14:10:47Z @@ -110148,6 +114732,7 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances + L4/5 IT An intratelencephalic-projecting glutamatergic with a soma located in cortical layer 4/5. 2023-10-10T14:11:04Z @@ -110191,17 +114776,21 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances - An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 4. + L4 IT + A transcriptomically distinct intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 3-4. This neuron type can have a pyramidal, star-pyramidal or spiny stellate morphology and projects its output to L2/3 and L5A/B. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', L4 IT. 2023-10-10T14:11:25Z L4 IT + Historically, the L4 intratelencephalic projectic glutametergic neuron was known to have its soma in cortical layer 4. MERFISH data showed that this intratelencephalic-projecting glutametergic neuron can also have its soma in layer 3. L4 intratelencephalic projecting glutamatergic neuron - An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 4. + A transcriptomically distinct intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 3-4. This neuron type can have a pyramidal, star-pyramidal or spiny stellate morphology and projects its output to L2/3 and L5A/B. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', L4 IT. PMID:37292694 + PMID:37824655 + https://cellxgene.cziscience.com/e/c3aa4f95-7a18-4a7d-8dd8-ca324d714363.cxg/ @@ -110234,18 +114823,22 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances - An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 5. + L5 IT + An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 5. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', L5 IT. 2023-10-10T14:11:59Z + ILX:0770157 L5 IT L5 intratelencephalic projecting glutamatergic neuron - An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 5. + An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 5. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', L5 IT. PMID:37292694 PMID:37609206 + PMID:37824655 + https://cellxgene.cziscience.com/e/c3aa4f95-7a18-4a7d-8dd8-ca324d714363.cxg/ @@ -110278,18 +114871,22 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances - An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 6. + L6 IT + A transcriptomically distinct intratelencephalic-projecting glutamatergic neuron with a soma found in L6 of the primary motor cortex. These cells are short untufted pyramidal cells, which could be stellate or inverted. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', L6 IT. 2023-10-10T14:12:23Z + ILX:0770158 L6 IT L6 intratelencephalic projecting glutamatergic neuron - An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 6. + A transcriptomically distinct intratelencephalic-projecting glutamatergic neuron with a soma found in L6 of the primary motor cortex. These cells are short untufted pyramidal cells, which could be stellate or inverted. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', L6 IT. PMID:37292694 PMID:37609206 + PMID:37824655 + https://cellxgene.cziscience.com/e/c3aa4f95-7a18-4a7d-8dd8-ca324d714363.cxg/ @@ -110315,6 +114912,7 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances + @@ -110323,21 +114921,21 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances - + An epithelial cell that is part of a ureteric bud. A ureteric bud cell has the potential to induce metanephric mesenchymal cells to proliferate and convert to epithelia that form renal tubules via: (1) the secretion of multiple diffusible growth factors that rescue renal progenitors from apoptosis and stimulate them to proliferate and (2) contact-dependent mechanisms that induce mesenchymal-epithelial conversion. https://orcid.org/0000-0002-1425-877X 2023-10-13T11:22:42Z UB cell ureteric bud cell - + - + PMID:9374839 @@ -110391,6 +114989,7 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances A near-projecting glutamatergic neuron with a soma found in cortical layer 5/6. PMID:34004146 PMID:37292694 + PMID:37824655 @@ -110420,6 +115019,7 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances + @@ -110427,7 +115027,8 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances - An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 6 that expresses Car3. + L6 IT Car3 + A transcriptomically distinct intratelencepalic-projecting glutamatergic neuron that expresses Car3 with a soma found in L6 . The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_cluster', L6 IT Car3. 2023-11-23T09:16:14Z L6 IT Car3 glutamatergic neuron @@ -110440,9 +115041,10 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances - An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 6 that expresses Car3. - doi:10.1016/j.cell.2021.04.021 - doi:10.1101/2022.11.06.515349 + A transcriptomically distinct intratelencepalic-projecting glutamatergic neuron that expresses Car3 with a soma found in L6 . The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_cluster', L6 IT Car3. + PMID:34004146 + PMID:37824655 + doi:10.1007/s00424-024-02923-2 doi:10.1101/2022.11.30.518285 @@ -110463,7 +115065,7 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances L6 IT Car3 neuron - doi:10.1101/2022.11.06.515349 + PMID:37824655 @@ -110477,7 +115079,7 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances L6-IT-Car3 cell - doi:10.1101/2022.11.30.518285 + PMID:37824655 @@ -110486,6 +115088,7 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances + @@ -110554,6 +115157,7 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances + @@ -111205,6 +115809,7 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances + @@ -112012,6 +116617,7 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances + @@ -113030,7 +117636,6 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances - @@ -113268,6 +117873,7 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances + @@ -113276,12 +117882,14 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances A trophoblast cell that invades the uterine wall to anchor the placenta to the uterus. An interstitial extravillous trophoblast cell differentiates from an extravillous trophoblast cell, becoming hyperchromatic and changing its morphology to a fibroblast-like spindle-shaped cell. In humans, this cell can be distinguished by the expression of placental-specific protein 8, which stimulates migration. + 2024-01-08T15:43:15Z invasive interstitial extravillous trophoblast cell iEVT interstitial extravillous trophoblast interstitial trophoblast + interstitial extravillous trophoblast cell @@ -113322,6 +117930,7 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances + @@ -113330,11 +117939,13 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances A trophoblast cell that invades the maternal spiral arteries and replace the endothelial lining, remodeling the vessels and allowing for adequate blood transport into the placenta. An endovascular extravillous trophoblast cell differentiates from an extravillous trophoblast cell. In humans, this cell can be distinguished by the expression of CD56. + 2024-01-08T15:43:32Z eEVT endovascular extravillous trophoblast endovascular trophoblast + Shortly after implantation, the endovascular extravillous trophoblast cells occlude the maternal spiral arteries, preventing premature oxygen delivery to the placental villi and reducing fetal oxidative stress. endovascular extravillous trophoblast cell @@ -113395,9 +118006,11 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances A tissue-resident macrophage that is part of the uterus. + 2024-01-08T16:05:09Z uterine macrophage + Uterine macrophages are reported to be evenly distributed throughout the endometrial stroma but with aggregations observed close to the lumen of superficial secretory glands. uterine resident macrophage @@ -113422,6 +118035,61 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances + + + + + + + + + + + + + + + + + A mature B cell that serves as an intermediate stage in the differentiation of naive B cells into a plasmablast. A preplasmablast expresses CD30 and IL-6R and lacks expression of CD20, CD23, CD38 and CD138. + + + 2024-04-25T09:14:58Z + pre-plasmablast + preplasmablastic cell + prePB + preplasmablast + + + + + A mature B cell that serves as an intermediate stage in the differentiation of naive B cells into a plasmablast. A preplasmablast expresses CD30 and IL-6R and lacks expression of CD20, CD23, CD38 and CD138. + PMID:21918187 + PMID:30755708 + PMID:33150420 + + + + + pre-plasmablast + PMID:23613519 + + + + + preplasmablastic cell + PMID:33661294 + + + + + prePB + PMID:21918187 + + + + + @@ -113738,7 +118406,6 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances - @@ -113777,7 +118444,6 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances - @@ -114000,6 +118666,183 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances + + + + + + + + + + + + + + + + + + + An astrocyte with highly branched protrusions, found in neocortex layers 2-6. It is involved with the formation and elimination of synapses, glutamate clearance, modulation of synaptic functions and regulation of blood flow in response to synaptic activity. + + 2024-04-08T16:01:24Z + This astrocyte extends its branches to several hundred of dendrites to multiple neurons to envelope 100,000 or more synapses. In humans, a protoplasmic astrocyte has an average diameter of 142 µm, and its diameter ranges between 100 and 400 µm. In rodents the average diameter of a protoplasmic astrocites is 56 µm. + protoplasmic astrocyte + + + + + An astrocyte with highly branched protrusions, found in neocortex layers 2-6. It is involved with the formation and elimination of synapses, glutamate clearance, modulation of synaptic functions and regulation of blood flow in response to synaptic activity. + PMID:19279265 + PMID:25904839 + PMID:34616062 + PMID:37139179 + PMID:37824655 + + + + + This astrocyte extends its branches to several hundred of dendrites to multiple neurons to envelope 100,000 or more synapses. In humans, a protoplasmic astrocyte has an average diameter of 142 µm, and its diameter ranges between 100 and 400 µm. In rodents the average diameter of a protoplasmic astrocites is 56 µm. + PMID:19279265 + PMID:20012068 + + + + + + + + + + + + + + + + + + + + + + + A cell type located in the first layer of the neocortex with radial protrusions extending transversely into the deeper cortex layers, herby facilitating communication across neurons, astrocytes, capillaries, meninges and cerebrospinal fluid through contact with neurons, pia mater and capillaries. + + 2024-04-08T16:29:28Z + In humans, a fibrous astrocyte diameter is circa 182 µm. In rodents, a fibrous astrocyte diameter is circa 85 µm. + fibrous astrocyte + + + + + A cell type located in the first layer of the neocortex with radial protrusions extending transversely into the deeper cortex layers, herby facilitating communication across neurons, astrocytes, capillaries, meninges and cerebrospinal fluid through contact with neurons, pia mater and capillaries. + PMID:19279265 + PMID:22144298 + PMID:28280934 + PMID:31435019 + PMID:34616062 + PMID:37824655 + + + + + In humans, a fibrous astrocyte diameter is circa 182 µm. In rodents, a fibrous astrocyte diameter is circa 85 µm. + PMID:28280934 + + + + + + + + + + + + + + + + + + + + + + + An astrocyte type that presents radial protrusions across the layers of a cortex. The soma of this astrocyte is part of the first layer of a neocortex. This astrocyte extents its protrusions transversally to the deeper layers of a cortex and it creates contact with neurons, the pia matter and capillaries. This astrocyte is involved in facilitating the communication across neurons, astrocytes, capillaries, meninges and the cerebrospinal fluid. + + 2024-04-08T16:33:45Z + ILA + interlaminar astrocyte + + + + + An astrocyte type that presents radial protrusions across the layers of a cortex. The soma of this astrocyte is part of the first layer of a neocortex. This astrocyte extents its protrusions transversally to the deeper layers of a cortex and it creates contact with neurons, the pia matter and capillaries. This astrocyte is involved in facilitating the communication across neurons, astrocytes, capillaries, meninges and the cerebrospinal fluid. + PMID:19279265 + PMID:30552685 + PMID:31435019 + PMID:32930323 + PMID:34616062 + PMID:37824655 + + + + + ILA + PMID:30552685 + + + + + + + + + + An interlaminar astrocyte whose soma is part of the first layer of a neocortex and is in contact with a pia surface. + + 2024-04-08T16:37:57Z + pial interlaminar astrocyte + + + + + An interlaminar astrocyte whose soma is part of the first layer of a neocortex and is in contact with a pia surface. + PMID:32930323 + PMID:37139179 + + + + + + + + + + + + + + + An interlaminar astrocyte type whose soma is part of the upper first layer of the neocortex and its processes extend to a pia surface. + + 2024-04-08T16:39:09Z + subpial interlaminar astrocyte + + + + + An interlaminar astrocyte type whose soma is part of the upper first layer of the neocortex and its processes extend to a pia surface. + PMID:32930323 + PMID:37139179 + + + + @@ -117537,12 +122380,6 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances - - - - - - @@ -119781,6 +124618,12 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances + + + + + + @@ -119865,6 +124708,12 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances + + + + + + @@ -121953,14 +126802,14 @@ Midget bipolar cells (imb, fmb) have larger axon terminals at greater distances - + - + - + diff --git a/cl.obo b/cl.obo index 28511c673..3484f534a 100644 --- a/cl.obo +++ b/cl.obo @@ -1,5 +1,5 @@ format-version: 1.2 -data-version: releases/2024-04-05 +data-version: releases/2024-05-15 subsetdef: abnormal_slim "" subsetdef: added_for_HCA "" subsetdef: attribute_slim "" @@ -19,19 +19,21 @@ subsetdef: eye_upper_slim "a subset of general classes related to specific cell subsetdef: functional_classification "" subsetdef: general_cell_types_upper_slim "a subset of general classes of cell types in the cell ontology." subsetdef: gocheck_do_not_annotate "" -subsetdef: gocheck_do_not_manually_annotate "" subsetdef: goslim_agr "" subsetdef: goslim_candida "" subsetdef: goslim_chembl "" subsetdef: goslim_drosophila "" +subsetdef: goslim_euk_cellular_processes_ribbon "" subsetdef: goslim_flybase_ribbon "" subsetdef: goslim_generic "" subsetdef: goslim_metagenomics "" subsetdef: goslim_mouse "" subsetdef: goslim_pir "" subsetdef: goslim_plant "" +subsetdef: goslim_plant_ribbon "" subsetdef: goslim_pombe "" subsetdef: goslim_prokaryote "" +subsetdef: goslim_prokaryote_ribbon "" subsetdef: goslim_synapse "" subsetdef: goslim_yeast "" subsetdef: grouping_class "" @@ -102,106 +104,11 @@ property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002 property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-9900-7880 property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 property_value: http://purl.org/dc/terms/license http://creativecommons.org/licenses/by/4.0/ -property_value: owl:versionInfo "2024-04-05" xsd:string - -[Term] -id: BFO:0000002 -name: continuant -def: "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." [] -disjoint_from: BFO:0000003 ! occurrent -relationship: part_of BFO:0000002 {all_only="true"} ! continuant - -[Term] -id: BFO:0000003 -name: occurrent -def: "An entity that has temporal parts and that happens, unfolds or develops through time." [] -relationship: part_of BFO:0000003 {all_only="true"} ! occurrent - -[Term] -id: BFO:0000004 -name: independent continuant -def: "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" [] -comment: A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. -is_a: BFO:0000002 ! continuant -disjoint_from: BFO:0000020 ! specifically dependent continuant -disjoint_from: BFO:0000031 ! generically dependent continuant -relationship: part_of BFO:0000004 {all_only="true"} ! independent continuant - -[Term] -id: BFO:0000006 -name: spatial region -is_a: BFO:0000141 ! immaterial entity - -[Term] -id: BFO:0000015 -name: process -def: "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" [] -comment: An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. -is_a: BFO:0000003 ! occurrent - -[Term] -id: BFO:0000016 -name: disposition -is_a: BFO:0000017 ! realizable entity -disjoint_from: BFO:0000023 ! role - -[Term] -id: BFO:0000017 -name: realizable entity -def: "A specifically dependent continuant that inheres in continuant entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances." [] -is_a: BFO:0000020 ! specifically dependent continuant -disjoint_from: BFO:0000019 ! quality -relationship: part_of BFO:0000017 {all_only="true"} ! realizable entity - -[Term] -id: BFO:0000019 -name: quality -is_a: BFO:0000020 ! specifically dependent continuant -relationship: part_of BFO:0000019 {all_only="true"} ! quality - -[Term] -id: BFO:0000020 -name: specifically dependent continuant -def: "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" [] -comment: A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. -is_a: BFO:0000002 ! continuant -disjoint_from: BFO:0000031 ! generically dependent continuant -relationship: part_of BFO:0000020 {all_only="true"} ! specifically dependent continuant - -[Term] -id: BFO:0000023 -name: role -def: "A realizable entity the manifestation of which brings about some result or end that is not essential to a continuant in virtue of the kind of thing that it is but that can be served or participated in by that kind of continuant in some kinds of natural, social or institutional contexts." [] -is_a: BFO:0000017 ! realizable entity - -[Term] -id: BFO:0000031 -name: generically dependent continuant -def: "b is a generically dependent continuant = Def. b is a continuant that g-depends_on one or more other entities. (axiom label in BFO2 Reference: [074-001])" [] -comment: A continuant that is dependent on one or other independent continuant bearers. For every instance of A requires some instance of (an independent continuant type) B but which instance of B serves can change from time to time. -is_a: BFO:0000002 ! continuant -relationship: part_of BFO:0000031 {all_only="true"} ! generically dependent continuant - -[Term] -id: BFO:0000034 -name: function -is_a: BFO:0000016 ! disposition - -[Term] -id: BFO:0000040 -name: material entity -def: "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." [] -is_a: BFO:0000004 ! independent continuant -disjoint_from: BFO:0000141 ! immaterial entity - -[Term] -id: BFO:0000141 -name: immaterial entity -is_a: BFO:0000004 ! independent continuant +property_value: owl:versionInfo "2024-05-15" xsd:string [Term] id: CHEBI:24431 -is_a: BFO:0000040 ! material entity +is_a: BFO:0000040 [Term] id: CHEBI:36080 @@ -216,7 +123,7 @@ comment: The definition of cell is intended to represent all cells, and thus a c subset: cellxgene_subset subset: ubprop:upper_level xref: CALOHA:TS-2035 -xref: FBbt:00007002 +xref: FBbt:00007002 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:68646 xref: GO:0005623 xref: KUPO:0000002 @@ -224,6 +131,7 @@ xref: MESH:D002477 xref: VHOG:0001533 xref: WBbt:0004017 xref: XAO:0003012 +xref: ZFA:0009000 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: UBERON:0000061 ! anatomical structure disjoint_from: GO:0031012 ! extracellular matrix disjoint_from: GO:0032991 ! protein-containing complex @@ -289,8 +197,10 @@ relationship: RO:0002202 CL:0000008 ! develops from migratory cranial neural cre [Term] id: CL:0000006 name: neuronal receptor cell +def: "Any sensory receptor cell that is a(n) neuron and is capable of some detection of stimulus involved in sensory perception." [FBC:Autogenerated] subset: cellxgene_subset synonym: "neuronal receptor cell (sensu Animalia)" EXACT [] +xref: ZFA:0009001 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000101 ! sensory neuron is_a: CL:0000197 ! sensory receptor cell intersection_of: CL:0000197 ! sensory receptor cell @@ -301,12 +211,14 @@ intersection_of: capable_of GO:0050906 ! detection of stimulus involved in senso id: CL:0000007 name: early embryonic cell (metazoa) def: "A cell found in the embryo before the formation of all the gem layers is complete." [GOC:tfm] +xref: ZFA:0009002 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) [Term] id: CL:0000008 name: migratory cranial neural crest cell def: "Cell that is part of the migratory cranial neural crest population. Migratory cranial neural crest cells develop from premigratory cranial neural crest cells and have undergone epithelial to mesenchymal transition and delamination." [https://orcid.org/0000-0001-5208-3432, ZFA:0007091] +xref: ZFA:0007091 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000333 ! migratory neural crest cell [Term] @@ -331,6 +243,7 @@ is_a: CL:0000578 ! experimentally modified cell in vitro id: CL:0000011 name: migratory trunk neural crest cell def: "Cell that is part of the migratory trunk neural crest population. Migratory trunk neural crest cells develop from premigratory trunk neural crest cells and have undergone epithelial to mesenchymal transition and delamination." [https://orcid.org/0000-0001-5208-3432, ZFA:0007095] +xref: ZFA:0007095 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000333 ! migratory neural crest cell [Term] @@ -353,7 +266,8 @@ id: CL:0000014 name: germ line stem cell def: "A stem cell that is the precursor of gametes." [doi:10.1016/j.stem.2012.05.016] synonym: "germline stem cell" EXACT [] -xref: FBbt:00004861 +xref: FBbt:00004861 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} +xref: ZFA:0005956 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000034 {is_inferred="true"} ! stem cell is_a: CL:0000039 ! germ line cell intersection_of: CL:0000039 ! germ line cell @@ -376,7 +290,7 @@ property_value: seeAlso "https://github.com/obophenotype/cell-ontology/issues/57 id: CL:0000016 name: male germ line stem cell def: "A stem cell that is the precursor of male gametes." [doi:10.1016/j.stem.2012.05.016] -xref: FBbt:00004929 +xref: FBbt:00004929 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000014 ! germ line stem cell is_a: CL:0000015 ! male germ cell @@ -387,9 +301,11 @@ def: "A male germ cell that develops from spermatogonia. The euploid primary spe xref: BTO:0001275 xref: CALOHA:TS-0951 xref: EMAPA:31484 -xref: FBbt:00004936 +xref: FBbt:00004936 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:84049 xref: WBbt:0006799 +xref: ZFA:0009005 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000015 ! male germ cell intersection_of: CL:0000015 ! male germ cell intersection_of: capable_of GO:0048137 ! spermatocyte division @@ -404,9 +320,11 @@ synonym: "nematoblast" EXACT [] xref: BTO:0001274 xref: CALOHA:TS-0950 xref: EMAPA:31486 -xref: FBbt:00004942 +xref: FBbt:00004942 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:72294 xref: WBbt:0006800 +xref: ZFA:0005769 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000015 ! male germ cell is_a: CL:0000413 ! haploid cell intersection_of: CL:0000015 ! male germ cell @@ -430,9 +348,11 @@ synonym: "spermatozoon" EXACT [] xref: BTO:0001277 xref: BTO:0002046 xref: CALOHA:TS-0949 -xref: FBbt:00004954 +xref: FBbt:00004954 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67338 xref: WBbt:0006798 +xref: ZFA:0009006 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000408 {is_inferred="true"} ! male gamete relationship: RO:0002202 CL:0000018 ! develops from spermatid @@ -444,9 +364,10 @@ synonym: "spermatogonial cell" EXACT [] xref: BTO:0000958 xref: CALOHA:TS-2193 xref: EMAPA:31482 -xref: FBbt:00004934 -xref: FBbt:00004935 +xref: FBbt:00004934 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} +xref: FBbt:00004935 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:72291 +xref: ZFA:0009007 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000015 ! male germ cell intersection_of: CL:0000015 ! male germ cell intersection_of: bearer_of PATO:0001394 ! diploid @@ -471,7 +392,7 @@ relationship: capable_of GO:0048477 ! oogenesis id: CL:0000022 name: female germ line stem cell def: "A stem cell that is the precursor of female gametes." [doi:10.1016/j.stem.2012.05.016] -xref: FBbt:00004873 +xref: FBbt:00004873 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000014 {is_inferred="true"} ! germ line stem cell is_a: CL:0000021 {is_inferred="true"} ! female germ cell intersection_of: CL:0000021 ! female germ cell @@ -485,10 +406,12 @@ subset: cellxgene_subset synonym: "oogonium" RELATED [] xref: BTO:0000964 xref: CALOHA:TS-0711 -xref: FBbt:00004886 +xref: FBbt:00004886 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:18644 xref: MESH:D009865 xref: WBbt:0006797 +xref: ZFA:0001109 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000021 {is_inferred="true"} ! female germ cell is_a: CL:0000255 ! eukaryotic cell relationship: participates_in GO:0007143 ! female meiotic nuclear division @@ -500,6 +423,8 @@ name: oogonial cell def: "An undifferentiated germ cell that proliferates rapidly and gives rise to oocytes." [GOC:tfm, ISBN:0721662544] subset: cellxgene_subset xref: FMA:83673 +xref: ZFA:0005878 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000021 {is_inferred="true"} ! female germ cell intersection_of: CL:0000021 ! female germ cell intersection_of: capable_of GO:0000278 ! mitotic cell cycle @@ -515,9 +440,11 @@ synonym: "ovum" EXACT [] xref: BTO:0000369 xref: BTO:0003801 xref: CALOHA:TS-2191 -xref: FBbt:00057012 +xref: FBbt:00057012 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67343 xref: MESH:D010063 +xref: ZFA:0001570 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000675 {is_inferred="true"} ! female gamete relationship: participates_in GO:0007143 ! female meiotic nuclear division relationship: RO:0002202 CL:0000023 ! develops from oocyte @@ -529,7 +456,8 @@ name: invertebrate nurse cell def: "A germline cell that contributes to the development of the oocyte by transferring cytoplasm directly to oocyte." [GOC:tfm, PMID:15848391] synonym: "nurse cell" RELATED [] xref: BTO:0000953 -xref: FBbt:00004878 +xref: FBbt:00004878 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} +is_a: BFO:0000002 is_a: CL:0000412 ! polyploid cell is_a: CL:4029002 ! germline-derived nurse cell relationship: RO:0002202 CL:0000722 ! develops from cystoblast @@ -546,6 +474,7 @@ relationship: RO:0002202 CL:0000008 ! develops from migratory cranial neural cre [Term] id: CL:0000028 name: CNS neuron (sensu Nematoda and Protostomia) +is_a: BFO:0000002 is_a: CL:0000540 ! neuron relationship: part_of UBERON:0001017 ! central nervous system relationship: RO:0002202 CL:0000338 ! develops from neuroblast (sensu Nematoda and Protostomia) @@ -553,7 +482,10 @@ relationship: RO:0002202 CL:0000338 ! develops from neuroblast (sensu Nematoda a [Term] id: CL:0000029 name: neural crest derived neuron +def: "Any neuron that develops from some migratory neural crest cell." [FBC:Autogenerated] synonym: "neuron neural crest derived" EXACT [] +xref: ZFA:0009009 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000540 {is_inferred="true"} ! neuron intersection_of: CL:0000540 ! neuron intersection_of: RO:0002202 CL:0000333 ! develops from migratory neural crest cell @@ -563,6 +495,8 @@ relationship: RO:0002202 CL:0002676 ! develops from neural crest derived neurobl id: CL:0000030 name: glioblast subset: cellxgene_subset +xref: ZFA:0009010 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000055 ! non-terminally differentiated cell relationship: RO:0002202 CL:0000133 ! develops from neurectodermal cell @@ -575,6 +509,7 @@ subset: cellxgene_subset synonym: "neuroblast" EXACT [] xref: BTO:0000930 xref: FMA:70563 +xref: ZFA:0009011 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0000255 ! eukaryotic cell relationship: RO:0002160 NCBITaxon:7742 ! only in taxon Vertebrata @@ -584,6 +519,8 @@ id: CL:0000032 name: neuroplacodal cell def: "A cell of a platelike structure, especially a thickened plate of ectoderm in the early embryo, from which a sense organ develops." [GOC:tfm, ISBN:0618947256] synonym: "neural placode cell" EXACT [] +xref: ZFA:0009012 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0002321 ! embryonic cell (metazoa) relationship: RO:0002202 CL:0000114 ! develops from surface ectodermal cell @@ -606,6 +543,7 @@ subset: human_reference_atlas synonym: "animal stem cell" EXACT [] xref: CALOHA:TS-2086 xref: FMA:63368 +xref: ZFA:0005957 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0011115 ! precursor cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0017145 ! stem cell division @@ -620,6 +558,7 @@ def: "A stem cell that self-renews as well as give rise to a single mature cell synonym: "unipotent stem cell" EXACT [] synonym: "unipotential stem cell" EXACT [] xref: FMA:70569 +xref: ZFA:0009013 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000723 ! somatic stem cell intersection_of: CL:0000000 ! cell intersection_of: bearer_of PATO:0001400 ! unipotent @@ -652,6 +591,7 @@ xref: CALOHA:TS-0448 xref: FMA:86475 xref: MESH:D006412 xref: VHOG:0001485 +xref: ZFA:0009014 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000723 ! somatic stem cell is_a: CL:0008001 ! hematopoietic precursor cell is_a: CL:0011026 ! progenitor cell @@ -699,6 +639,7 @@ synonym: "CFU-E" RELATED OMO:0003000 [] synonym: "colony forming unit erythroid" RELATED [] synonym: "erythroid stem cell" RELATED [] xref: BTO:0004911 +xref: ZFA:0009015 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000764 ! erythroid lineage cell is_a: CL:0000839 {is_inferred="true"} ! myeloid lineage restricted progenitor cell relationship: RO:0002202 CL:0000050 ! develops from megakaryocyte-erythroid progenitor cell @@ -710,6 +651,7 @@ def: "A cell that is within the developmental lineage of gametes and is able to comment: Originally this term had some plant germ line cell children. subset: general_cell_types_upper_slim subset: ubprop:upper_level +xref: ZFA:0009016 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell relationship: capable_of GO:0022414 ! reproductive process @@ -724,9 +666,9 @@ synonym: "colony forming unit monocyte" RELATED [] synonym: "monocyte stem cell" RELATED [] xref: CALOHA:TS-1195 xref: FMA:83553 +xref: ZFA:0009017 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0002194 {is_inferred="true"} ! monopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002194 ! monopoietic cell intersection_of: capable_of GO:0030224 ! monocyte differentiation intersection_of: has_part CL:0017503 ! basophilic cytoplasm @@ -772,6 +714,7 @@ name: neutrophilic myeloblast def: "A myeloblast committed to the neutrophil lineage. This cell type is GATA-1 positive, C/EBPa-positive, AML-1-positive, c-myb-positive and has low expression of PU.1 transcription factor." [GOC:add, ISBN:0721601464, PMID:12560239, PMID:15514007] comment: These cells are CD11b-negative, CD15-negative, CD16-negative, CD35-negative, CD49d-positive, CD68-positive, lactotransferrin-negative, and fMLP receptor-negative. They are found in the Band 3 fraction. synonym: "neutrophilic granuloblast" RELATED [] +xref: ZFA:0009018 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000834 ! neutrophil progenitor cell is_a: CL:0000835 {is_inferred="true"} ! myeloblast intersection_of: CL:0000835 ! myeloblast @@ -834,6 +777,8 @@ synonym: "NSC" EXACT [] xref: BTO:0002881 xref: CALOHA:TS-2360 xref: FMA:86684 +xref: ZFA:0009019 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0002319 ! neural cell relationship: RO:0002202 CL:0000133 ! develops from neurectodermal cell @@ -846,6 +791,7 @@ synonym: "multifate stem cell" EXACT [] synonym: "multipotent cell" EXACT [] synonym: "multipotent stem cell" EXACT [] xref: FMA:84789 +xref: ZFA:0009020 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000034 ! stem cell intersection_of: CL:0000000 ! cell intersection_of: bearer_of PATO:0001402 ! multipotent @@ -868,6 +814,7 @@ synonym: "multipotential myeloid stem cell" RELATED [ISBN:0878932437] synonym: "myeloid stem cell" RELATED [ISBN:0878932437] synonym: "pluripotent stem cell (bone marrow)" RELATED [ISBN:0878932437] xref: BTO:0004730 +xref: ZFA:0009021 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell disjoint_from: CL:0000050 ! megakaryocyte-erythroid progenitor cell disjoint_from: CL:0000051 ! common lymphoid progenitor @@ -888,6 +835,7 @@ synonym: "Meg/E progenitor" EXACT [] synonym: "megakaryocyte/erythrocyte progenitor" EXACT [] synonym: "megakaryocyte/erythroid progenitor cell" EXACT [] synonym: "MEP" EXACT [] +xref: ZFA:0009022 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell is_a: CL:0011026 ! progenitor cell @@ -917,6 +865,7 @@ synonym: "early lymphocyte progenitor" RELATED [] synonym: "ELP" RELATED OMO:0003000 [] synonym: "lymphoid stem cell" RELATED [] synonym: "lymphopoietic stem cell" RELATED [] +xref: ZFA:0009023 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0002032 ! hematopoietic oligopotent progenitor cell @@ -931,6 +880,7 @@ def: "A stem cell from which all cells of the body can form." [GOC:add, GOC:tfm] synonym: "totipotential stem cell" EXACT [] xref: FMA:84790 xref: MESH:D039901 +xref: ZFA:0009024 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000723 ! somatic stem cell [Term] @@ -955,9 +905,10 @@ name: myoblast def: "A cell that is commited to differentiating into a muscle cell. Embryonic myoblasts develop from the mesoderm. They undergo proliferation, migrate to their various sites, and then differentiate into the appropriate form of myocytes. Myoblasts also occur as transient populations of cells in muscles undergoing repair." [GOC:tfm, MESH:D032446, PMID:21849021] xref: BTO:0000222 xref: CALOHA:TS-0650 -xref: FBbt:00005083 +xref: FBbt:00005083 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:70335 xref: VHOG:0001529 +xref: ZFA:0009025 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000680 ! muscle precursor cell [Term] @@ -973,6 +924,8 @@ xref: CALOHA:TS-0362 xref: FMA:63877 xref: NCIT:C12482 xref: VHOG:0001482 +xref: ZFA:0009026 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0002320 ! connective tissue cell relationship: RO:0002202 CL:0000134 ! develops from mesenchymal stem cell property_value: RO:0002175 NCBITaxon:9606 @@ -984,6 +937,8 @@ def: "Skeletogenic cell that is typically non-terminally differentiated, secrete synonym: "chrondoplast" EXACT [] xref: BTO:0003607 xref: FMA:66783 +xref: ZFA:0009027 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0002320 ! connective tissue cell relationship: produces UBERON:0002418 ! cartilage tissue @@ -1018,6 +973,7 @@ xref: BTO:0001769 xref: CALOHA:TS-0696 xref: FMA:62999 xref: MESH:D009804 +xref: ZFA:0009029 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0000710 ! neurecto-epithelial cell is_a: CL:0002148 ! dental pulp cell @@ -1035,6 +991,7 @@ comment: Legacy def: A cell of ectomesenchymal origin that aids in the formation synonym: "cementum secreting cell" EXACT [] xref: CALOHA:TS-1164 xref: FMA:63002 +xref: ZFA:0009030 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000062 ! osteoblast is_a: CL:0000151 ! secretory cell relationship: part_of UBERON:0005176 ! tooth enamel organ @@ -1050,6 +1007,7 @@ subset: cellxgene_subset xref: BTO:0001593 xref: CALOHA:TS-0720 xref: FMA:66780 +xref: ZFA:0009031 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0002320 ! connective tissue cell is_a: CL:0011026 ! progenitor cell @@ -1073,8 +1031,8 @@ def: "A cell that has a filiform extrusion of the cell surface." [GOC:tfm] subset: cellxgene_subset xref: VHOG:0001532 xref: XAO:0000031 +xref: ZFA:0009032 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000000 ! cell intersection_of: has_part GO:0005929 ! cilium relationship: has_part GO:0005929 ! cilium @@ -1088,6 +1046,7 @@ subset: human_reference_atlas synonym: "ependymocyte" EXACT [] xref: BTO:0001724 xref: FMA:70550 +xref: ZFA:0009033 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000067 ! ciliated epithelial cell is_a: CL:0000710 ! neurecto-epithelial cell property_value: RO:0002175 NCBITaxon:9606 @@ -1103,9 +1062,10 @@ synonym: "epitheliocyte" EXACT [] xref: BTO:0000414 xref: CALOHA:TS-2026 xref: CARO:0000077 -xref: FBbt:00000124 +xref: FBbt:00000124 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:66768 xref: WBbt:0003672 +xref: ZFA:0009034 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell disjoint_from: CL:0000738 ! leukocyte relationship: part_of UBERON:0000483 ! epithelium @@ -1118,6 +1078,7 @@ name: ciliated epithelial cell def: "An epithelial cell that has a cilia." [GOC:tfm] subset: cellxgene_subset xref: FMA:70605 +xref: ZFA:0009035 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000064 ! ciliated cell is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell @@ -1128,6 +1089,7 @@ id: CL:0000068 name: duct epithelial cell def: "An epithelial cell that is part of a duct." [https://orcid.org/0000-0001-5208-3432] subset: cellxgene_subset +xref: ZFA:0009372 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0000058 ! duct @@ -1150,6 +1112,7 @@ def: "An endothelial cell that lines the vasculature." [GOC:tfm] subset: cellxgene_subset subset: human_reference_atlas synonym: "cuboidal endothelial cell of vascular tree" EXACT [] +xref: ZFA:0009036 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000076 {is_inferred="true"} ! squamous epithelial cell is_a: CL:0002139 ! endothelial cell of vascular tree intersection_of: CL:0000076 ! squamous epithelial cell @@ -1184,6 +1147,7 @@ name: columnar/cuboidal epithelial cell def: "A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube." [GO:0002065, https://orcid.org/0000-0001-5208-3432] subset: cellxgene_subset subset: human_reference_atlas +xref: ZFA:0009038 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell property_value: RO:0002175 NCBITaxon:9606 @@ -1192,6 +1156,7 @@ id: CL:0000076 name: squamous epithelial cell subset: cellxgene_subset xref: CALOHA:TS-1249 +xref: ZFA:0009039 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell [Term] @@ -1202,6 +1167,7 @@ subset: cellxgene_subset subset: human_reference_atlas synonym: "mesotheliocyte" EXACT [] xref: FMA:66773 +xref: ZFA:0009040 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000076 ! squamous epithelial cell is_a: CL:0000213 ! lining cell is_a: CL:0002078 ! meso-epithelial cell @@ -1210,12 +1176,15 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000078 name: peridermal cell +xref: ZFA:0009041 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000076 ! squamous epithelial cell [Term] id: CL:0000079 name: stratified epithelial cell subset: cellxgene_subset +xref: ZFA:0009042 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000066 ! epithelial cell relationship: RO:0002202 CL:0000357 ! develops from stratified epithelial stem cell @@ -1223,6 +1192,7 @@ relationship: RO:0002202 CL:0000357 ! develops from stratified epithelial stem c id: CL:0000080 name: circulating cell def: "A cell which moves among different tissues of the body, via blood, lymph, or other medium." [GOC:add] +xref: ZFA:0009043 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0000179 ! haemolymphatic fluid @@ -1236,6 +1206,7 @@ subset: cellxgene_subset subset: general_cell_types_upper_slim xref: FMA:62844 xref: MESH:D001773 +xref: ZFA:0009044 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: capable_of GO:0008015 ! blood circulation @@ -1260,6 +1231,8 @@ def: "An epithelial cell of the pancreas." [GOC:tfm] synonym: "pancreas epithelial cell" EXACT [] synonym: "pancreatic epithelial cell" EXACT [] xref: BTO:0000028 +xref: ZFA:0009045 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0001264 ! pancreas @@ -1285,6 +1258,7 @@ xref: CALOHA:TS-1001 xref: FMA:62870 xref: MESH:D013601 xref: VHOG:0001479 +xref: ZFA:0009046 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000542 {is_inferred="true"} ! lymphocyte intersection_of: CL:0000542 ! lymphocyte intersection_of: capable_of GO:0002456 ! T cell mediated immunity @@ -1357,7 +1331,6 @@ synonym: "von Kupffer cell" EXACT [] xref: BTO:0000685 xref: FMA:14656 is_a: CL:0000864 {is_inferred="true"} ! tissue-resident macrophage -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000864 ! tissue-resident macrophage intersection_of: capable_of GO:0034102 ! erythrocyte clearance intersection_of: RO:0001025 UBERON:0001281 ! located in hepatic sinusoid @@ -1384,10 +1357,10 @@ xref: BTO:0000968 xref: CALOHA:TS-0721 xref: FMA:66781 xref: MESH:D010010 +xref: ZFA:0009047 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000518 ! phagocyte (sensu Vertebrata) is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte is_a: CL:0001035 {is_inferred="true"} ! bone cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000766 ! myeloid leukocyte intersection_of: capable_of GO:0045453 ! bone resorption intersection_of: has_part PR:000001850 ! cathepsin K @@ -1428,9 +1401,9 @@ xref: BTO:0000539 xref: BTO:0001026 xref: CALOHA:TS-0422 xref: FMA:62854 +xref: ZFA:0009048 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000081 ! blood cell is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000766 ! myeloid leukocyte intersection_of: capable_of GO:0008015 ! blood circulation intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -1455,6 +1428,7 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000095 name: neuron associated cell subset: cellxgene_subset +is_a: BFO:0000002 is_a: CL:0002319 ! neural cell relationship: RO:0002202 CL:0000133 ! develops from neurectodermal cell @@ -1477,6 +1451,7 @@ synonym: "polymorphonuclear neutrophil" EXACT [] synonym: "polynuclear neutrophilic leucocyte" EXACT [] synonym: "polynuclear neutrophilic leukocyte" EXACT [] xref: BTO:0003473 +xref: ZFA:0009049 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000234 ! phagocyte is_a: CL:0000775 {is_inferred="true"} ! neutrophil relationship: capable_of GO:0002536 ! respiratory burst involved in inflammatory response @@ -1512,7 +1487,6 @@ xref: CALOHA:TS-0603 xref: FMA:66784 is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte is_a: CL:0002274 ! histamine secreting cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000766 ! myeloid leukocyte intersection_of: capable_of GO:0002349 ! histamine production involved in inflammatory response intersection_of: capable_of GO:0002539 ! prostaglandin production involved in inflammatory response @@ -1548,6 +1522,7 @@ def: "A specialized epithelial cell involved in sensory perception. Restricted t comment: The term "neuroepithelial cell" is used to describe both this cell type and neurecto-epithelial cell (CL:0000710). synonym: "neuroepithelial cell" BROAD [] xref: BTO:0004301 +xref: ZFA:0009050 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell is_a: CL:0000197 ! sensory receptor cell intersection_of: CL:0000066 ! epithelial cell @@ -1560,9 +1535,10 @@ def: "Most generally any neuron which is not motor or sensory. Interneurons may subset: cellxgene_subset subset: human_reference_atlas xref: BTO:0003811 -xref: FBbt:00005125 +xref: FBbt:00005125 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67313 xref: WBbt:0005113 +xref: ZFA:0009051 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000540 ! neuron property_value: RO:0002175 NCBITaxon:9606 @@ -1574,9 +1550,10 @@ subset: cellxgene_subset subset: human_reference_atlas synonym: "motoneuron" EXACT [] xref: BTO:0000312 -xref: FBbt:00005123 +xref: FBbt:00005123 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:83617 xref: WBbt:0005409 +xref: ZFA:0009052 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000527 ! efferent neuron property_value: RO:0002175 NCBITaxon:9606 @@ -1584,19 +1561,23 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000101 name: sensory neuron def: "Any neuron having a sensory function; an afferent neuron conveying sensory impulses." [ISBN:0721662544] +subset: human_reference_atlas xref: BTO:0001037 -xref: FBbt:00005124 +xref: FBbt:00005124 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:84649 xref: MESH:D011984 xref: WBbt:0005759 +xref: ZFA:0009053 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000526 ! afferent neuron intersection_of: CL:0000540 ! neuron intersection_of: capable_of GO:0050906 ! detection of stimulus involved in sensory perception relationship: capable_of GO:0050906 ! detection of stimulus involved in sensory perception +property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000102 name: polymodal neuron +xref: ZFA:0009054 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000540 ! neuron [Term] @@ -1606,6 +1587,7 @@ def: "A type of interneuron that has two neurites, usually an axon and a dendrit subset: BDS_subset subset: cellxgene_subset xref: FMA:67282 +xref: ZFA:0009055 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000099 ! interneuron intersection_of: CL:0000099 ! interneuron intersection_of: bearer_of PATO:0070006 ! cortical bipolar morphology @@ -1617,6 +1599,7 @@ name: multipolar neuron def: "A neuron with three or more neurites, usually an axon and multiple dendrites." [FMA:67287, GOC:tfm] subset: BDS_subset xref: FMA:67287 +xref: ZFA:0009056 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000540 ! neuron intersection_of: CL:0000540 ! neuron intersection_of: bearer_of PATO:0070026 ! multipolar neuron morphology @@ -1627,6 +1610,7 @@ id: CL:0000105 name: pseudounipolar neuron def: "Neuron with two neurites that are fused grossly when they protrude from the soma and bifurcate a short distance from the soma." [FMA:67305, GOC:tfm] xref: FMA:67305 +xref: ZFA:0009057 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000540 ! neuron [Term] @@ -1635,6 +1619,7 @@ name: unipolar neuron def: "Neuron with one neurite that extends from the cell body." [FMA:67278, GOC:nv] subset: BDS_subset xref: FMA:67278 +xref: ZFA:0009058 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000540 ! neuron [Term] @@ -1642,6 +1627,7 @@ id: CL:0000107 name: autonomic neuron def: "A neuron whose cell body is within an autonomic ganglion." [GOC:tfm] xref: FMA:80121 +xref: ZFA:0009059 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:2000032 ! peripheral nervous system neuron intersection_of: CL:0000540 ! neuron intersection_of: RO:0002100 UBERON:0002410 ! has soma location autonomic nervous system @@ -1652,10 +1638,11 @@ id: CL:0000108 name: cholinergic neuron def: "A neuron that uses acetylcholine as a vesicular neurotransmitter." [GOC:tfm] xref: BTO:0004902 -xref: FBbt:00007173 +xref: FBbt:00007173 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:84796 xref: MESH:D059329 xref: WBbt:0006840 +xref: ZFA:0009060 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell is_a: CL:0000540 ! neuron intersection_of: CL:0000540 ! neuron @@ -1666,13 +1653,15 @@ relationship: capable_of GO:0014055 ! acetylcholine secretion, neurotransmission id: CL:0000109 name: adrenergic neuron xref: MESH:D059331 +xref: ZFA:0009061 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:4033050 ! catecholaminergic neuron [Term] id: CL:0000110 name: peptidergic neuron def: "A neuron that uses neuropeptides as transmitters." [doi:10.1016/B978-012589762-4/50021-9, PMID:23040809] -xref: FBbt:00004101 +xref: FBbt:00004101 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} +xref: ZFA:0009062 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000540 ! neuron relationship: capable_of GO:0002790 ! peptide secretion @@ -1689,6 +1678,7 @@ def: "A vertebrate phagocyte with a single nucleus." [GOC:add, GOC:tfm, ISBN:078 subset: cellxgene_subset subset: human_reference_atlas xref: BTO:0001433 +xref: ZFA:0009064 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000518 {is_inferred="true"} ! phagocyte (sensu Vertebrata) is_a: CL:0000842 ! mononuclear cell intersection_of: CL:0000518 ! phagocyte (sensu Vertebrata) @@ -1715,6 +1705,7 @@ synonym: "endotheliocyte" EXACT [] xref: BTO:0001176 xref: CALOHA:TS-0278 xref: FMA:66772 +xref: ZFA:0009065 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000213 ! lining cell is_a: CL:0002078 ! meso-epithelial cell property_value: RO:0002175 NCBITaxon:9606 @@ -1723,12 +1714,15 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000116 name: pioneer neuron def: "Pioneer neurons establish a pathway in the developing central nervous system and then undergo programmed cell death once the adult axons, which follow them, have made connections with the target site. Thus, they are a transient cell type involved in axon guidance." [GOC:cvs, GOC:tfm] -xref: FBbt:00005128 +xref: FBbt:00005128 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} +xref: ZFA:0009066 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000540 ! neuron [Term] id: CL:0000117 name: CNS neuron (sensu Vertebrata) +xref: ZFA:0009067 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000540 ! neuron relationship: part_of UBERON:0001017 ! central nervous system relationship: RO:0002202 CL:0000031 ! develops from neuroblast (sensu Vertebrata) @@ -1738,6 +1732,7 @@ id: CL:0000118 name: basket cell def: "Basket cells are inhibitory GABAergic interneurons of the brain. In general, dendrites of basket cells are free branching and contain smooth spines. Axons are highly branched. The branched axonal arborizations give rise to basket-like structures that surround the soma of the target cell. Basket cells form axo-somatic synapses, meaning their synapses target somas of other cells." [WikipediaVersioned:Basket_cell&oldid=951703880] subset: BDS_subset +xref: ZFA:0009068 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000104 ! multipolar neuron is_a: CL:0011005 ! GABAergic interneuron intersection_of: CL:0000099 ! interneuron @@ -1756,6 +1751,7 @@ synonym: "cerebellum Golgi cell" EXACT [] synonym: "Golgi cell" EXACT [] synonym: "Golgi neuron" EXACT [] xref: MESH:D000080906 +xref: ZFA:0009069 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:4023057 ! cerebellar inhibitory GABAergic interneuron [Term] @@ -1764,6 +1760,7 @@ name: granule cell def: "A neuron of the vertebrate central nervous system that is small in size. This general class includes small neurons in the granular layer of the cerebellar cortex, cerebral cortex neurons that are not pyramidal cells and small neurons without axons found in the olfactory bulb." [https://medical-dictionary.thefreedictionary.com/granule+cell] subset: cellxgene_subset xref: BTO:0003393 +xref: ZFA:0009070 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) [Term] @@ -1778,6 +1775,7 @@ synonym: "Purkinje's cell" EXACT [] xref: BTO:0001011 xref: CALOHA:TS-0845 xref: FMA:67969 +xref: ZFA:0009071 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) is_a: CL:0000527 ! efferent neuron is_a: CL:1001611 ! cerebellar neuron @@ -1790,6 +1788,7 @@ def: "A neuron that has dendritic processes radiating from the cell body forming subset: BDS_subset subset: cellxgene_subset xref: BTO:0002316 +xref: ZFA:0009072 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000104 ! multipolar neuron is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) intersection_of: CL:0000117 ! CNS neuron (sensu Vertebrata) @@ -1819,13 +1818,16 @@ def: "A non-neuronal cell of the nervous system. They not only provide physical comment: Not all glial cells develop from glioblasts, with microglia developing from the mesoderm instead. See https://github.com/obophenotype/cell-ontology/issues/1571 subset: cellxgene_subset subset: general_cell_types_upper_slim +subset: human_reference_atlas synonym: "neuroglia" RELATED [] synonym: "neuroglial cell" EXACT [] xref: BTO:0002606 xref: CALOHA:TS-0415 -xref: FBbt:00005144 +xref: FBbt:00005144 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:54536 +xref: ZFA:0009073 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000095 ! neuron associated cell +property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000126 @@ -1837,6 +1839,7 @@ synonym: "macrogliocyte" EXACT [] xref: BTO:0000771 xref: CALOHA:TS-2027 xref: FMA:54538 +xref: ZFA:0009074 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000125 ! glial cell relationship: RO:0002202 CL:0000339 ! develops from glioblast (sensu Vertebrata) @@ -1851,6 +1854,7 @@ synonym: "astrocytic glia" EXACT [] xref: BTO:0000099 xref: CALOHA:TS-0060 xref: FMA:54537 +xref: ZFA:0009075 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000126 ! macroglial cell property_value: RO:0002175 NCBITaxon:9606 @@ -1866,6 +1870,7 @@ synonym: "OLs" EXACT [PMID:8734446] xref: BTO:0000962 xref: CALOHA:TS-0709 xref: FMA:54540 +xref: ZFA:0009076 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000126 {is_inferred="true"} ! macroglial cell is_a: CL:4023154 ! myelinating glial cell relationship: part_of UBERON:0001017 ! central nervous system @@ -1888,9 +1893,9 @@ synonym: "microgliocyte" EXACT [http://www.copewithcytokines.de/] xref: BTO:0000078 xref: BTO:0000962 xref: FMA:54539 +xref: ZFA:0009077 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000125 ! glial cell is_a: CL:0000878 ! central nervous system macrophage -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000125 ! glial cell intersection_of: capable_of GO:0045087 ! innate immune response intersection_of: part_of UBERON:0001017 ! central nervous system @@ -1915,6 +1920,7 @@ relationship: RO:0002160 NCBITaxon:33317 ! only in taxon Protostomia id: CL:0000131 name: gut endothelial cell subset: cellxgene_subset +xref: ZFA:0009078 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000115 ! endothelial cell relationship: RO:0002202 CL:0000223 ! develops from endodermal cell @@ -1927,6 +1933,7 @@ subset: eye_upper_slim subset: human_reference_atlas xref: CALOHA:TS-0172 xref: FMA:70614 +xref: ZFA:0009079 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000115 ! endothelial cell is_a: CL:0000710 ! neurecto-epithelial cell relationship: part_of UBERON:0001985 ! corneal endothelium @@ -1938,6 +1945,7 @@ id: CL:0000133 name: neurectodermal cell def: "Ectoderm destined to be nervous tissue." [GOC:tfm, ISBN:068340007X] synonym: "neurectoderm cell" EXACT [] +xref: ZFA:0009080 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000221 ! ectodermal cell [Term] @@ -1962,6 +1970,7 @@ synonym: "stem cells, mesenchymal" RELATED OMO:0003004 [MESH:D044982] xref: BTO:0002625 xref: BTO:0003298 xref: FMA:70546 +xref: ZFA:0009081 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000048 ! multi fate stem cell is_a: CL:0002320 {is_inferred="true"} ! connective tissue cell property_value: seeAlso "https://github.com/obophenotype/cell-ontology/issues/474" xsd:string @@ -1994,6 +2003,8 @@ synonym: "fat cell" EXACT [] xref: BTO:0000443 xref: CALOHA:TS-0012 xref: FMA:63880 +xref: ZFA:0009082 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000325 ! stuff accumulating cell is_a: CL:0002320 ! connective tissue cell relationship: RO:0002202 CL:0000134 ! develops from mesenchymal stem cell @@ -2009,6 +2020,8 @@ xref: BTO:0002038 xref: CALOHA:TS-1167 xref: FMA:66779 xref: VSAO:0000124 +xref: ZFA:0009083 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0001035 ! bone cell is_a: CL:0002320 ! connective tissue cell relationship: part_of UBERON:0002481 ! bone tissue @@ -2023,6 +2036,7 @@ synonym: "cartilage cell" EXACT [] xref: BTO:0000249 xref: CALOHA:TS-0138 xref: FMA:66782 +xref: ZFA:0009084 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000153 ! glycosaminoglycan secreting cell is_a: CL:0000667 ! collagen secreting cell relationship: RO:0001025 UBERON:0002418 ! located in cartilage tissue @@ -2032,6 +2046,8 @@ relationship: RO:0002202 CL:0000058 ! develops from chondroblast id: CL:0000140 name: odontocyte def: "Skeletogenic cell that secretes dentine matrix, is derived from odontogenic papilla. Embedded in dentine tissue, and is the transformation of a non-terminally differentiated odontoblast cell." [GO_REF:0000034] +xref: ZFA:0009086 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0002320 ! connective tissue cell relationship: produces UBERON:0001751 ! dentine relationship: RO:0002202 CL:0000060 ! develops from odontoblast @@ -2043,6 +2059,7 @@ name: cementocyte def: "An osteocytelike cell with numerous processes, trapped in a lacuna in the cement of the tooth." [ISBN:0781733901] comment: CHECK: wikipedia says that cementocytes no longer produce cementum, but the phenoscape def is: Skeletogenic cell that produces cementum, is part of the odontogenic papilla, and is a transformation of a cementoblast cell (no change to existing def). xref: FMA:63003 +xref: ZFA:0009087 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000137 ! osteocyte relationship: part_of UBERON:0005176 ! tooth enamel organ relationship: RO:0002202 CL:0000061 ! develops from cementoblast @@ -2079,6 +2096,7 @@ comment: Note change of name; nearly all somatic cells can present antigens to T subset: blood_and_immune_upper_slim subset: cellxgene_subset synonym: "APC" RELATED OMO:0003000 [] +xref: ZFA:0009088 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000738 ! leukocyte intersection_of: CL:0000738 ! leukocyte intersection_of: capable_of GO:0002504 ! antigen processing and presentation of peptide or polysaccharide antigen via MHC class II @@ -2088,6 +2106,7 @@ relationship: capable_of GO:0002504 ! antigen processing and presentation of pep id: CL:0000146 name: simple columnar epithelial cell subset: human_reference_atlas +xref: ZFA:0009089 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000075 ! columnar/cuboidal epithelial cell property_value: RO:0002175 NCBITaxon:9606 @@ -2098,6 +2117,7 @@ def: "A pigment cell is a cell that contains pigment granules." [GOC:tfm] synonym: "chromatocyte" EXACT [] synonym: "chromatophore" EXACT [] xref: VHOG:0001678 +xref: ZFA:0009090 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000325 ! stuff accumulating cell [Term] @@ -2114,6 +2134,8 @@ xref: CALOHA:TS-0613 xref: FMA:70545 xref: MESH:D008544 xref: VHOG:0001679 +xref: ZFA:0009091 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000147 ! pigment cell intersection_of: CL:0000147 ! pigment cell intersection_of: has_part GO:0042470 ! melanosome @@ -2157,6 +2179,7 @@ name: exocrine cell def: "A cell of an exocrine gland; i.e. a gland that discharges its secretion via a duct." [ISBN:0198547684] subset: general_cell_types_upper_slim xref: FMA:16014 +xref: ZFA:0009092 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell intersection_of: CL:0000151 ! secretory cell intersection_of: part_of UBERON:0002365 ! exocrine gland @@ -2168,12 +2191,14 @@ name: glycosaminoglycan secreting cell def: "A cell that secretes glycosaminoglycans." [GOC:tfm] synonym: "GAG secreting cell" EXACT [] synonym: "hyaluronic acid secreting cell" NARROW [] +xref: ZFA:0009093 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000327 ! extracellular matrix secreting cell is_a: CL:0000447 ! carbohydrate secreting cell [Term] id: CL:0000154 name: protein secreting cell +def: "Any secretory cell that is capable of some protein secretion." [FBC:Autogenerated] is_a: CL:0000151 ! secretory cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0009306 ! protein secretion @@ -2237,6 +2262,7 @@ synonym: "chalice cell" EXACT [] xref: BTO:0001540 xref: FMA:13148 xref: http://en.wikipedia.org/wiki/Goblet_cell +xref: ZFA:0009094 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000150 ! glandular epithelial cell is_a: CL:0000319 ! mucus secreting cell @@ -2267,6 +2293,7 @@ subset: general_cell_types_upper_slim subset: human_reference_atlas synonym: "endocrinocyte" EXACT [] xref: FMA:83809 +xref: ZFA:0009096 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell is_a: CL:0000164 {gci_relation="part_of", gci_filler="UBERON:0000945"} ! enteroendocrine cell is_a: CL:0000164 {gci_filler="UBERON:0000160", gci_relation="part_of"} ! enteroendocrine cell @@ -2282,6 +2309,7 @@ subset: cellxgene_subset xref: BTO:0003865 xref: FMA:62930 xref: MESH:D019858 +xref: ZFA:0009097 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000150 ! glandular epithelial cell is_a: CL:0000163 ! endocrine cell @@ -2295,8 +2323,9 @@ subset: human_reference_atlas synonym: "neurosecretory cell" RELATED [] synonym: "neurosecretory neuron" RELATED [] xref: BTO:0002691 -xref: FBbt:00005130 +xref: FBbt:00005130 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:83810 +xref: ZFA:0009098 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000163 ! endocrine cell is_a: CL:0000527 ! efferent neuron is_a: CL:0000710 ! neurecto-epithelial cell @@ -2312,12 +2341,15 @@ subset: cellxgene_subset synonym: "phaeochromocyte" EXACT [] xref: BTO:0000259 xref: FMA:69263 +xref: ZFA:0009099 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000029 ! neural crest derived neuron is_a: CL:0000568 ! amine precursor uptake and decarboxylation cell [Term] id: CL:0000167 name: peptide hormone secreting cell +def: "Any secretory cell that is capable of some peptide hormone secretion." [FBC:Autogenerated] +xref: ZFA:0009100 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0030072 ! peptide hormone secretion @@ -2326,7 +2358,9 @@ relationship: capable_of GO:0030072 ! peptide hormone secretion [Term] id: CL:0000168 name: insulin secreting cell +def: "Any secretory cell that is capable of some insulin secretion." [FBC:Autogenerated] xref: BTO:0000783 +xref: ZFA:0009101 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000154 ! protein secreting cell is_a: CL:0000167 ! peptide hormone secreting cell intersection_of: CL:0000151 ! secretory cell @@ -2355,6 +2389,7 @@ xref: EV:0200009 xref: FMA:70586 xref: MA:0002419 xref: ncithesaurus:Beta_Cell +xref: ZFA:0009102 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000168 {is_inferred="true"} ! insulin secreting cell is_a: CL:0008024 ! pancreatic endocrine cell intersection_of: CL:0000164 ! enteroendocrine cell @@ -2370,6 +2405,7 @@ name: glucagon secreting cell def: "A cell that secretes glucagon." [GOC:tfm] synonym: "glucagon-secreting cell" EXACT [] xref: FMA:84045 +xref: ZFA:0009103 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000167 ! peptide hormone secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0070091 ! glucagon secretion @@ -2386,6 +2422,7 @@ synonym: "pancreatic alpha cell" EXACT [] xref: BTO:0000990 xref: FMA:70585 xref: MESH:D050416 +xref: ZFA:0009104 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002067 ! type A enteroendocrine cell is_a: CL:0008024 ! pancreatic endocrine cell intersection_of: CL:0002067 ! type A enteroendocrine cell @@ -2397,6 +2434,8 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000172 name: somatostatin secreting cell +def: "Any secretory cell that is capable of some somatostatin secretion." [FBC:Autogenerated] +xref: ZFA:0009105 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000167 ! peptide hormone secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0070253 ! somatostatin secretion @@ -2416,6 +2455,7 @@ synonym: "pancreatic delta cell" EXACT [] synonym: "somatostatin-secreting pancreatic cell" EXACT [] xref: BTO:0000803 xref: FMA:70587 +xref: ZFA:0005743 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000502 ! type D enteroendocrine cell is_a: CL:0008024 ! pancreatic endocrine cell intersection_of: CL:0000502 ! type D enteroendocrine cell @@ -2427,6 +2467,8 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000174 name: steroid hormone secreting cell +def: "Any secretory cell that is capable of some steroid hormone secretion." [FBC:Autogenerated] +xref: ZFA:0009106 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0035929 ! steroid hormone secretion @@ -2449,6 +2491,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000176 name: ecdysteroid secreting cell +def: "Any secretory cell that is capable of some ecdysteroid secretion." [FBC:Autogenerated] is_a: CL:0000174 ! steroid hormone secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0045457 ! ecdysteroid secretion @@ -2457,6 +2500,8 @@ relationship: capable_of GO:0045457 ! ecdysteroid secretion [Term] id: CL:0000177 name: testosterone secreting cell +def: "Any secretory cell that is capable of some testosterone secretion." [FBC:Autogenerated] +xref: ZFA:0009107 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0035936 ! testosterone secretion @@ -2475,6 +2520,8 @@ xref: CALOHA:TS-1150 xref: EMAPA:29655 xref: FMA:72297 xref: MESH:D007985 +xref: ZFA:0009108 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000177 ! testosterone secreting cell is_a: CL:4030031 ! interstitial cell relationship: part_of UBERON:0005212 ! Leydig cell region of testis @@ -2483,6 +2530,8 @@ relationship: RO:0002202 CL:0009091 ! develops from Leydig stem cell [Term] id: CL:0000179 name: progesterone secreting cell +def: "Any secretory cell that is capable of some progesterone secretion." [FBC:Autogenerated] +xref: ZFA:0009109 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000174 ! steroid hormone secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0042701 ! progesterone secretion @@ -2492,6 +2541,7 @@ relationship: capable_of GO:0042701 ! progesterone secretion id: CL:0000180 name: estradiol secreting cell def: "A steroid hormone secreting cell that secretes estradiol." [https://orcid.org/0000-0001-5208-3432] +xref: ZFA:0009110 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000174 ! steroid hormone secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0035938 ! estradiol secretion @@ -2515,6 +2565,8 @@ subset: human_reference_atlas xref: BTO:0000575 xref: CALOHA:TS-0454 xref: FMA:14515 +xref: ZFA:0009111 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000066 ! epithelial cell is_a: CL:0000417 ! endopolyploid cell relationship: capable_of GO:0006699 ! bile acid biosynthetic process @@ -2540,9 +2592,9 @@ synonym: "myoepitheliocyte" EXACT [] xref: BTO:0002309 xref: CALOHA:TS-2379 xref: FMA:67799 +xref: ZFA:0009113 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000075 ! columnar/cuboidal epithelial cell is_a: CL:0000183 ! contractile cell -is_a: CL:0002078 ! meso-epithelial cell [Term] id: CL:0000186 @@ -2566,9 +2618,11 @@ synonym: "myocyte" EXACT [] xref: BTO:0000888 xref: BTO:0000902 xref: CALOHA:TS-2032 -xref: FBbt:00005074 +xref: FBbt:00005074 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67328 xref: WBbt:0003675 +xref: ZFA:0009114 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000183 ! contractile cell is_a: CL:0000393 ! electrically responsive cell relationship: RO:0002202 CL:0000056 ! develops from myoblast @@ -2585,6 +2639,7 @@ synonym: "skeletal muscle cell" EXACT [] xref: BTO:0004392 xref: CALOHA:TS-2158 xref: FMA:9727 +xref: ZFA:0009115 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0001134 ! skeletal muscle tissue @@ -2597,6 +2652,7 @@ name: slow muscle cell def: "A muscle cell that develops tension more slowly than a fast-twitch fiber." [GOC:tfm, ISBN:0323052908] subset: cellxgene_subset synonym: "slow muscle fiber" RELATED [ISBN:0815316208] +xref: ZFA:0009116 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008046 ! extrafusal muscle fiber relationship: RO:0002202 CL:0000857 ! develops from slow muscle myoblast @@ -2606,6 +2662,7 @@ name: fast muscle cell def: "A muscle cell that can develop high tension rapidly. It is usually innervated by a single alpha neuron." [GOC:tfm, ISBN:0323052908] subset: cellxgene_subset synonym: "glycolytic muscle fiber" EXACT [] +xref: ZFA:0009117 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008046 ! extrafusal muscle fiber relationship: RO:0002202 CL:0000858 ! develops from fast muscle myoblast @@ -2624,6 +2681,7 @@ synonym: "smooth muscle fiber" EXACT [] xref: BTO:0004576 xref: CALOHA:TS-2159 xref: FMA:14072 +xref: ZFA:0009118 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008000 ! non-striated muscle cell is_a: CL:0008007 ! visceral muscle cell relationship: RO:0002202 CL:0000514 ! develops from smooth muscle myoblast @@ -2654,7 +2712,7 @@ is_obsolete: true id: CL:0000196 name: insect flight muscle cell def: "A muscle cell that is involved in the mechanism of insect flight. This encompasses both, cells that power flight and cells that control flight." [doi:10.2142/biophysics.7.21] -xref: FBbt:00003360 +xref: FBbt:00003360 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0008003 ! somatic muscle myotube [Term] @@ -2677,6 +2735,7 @@ def: "The peripheral receptor for pain. Includes receptors which are sensitive t comment: Editor note: request detection of stimulus involved in sensory perception of pain; add develops_from relationship synonym: "nociceptor" EXACT [] {seeAlso="https://meshb.nlm.nih.gov/record/ui?ui=D009619"} synonym: "nocireceptor" EXACT [] {seeAlso="https://www.thefreedictionary.com/nocireceptor"} +xref: ZFA:0009119 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000006 ! neuronal receptor cell [Term] @@ -2684,6 +2743,7 @@ id: CL:0000199 name: mechanoreceptor cell def: "A cell specialized to transduce mechanical stimuli and relay that information centrally in the nervous system." [MESH:D008465] synonym: "mechanoreceptor" RELATED [MP:0000972] +xref: ZFA:0009120 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000101 ! sensory neuron intersection_of: CL:0000540 ! neuron intersection_of: capable_of GO:0050974 ! detection of mechanical stimulus involved in sensory perception @@ -2692,6 +2752,7 @@ relationship: capable_of GO:0050974 ! detection of mechanical stimulus involved [Term] id: CL:0000200 name: touch receptor cell +def: "Any neuron that is capable of some detection of mechanical stimulus involved in sensory perception of touch." [FBC:Autogenerated] is_a: CL:0000199 ! mechanoreceptor cell intersection_of: CL:0000540 ! neuron intersection_of: capable_of GO:0050976 ! detection of mechanical stimulus involved in sensory perception of touch @@ -2704,12 +2765,14 @@ alt_id: CL:0000201 def: "A mechanoreceptor cell of the auditory or vestibular system that is sensitive to auditory stimuli. The accessory sensory structures are arranged so that appropriate stimuli cause movement of the hair-like projections (stereocilia and kinocilia) which relay the information centrally in the nervous system." [MESH:D006198, WikipediaVersioned:Hair_cell&oldid=1045345915] comment: In mammals these cells are located in the organ of Corti. synonym: "auditory receptor cell" RELATED [] +xref: ZFA:0009121 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000855 ! sensory hair cell relationship: capable_of GO:0050910 ! detection of mechanical stimulus involved in sensory perception of sound [Term] id: CL:0000203 name: gravity sensitive cell +def: "Any neuronal receptor cell that is capable of some detection of mechanical stimulus involved in sensory perception of gravity." [FBC:Autogenerated] is_a: CL:0000006 ! neuronal receptor cell is_a: CL:0000199 ! mechanoreceptor cell intersection_of: CL:0000006 ! neuronal receptor cell @@ -2725,6 +2788,7 @@ is_a: CL:0000006 ! neuronal receptor cell id: CL:0000205 name: thermoreceptor cell def: "A cellular receptor which mediates the sense of temperature. Thermoreceptor cells in vertebrates are mostly located under the skin. In mammals there are separate types of thermoreceptors for cold and for warmth and pain receptor cells which detect cold or heat extreme enough to cause pain." [GOC:tfm, MESH:D013823, MP:0000971] +xref: ZFA:0009123 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000006 ! neuronal receptor cell intersection_of: CL:0000006 ! neuronal receptor cell intersection_of: capable_of GO:0050960 ! detection of temperature stimulus involved in thermoception @@ -2734,6 +2798,7 @@ relationship: capable_of GO:0050960 ! detection of temperature stimulus involved id: CL:0000206 name: chemoreceptor cell def: "A cell specialized to detect chemical substances and relay that information centrally in the nervous system. Chemoreceptors may monitor external stimuli, as in taste and olfaction, or internal stimuli, such as the concentrations of oxygen and carbon dioxide in the blood." [MESH:D002628] +xref: ZFA:0009124 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000197 ! sensory receptor cell intersection_of: CL:0000197 ! sensory receptor cell intersection_of: capable_of GO:0050907 ! detection of chemical stimulus involved in sensory perception @@ -2742,6 +2807,7 @@ relationship: capable_of GO:0050907 ! detection of chemical stimulus involved in [Term] id: CL:0000207 name: olfactory receptor cell +def: "Any neuron that is capable of some detection of chemical stimulus involved in sensory perception of smell." [FBC:Autogenerated] synonym: "odorant receptor cell" EXACT [] synonym: "olfactory receptor neuron" EXACT [] synonym: "olfactory sensory neuron" EXACT [] @@ -2750,6 +2816,7 @@ xref: BTO:0004185 xref: FMA:67860 xref: MESH:D018034 xref: Wikipedia:Olfactory_receptor_neuron +xref: ZFA:0009125 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000006 ! neuronal receptor cell is_a: CL:0000206 ! chemoreceptor cell intersection_of: CL:0000540 ! neuron @@ -2769,6 +2836,7 @@ def: "A specialized cell involved in gustatory sensory perception." [GOC:tfm, IS subset: cellxgene_subset synonym: "taste bud cell" EXACT [] xref: FMA:67910 +xref: ZFA:0009126 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000098 ! sensory epithelial cell is_a: CL:0000206 ! chemoreceptor cell is_a: CL:0002076 ! endo-epithelial cell @@ -2783,7 +2851,9 @@ def: "A cell specialized to detect and transduce light." [MESH:D010786] subset: cellxgene_subset xref: BTO:0001060 xref: CALOHA:TS-0868 +xref: FBbt:00004211 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:86740 +xref: ZFA:0009127 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000006 {is_inferred="true"} ! neuronal receptor cell intersection_of: CL:0000540 ! neuron intersection_of: capable_of GO:0050962 ! detection of light stimulus involved in sensory perception @@ -2794,6 +2864,7 @@ property_value: http://xmlns.com/foaf/0.1/depiction "https://www.swissbiopics.or id: CL:0000211 name: electrically active cell def: "A cell whose function is determined by the generation or the reception of an electric signal." [FB:ma] +xref: ZFA:0009128 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -2801,6 +2872,7 @@ id: CL:0000212 name: absorptive cell def: "A cell that takes up and metabolizes substances." [CL:CVS] subset: human_reference_atlas +xref: ZFA:0009129 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell property_value: RO:0002175 NCBITaxon:9606 @@ -2809,6 +2881,7 @@ id: CL:0000213 name: lining cell def: "A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism." [JB:jb] synonym: "boundary cell" EXACT [] +xref: ZFA:0009130 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000215 ! barrier cell [Term] @@ -2817,6 +2890,7 @@ name: synovial cell def: "A cell located in the synovial joint." [] synonym: "synoviocyte" EXACT [] xref: CALOHA:TS-0995 +xref: ZFA:0009131 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000213 ! lining cell is_a: CL:0002078 {is_inferred="true"} ! meso-epithelial cell relationship: part_of UBERON:0002217 ! synovial joint @@ -2825,6 +2899,7 @@ relationship: part_of UBERON:0002217 ! synovial joint id: CL:0000215 name: barrier cell def: "A cell whose primary function is to prevent the transport of stuff across compartments." [JB:jb] +xref: ZFA:0009132 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -2836,6 +2911,7 @@ xref: BTO:0001238 xref: CALOHA:TS-0922 xref: FMA:72298 xref: VHOG:0001348 +xref: ZFA:0009133 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000511 ! androgen binding protein secreting cell is_a: CL:0000630 {is_inferred="true"} ! supporting cell is_a: CL:0002625 ! seminiferous tubule epithelial cell @@ -2845,6 +2921,7 @@ intersection_of: part_of UBERON:0001343 ! seminiferous tubule of testis [Term] id: CL:0000217 name: insulating cell +xref: ZFA:0009134 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000215 ! barrier cell [Term] @@ -2856,6 +2933,7 @@ synonym: "peripheral neuroglial cell" BROAD [] synonym: "Schwann cell" BROAD [] xref: CALOHA:TS-0898 xref: FMA:62121 +xref: ZFA:0009135 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000217 ! insulating cell is_a: CL:0002573 ! Schwann cell is_a: CL:4023154 ! myelinating glial cell @@ -2865,6 +2943,7 @@ relationship: RO:0002202 CL:0002377 ! develops from immature Schwann cell id: CL:0000219 name: motile cell def: "A cell that moves by its own activities." [FB:ma] +xref: ZFA:0009136 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0048870 ! cell motility @@ -2885,6 +2964,7 @@ name: ectodermal cell def: "A cell of the outer of the three germ layers of the embryo." [MESH:D004475] synonym: "ectoderm cell" EXACT [] xref: FMA:72549 +xref: ZFA:0009137 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000924 ! ectoderm @@ -2896,6 +2976,7 @@ subset: cellxgene_subset synonym: "mesoblast" EXACT [] synonym: "mesoderm cell" EXACT [] xref: FMA:72554 +xref: ZFA:0009138 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000926 ! mesoderm @@ -2905,6 +2986,7 @@ name: endodermal cell def: "A cell of the inner of the three germ layers of the embryo." [MESH:D004707] synonym: "endoderm cell" EXACT [] xref: FMA:72555 +xref: ZFA:0009139 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000925 ! endoderm @@ -2942,6 +3024,7 @@ relationship: bearer_of PATO:0001407 ! mononucleate [Term] id: CL:0000227 name: binucleate cell +def: "Any cell that has characteristic some binucleate." [FBC:Autogenerated] is_a: CL:0000228 ! multinucleate cell intersection_of: CL:0000000 ! cell intersection_of: bearer_of PATO:0001406 ! binucleate @@ -3040,6 +3123,7 @@ subset: cellxgene_subset xref: BTO:0001044 xref: FMA:83806 xref: MESH:D010586 +xref: ZFA:0009140 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000219 ! motile cell is_a: CL:0000325 ! stuff accumulating cell is_a: CL:0000473 ! defensive cell @@ -3062,6 +3146,7 @@ xref: CALOHA:TS-0587 xref: FMA:63261 xref: FMA:83585 xref: MESH:D008264 +xref: ZFA:0009141 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000113 ! mononuclear phagocyte is_a: CL:0000145 ! professional antigen presenting cell is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte @@ -3089,6 +3174,7 @@ xref: CALOHA:TS-0068 xref: FMA:62869 xref: MESH:D001402 xref: VHOG:0001480 +xref: ZFA:0009142 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000945 {is_inferred="true"} ! lymphocyte of B lineage intersection_of: CL:0000945 ! lymphocyte of B lineage intersection_of: capable_of GO:0019724 ! B cell mediated immunity @@ -3111,6 +3197,7 @@ is_a: CL:0000240 ! stratified squamous epithelial cell [Term] id: CL:0000239 name: brush border epithelial cell +xref: ZFA:0009143 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000067 ! ciliated epithelial cell is_a: CL:0000075 ! columnar/cuboidal epithelial cell @@ -3118,6 +3205,7 @@ is_a: CL:0000075 ! columnar/cuboidal epithelial cell id: CL:0000240 name: stratified squamous epithelial cell subset: human_reference_atlas +xref: ZFA:0009144 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000076 ! squamous epithelial cell is_a: CL:0000079 ! stratified epithelial cell property_value: RO:0002175 NCBITaxon:9606 @@ -3126,6 +3214,7 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000241 name: stratified cuboidal epithelial cell subset: human_reference_atlas +xref: ZFA:0009145 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000075 ! columnar/cuboidal epithelial cell is_a: CL:0000079 ! stratified epithelial cell property_value: RO:0002175 NCBITaxon:9606 @@ -3138,6 +3227,7 @@ subset: cellxgene_subset subset: human_reference_atlas synonym: "Merkel's cell" EXACT [] xref: FMA:70548 +xref: ZFA:0009146 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000123 ! neuron associated cell (sensu Vertebrata) is_a: CL:0000312 {xref="PMID:19782676"} ! keratinocyte is_a: CL:0000710 ! neurecto-epithelial cell @@ -3158,6 +3248,7 @@ name: transitional epithelial cell def: "A cell characteristically found lining hollow organs that are subject to great mechanical change due to contraction and distention; originally thought to represent a transition between stratified squamous and columnar epithelium." [GOC:tfm, ISBN:0721662544] subset: human_reference_atlas xref: FMA:66778 +xref: ZFA:0009148 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell property_value: RO:0002175 NCBITaxon:9606 @@ -3171,6 +3262,7 @@ replaced_by: PO:0000353 [Term] id: CL:0000246 name: Mauthner neuron +xref: ZFA:0009149 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000099 ! interneuron [Term] @@ -3183,7 +3275,7 @@ synonym: "Rohon-Beard cell" EXACT [] xref: AAO:0010316 xref: EFO:0003711 xref: VHOG:0001484 -xref: ZFA:0009150 +xref: ZFA:0009150 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000006 ! neuronal receptor cell is_a: CL:0000531 ! primary sensory neuron (sensu Teleostei) is_a: CL:4023168 ! somatosensory neuron @@ -3200,6 +3292,7 @@ replaced_by: PO:0020047 [Term] id: CL:0000249 name: hatching gland cell +xref: ZFA:0009151 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell [Term] @@ -3212,6 +3305,7 @@ replaced_by: PO:0020019 [Term] id: CL:0000251 name: extramedullary cell +xref: ZFA:0009152 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000101 ! sensory neuron [Term] @@ -3225,6 +3319,7 @@ replaced_by: PO:0020048 id: CL:0000253 name: eurydendroid cell subset: cellxgene_subset +xref: ZFA:0009153 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000527 ! efferent neuron [Term] @@ -3238,6 +3333,7 @@ replaced_by: PO:0020094 [Term] id: CL:0000255 name: eukaryotic cell +def: "Any cell that only exists in Eukaryota." [FBC:Autogenerated] subset: cellxgene_subset xref: MESH:D005057 is_a: CL:0000000 ! cell @@ -3254,6 +3350,7 @@ is_a: CL:0000325 ! stuff accumulating cell [Term] id: CL:0000257 name: Eumycetozoan cell +def: "Any cell that only exists in Eumycetozoa." [FBC:Autogenerated] is_a: CL:0000255 ! eukaryotic cell intersection_of: CL:0000000 ! cell intersection_of: RO:0002160 NCBITaxon:142796 ! only in taxon Eumycetozoa @@ -3447,9 +3544,11 @@ is_a: CL:0000521 ! fungal cell [Term] id: CL:0000287 name: eye photoreceptor cell +def: "Any photoreceptor cell that is part of some eye." [FBC:Autogenerated] subset: cellxgene_subset subset: eye_upper_slim subset: human_reference_atlas +xref: ZFA:0009154 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000210 ! photoreceptor cell intersection_of: CL:0000210 ! photoreceptor cell intersection_of: part_of UBERON:0000970 ! eye @@ -3494,6 +3593,7 @@ replaced_by: PO:0000293 id: CL:0000293 name: structural cell def: "A cell whose primary function is to provide structural support, to provide strength and physical integrity to the organism." [TAIR:sr] +xref: ZFA:0005745 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -3509,6 +3609,7 @@ alt_id: CL:0000471 def: "A peptide hormone secreting cell that produces growth hormone, somatotropin." [GOC:tfm, SANBI:mhl] synonym: "growth hormone secreting cell" EXACT [] synonym: "somatotrophin secreting cell" EXACT [] +xref: ZFA:0009155 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000167 ! peptide hormone secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0030252 ! growth hormone secretion @@ -3549,8 +3650,9 @@ def: "A mature sexual reproductive cell having a single set of unpaired chromoso synonym: "haploid germ cell" RELATED [] synonym: "haploid nucleated cell" EXACT [] xref: CALOHA:TS-0395 -xref: FBbt:00005412 +xref: FBbt:00005412 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:18649 +xref: ZFA:0009156 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000413 ! haploid cell is_a: CL:0000586 {is_inferred="true"} ! germ cell intersection_of: CL:0000586 ! germ cell @@ -3562,7 +3664,7 @@ relationship: capable_of GO:0009566 ! fertilization id: CL:0000301 name: pole cell def: "A primordial germ cell of insects. Such cells form at the posterior pole of the early embryo." [doi:10.1017/CBO9780511818202.015] -xref: FBbt:00000092 +xref: FBbt:00000092 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000670 ! primordial germ cell [Term] @@ -3633,6 +3735,7 @@ is_a: CL:0000308 ! metal ion accumulating cell [Term] id: CL:0000311 name: keratin accumulating cell +xref: ZFA:0009157 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000325 ! stuff accumulating cell [Term] @@ -3648,6 +3751,7 @@ synonym: "malpighian cell" EXACT [] xref: BTO:0000667 xref: CALOHA:TS-0500 xref: FMA:62879 +xref: ZFA:0009158 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000237 {is_inferred="true"} ! keratinizing barrier epithelial cell is_a: CL:0000362 {is_inferred="true"} ! epidermal cell intersection_of: CL:0000237 ! keratinizing barrier epithelial cell @@ -3709,9 +3813,11 @@ is_a: CL:0000150 ! glandular epithelial cell [Term] id: CL:0000319 name: mucus secreting cell +def: "Any secretory cell that is capable of some mucus secretion." [FBC:Autogenerated] subset: cellxgene_subset synonym: "mucous cell" EXACT [] xref: BTO:0003689 +xref: ZFA:0009159 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000159 ! seromucus secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0070254 ! mucus secretion @@ -3755,6 +3861,7 @@ is_a: CL:0000154 ! protein secreting cell [Term] id: CL:0000324 name: metanephric mesenchyme stem cell +is_a: BFO:0000002 is_a: CL:0000134 ! mesenchymal stem cell relationship: RO:0002202 CL:0000222 ! develops from mesodermal cell @@ -3773,11 +3880,14 @@ is_a: CL:0000325 ! stuff accumulating cell [Term] id: CL:0000327 name: extracellular matrix secreting cell +xref: ZFA:0009162 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000499 ! stromal cell [Term] id: CL:0000329 name: oxygen accumulating cell +def: "Any cell that is capable of some oxygen transport." [FBC:Autogenerated] +xref: ZFA:0009164 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0015671 ! oxygen transport @@ -3810,6 +3920,7 @@ id: CL:0000333 name: migratory neural crest cell def: "A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body." [doi:10.1016/j.stem.2015.02.017] xref: FMA:86667 +xref: ZFA:0007086 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000219 ! motile cell is_a: CL:0011012 ! neural crest cell is_a: CL:0011026 ! progenitor cell @@ -3827,6 +3938,7 @@ is_a: CL:0000521 ! fungal cell id: CL:0000335 name: mesenchyme condensation cell def: "A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors." [GOC:tfm, PMID:5025404] +xref: ZFA:0009166 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008019 ! mesenchymal cell [Term] @@ -3836,6 +3948,7 @@ alt_id: CL:1000422 def: "A cell found within the adrenal medulla that secrete biogenic amine hormones upon stimulation." [GOC:tfm, http://www.britannica.com/EBchecked/topic/6405/adrenal-gland] synonym: "medullary chromaffin cell of adrenal gland" EXACT [FMA:69262] xref: FMA:69262 +xref: ZFA:0009167 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000457 ! biogenic amine secreting cell is_a: CL:1000426 ! chromaffin cell of adrenal gland intersection_of: CL:0000166 ! chromaffin cell @@ -3848,7 +3961,7 @@ id: CL:0000338 name: neuroblast (sensu Nematoda and Protostomia) def: "A neural precursor of the central nervous system." [PMID:1295739] synonym: "neuroblast" BROAD [] -xref: FBbt:00005146 +xref: FBbt:00005146 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000047 ! neural stem cell is_a: CL:0000255 ! eukaryotic cell relationship: RO:0002160 NCBITaxon:33317 ! only in taxon Protostomia @@ -3859,6 +3972,7 @@ name: glioblast (sensu Vertebrata) def: "An early neural cell developing from the early ependymal cell of the neural tube." [GOC:tfm, ISBN:0618947256] synonym: "spongioblast" EXACT [] xref: FMA:70564 +xref: ZFA:0009169 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000030 ! glioblast is_a: CL:0000123 ! neuron associated cell (sensu Vertebrata) is_a: CL:0011026 ! progenitor cell @@ -3867,7 +3981,7 @@ is_a: CL:0011026 ! progenitor cell id: CL:0000340 name: glioblast (sensu Nematoda and Protostomia) def: "A precursor of the central nervous system that gives rise to glial cells only." [doi:10.1002/glia.21162] -xref: FBbt:00005145 +xref: FBbt:00005145 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000030 ! glioblast is_a: CL:0000130 ! neuron associated cell (sensu Nematoda and Protostomia) @@ -3881,6 +3995,7 @@ property_value: RO:0002161 NCBITaxon:33511 id: CL:0000342 name: pigment cell (sensu Vertebrata) def: "Any animal cell containing pigment granules." [GOC:tfm, ISBN:0721662544] +xref: ZFA:0009170 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000147 ! pigment cell is_a: CL:0000255 ! eukaryotic cell relationship: RO:0002160 NCBITaxon:7742 ! only in taxon Vertebrata @@ -3890,6 +4005,7 @@ id: CL:0000343 name: visual pigment cell (sensu Vertebrata) def: "A pigment cell that is capable of detecting light stimulus that is involved in visual perception." [GOC:tfm] xref: FMA:63846 +xref: ZFA:0009171 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000149 ! visual pigment cell is_a: CL:0000342 {is_inferred="true"} ! pigment cell (sensu Vertebrata) intersection_of: CL:0000342 ! pigment cell (sensu Vertebrata) @@ -3906,6 +4022,8 @@ id: CL:0000345 name: dental papilla cell def: "A mesenchymal cell that is part of a small mass of condensed mesenchyme in the enamel organ; it differentiates into the dentin and dental pulp." [GOC:tfm, ISBN:0721662544] comment: Merge with odontoblast? +xref: ZFA:0009173 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0008019 ! mesenchymal cell relationship: part_of UBERON:0001763 ! odontogenic papilla relationship: RO:0002202 CL:0000008 ! develops from migratory cranial neural crest cell @@ -3927,6 +4045,8 @@ id: CL:0000347 name: scleral cell def: "A cell of the sclera of the eye." [GOC:add] subset: eye_upper_slim +xref: ZFA:0009174 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000293 ! structural cell intersection_of: CL:0000293 ! structural cell intersection_of: part_of UBERON:0001773 ! sclera @@ -3938,6 +4058,8 @@ id: CL:0000348 name: choroidal cell of the eye def: "A structural cell that is part of optic choroid." [GOC:add] subset: eye_upper_slim +xref: ZFA:0009175 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000293 ! structural cell intersection_of: CL:0000293 ! structural cell intersection_of: part_of UBERON:0001776 ! optic choroid @@ -3947,7 +4069,9 @@ relationship: RO:0002202 CL:0000008 ! develops from migratory cranial neural cre [Term] id: CL:0000349 name: extraembryonic cell +def: "Any cell that is part of some extraembryonic structure." [FBC:Autogenerated] subset: general_cell_types_upper_slim +xref: ZFA:0009176 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0000478 ! extraembryonic structure @@ -3956,6 +4080,7 @@ relationship: part_of UBERON:0000478 ! extraembryonic structure [Term] id: CL:0000350 name: amnioserosal cell +def: "Any extraembryonic cell that is part of some amnioserosa." [FBC:Autogenerated] is_a: CL:0000349 ! extraembryonic cell intersection_of: CL:0000349 ! extraembryonic cell intersection_of: part_of UBERON:0010302 ! amnioserosa @@ -3983,6 +4108,7 @@ def: "An undifferentiated cell produced by early cleavages of the fertilized egg synonym: "blastomere" EXACT [] xref: BTO:0001473 xref: FMA:72551 +xref: ZFA:0009177 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000007 ! early embryonic cell (metazoa) [Term] @@ -3990,6 +4116,7 @@ id: CL:0000354 name: blastemal cell synonym: "blastema cell" EXACT [] xref: ncithesaurus:Blastemal_Cell +xref: ZFA:0009178 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000048 ! multi fate stem cell [Term] @@ -3998,6 +4125,7 @@ name: multi-potent skeletal muscle stem cell def: "A multifate stem cell found in skeletal muscle than can differentiate into many different cell types, including muscle. Distinct cell type from satellite cell." [PMID:18282570] comment: Multi-potency demonstrated ex vivo. At the time of writing, it is unclear whether the endogenous population differentiates into multiple cell types in vivo. xref: FMA:86767 +xref: ZFA:0009179 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000048 {is_inferred="true"} ! multi fate stem cell is_a: CL:0000188 ! cell of skeletal muscle intersection_of: CL:0000048 ! multi fate stem cell @@ -4011,6 +4139,7 @@ is_a: CL:0000035 ! single fate stem cell [Term] id: CL:0000357 name: stratified epithelial stem cell +xref: ZFA:0009180 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000036 ! epithelial fate stem cell [Term] @@ -4030,6 +4159,7 @@ subset: cellxgene_subset subset: human_reference_atlas synonym: "vascular smooth muscle cell" EXACT [] synonym: "VSMC" EXACT [] +xref: ZFA:0009181 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000192 {is_inferred="true"} ! smooth muscle cell is_a: CL:4033054 ! perivascular cell intersection_of: CL:0000192 ! smooth muscle cell @@ -4048,6 +4178,7 @@ relationship: part_of UBERON:0000085 ! morula id: CL:0000361 name: gastrula cell def: "A cell of the embryo in the early stage following the blastula, characterized by morphogenetic cell movements, cell differentiation, and the formation of the three germ layers." [MESH:D005775] +xref: ZFA:0009182 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000007 ! early embryonic cell (metazoa) relationship: part_of UBERON:0004734 ! gastrula @@ -4063,6 +4194,7 @@ xref: BTO:0001470 xref: CALOHA:TS-0283 xref: FMA:62411 xref: MESH:D000078404 +xref: ZFA:0009183 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002159 ! general ecto-epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0007376 ! outer epithelium @@ -4140,14 +4272,14 @@ id: CL:0000372 name: tormogen cell def: "An epidermal cell that is part of a cell cluster organ of the insect integument (such as a sensillum) and that secretes a cuticular specialization that forms a socket around the base of a cuticular specialization produced by a trichogen cell." [ISBN:978-0801481253] synonym: "socket cell" BROAD [ISBN:978-0801481253] -xref: FBbt:00005171 +xref: FBbt:00005171 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000463 ! epidermal cell (sensu Arthropoda) [Term] id: CL:0000373 name: histoblast def: "A progenitor cell found in the larval epidermis of insects and that gives rise to the adult abdominal epidermis." [doi:10.1016/j.cub.2022.01.045] -xref: FBbt:00001789 +xref: FBbt:00001789 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000255 ! eukaryotic cell is_a: CL:0011026 ! progenitor cell relationship: RO:0002160 NCBITaxon:50557 ! only in taxon Insecta @@ -4158,7 +4290,7 @@ name: trichogen cell def: "An epidermal cell that is part of a cell cluster organ of the insect integument (such as a sensillum) and that secretes a cuticular specialization, often in the form of a hair, bristle, peg or scale. The base of this specialization is often surrounded by a socket produced by a closely associated tormogen cell." [ISBN:978-0801481253] synonym: "hair cell" BROAD [] xref: BTO:0004744 -xref: FBbt:00005169 +xref: FBbt:00005169 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000463 ! epidermal cell (sensu Arthropoda) [Term] @@ -4187,6 +4319,7 @@ is_a: CL:0000630 ! supporting cell [Term] id: CL:0000379 name: sensory processing neuron +xref: ZFA:0009185 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000540 ! neuron [Term] @@ -4194,7 +4327,7 @@ id: CL:0000380 name: thecogen cell def: "The support cell that makes the thecogen dendritic cap - a cuticle-like matrix around the tip of the eo-dendrite and which encloses the soma of the eo-neuron." [Fbbt:00005173] synonym: "fly sheath cell" EXACT [] -xref: FBbt:00005173 +xref: FBbt:00005173 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000378 ! supporting cell (sensu Nematoda and Protostomia) [Term] @@ -4210,13 +4343,14 @@ id: CL:0000382 name: scolopale cell def: "A cell that is part of a scolopidium and surrounds the dendrite of a scolopidial neuron." [doi:10.1016/B978-012369493-5.50012-2, doi:10.1017/CBO9780511818202.024] synonym: "scolopidial sheath cell" EXACT [ISBN:978-087969828-7] -xref: FBbt:00005219 +xref: FBbt:00005219 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000378 ! supporting cell (sensu Nematoda and Protostomia) relationship: part_of UBERON:0001038 ! chordotonal organ [Term] id: CL:0000383 name: nephrogenic mesenchyme stem cell +xref: ZFA:0009187 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000134 ! mesenchymal stem cell is_a: CL:0011026 ! progenitor cell relationship: RO:0002202 CL:0000134 ! develops from mesenchymal stem cell @@ -4224,13 +4358,14 @@ relationship: RO:0002202 CL:0000134 ! develops from mesenchymal stem cell [Term] id: CL:0000384 name: ligament cell +xref: ZFA:0009188 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000630 ! supporting cell [Term] id: CL:0000385 name: prohemocyte (sensu Nematoda and Protostomia) def: "A precursor of mature hemocytes." [doi:10.1016/B978-012369493-5.50008-0] -xref: FBbt:00005062 +xref: FBbt:00005062 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0008001 ! hematopoietic precursor cell property_value: RO:0002161 NCBITaxon:33511 @@ -4243,7 +4378,8 @@ is_a: CL:0000630 ! supporting cell id: CL:0000387 name: hemocyte (sensu Arthropoda) def: "A blood cell of the circulatory system of arthropods." [doi:10.1016/B978-012369493-5.50008-0] -xref: FBbt:00005063 +xref: FBbt:00005063 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} +is_a: BFO:0000002 is_a: CL:0000255 ! eukaryotic cell is_a: CL:0000390 ! blood cell (sensu Nematoda and Protostomia) relationship: RO:0002160 NCBITaxon:6656 ! only in taxon Arthropoda @@ -4256,6 +4392,7 @@ def: "An elongated fibrocyte that is part of a tendon. The cytoplasm is stretche subset: cellxgene_subset synonym: "muscle attachment cell" EXACT [] synonym: "tenocyte" RELATED [] +xref: ZFA:0009189 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000135 {is_inferred="true"} ! fibrocyte is_a: CL:0000386 ! attachment cell intersection_of: CL:0000135 ! fibrocyte @@ -4293,6 +4430,7 @@ relationship: RO:0002202 CL:0000395 ! develops from procrystal cell id: CL:0000393 name: electrically responsive cell def: "A cell whose function is determined by its response to an electric signal." [FB:ma] +xref: ZFA:0009190 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000211 ! electrically active cell [Term] @@ -4301,7 +4439,7 @@ name: plasmatocyte def: "A phagocytic hemocyte, responsible for the engulfment of small particles, microbes, and apoptotic tissue debris. It may also secretes antimicrobial peptides and contribute to the production and secretion of proteins of the hemolymph." [https://doi.org/10.1016/B978-012369493-5.50008-0] subset: cellxgene_subset synonym: "macrophage" RELATED [] -xref: FBbt:00001685 +xref: FBbt:00001685 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000387 ! hemocyte (sensu Arthropoda) relationship: capable_of GO:0035010 ! encapsulation of foreign target @@ -4309,19 +4447,20 @@ relationship: capable_of GO:0035010 ! encapsulation of foreign target id: CL:0000395 name: procrystal cell def: "A precursor of mature crystal cells." [doi:10.1016/B978-012369493-5.50008-0] -xref: FBbt:00001689 +xref: FBbt:00001689 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000385 ! prohemocyte (sensu Nematoda and Protostomia) [Term] id: CL:0000396 name: lamellocyte def: "A hemocyte found in immuno-stimulated larvae." [doi:10.1016/B978-012369493-5.50008-0] -xref: FBbt:00001687 +xref: FBbt:00001687 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000387 ! hemocyte (sensu Arthropoda) [Term] id: CL:0000397 name: ganglion interneuron +def: "Any interneuron that has its soma located in some ganglion." [FBC:Autogenerated] subset: cellxgene_subset is_a: CL:0000099 {is_inferred="true"} ! interneuron intersection_of: CL:0000099 ! interneuron @@ -4332,7 +4471,6 @@ relationship: RO:0002100 UBERON:0000045 ! has soma location ganglion id: CL:0000398 name: obsolete polygonal cell comment: Obsoleted as this is actually the same thing as prohemocytes. -xref: FBbt:00001691 relationship: term_tracker_item https://github.com/obophenotype/cell-ontology/issues/1949 is_obsolete: true replaced_by: CL:0000385 @@ -4364,6 +4502,7 @@ name: CNS interneuron def: "An interneuron that has its cell body in a central nervous system." [doi:10.1016/B978-0-12-817424-1.00001-X] comment: Interneurons are commonly described as being only found in the central nervous system. However, in CL we define 'interneuron' more broadly as any neuron that is neither a motor neuron nor a sensory neuron, regardless of its location, so we need this term to refer strictly to interneurons of the central nervous system. subset: human_reference_atlas +xref: ZFA:0009191 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000099 ! interneuron is_a: CL:2000029 ! central nervous system neuron intersection_of: CL:0000099 ! interneuron @@ -4374,6 +4513,7 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000404 name: electrically signaling cell def: "A cell that initiates an electrical signal and passes that signal to another cell." [FB:ma] +xref: ZFA:0009193 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000211 ! electrically active cell [Term] @@ -4386,19 +4526,21 @@ is_obsolete: true [Term] id: CL:0000406 name: CNS short range interneuron +xref: ZFA:0009194 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000402 ! CNS interneuron [Term] id: CL:0000407 name: scolopidial ligament cell def: "A cell that anchors the cell body of a scolopidial neuron to the integument." [doi:10.1016/B978-0-12-408088-1.00002-6, doi:10.1023/a\:1018564904170] -xref: FBbt:00005221 +xref: FBbt:00005221 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000378 ! supporting cell (sensu Nematoda and Protostomia) relationship: part_of UBERON:0001038 ! chordotonal organ [Term] id: CL:0000408 name: male gamete +def: "Any male germ cell that has characteristic some haploid and is capable of some fertilization." [FBC:Autogenerated] xref: BTO:0001277 xref: CALOHA:TS-0949 is_a: CL:0000015 {is_inferred="true"} ! male germ cell @@ -4417,6 +4559,7 @@ replaced_by: CL:0000382 [Term] id: CL:0000410 name: CNS long range interneuron +xref: ZFA:0009195 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000402 ! CNS interneuron [Term] @@ -4426,6 +4569,7 @@ def: "An epithelial cell of the hypodermis of Caenorhabditis." [GOC:tfm, http:// comment: This term was originally added to CL for parity with the Worm anatomy ontology, which is dedicated to C elegans. It is not clear if it makes sense to try and generalize the concept and include in CL, and this term may be obsoleted in future. Note there is no similarity to the hypodermis in vertebrates. synonym: "roundworm hypodermal cell" BROAD [] xref: WBbt:0007846 +xref: ZFA:0009196 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000076 ! squamous epithelial cell is_a: CL:0000228 ! multinucleate cell relationship: RO:0002162 NCBITaxon:6237 ! in taxon Caenorhabditis @@ -4546,6 +4690,7 @@ is_a: CL:0002320 ! connective tissue cell [Term] id: CL:0000428 name: yolk cell +xref: ZFA:0000084 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000325 ! stuff accumulating cell is_a: CL:0000349 ! extraembryonic cell @@ -4554,7 +4699,7 @@ id: CL:0000429 name: imaginal disc cell def: "A columnar epithelial cell that is part of an insect imaginal disc." [doi:10.1007/s00412-016-0595-4] comment: This term does not encompass all the cell types that may be found in an epithelial disc (such as the peripodial or adepithelial cells), only the cells that form the disc epithelium proper. -xref: FBbt:00007108 +xref: FBbt:00007108 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000146 ! simple columnar epithelial cell is_a: CL:0000255 ! eukaryotic cell relationship: part_of UBERON:0000939 ! imaginal disc @@ -4565,6 +4710,8 @@ id: CL:0000430 name: xanthophore cell def: "A pigment cell derived from the neural crest. Contains cartenoid pigments in structures called pterinosomes or xanthosomes. This gives an appearance ranging from a golden yellow to orange and red." [SANBI:mhl] synonym: "xanthophore" RELATED [] +xref: ZFA:0009198 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000147 ! pigment cell relationship: RO:0002202 CL:0005002 ! develops from xanthoblast @@ -4573,6 +4720,8 @@ id: CL:0000431 name: iridophore def: "A pigment cell derived from the neural crest. The cell contains flat light-reflecting platelets, probably of guanine, in stacks called reflecting platelets or iridisomes. The color-generating components produce a silver, gold, or iridescent color." [SANBI:mhl] synonym: "guanophore" RELATED [] +xref: ZFA:0009199 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000147 ! pigment cell relationship: RO:0002202 CL:0005001 ! develops from iridoblast @@ -4584,6 +4733,7 @@ subset: cellxgene_subset subset: human_reference_atlas synonym: "reticulum cell" EXACT [] xref: FMA:62877 +xref: ZFA:0009200 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000057 ! fibroblast property_value: RO:0002175 NCBITaxon:9606 property_value: seeAlso "https://github.com/obophenotype/cell-ontology/issues/1472" xsd:string @@ -4606,6 +4756,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000435 name: alkali secreting cell +xref: ZFA:0009201 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell [Term] @@ -4627,6 +4778,7 @@ synonym: "gonadotropic cell" EXACT [] synonym: "pituitary delta cell" EXACT [] xref: BTO:0002482 xref: FMA:83100 +xref: ZFA:0009202 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000438 ! luteinizing hormone secreting cell is_a: CL:0000639 ! basophil cell of pars distalis of adenohypophysis @@ -4634,6 +4786,7 @@ is_a: CL:0000639 ! basophil cell of pars distalis of adenohypophysis id: CL:0000438 name: luteinizing hormone secreting cell def: "A peptide hormone secreting cell pituitary that produces luteinizing hormone." [GOC:tfm] +xref: ZFA:0009203 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0032275 ! luteinizing hormone secretion @@ -4643,6 +4796,7 @@ relationship: capable_of GO:0032275 ! luteinizing hormone secretion id: CL:0000439 name: prolactin secreting cell def: "A peptide hormone cell that secretes prolactin." [GOC:tfm, SANBI:mhl] +xref: ZFA:0009204 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000154 ! protein secreting cell is_a: CL:0000167 ! peptide hormone secreting cell intersection_of: CL:0000151 ! secretory cell @@ -4656,6 +4810,7 @@ def: "A cell of the intermediate pituitary that produces melanocyte stimulating synonym: "melanotrope" EXACT [] synonym: "melanotroph" EXACT [] xref: BTO:0002277 +xref: ZFA:0009205 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000167 ! peptide hormone secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0036160 ! melanocyte-stimulating hormone secretion @@ -4666,7 +4821,7 @@ id: CL:0000441 name: follicle stem cell (sensu Arthropoda) def: "A stem cell that gives rise to the follicle cells that surround the oocyte in female arthropods." [doi:10.1016/B978-012369493-5.50005-5, doi:10.1038/s41467-020-19361-0, doi:10.1242/dev.121.11.3797] synonym: "somatic stem cell" BROAD [doi:10.1016/j.devcel.2005.08.012] -xref: FBbt:00004903 +xref: FBbt:00004903 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000036 ! epithelial fate stem cell is_a: CL:0000255 ! eukaryotic cell relationship: RO:0002160 NCBITaxon:6656 {IAO:0000233="https://github.com/obophenotype/cell-ontology/issues/1943"} ! only in taxon Arthropoda @@ -4687,6 +4842,8 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000443 name: calcitonin secreting cell +def: "Any secretory cell that is capable of some calcitonin secretion." [FBC:Autogenerated] +xref: ZFA:0009206 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000167 ! peptide hormone secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0036161 ! calcitonin secretion @@ -4764,9 +4921,9 @@ xref: BTO:0002042 xref: CALOHA:TS-0194 xref: FMA:83036 xref: MESH:D003713 +xref: ZFA:0009209 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000113 ! mononuclear phagocyte is_a: CL:0000145 ! professional antigen presenting cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000738 ! leukocyte intersection_of: bearer_of PATO:0001407 ! mononucleate intersection_of: capable_of GO:0001816 ! cytokine production @@ -4793,6 +4950,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000452 name: thyroid hormone secreting cell +xref: ZFA:0009210 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000163 ! endocrine cell [Term] @@ -4823,6 +4981,7 @@ name: epinephrine secreting cell def: "A cell capable of producing epinephrine. Epiniphrine is synthesized from norepiniphrine by the actions of the phenylethanolamine N-methyltransferase enzyme, which is expressed in the adrenal glands, androgenic neurons, and in other cell types." [GOC:tfm, PMID:12438093] synonym: "adrenaline secreting cell" EXACT [GO:0048242] synonym: "epinephrin secreting cell" EXACT [] +xref: ZFA:0009211 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000457 ! biogenic amine secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0048242 ! epinephrine secretion @@ -4838,6 +4997,7 @@ replaced_by: PO:0004531 [Term] id: CL:0000456 name: mineralocorticoid secreting cell +def: "Any secretory cell that is capable of some mineralocorticoid secretion." [FBC:Autogenerated] is_a: CL:0000174 ! steroid hormone secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0035931 ! mineralocorticoid secretion @@ -4846,6 +5006,7 @@ relationship: capable_of GO:0035931 ! mineralocorticoid secretion [Term] id: CL:0000457 name: biogenic amine secreting cell +xref: ZFA:0009212 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell [Term] @@ -4854,6 +5015,7 @@ name: serotonin secreting cell def: "A cell type that secretes 5-Hydroxytryptamine (serotonin)." [GOC:tfm, PMID:19630576] synonym: "5-HT secreting cell" EXACT [] synonym: "5-Hydroxytryptamine secreting cell" EXACT [] +xref: ZFA:0009213 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000457 ! biogenic amine secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0001820 ! serotonin secretion @@ -4866,6 +5028,7 @@ def: "A cell capable of producting norepiniphrine. Norepiniphrine is a catechola synonym: "noradrenaline secreting cell" EXACT [] synonym: "norepinephrin secreting cell" EXACT [] synonym: "norepinephrine secreting cell" EXACT [] +xref: ZFA:0009214 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000457 ! biogenic amine secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0048243 ! norepinephrine secretion @@ -4874,6 +5037,8 @@ relationship: capable_of GO:0048243 ! norepinephrine secretion [Term] id: CL:0000460 name: glucocorticoid secreting cell +def: "Any secretory cell that is capable of some glucocorticoid secretion." [FBC:Autogenerated] +xref: ZFA:0009215 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000174 ! steroid hormone secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0035933 ! glucocorticoid secretion @@ -4883,7 +5048,7 @@ relationship: capable_of GO:0035933 ! glucocorticoid secretion id: CL:0000462 name: adepithelial cell def: "A cell of mesodermal origin that is closely associated with the epithelium of an imaginal disc. It is a precursor of some of the insect's adult muscles." [doi:10.1016/S0925-4773(97)00654-0] -xref: FBbt:00003219 +xref: FBbt:00003219 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000255 ! eukaryotic cell is_a: CL:0000680 ! muscle precursor cell relationship: RO:0002160 NCBITaxon:50557 ! only in taxon Insecta @@ -4893,7 +5058,7 @@ id: CL:0000463 name: epidermal cell (sensu Arthropoda) def: "An epidermal cell that secretes chitinous cuticle from its apical side." [FlyBase:ds, ISBN:ISBN\:978-0801481253] comment: While insect epidermis is generally columnar/cuboidal, there are certainly well studied cases where it is not (e.g.- Rhodnius prolixus when starved). So it would be safer to add this as a differentium for particular species where this is known. -DSJ. -xref: FBbt:00007325 +xref: FBbt:00007325 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000255 ! eukaryotic cell is_a: CL:0000362 ! epidermal cell is_a: CL:0000710 ! neurecto-epithelial cell @@ -4904,7 +5069,7 @@ relationship: RO:0002202 CL:0000464 ! develops from epidermoblast id: CL:0000464 name: epidermoblast def: "An epidermal progenitor cell that arises from neuroectoderm and in turn gives rise to the epidermal sheath of ventral and cephalic regions." [GOC:tfm, PMID:7576311] -xref: FBbt:00004994 +xref: FBbt:00004994 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0000710 ! neurecto-epithelial cell relationship: RO:0002202 CL:0000114 ! develops from surface ectodermal cell @@ -4913,7 +5078,7 @@ relationship: RO:0002202 CL:0000114 ! develops from surface ectodermal cell id: CL:0000465 name: cardioblast (sensu Arthropoda) def: "A precursor of the cells that form the dorsal vessel of arthropods." [doi:10.1007/BF00360522] -xref: FBbt:00001666 +xref: FBbt:00001666 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000255 ! eukaryotic cell is_a: CL:0010021 ! cardiac myoblast relationship: RO:0002160 NCBITaxon:6656 ! only in taxon Arthropoda @@ -4928,6 +5093,7 @@ synonym: "adrenocorticotrophic hormone secreting cell" EXACT [] synonym: "corticotrophin hormone secreting cell" EXACT [] synonym: "corticotropin hormone secreting cell" EXACT [] synonym: "corticotropin secreting cell" EXACT [GO:0051458] +xref: ZFA:0009216 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000167 ! peptide hormone secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0051458 ! corticotropin secretion @@ -4939,7 +5105,7 @@ name: neuroglioblast (sensu Nematoda and Protostomia) def: "A precursor of the central nervous system that gives rise to both neurons and glial cells." [doi:10.1002/glia.21162] synonym: "neuro-glioblast" EXACT [] synonym: "neuroglioblast" EXACT [] -xref: FBbt:00005147 +xref: FBbt:00005147 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000047 ! neural stem cell is_a: CL:0000255 ! eukaryotic cell relationship: RO:0002160 NCBITaxon:33317 ! only in taxon Protostomia @@ -4948,13 +5114,15 @@ relationship: RO:0002160 NCBITaxon:33317 ! only in taxon Protostomia id: CL:0000469 name: ganglion mother cell def: "A neural progenitor cell that is the daughter of a neuroblast (sensu arthopoda). The progeny of ganglion mother cells develop into neurons, glia and (occasionally) epithelial cells." [] -xref: FBbt:00005149 +xref: FBbt:00005149 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} +is_a: BFO:0000002 is_a: CL:0011020 ! neural progenitor cell relationship: RO:0002202 CL:0000338 ! develops from neuroblast (sensu Nematoda and Protostomia) [Term] id: CL:0000470 name: digestive enzyme secreting cell +xref: ZFA:0009217 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000154 ! protein secreting cell [Term] @@ -4975,7 +5143,7 @@ id: CL:0000474 name: pericardial nephrocyte def: "An insect renal cell that filters hemolymph and is found with other pericardial nephrocytes in two rows flanking the dorsal vessel." [FBbt:00003184, GO:0061320, GOC:tfm, PMID:19783135] synonym: "pericardial cell" NARROW [FBbt:00005058, GO:0061320] -xref: FBbt:00005058 +xref: FBbt:00005058 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000519 ! phagocyte (sensu Nematoda and Protostomia) is_a: CL:0002520 ! nephrocyte @@ -4995,6 +5163,7 @@ synonym: "thyroid stimulating hormone secreting cell" EXACT [] synonym: "thyrotrope" EXACT [] xref: FMA:83099 xref: MESH:D052684 +xref: ZFA:0009218 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000639 ! basophil cell of pars distalis of adenohypophysis relationship: capable_of GO:0070460 ! thyroid-stimulating hormone secretion @@ -5004,7 +5173,8 @@ name: follicle cell of egg chamber def: "A somatic epithelial cell of the insect egg chamber." [] synonym: "follicle cell" BROAD [] synonym: "ovarian follicle cell" BROAD [] -xref: FBbt:00004904 +xref: FBbt:00004904 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} +is_a: BFO:0000002 is_a: CL:0000255 ! eukaryotic cell is_a: CL:0000500 ! follicular epithelial cell is_a: CL:2000064 ! ovarian surface epithelial cell @@ -5039,7 +5209,7 @@ is_a: CL:0000167 ! peptide hormone secreting cell id: CL:0000482 name: juvenile hormone secreting cell def: "An endocrine cell that secretes juvenile hormone." [GO:tfm] -xref: FBbt:00058020 +xref: FBbt:00058020 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000151 ! secretory cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0045443 ! juvenile hormone secretion @@ -5089,7 +5259,7 @@ name: garland cell def: "A large binucleate cell that forms a 'garland' around the anterior end of the proventriculus (cardia) at its junction with the esophagus in both adults and larvae flies. Each cell is surrounded by a basement membrane and there are numerous micro-invaginations (lacunae) extending from the surface into the cytoplasm. At the mouth of each lacuna is a doubled filament forming a specialised filtration system (diaphragm). The filtrate is endocytosed from the lacunae." [fbbt:00005059, GOC:tfm, PMID:19783135] synonym: "garland nephrocyte" BROAD [GO:0061321] xref: BTO:0004596 -xref: FBbt:00005059 +xref: FBbt:00005059 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000227 ! binucleate cell is_a: CL:0000519 ! phagocyte (sensu Nematoda and Protostomia) is_a: CL:0002520 ! nephrocyte @@ -5099,7 +5269,7 @@ id: CL:0000487 name: oenocyte def: "A secretory cell of ectodermal origin. This cell may have important functions in fatty acid and hydrocarbon metabolism and is metabolically linked to the fat body and tracheae. This cell is exclusive of arthropods." [GOC:bf, https://www.merriam-webster.com/dictionary/oenocyte, PMID:11171397, PMID:24397521, PMID:34208190] comment: Oenocytes are highly variable in size, shape, cluster formation and anatomical location. In adults, oenocytes tend to be smaller but more numerous than in larvae. While oenocytes have been found in arachnids and crustaceans, they have been most abundantly described in insects. {xref="PMID:34208190", xref="PMID:24397521"} -xref: FBbt:00004995 +xref: FBbt:00004995 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000151 ! secretory cell is_a: CL:0000255 ! eukaryotic cell relationship: RO:0002160 NCBITaxon:6656 ! only in taxon Arthropoda @@ -5108,6 +5278,7 @@ relationship: RO:0002160 NCBITaxon:6656 ! only in taxon Arthropoda id: CL:0000488 name: visible light photoreceptor cell def: "A photoreceptor cell that detects visible light." [GOC:tfm] +xref: ZFA:0009219 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000210 ! photoreceptor cell intersection_of: CL:0000210 ! photoreceptor cell intersection_of: capable_of GO:0009584 ! detection of visible light @@ -5121,6 +5292,7 @@ is_a: CL:0000210 ! photoreceptor cell [Term] id: CL:0000490 name: photopic photoreceptor cell +xref: ZFA:0009220 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000488 ! visible light photoreceptor cell [Term] @@ -5161,6 +5333,7 @@ is_obsolete: true id: CL:0000494 name: UV sensitive photoreceptor cell def: "A photoreceptor cell that detects ultraviolet light." [GOC:tfm] +xref: ZFA:0009221 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000210 ! photoreceptor cell intersection_of: CL:0000210 ! photoreceptor cell intersection_of: capable_of GO:0009589 ! detection of UV @@ -5170,18 +5343,21 @@ relationship: capable_of GO:0009589 ! detection of UV id: CL:0000495 name: blue sensitive photoreceptor cell def: "A photoreceptor cell that is sensitive to blue light." [GO:tfm] +xref: ZFA:0009222 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000490 ! photopic photoreceptor cell [Term] id: CL:0000496 name: green sensitive photoreceptor cell def: "A photoreceptor cell that is sensitive to green light." [GO:tfm] +xref: ZFA:0009223 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000490 ! photopic photoreceptor cell [Term] id: CL:0000497 name: red sensitive photoreceptor cell def: "A photoreceptor cell that is sensitive to red light." [GO:tfm] +xref: ZFA:0009224 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000490 ! photopic photoreceptor cell [Term] @@ -5190,6 +5366,7 @@ name: inhibitory interneuron def: "An interneuron (also called relay neuron, association neuron or local circuit neuron) is a multipolar neuron which connects afferent neurons and efferent neurons in neural pathways. Like motor neurons, interneuron cell bodies are always located in the central nervous system (CNS)." [GOC:tfm, http://en.wikipedia.org/wiki/Interneuron] subset: cellxgene_subset xref: FMA:84776 +xref: ZFA:0009225 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000099 ! interneuron [Term] @@ -5201,6 +5378,8 @@ subset: general_cell_types_upper_slim subset: human_reference_atlas xref: BTO:0002064 xref: FMA:83624 +xref: ZFA:0009226 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0002320 ! connective tissue cell relationship: RO:0002202 CL:0000134 ! develops from mesenchymal stem cell property_value: RO:0002175 NCBITaxon:9606 @@ -5220,6 +5399,7 @@ synonym: "granulosa cell of ovary" EXACT [] xref: BTO:0000542 xref: CALOHA:TS-0729 xref: FMA:18718 +xref: ZFA:0009227 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000174 ! steroid hormone secreting cell is_a: CL:0002174 ! follicular cell of ovary @@ -5230,6 +5410,7 @@ def: "A cell found throughout the gastrointestinal tract and in the pancreas. Th subset: cellxgene_subset synonym: "D cell" EXACT [] xref: FMA:62935 +xref: ZFA:0009228 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0000172 ! somatostatin secreting cell @@ -5240,6 +5421,7 @@ def: "A flattened stroma cell forming a sheath or theca outside the basal lamina subset: cellxgene_subset subset: human_reference_atlas xref: BTO:0002850 +xref: ZFA:0009229 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000593 ! androgen secreting cell is_a: CL:0002132 ! stromal cell of ovary relationship: part_of UBERON:0001305 ! ovarian follicle @@ -5259,18 +5441,21 @@ is_a: CL:0002274 ! histamine secreting cell id: CL:0000505 name: substance P secreting cell def: "A peptide hormone secreting cell that secretes substance P." [GO:tfm] +xref: ZFA:0009230 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0000506 name: enkephalin secreting cell def: "An endorphine cell that secretes enkephalin." [GO:tfm] +xref: ZFA:0009231 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000507 ! endorphin secreting cell [Term] id: CL:0000507 name: endorphin secreting cell def: "A peptide hormone secreting cell that secretes endorphin." [GO:tfm] +xref: ZFA:0009232 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000167 ! peptide hormone secreting cell [Term] @@ -5317,6 +5502,7 @@ is_a: CL:0000154 ! protein secreting cell id: CL:0000512 name: paracrine cell def: "A paracrine cell is a secretory cell that secretes an agonist into intercellular spaces in which it diffuses to a target cell other than that which produced it." [GOC:tfm, ISBN:0198529171] +xref: ZFA:0009233 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell [Term] @@ -5328,6 +5514,7 @@ subset: cellxgene_subset synonym: "cardiac muscle progenitor cell" EXACT [] synonym: "cardiomyocyte progenitor cell" EXACT [] xref: FMA:84797 +xref: ZFA:0009234 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002494 ! cardiocyte is_a: CL:0010021 ! cardiac myoblast intersection_of: CL:0000056 ! myoblast @@ -5343,6 +5530,7 @@ subset: cellxgene_subset synonym: "myoblast, smooth muscle" EXACT [MESH:D032390] synonym: "satellite cell" RELATED [] xref: FMA:84798 +xref: ZFA:0009235 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000056 ! myoblast intersection_of: CL:0000056 ! myoblast intersection_of: RO:0002203 CL:0000192 ! develops into smooth muscle cell @@ -5354,6 +5542,7 @@ name: skeletal muscle myoblast def: "A myoblast that differentiates into skeletal muscle fibers." [SANBI:mhl] synonym: "skeletal myoblast" EXACT [] xref: FMA:84799 +xref: ZFA:0009236 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000056 ! myoblast is_a: CL:0011026 ! progenitor cell intersection_of: CL:0000056 ! myoblast @@ -5365,18 +5554,22 @@ relationship: RO:0002203 CL:0008002 ! develops into skeletal muscle fiber id: CL:0000516 name: perineuronal satellite cell def: "A non-neuronal cell that surrounds the neuronal cell bodies of the ganglia." [GOC:tfm, MESH:D027161] +subset: human_reference_atlas synonym: "perineural satellite cell" EXACT [] synonym: "perineuronal satellite oligodendroglial cell" EXACT [] synonym: "satellite oligodendrocyte" EXACT [] xref: FMA:54550 +xref: ZFA:0009237 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000123 ! neuron associated cell (sensu Vertebrata) relationship: RO:0002202 CL:0000339 ! develops from glioblast (sensu Vertebrata) +property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000517 name: macrophage derived foam cell def: "A type of foam cell derived from a macrophage containing lipids in small vacuoles and typically seen in atherolosclerotic lesions, as well as other conditions." [GOC:add, PMID:20213546] synonym: "lipophage" EXACT [] +is_a: BFO:0000002 is_a: CL:0000891 ! foam cell relationship: RO:0002202 CL:0000235 ! develops from macrophage @@ -5405,6 +5598,7 @@ property_value: RO:0002161 NCBITaxon:2759 [Term] id: CL:0000521 name: fungal cell +def: "Any cell that only exists in Fungi." [FBC:Autogenerated] is_a: CL:0000255 ! eukaryotic cell intersection_of: CL:0000000 ! cell intersection_of: RO:0002160 NCBITaxon:4751 ! only in taxon Fungi @@ -5458,6 +5652,7 @@ def: "A neuron which conveys sensory information centrally from the periphery." subset: human_reference_atlas synonym: "input neuron" EXACT [] xref: FMA:87653 +xref: ZFA:0009238 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000540 ! neuron property_value: RO:0002175 NCBITaxon:9606 @@ -5466,6 +5661,7 @@ id: CL:0000527 name: efferent neuron def: "A neuron which sends impulses peripherally to activate muscles or secretory cells." [MESH:D009476] synonym: "output neuron" EXACT [] +xref: ZFA:0009239 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000540 ! neuron [Term] @@ -5473,18 +5669,22 @@ id: CL:0000528 name: nitrergic neuron def: "A nerve cell where transmission is mediated by nitric oxide." [MESH:D026602] xref: FMA:84792 +xref: ZFA:0009240 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000540 ! neuron [Term] id: CL:0000529 name: pigmented epithelial cell subset: cellxgene_subset +xref: ZFA:0009241 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000710 ! neurecto-epithelial cell [Term] id: CL:0000530 name: primary neuron (sensu Teleostei) def: "A neuron that develops during the early segmentation stages in teleosts, before the neural tube is formed." [doi:10.1242/dev.108.1.121, PMID:1842357] +xref: ZFA:0009242 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000255 ! eukaryotic cell is_a: CL:0000540 ! neuron relationship: RO:0002160 NCBITaxon:32443 {IAO:0000233="https://github.com/obophenotype/cell-ontology/pull/1950"} ! only in taxon Teleostei @@ -5502,12 +5702,14 @@ intersection_of: CL:0000530 ! primary neuron (sensu Teleostei) [Term] id: CL:0000532 name: CAP motoneuron +xref: ZFA:0009243 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000533 ! primary motor neuron (sensu Teleostei) [Term] id: CL:0000533 name: primary motor neuron (sensu Teleostei) def: "A primary neuron (sensu Teleostei) that has a motor function." [PMID:1842357] +xref: ZFA:0009244 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000100 ! motor neuron is_a: CL:0000530 ! primary neuron (sensu Teleostei) @@ -5515,6 +5717,7 @@ is_a: CL:0000530 ! primary neuron (sensu Teleostei) id: CL:0000534 name: primary interneuron (sensu Teleostei) def: "A primary neuron (sensu Teleostei) that is neither a sensory neuron or a motor neuron." [PMID:1842357] +xref: ZFA:0009245 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000099 ! interneuron is_a: CL:0000530 ! primary neuron (sensu Teleostei) @@ -5522,6 +5725,8 @@ is_a: CL:0000530 ! primary neuron (sensu Teleostei) id: CL:0000535 name: secondary neuron (sensu Teleostei) def: "A neuron of teleosts that develops later than a primary neuron, typically during the larval stages." [doi:10.1242/dev.108.1.121, PMID:1842357] +xref: ZFA:0009246 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000255 ! eukaryotic cell is_a: CL:0000540 ! neuron relationship: RO:0002160 NCBITaxon:32443 {IAO:0000233="https://github.com/obophenotype/cell-ontology/pull/1950"} ! only in taxon Teleostei @@ -5530,6 +5735,7 @@ relationship: RO:0002160 NCBITaxon:32443 {IAO:0000233="https://github.com/obophe id: CL:0000536 name: secondary motor neuron (sensu Teleostei) def: "A secondary neuron (sensu Teleostei) that has a motor function." [PMID:1842357] +xref: ZFA:0009247 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000100 ! motor neuron is_a: CL:0000535 ! secondary neuron (sensu Teleostei) intersection_of: CL:0000100 ! motor neuron @@ -5566,10 +5772,11 @@ subset: human_reference_atlas synonym: "nerve cell" EXACT [] xref: BTO:0000938 xref: CALOHA:TS-0683 -xref: FBbt:00005106 +xref: FBbt:00005106 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:54527 xref: VHOG:0001483 xref: WBbt:0003679 +xref: ZFA:0009248 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000393 ! electrically responsive cell is_a: CL:0000404 ! electrically signaling cell is_a: CL:0002319 ! neural cell @@ -5585,6 +5792,7 @@ def: "A cell that originates from the neural crest and differentiates into a pig comment: Derived from UBERON:0002342 neural crest. xref: BTO:0003217 xref: FMA:83377 +xref: ZFA:0009249 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0011026 ! progenitor cell relationship: RO:0002202 CL:0000333 ! develops from migratory neural crest cell @@ -5601,8 +5809,8 @@ xref: CALOHA:TS-0583 xref: FMA:62863 xref: MESH:D008214 xref: VHOG:0001535 +xref: ZFA:0009250 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000842 ! mononuclear cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000738 ! leukocyte intersection_of: bearer_of PATO:0001407 ! mononucleate intersection_of: bearer_of PATO:0040072 ! high nuclear/cytoplasmic ratio @@ -5698,7 +5906,6 @@ synonym: "rubriblast" EXACT [ISBN:0721601464] xref: FMA:83518 is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell is_a: CL:0002242 ! nucleate cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: bearer_of PATO:0002505 ! nucleated intersection_of: bearer_of PATO:0040072 ! high nuclear/cytoplasmic ratio @@ -5754,8 +5961,8 @@ synonym: "early erythroblast" EXACT [ISBN:0721601464] synonym: "early normoblast" EXACT [ISBN:0721601464] synonym: "prorubricyte" EXACT [ISBN:0721601464] xref: FMA:83505 +xref: ZFA:0005236 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000765 {is_inferred="true"} ! erythroblast -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000765 ! erythroblast intersection_of: has_part CL:0017503 ! basophilic cytoplasm intersection_of: has_part GO:0000792 ! heterochromatin @@ -5775,8 +5982,8 @@ synonym: "polychromatic normoblast" EXACT [ISBN:0721601464] synonym: "polychromatophilic normoblast" EXACT [ISBN:0721601464] synonym: "rubricyte" EXACT [ISBN:0721601464] xref: FMA:83506 +xref: ZFA:0005241 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000765 {is_inferred="true"} ! erythroblast -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000765 ! erythroblast intersection_of: has_part CL:0017504 ! polychromatophilic cytoplasm intersection_of: has_part GO:0000792 ! heterochromatin @@ -5910,11 +6117,11 @@ synonym: "GMP" RELATED OMO:0003000 [ISBN:0721601464, PMCID:PMC2213186, PMCID:PMC synonym: "granulocyte-macrophage progenitor" EXACT [ISBN:0721601464, PMCID:PMC2213186, PMCID:PMC548021] synonym: "granulocyte/monocyte precursor" EXACT [] synonym: "granulocyte/monocyte progenitor" EXACT [] +xref: ZFA:0009251 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0001012 ! CD7-negative lymphoid progenitor OR granulocyte monocyte progenitor is_a: CL:0011026 ! progenitor cell is_a: CL:1001610 ! bone marrow hematopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002032 ! hematopoietic oligopotent progenitor cell intersection_of: capable_of GO:0030225 ! macrophage differentiation intersection_of: capable_of GO:0030851 ! granulocyte differentiation @@ -5942,8 +6149,8 @@ subset: cellxgene_subset xref: BTO:0001173 xref: CALOHA:TS-0864 xref: MESH:D012156 +xref: ZFA:0009252 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: capable_of GO:0071971 ! extracellular exosome assembly intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -5982,9 +6189,9 @@ subset: cellxgene_subset subset: human_reference_atlas xref: BTO:0004657 xref: FMA:83551 +xref: ZFA:0009253 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0002194 {is_inferred="true"} ! monopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002194 ! monopoietic cell intersection_of: capable_of GO:0030224 ! monocyte differentiation intersection_of: has_part GO:0042582 ! azurophil granule @@ -6004,6 +6211,7 @@ synonym: "band cell" BROAD [] synonym: "band form" BROAD [] synonym: "rod neutrophil" EXACT [] synonym: "stab cell" BROAD [] +xref: ZFA:0009254 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000096 {is_inferred="true"} ! mature neutrophil intersection_of: CL:0000096 ! mature neutrophil intersection_of: CL:4030045 PR:000009978 ! lacks_part lactotransferrin @@ -6039,6 +6247,8 @@ synonym: "ACs" RELATED OMO:0003004 [doi:10.1038/s41598-020-66092-9] synonym: "amacrine neuron" EXACT [] xref: BTO:0004044 xref: FMA:67766 +xref: ZFA:0009255 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000099 ! interneuron is_a: CL:0009004 ! retinal cell relationship: part_of UBERON:0000966 ! retina @@ -6052,6 +6262,7 @@ name: nucleate erythrocyte def: "An erythrocyte having a nucleus." [GOC:add, GOc:tfm] synonym: "RBC" BROAD [] synonym: "red blood cell" BROAD [] +xref: ZFA:0009256 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000232 {is_inferred="true"} ! erythrocyte is_a: CL:0002242 ! nucleate cell intersection_of: CL:0000232 ! erythrocyte @@ -6074,6 +6285,7 @@ comment: These cells are CD11b-negative, CD15-positive, CD16-negative, CD49d-pos synonym: "neutrophilic premyelocyte" EXACT [] synonym: "neutrophilic progranulocyte" EXACT [] xref: FMA:84196 +xref: ZFA:0009257 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000834 ! neutrophil progenitor cell is_a: CL:0000836 {is_inferred="true"} ! promyelocyte intersection_of: CL:0000836 ! promyelocyte @@ -6105,9 +6317,9 @@ def: "A mesenchymal stem cell capable of developing into blood vessel endotheliu comment: These cells are reportedly CD31-positive, CD34-positive, CD144-positive, CD309-positive, and TAL1-positive. synonym: "angioblast" EXACT [] synonym: "chondroplast" EXACT [] +xref: ZFA:0009258 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000134 {is_inferred="true"} ! mesenchymal stem cell is_a: CL:0011026 ! progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000134 ! mesenchymal stem cell intersection_of: RO:0002104 PR:000001444 ! has plasma membrane part cadherin-5 intersection_of: RO:0002104 PR:000002112 ! has plasma membrane part vascular endothelial growth factor receptor 2 @@ -6137,6 +6349,7 @@ id: CL:0000569 name: cardiac mesenchymal cell def: "A mesenchymal cell found in the developing heart and that develops into some part of the heart. These cells derive from intra- and extra-cardiac sources, including the endocardium, epicardium, neural crest, and second heart field." [PMID:18816864] subset: cellxgene_subset +xref: ZFA:0009259 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008019 ! mesenchymal cell is_a: CL:2000073 ! migratory cardiac neural crest cell intersection_of: CL:0008019 ! mesenchymal cell @@ -6154,10 +6367,10 @@ synonym: "parafollicular cell of thyroid gland" EXACT [FMA:68653] synonym: "thyroid parafollicular cell" EXACT [FMA:68653] xref: FMA:68653 xref: SCTID:176770005 +xref: ZFA:0009260 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000443 {is_inferred="true"} ! calcitonin secreting cell is_a: CL:0000458 ! serotonin secreting cell is_a: CL:0000710 {is_inferred="true"} ! neurecto-epithelial cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000710 ! neurecto-epithelial cell intersection_of: capable_of GO:0001820 ! serotonin secretion intersection_of: capable_of GO:0014046 ! dopamine secretion @@ -6172,6 +6385,8 @@ relationship: RO:0002202 CL:0000333 ! develops from migratory neural crest cell id: CL:0000571 name: leucophore def: "A pigment cell derived from the neural crest. Contains uric acid or other purine crystals deposited in stacks called leucosomes. The crystals reflect light and this gives a white appearance under white light." [SANBI:mhl] +xref: ZFA:0009261 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000147 ! pigment cell relationship: RO:0002202 CL:0005003 ! develops from leucoblast @@ -6185,6 +6400,7 @@ synonym: "cone" RELATED [doi:10.1038/s41598-020-66092-9] xref: BTO:0001036 xref: CALOHA:TS-0866 xref: FMA:67748 +xref: ZFA:0009262 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0010009 ! camera-type eye photoreceptor cell relationship: RO:0002202 CL:0002672 ! develops from retinal progenitor cell property_value: RO:0002175 NCBITaxon:9606 @@ -6193,6 +6409,8 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000574 name: erythrophore def: "A pigment cell derived from the neural crest. Contains pteridine and/or carotenoid pigments in structures called pterinosomes or erythrosomes. This gives an orange to red appearance." [SANBI:mhl] +xref: ZFA:0009263 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000147 ! pigment cell relationship: RO:0002202 CL:0005004 ! develops from pigment erythroblast @@ -6208,6 +6426,7 @@ synonym: "epithelial cell of cornea" EXACT [FMA:70551] xref: BTO:0004298 xref: CALOHA:TS-0173 xref: FMA:70551 +xref: ZFA:0009264 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000076 ! squamous epithelial cell is_a: CL:0002159 ! general ecto-epithelial cell intersection_of: CL:0000076 ! squamous epithelial cell @@ -6227,6 +6446,7 @@ subset: human_reference_atlas xref: BTO:0000876 xref: CALOHA:TS-0638 xref: FMA:62864 +xref: ZFA:0009265 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000113 ! mononuclear phagocyte is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte is_a: CL:0011026 ! progenitor cell @@ -6273,7 +6493,7 @@ is_a: CL:0001034 ! cell in vitro id: CL:0000579 name: border follicle cell def: "A follicle cell that migrates from the anterior pole of the insect egg chamber to the anterior of the oocyte where they participate in the formation of the micropyle." [FBbt:00004905] -xref: FBbt:00004905 +xref: FBbt:00004905 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000477 ! follicle cell of egg chamber [Term] @@ -6283,6 +6503,7 @@ def: "A neutrophil precursor in the granulocytic series, being a cell intermedia comment: These cells are also CD15-positive, CD35-negative, CD49d-positive, and fMLP receptor-negative. They are found in the Band 2 fraction. xref: BTO:0003455 xref: FMA:83540 +xref: ZFA:0009266 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000776 {is_inferred="true"} ! immature neutrophil is_a: CL:0002087 ! nongranular leukocyte is_a: CL:0002193 ! myelocyte @@ -6324,8 +6545,8 @@ def: "A macrophage resident in the peritoneum under non-inflammatory conditions. comment: Markers: Mouse: F4/80-high, CD11b-high, CD68+, SIGNR1+, Dectin-1+. xref: BTO:0001034 xref: FMA:83025 +xref: ZFA:0009267 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000864 {is_inferred="true"} ! tissue-resident macrophage -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000864 ! tissue-resident macrophage intersection_of: capable_of GO:0042742 ! defense response to bacterium intersection_of: CL:4030046 GO:0042613 ! lacks_plasma_membrane_part MHC class II protein complex @@ -6353,6 +6574,7 @@ def: "A neutrophil precursor in the granulocytic series, being a cell intermedia comment: These cells are also CD35-negative, CD49d-positive, and fMLP receptor-negative. They are found in the Band 2 fraction. synonym: "juvenile neutrophil" EXACT [] xref: FMA:84197 +xref: ZFA:0009268 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000776 {is_inferred="true"} ! immature neutrophil is_a: CL:0002192 ! metamyelocyte intersection_of: CL:0000776 ! immature neutrophil @@ -6407,7 +6629,6 @@ xref: CALOHA:TS-0030 xref: FMA:83023 is_a: CL:0000864 {is_inferred="true"} ! tissue-resident macrophage is_a: CL:1001603 ! lung macrophage -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000864 ! tissue-resident macrophage intersection_of: capable_of GO:0019882 ! antigen processing and presentation intersection_of: CL:4030046 PR:000001206 ! lacks_plasma_membrane_part CX3C chemokine receptor 1 @@ -6441,6 +6662,7 @@ synonym: "mature enterocyte" NARROW [https://orcid.org/0000-0001-9610-7627, PMID xref: BTO:0000398 xref: FMA:62122 xref: MESH:D020895 +xref: ZFA:0009269 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000239 ! brush border epithelial cell is_a: CL:0000677 ! gut absorptive cell is_a: CL:0002563 ! intestinal epithelial cell @@ -6477,6 +6699,7 @@ name: odontoclast def: "A specialized osteoclast associated with the absorption and removal of cementum." [GOC:add] xref: BTO:0002516 xref: FMA:83027 +xref: ZFA:0009270 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000092 {is_inferred="true"} ! osteoclast intersection_of: CL:0000092 ! osteoclast intersection_of: capable_of GO:0042483 ! negative regulation of odontogenesis @@ -6523,6 +6746,7 @@ relationship: RO:0002202 CL:0000501 ! develops from granulosa cell id: CL:0000593 name: androgen secreting cell def: "A steroid hormone secreting cell that secretes androgen." [GOC:tfm] +xref: ZFA:0009271 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000174 ! steroid hormone secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0035935 ! androgen secretion @@ -6534,6 +6758,7 @@ name: skeletal muscle satellite cell def: "An elongated, spindle-shaped, cell that is located between the basal lamina and the plasmalemma of a muscle fiber. These cells are mostly quiescent, but upon activation they divide to produce cells that generate new muscle fibers." [GOC:tfm, MESH:D032496, PMID:21849021, PMID:23303905] comment: Skeletal muscle satellite cells are not traditionally referred to as myoblasts. They are a heterogeneous population whose division, following activiation, contributes to the formation of skeletal muscle fibers and to maintenance of the skeletal muscle statelite cell population. subset: cellxgene_subset +xref: ZFA:0009272 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000188 ! cell of skeletal muscle is_a: CL:0000680 ! muscle precursor cell @@ -6577,6 +6802,7 @@ xref: BTO:0003102 xref: FMA:67310 xref: FMA:86775 xref: NIFSTD:sao862606388 +xref: ZFA:0009273 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000104 ! multipolar neuron intersection_of: CL:0000540 ! neuron intersection_of: bearer_of PATO:0070015 ! pyramidal family morphology @@ -6609,6 +6835,7 @@ is_a: CL:4023120 ! cochlea auditory hair cell id: CL:0000602 name: pressoreceptor cell def: "A receptor in the vascular system, particularly the aorta and carotid sinus, which is sensitive to stretch of the vessel walls." [MESH:D011311] +xref: ZFA:0009274 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:1000082 ! stretch receptor cell [Term] @@ -6628,6 +6855,7 @@ synonym: "rod" RELATED [doi:10.1038/s41598-020-66092-9] xref: BTO:0001024 xref: CALOHA:TS-0870 xref: FMA:67747 +xref: ZFA:0009275 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0010009 ! camera-type eye photoreceptor cell relationship: RO:0002202 CL:0002672 ! develops from retinal progenitor cell property_value: RO:0002175 NCBITaxon:9606 @@ -6679,6 +6907,7 @@ consider: PO:0009002 [Term] id: CL:0000611 name: eosinophil progenitor cell +def: "Any granulocytopoietic cell that has part some transcription factor PU.1 and has part some CCAAT/enhancer-binding protein alpha and has part some erythroid transcription factor and lacks plasma membrane part some CD19 molecule and lacks plasma membrane part some CD4 molecule and lacks plasma membrane part some integrin alpha-M and lacks plasma membrane part some CD3 epsilon and lacks plasma membrane part some neural cell adhesion molecule 1 and lacks plasma membrane part some CD2 molecule and lacks plasma membrane part some T-cell surface glycoprotein CD8 alpha chain and lacks plasma membrane part some membrane-spanning 4-domains subfamily A member 1 and lacks plasma membrane part some T-cell surface glycoprotein CD5 and lacks plasma membrane part some CD14 molecule and lacks plasma membrane part some lymphocyte antigen 6G and lacks plasma membrane part some lymphocyte antigen 76 (mouse) and has plasma membrane part some CD34 molecule and has plasma membrane part some ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 and has plasma membrane part some interleukin-3 receptor class 2 alpha chain and has plasma membrane part some interleukin-5 receptor subunit alpha and has plasma membrane part some mast/stem cell growth factor receptor and is capable of some eosinophil differentiation." [FBC:Autogenerated] comment: These cells are CD34-positive, CD45RA-negative, CD71-negative, and lineage-negative (CD2, CD3 epsilon, CD4, CD5, CD8a, CD14, CD19, CD20, integrin alpha-M, NCAM-1, SCA-1, Ly6G, Ly76). synonym: "CFU-Eo" RELATED OMO:0003000 [] synonym: "colony forming unit eosinophil" RELATED [] @@ -6686,7 +6915,6 @@ synonym: "EoP" RELATED OMO:0003000 [PMCID:PMC2212039, PMCID:PMC2626675] synonym: "eosinophil stem cell" RELATED [] is_a: CL:0000763 ! myeloid cell is_a: CL:0002191 {is_inferred="true"} ! granulocytopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002191 ! granulocytopoietic cell intersection_of: capable_of GO:0030222 ! eosinophil differentiation intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -6769,7 +6997,6 @@ synonym: "CFU-Bas" RELATED [] synonym: "colony forming unit basophil" RELATED [] is_a: CL:0000763 ! myeloid cell is_a: CL:0002191 {is_inferred="true"} ! granulocytopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002191 ! granulocytopoietic cell intersection_of: capable_of GO:0030221 ! basophil differentiation intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -6858,10 +7085,11 @@ name: GABAergic neuron def: "A neuron that uses GABA as a vesicular neurotransmitter" [GOC:tfm] subset: cellxgene_subset synonym: "GABA-ergic neuron" EXACT [] -xref: FBbt:00007228 +xref: FBbt:00007228 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:84788 xref: MESH:D059330 xref: WBbt:0005190 +xref: ZFA:0009276 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell is_a: CL:0000540 ! neuron intersection_of: CL:0000540 ! neuron @@ -6901,6 +7129,7 @@ synonym: "acinic cell" EXACT [] synonym: "acinous cell" EXACT [] xref: FMA:83625 xref: MESH:D061354 +xref: ZFA:0009277 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000150 ! glandular epithelial cell is_a: CL:0000154 ! protein secreting cell relationship: part_of UBERON:0009842 ! glandular acinus @@ -6922,6 +7151,7 @@ xref: FMA:63147 xref: FMA:83601 xref: MESH:D007694 xref: VHOG:0001697 +xref: ZFA:0009278 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0001067 ! group 1 innate lymphoid cell intersection_of: CL:0001067 ! group 1 innate lymphoid cell intersection_of: capable_of GO:0002228 ! natural killer cell mediated immunity @@ -6978,6 +7208,7 @@ name: olfactory granule cell def: "A granule cell that has a soma located in an olfactory bulb granule cell layer. An olfactory granule cell is an interneuron that lacks an axon, makes reciprocal dendro-dendritic synapses with mitral cells and tufted cells and is involved in the fine spatio-temporal tuning of the responses of these principal olfactory bulb neurons to odors." [doi:10.1038/s41598-018-27692-8, GOC:mah] comment: Granule cells are the most abundant neuronal population in the olfactory bulb and are continuously renewed throughout life. {xref="doi:10.1038/s41598-018-27692-8"} synonym: "olfactory bulb granule cell" EXACT [doi:10.1038/s41598-018-27692-8] +xref: ZFA:0001694 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000120 ! granule cell is_a: CL:0012001 ! neuron of the forebrain is_a: CL:1001434 ! olfactory bulb interneuron @@ -7017,6 +7248,7 @@ def: "A cell whose primary function is to support other cell types." [FB:ma, GOC subset: cellxgene_subset synonym: "supportive cell" EXACT [] xref: BTO:0002315 +xref: ZFA:0009387 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -7041,9 +7273,9 @@ synonym: "vitamin A-storing cells" RELATED [PMID:12808230] xref: BTO:0002741 xref: CALOHA:TS-0452 xref: FMA:67763 +xref: ZFA:0009279 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000057 ! fibroblast is_a: CL:0000327 ! extracellular matrix secreting cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002320 ! connective tissue cell intersection_of: part_of UBERON:0002107 ! liver intersection_of: RO:0002104 PR:000007939 ! has plasma membrane part glial fibrillary acidic protein @@ -7090,6 +7322,7 @@ synonym: "Muller cell" EXACT MISSPELLING [doi:10.21769/BioProtoc.4179] synonym: "Muller glia" EXACT [] synonym: "Müller cell" EXACT [] xref: BTO:0003064 +xref: ZFA:0009280 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000681 ! radial glial cell is_a: CL:0009004 ! retinal cell relationship: part_of UBERON:0000966 ! retina @@ -7148,6 +7381,7 @@ synonym: "FS cell" RELATED OMO:0003000 [PMID:34734454] synonym: "FSC" RELATED OMO:0003000 [doi:10.23937/2572-407X.1510006] synonym: "pituitary folliculostellate cell" EXACT [PMID:34734454] synonym: "Sox2-positive stem cell" RELATED [PMID:34734454] +xref: ZFA:0009281 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000512 ! paracrine cell is_a: CL:0000630 ! supporting cell is_a: CL:2000004 ! pituitary gland cell @@ -7162,6 +7396,7 @@ subset: human_reference_atlas synonym: "Bergmann astrocyte" EXACT [] synonym: "Bergmann glial cell of cerebellum" EXACT [] xref: FMA:54559 +xref: ZFA:0009282 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000127 ! astrocyte property_value: RO:0002175 NCBITaxon:9606 @@ -7220,6 +7455,7 @@ synonym: "JG cell" EXACT [] synonym: "juxtaglomerular cell" BROAD [] synonym: "renin secreting cell" EXACT [] xref: FMA:84138 +xref: ZFA:0005238 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000154 ! protein secreting cell is_a: CL:0000192 ! smooth muscle cell is_a: CL:1000618 ! juxtaglomerular complex cell @@ -7253,6 +7489,8 @@ xref: BTO:0000853 xref: CALOHA:TS-0617 xref: FMA:70972 xref: MESH:D050527 +xref: ZFA:0009283 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000669 ! pericyte relationship: RO:0002202 CL:0000134 ! develops from mesenchymal stem cell @@ -7271,6 +7509,7 @@ name: pinealocyte def: "This cell type produces and secretes melatonin and forms the pineal parenchyma. Extending from each cell body, which has a spherical, oval or lobulated mucleus, are one or more tortuous basophilic processes, containing parallel microtubules known as synaptic ribbons. These processes end in expanded terminal buds near capillaries or less, frequently, ependymal cells of the pineal recess. The terminal buds contain granular endoplasmic reticulum, mitochondria and electron-dense cored vesicles, which store monoamines and polypeptide hormones, release of which appears to require sympathetic innervation." [GOC:tfm, http://en.wikipedia.org/wiki/Pinealocyte, ISBN:0517223651, PMID:16687276] xref: BTO:0001068 xref: FMA:83417 +xref: ZFA:0009284 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000163 ! endocrine cell is_a: CL:0000710 ! neurecto-epithelial cell is_a: CL:0002319 ! neural cell @@ -7290,6 +7529,7 @@ synonym: "kidney podocyte" EXACT [] synonym: "renal podocyte" EXACT [] xref: BTO:0002295 xref: FMA:70967 +xref: ZFA:0009285 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002522 ! renal filtration cell is_a: CL:1000450 ! epithelial cell of glomerular capsule intersection_of: CL:0000066 ! epithelial cell @@ -7346,7 +7586,7 @@ name: secondary spermatocyte def: "One of the two haploid cells into which a primary spermatocyte divides, and which in turn gives origin to spermatids." [GOC:tfm, ISBN:0721662544] xref: BTO:0000709 xref: CALOHA:TS-2195 -xref: FBbt:00004941 +xref: FBbt:00004941 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:72293 is_a: CL:0000017 ! spermatocyte is_a: CL:0000413 ! haploid cell @@ -7412,6 +7652,7 @@ id: CL:0000666 name: fenestrated cell subset: cellxgene_subset synonym: "window cell" EXACT [] +xref: ZFA:0009286 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell [Term] @@ -7419,6 +7660,7 @@ id: CL:0000667 name: collagen secreting cell def: "An extracellular matrix secreting cell that secretes collagen." [GOC:tfm] subset: cellxgene_subset +xref: ZFA:0009287 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000327 ! extracellular matrix secreting cell [Term] @@ -7446,6 +7688,7 @@ synonym: "pericyte cell" EXACT [] synonym: "pericyte of Rouget" EXACT [] xref: BTO:0002441 xref: FMA:63174 +xref: ZFA:0009112 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000183 ! contractile cell is_a: CL:0000630 ! supporting cell is_a: CL:0002320 ! connective tissue cell @@ -7460,6 +7703,7 @@ subset: cellxgene_subset synonym: "gonocyte" EXACT [] synonym: "primitive germ cell" EXACT [] xref: FMA:70567 +xref: ZFA:0009288 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000039 {is_inferred="true"} ! germ line cell is_a: CL:0000219 {is_inferred="true"} ! motile cell intersection_of: CL:0000039 ! germ line cell @@ -7472,7 +7716,7 @@ id: CL:0000671 name: centripetally migrating follicle cell def: "A follicle cell that migrates from the dorso-anterior part of the oocyte associated follicular epithelium, in between the nurse cells and the oocyte, and participates in the formation of the operculum." [PMID:36807509] synonym: "centripetal follicle cell" EXACT [] -xref: FBbt:00004906 +xref: FBbt:00004906 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000477 ! follicle cell of egg chamber [Term] @@ -7488,7 +7732,7 @@ name: Kenyon cell def: "An intrinsic neuron of the mushroom body of arthropods and annelids. They have tightly packed, cytoplasm-poor cell bodies." [doi:10.1016/S1467-8039(03)00009-4] synonym: "globuli cell" RELATED [] synonym: "mushroom body intrinsic neuron" BROAD [] -xref: FBbt:00003686 +xref: FBbt:00003686 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000028 ! CNS neuron (sensu Nematoda and Protostomia) relationship: part_of UBERON:0001058 ! mushroom body @@ -7498,7 +7742,7 @@ name: interfollicle cell def: "A follicle cell that is part of the stalk connecting adjacent egg chambers." [PMID:36531940] synonym: "stalk cell" EXACT [] synonym: "stalk follicle cell" EXACT [] -xref: FBbt:00004910 +xref: FBbt:00004910 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000477 ! follicle cell of egg chamber [Term] @@ -7519,6 +7763,7 @@ id: CL:0000677 name: gut absorptive cell def: "Cell of the intestinal epithelium with a brush border made up of many parallel packed microvilli; associated with absorption, particularly of macromolecules." [JB:jb] subset: cellxgene_subset +xref: ZFA:0009289 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell relationship: part_of UBERON:0001277 ! intestinal epithelium @@ -7533,8 +7778,9 @@ name: glutamatergic neuron def: "A neuron that is capable of some neurotansmission by glutamate secretion." [] subset: cellxgene_subset subset: human_reference_atlas -xref: FBbt:00100291 +xref: FBbt:00100291 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: WBbt:0006829 +xref: ZFA:0009290 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell is_a: CL:0000540 ! neuron intersection_of: CL:0000540 ! neuron @@ -7547,6 +7793,8 @@ id: CL:0000680 name: muscle precursor cell def: "A non-terminally differentiated cell that is capable of developing into a muscle cell." [GOC:add] subset: cellxgene_subset +xref: ZFA:0009291 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000055 ! non-terminally differentiated cell intersection_of: CL:0011115 ! precursor cell intersection_of: RO:0002203 CL:0000187 ! develops into muscle cell @@ -7560,6 +7808,7 @@ def: "A cell present in the developing CNS. Functions as both a precursor cell a comment: Unlike that of mammals, the brain of adult teleost fish exhibits an intense and widespread neurogenic activity as a result of the persistence of\nradial glial cells acting as neural progenitors throughout life. subset: cellxgene_subset synonym: "forebrain radial glial cell" NARROW [] +xref: ZFA:0009292 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000125 ! glial cell relationship: RO:0002202 CL:0000710 ! develops from neurecto-epithelial cell @@ -7575,6 +7824,7 @@ synonym: "M-cell" EXACT [] synonym: "microfold cell" EXACT [] xref: BTO:0003600 xref: FMA:62929 +xref: ZFA:0009293 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000473 ! defensive cell is_a: CL:0000627 ! transporting cell is_a: CL:0002251 ! epithelial cell of alimentary canal @@ -7587,6 +7837,7 @@ name: ependymoglial cell def: "A cell that transports hormones from neurosecretory cells. This nerve cell is characterized by bipolar shape and endfeet that contact a basal lamina around blood vessels, and/or the pia mater or vitreous body of the eye and additionally contact the ventricular surface or sub-retinal space." [http://neurolex.org/wiki/Category\:Ependymoglial_Cell, JB:jb] synonym: "ependymal astrocyte" EXACT [] xref: MESH:D063928 +xref: ZFA:0009294 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000127 ! astrocyte [Term] @@ -7606,6 +7857,7 @@ replaced_by: PO:0004010 id: CL:0000686 name: cerebrospinal fluid secreting cell def: "A columnar/cuboidal epithelial cell that secretes cerebrospinal fluid." [GOC:tfm] +xref: ZFA:0009295 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 {is_inferred="true"} ! secretory cell is_a: CL:0000710 ! neurecto-epithelial cell intersection_of: CL:0000151 ! secretory cell @@ -7617,6 +7869,7 @@ relationship: RO:0002202 CL:0000333 ! develops from migratory neural crest cell id: CL:0000687 name: R1 photoreceptor cell synonym: "R1 cell" EXACT [] +xref: FBbt:00004213 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000488 ! visible light photoreceptor cell is_a: CL:2000019 ! compound eye photoreceptor cell relationship: part_of UBERON:0000971 ! ommatidium @@ -7625,6 +7878,7 @@ relationship: part_of UBERON:0000971 ! ommatidium id: CL:0000688 name: perijunctional fibroblast def: "A fibroblast-like cell that provides support at neuromuscular junctions in vertebrates and are localized outside the synaptic basal lamina." [JB:jb] +xref: ZFA:0009296 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000057 ! fibroblast is_a: CL:0000630 ! supporting cell @@ -7638,6 +7892,7 @@ is_a: CL:0000163 ! endocrine cell id: CL:0000690 name: R2 photoreceptor cell synonym: "R2 cell" EXACT [] +xref: FBbt:00004215 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000488 ! visible light photoreceptor cell is_a: CL:2000019 ! compound eye photoreceptor cell relationship: part_of UBERON:0000971 ! ommatidium @@ -7645,7 +7900,9 @@ relationship: part_of UBERON:0000971 ! ommatidium [Term] id: CL:0000691 name: stellate interneuron +def: "Any interneuron that has characteristic some stellate morphology." [FBC:Autogenerated] subset: BDS_subset +xref: ZFA:0009297 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000099 ! interneuron is_a: CL:0000104 ! multipolar neuron intersection_of: CL:0000099 ! interneuron @@ -7656,7 +7913,11 @@ relationship: bearer_of PATO:0070010 ! stellate morphology id: CL:0000692 name: terminal Schwann cell def: "A neuroglial cell of the peripheral nervous system inside the basal lamina of the neuromuscular junction providing chemical and physical support to the synapse." [JB:jb, PMID:16136171] +synonym: "perisynaptic Schwann cell" EXACT [PMID:18803315] synonym: "Schwann cell" BROAD [] +synonym: "teloglia" EXACT [PMID:18803315] +synonym: "tSC" RELATED OMO:0003000 [PMID:18803315] +xref: ZFA:0009298 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000630 ! supporting cell is_a: CL:0002376 ! non-myelinating Schwann cell @@ -7668,6 +7929,7 @@ subset: BDS_subset synonym: "neuroglioform cell" EXACT [PMID:3235828] synonym: "NGF cell" EXACT [PMID:18568015] synonym: "spiderweb cell" EXACT [] +xref: ZFA:0009299 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000099 ! interneuron is_a: CL:0000104 ! multipolar neuron intersection_of: CL:0000099 ! interneuron @@ -7678,6 +7940,7 @@ relationship: bearer_of PATO:0070001 ! neurogliaform morphology id: CL:0000694 name: R3 photoreceptor cell synonym: "R3 cell" EXACT [] +xref: FBbt:00004217 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000488 ! visible light photoreceptor cell is_a: CL:2000019 ! compound eye photoreceptor cell relationship: part_of UBERON:0000971 ! ommatidium @@ -7690,6 +7953,7 @@ comment: While previously called 'pioneer neurons' of the marginal zone, Cajal-R subset: cellxgene_subset synonym: "CR cells" EXACT [WikipediaVersioned:Cajal–Retzius_cell&oldid=1032081753] synonym: "Horizontal cells of Cajal" EXACT [WikipediaVersioned:Cajal–Retzius_cell&oldid=1032081753] +xref: ZFA:0009300 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) is_a: CL:2000029 ! central nervous system neuron relationship: bearer_of PATO:0070006 ! cortical bipolar morphology @@ -7711,6 +7975,7 @@ is_a: CL:0000167 ! peptide hormone secreting cell id: CL:0000697 name: R4 photoreceptor cell synonym: "R4 cell" EXACT [] +xref: FBbt:00004219 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000488 ! visible light photoreceptor cell is_a: CL:2000019 ! compound eye photoreceptor cell relationship: part_of UBERON:0000971 ! ommatidium @@ -7733,10 +7998,11 @@ def: "A neuron that releases dopamine as a neurotransmitter." [GOC:dhill] subset: cellxgene_subset synonym: "dopaminergic cell" EXACT [] xref: BTO:0004032 -xref: FBbt:00005131 +xref: FBbt:00005131 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:84787 xref: MESH:D059290 xref: WBbt:0006746 +xref: ZFA:0009301 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:4033050 ! catecholaminergic neuron intersection_of: CL:0000540 ! neuron intersection_of: capable_of GO:0061527 ! dopamine secretion, neurotransmission @@ -7752,6 +8018,7 @@ is_a: CL:0000630 ! supporting cell id: CL:0000702 name: R5 photoreceptor cell synonym: "R5 cell" EXACT [] +xref: FBbt:00004221 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000488 ! visible light photoreceptor cell is_a: CL:2000019 ! compound eye photoreceptor cell relationship: part_of UBERON:0000971 ! ommatidium @@ -7761,6 +8028,7 @@ id: CL:0000703 name: sustentacular cell def: "Cell that provides some or all mechanical, nutritional and phagocytic support to their neighbors." [JB:jb] xref: BTO:0002315 +xref: ZFA:0009302 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000630 ! supporting cell [Term] @@ -7768,12 +8036,14 @@ id: CL:0000704 name: endothelial tip cell def: "A specialized endothelial cell that senses extracellular signals and guides the directed growth of blood vessels." [PMID:15376331] subset: cellxgene_subset +xref: ZFA:0009303 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000071 ! blood vessel endothelial cell [Term] id: CL:0000705 name: R6 photoreceptor cell synonym: "R6 cell" EXACT [] +xref: FBbt:00004223 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000488 ! visible light photoreceptor cell is_a: CL:2000019 ! compound eye photoreceptor cell relationship: part_of UBERON:0000971 ! ommatidium @@ -7788,6 +8058,7 @@ subset: human_reference_atlas synonym: "choroid plexus cell" BROAD [DOI:10.1101/2022.10.12.511898] synonym: "epithelial cell of choroid plexus" EXACT [] xref: FMA:70549 +xref: ZFA:0009304 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000065 ! ependymal cell is_a: CL:0000627 ! transporting cell is_a: CL:0002319 ! neural cell @@ -7801,8 +8072,10 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000707 name: R7 photoreceptor cell synonym: "R7 cell" EXACT [] -is_a: CL:0000287 ! eye photoreceptor cell +xref: FBbt:00004225 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000494 ! UV sensitive photoreceptor cell +is_a: CL:2000019 ! compound eye photoreceptor cell +relationship: part_of UBERON:0000971 ! ommatidium [Term] id: CL:0000708 @@ -7810,6 +8083,7 @@ name: leptomeningeal cell def: "Stromal cell that forms the internal covering of the vertebrate brain and produces ECM for this and the choroid plexus." [JB:jb] subset: cellxgene_subset synonym: "leptomemingeal cell" RELATED [] +xref: ZFA:0009305 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000327 {is_inferred="true"} ! extracellular matrix secreting cell is_a: CL:0002319 ! neural cell intersection_of: CL:0000327 ! extracellular matrix secreting cell @@ -7820,6 +8094,7 @@ relationship: part_of UBERON:0003210 ! blood-cerebrospinal fluid barrier id: CL:0000709 name: R8 photoreceptor cell synonym: "R8 cell" EXACT [] +xref: FBbt:00004227 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000488 ! visible light photoreceptor cell is_a: CL:2000019 ! compound eye photoreceptor cell relationship: part_of UBERON:0000971 ! ommatidium @@ -7853,6 +8128,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000712 name: stratum granulosum cell +def: "Any epidermal cell that is part of some stratum granulosum of epidermis." [FBC:Autogenerated] is_a: CL:0000362 ! epidermal cell intersection_of: CL:0000362 ! epidermal cell intersection_of: part_of UBERON:0002069 ! stratum granulosum of epidermis @@ -7867,7 +8143,7 @@ is_a: CL:0000711 ! cumulus cell id: CL:0000715 name: embryonic crystal cell def: "A crystal cell that derives from the embryonic head mesoderm." [] -xref: FBbt:00001690 +xref: FBbt:00001690 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000392 ! crystal cell is_a: CL:0011008 ! embryonic hemocyte @@ -7894,7 +8170,7 @@ def: "A cell of an ommatidium that secretes lens materials." [doi:10.1017/CBO978 comment: Not to be confused with the Semper cells of the Semper organ found in gastropods. {xref="doi:10.1242/jcs.s3-105.71.331"} synonym: "cone cell (sensu Endopterygota)" RELATED [] synonym: "Semper cell" EXACT [] -xref: FBbt:00004193 +xref: FBbt:00004193 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000306 ! crystallin accumulating cell is_a: CL:0002319 ! neural cell relationship: part_of UBERON:0000971 ! ommatidium @@ -7927,6 +8203,7 @@ name: somatic stem cell def: "A stem cell that can give rise to cell types of the body other than those of the germ-line." [GO:0048103] xref: CALOHA:TS-2086 xref: MESH:D053687 +xref: ZFA:0009307 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000034 ! stem cell intersection_of: CL:0000034 ! stem cell intersection_of: capable_of GO:0048103 ! somatic stem cell division @@ -7943,6 +8220,7 @@ is_a: CL:0000725 ! nitrogen fixing cell [Term] id: CL:0000725 name: nitrogen fixing cell +def: "Any cell that is capable of some nitrogen fixation." [FBC:Autogenerated] is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0009399 ! nitrogen fixation @@ -7989,6 +8267,7 @@ def: "A cell of a layer of transitional epithelium in the wall of the proximal u subset: cellxgene_subset synonym: "urinary tract transitional epithelial cell" NARROW [] xref: FMA:84127 +xref: ZFA:0009308 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000244 ! transitional epithelial cell intersection_of: CL:0000244 ! transitional epithelial cell intersection_of: part_of UBERON:0000365 ! urothelium @@ -8017,7 +8296,7 @@ replaced_by: CL:0011009 id: CL:0000735 name: lymph gland hemocyte def: "A hemocyte that derives from the larval lymph gland." [doi:10.1242/dev.00702] -xref: FBbt:00005917 +xref: FBbt:00005917 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000387 ! hemocyte (sensu Arthropoda) [Term] @@ -8034,6 +8313,7 @@ def: "Muscle cell which has as its direct parts myofilaments organized into sarc xref: BTO:0002916 xref: CALOHA:TS-2157 xref: FMA:86936 +xref: ZFA:0005784 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000187 ! muscle cell intersection_of: CL:0000187 ! muscle cell intersection_of: bearer_of PATO:0001410 ! striated @@ -8056,6 +8336,8 @@ xref: CALOHA:TS-0549 xref: FMA:62852 xref: MESH:D007962 xref: NCIT:C12529 +xref: ZFA:0009309 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000219 ! motile cell is_a: CL:0000255 ! eukaryotic cell is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell @@ -8083,6 +8365,7 @@ synonym: "RGCs" RELATED OMO:0003004 [doi:10.1038/s41598-020-66092-9] xref: BTO:0001800 xref: FMA:67765 xref: MESH:D012165 +xref: ZFA:0009310 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) relationship: RO:0002100 UBERON:0000966 ! has soma location retina property_value: RO:0002175 NCBITaxon:9606 @@ -8092,12 +8375,14 @@ id: CL:0000741 name: spinal accessory motor neuron def: "A motor neuron that is located in the cervical region of the spinal cord and selectively innervates the sternocleidmastoid or trapezius muscle. Unlike other motor neurons, they extend axons dorsally along lateral margins of the spinal cord." [PMID:16267219] synonym: "SACMN" EXACT [] +xref: ZFA:0009311 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008039 ! lower motor neuron [Term] id: CL:0000742 name: periarticular chondrocyte def: "A round chondrocyte that first differentiates in the late embryonic growth plate of bone." [PMID:15951842] +xref: ZFA:0009312 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:1001607 ! articular chondrocyte [Term] @@ -8106,6 +8391,7 @@ name: hypertrophic chondrocyte def: "Chondrocyte that is terminally differentiated, produces type X collagen, is large in size, and often associated with the replacement of cartilage by bone (endochondral ossification)." [GO_REF:0000034, PMID:15951842] comment: is hypertrophic pathological or normal? and can it be described using a pato term? subset: human_reference_atlas +xref: ZFA:0009313 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000138 ! chondrocyte property_value: RO:0002175 NCBITaxon:9606 @@ -8113,6 +8399,7 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000744 name: columnar chondrocyte def: "A columnar chondrocyte that differentiates in the late embryonic growth plate of bone. Columnar chondrocytes vigorously proliferate and form columns in the growth plate." [PMID:15951842] +xref: ZFA:0009314 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000138 ! chondrocyte [Term] @@ -8126,6 +8413,7 @@ synonym: "HC" RELATED OMO:0003000 [doi:10.1038/s41598-020-66092-9] synonym: "HCs" RELATED OMO:0003004 [doi:10.1038/s41598-020-66092-9] synonym: "horizontal cell" EXACT [] xref: BTO:0004120 +xref: ZFA:0009315 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000099 ! interneuron relationship: RO:0002100 UBERON:0003902 ! has soma location retinal neural layer property_value: RO:0002175 NCBITaxon:9606 @@ -8148,6 +8436,7 @@ xref: BTO:0001539 xref: CALOHA:TS-0115 xref: FMA:14067 xref: MESH:D032383 +xref: ZFA:0009316 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000737 ! striated muscle cell is_a: CL:0002494 ! cardiocyte intersection_of: CL:0000187 ! muscle cell @@ -8165,6 +8454,8 @@ id: CL:0000747 name: cyanophore def: "A pigment cell derived from the neural crest. Contains blue pigment of unknown chemical composition in fibrous organelles termed cyanosomes. This gives a blue appearance." [SANBI:mhl] synonym: "blue chromatophore" RELATED [] +xref: ZFA:0009317 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000147 ! pigment cell relationship: RO:0002202 CL:0005005 ! develops from cyanoblast @@ -8178,6 +8469,7 @@ subset: human_reference_atlas synonym: "BC" RELATED OMO:0003000 [doi:10.1038/s41598-020-66092-9] synonym: "BCs" RELATED OMO:0003004 [doi:10.1038/s41598-020-66092-9] synonym: "BPs" RELATED OMO:0003004 [GSE137537] +xref: ZFA:0009318 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000103 ! bipolar neuron is_a: CL:0000679 ! glutamatergic neuron is_a: CL:0008028 ! visual system neuron @@ -8193,6 +8485,7 @@ name: ON-bipolar cell def: "A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the inner half of the inner plexiform layer. These cells depolarize in response to light stimulation of their corresponding photoreceptors." [PMID:14689473] subset: cellxgene_subset subset: human_reference_atlas +xref: ZFA:0009319 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000748 ! retinal bipolar neuron property_value: RO:0002175 NCBITaxon:9606 @@ -8202,6 +8495,7 @@ name: OFF-bipolar cell def: "A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the outer half of the inner plexiform layer. These cells depolarize in response to light to dark transition." [PMID:14689473] subset: cellxgene_subset subset: human_reference_atlas +xref: ZFA:0009320 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000748 ! retinal bipolar neuron property_value: RO:0002175 NCBITaxon:9606 @@ -8212,6 +8506,8 @@ def: "A bipolar neuron found in the retina that is synapsed by rod photoreceptor subset: cellxgene_subset subset: human_reference_atlas xref: FMA:67750 +xref: ZFA:0009321 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000255 ! eukaryotic cell is_a: CL:0000749 ! ON-bipolar cell relationship: RO:0002102 UBERON:0008925 ! axon synapses in sublaminar layer S4 @@ -8224,6 +8520,7 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000752 name: cone retinal bipolar cell def: "A bipolar neuron found in the retina and having connections with cone photoreceptor cells and neurons in the inner plexiform layer." [PMID:14689473] +xref: ZFA:0009322 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000748 ! retinal bipolar neuron intersection_of: CL:0000748 ! retinal bipolar neuron intersection_of: RO:0002103 CL:0000573 ! synapsed by retinal cone cell @@ -8242,6 +8539,7 @@ id: CL:0000754 name: type 2 cone bipolar cell (sensu Mus) def: "An OFF-bipolar neuron found in the retina and having connections with cone photoreceptors cells and neurons in the outer half of the inner plexiform layer. The dendritic tree is not well filled and the dendrites are more delicate than in type 1 cells. The axon terminal is bushier and exhibits a dense plexus of varicosities in the inner part of sublamina 1 (Ghosh et al., 2004). It can be differentiated from other retinal bipolar neurons by its expression of marker genes: Neto1, Lhx3 and Irx-6 (Shekhar, 2016)." [PMID:14689473, PMID:27565351] synonym: "FMB cone bipolar cell" EXACT [] +is_a: BFO:0000002 is_a: CL:0000752 ! cone retinal bipolar cell intersection_of: CL:0000748 {xref="PMID:27565351"} ! retinal bipolar neuron intersection_of: RO:0002292 PR:P50481 {xref="PMID:27565351"} ! expresses LIM/homeobox protein Lhx3 (mouse) @@ -8318,6 +8616,7 @@ name: nucleated thrombocyte def: "A nucleated blood cell involved in coagulation, typically seen in birds and other non-mammalian vertebrates." [GOC:add, GOC:tfm, PMID:16360205] comment: Note that this is a non-mammalian cell type. Use platelet ; CL:0000233 for thrombocytes (platelets) in mammals. subset: blood_and_immune_upper_slim +xref: ZFA:0009323 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000226 ! single nucleate cell is_a: CL:0000763 {is_inferred="true"} ! myeloid cell intersection_of: CL:0000763 ! myeloid cell @@ -8334,6 +8633,8 @@ subset: cellxgene_subset xref: BTO:0001441 xref: CALOHA:TS-0647 xref: MESH:D022423 +xref: ZFA:0009324 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: RO:0002202 CL:0000049 ! develops from common myeloid progenitor @@ -8351,6 +8652,7 @@ synonym: "erythropoietic cell" EXACT [] xref: CALOHA:TS-0290 xref: FMA:62845 xref: FMA:83516 +xref: ZFA:0009325 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell property_value: RO:0002175 NCBITaxon:9606 @@ -8365,6 +8667,7 @@ xref: BTO:0001571 xref: CALOHA:TS-0289 xref: FMA:83504 xref: MESH:D004900 +xref: ZFA:0005237 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0000764 ! erythroid lineage cell @@ -8403,6 +8706,7 @@ id: CL:0000766 name: myeloid leukocyte def: "A cell of the monocyte, granulocyte, or mast cell lineage." [GOC:add] subset: cellxgene_subset +xref: ZFA:0009326 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000738 {is_inferred="true"} ! leukocyte is_a: CL:0000763 ! myeloid cell intersection_of: CL:0000738 ! leukocyte @@ -8596,6 +8900,7 @@ xref: BTO:0000130 xref: CALOHA:TS-0688 xref: FMA:62860 xref: MESH:D009504 +xref: ZFA:0009327 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000094 {is_inferred="true"} ! granulocyte intersection_of: CL:0000094 ! granulocyte intersection_of: RO:0002104 PR:000001479 ! has plasma membrane part low affinity immunoglobulin gamma Fc region receptor II @@ -8614,6 +8919,7 @@ synonym: "immature neutrocyte" EXACT [] synonym: "immature neutrophil leucocyte" EXACT [] synonym: "immature neutrophil leukocyte" EXACT [] synonym: "immature neutrophilic leucocyte" EXACT [] +xref: ZFA:0009328 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000775 {is_inferred="true"} ! neutrophil intersection_of: CL:0000775 ! neutrophil intersection_of: has_part CL:0017509 ! alobate nucleus @@ -8638,6 +8944,7 @@ id: CL:0000778 name: mononuclear osteoclast def: "A specialized mononuclear osteoclast associated with the absorption and removal of bone, precursor of multinuclear osteoclasts." [GOC:add, GOC:tfm, PMID:12713016, PMID:15055519, PMID:17380158, PMID:9415452] comment: Morphology: mononuclear, highly vesicular. +xref: ZFA:0009329 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000092 {is_inferred="true"} ! osteoclast is_a: CL:0000113 ! mononuclear phagocyte intersection_of: CL:0000092 ! osteoclast @@ -8672,6 +8979,7 @@ id: CL:0000781 name: mononuclear odontoclast def: "A specialized mononuclear osteoclast associated with the absorption and removal of cementum." [GOC:add, PMID:9415452] comment: Morphology: Mononuclear, highly vesicular; location: roots of deciduous (milk) teeth. +xref: ZFA:0009330 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000588 {is_inferred="true"} ! odontoclast is_a: CL:0000778 {is_inferred="true"} ! mononuclear osteoclast intersection_of: CL:0000588 ! odontoclast @@ -8737,6 +9045,7 @@ subset: cellxgene_subset synonym: "mature B lymphocyte" EXACT [] synonym: "mature B-cell" EXACT [] synonym: "mature B-lymphocyte" EXACT [] +xref: ZFA:0009331 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000145 ! professional antigen presenting cell is_a: CL:0001201 {is_inferred="true"} ! B cell, CD19-positive intersection_of: CL:0001201 ! B cell, CD19-positive @@ -8767,6 +9076,7 @@ synonym: "plasmocyte" EXACT [] xref: BTO:0000392 xref: FMA:70574 xref: MESH:D010950 +xref: ZFA:0009332 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000946 {is_inferred="true"} ! antibody secreting cell intersection_of: CL:0000946 ! antibody secreting cell intersection_of: CL:4030046 GO:0019814 ! lacks_plasma_membrane_part immunoglobulin complex @@ -8794,6 +9104,7 @@ subset: human_reference_atlas synonym: "memory B lymphocyte" EXACT [] synonym: "memory B-cell" EXACT [] synonym: "memory B-lymphocyte" EXACT [] +xref: ZFA:0009333 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000785 {is_inferred="true"} ! mature B cell intersection_of: CL:0000785 ! mature B cell intersection_of: CL:4030046 PR:000001935 ! lacks_plasma_membrane_part syndecan-1 @@ -8816,6 +9127,7 @@ subset: human_reference_atlas synonym: "naive B lymphocyte" EXACT [] synonym: "naive B-cell" EXACT [] synonym: "naive B-lymphocyte" EXACT [] +xref: ZFA:0009334 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000785 {is_inferred="true"} ! mature B cell intersection_of: CL:0000785 ! mature B cell intersection_of: CL:4030044 GO:0002344 ! has_not_completed B cell affinity maturation @@ -8839,6 +9151,7 @@ subset: cellxgene_subset synonym: "alpha-beta T lymphocyte" EXACT [] synonym: "alpha-beta T-cell" EXACT [] synonym: "alpha-beta T-lymphocyte" EXACT [] +xref: ZFA:0009335 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000084 {is_inferred="true"} ! T cell intersection_of: CL:0000084 ! T cell intersection_of: RO:0002104 GO:0042105 ! has plasma membrane part alpha-beta T cell receptor complex @@ -9014,6 +9327,7 @@ synonym: "gamma-delta T-cell" EXACT [] synonym: "gamma-delta T-lymphocyte" EXACT [] synonym: "gammadelta T cell" EXACT [] synonym: "gd T cell" RELATED OMO:0003000 [] +xref: ZFA:0009336 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000084 {is_inferred="true"} ! T cell intersection_of: CL:0000084 ! T cell intersection_of: RO:0002104 GO:0042106 ! has plasma membrane part gamma-delta T cell receptor complex @@ -9028,6 +9342,7 @@ comment: Note that gamma-delta T cells have both thymic and extrathymic differen synonym: "immature gamma-delta T lymphocyte" EXACT [] synonym: "immature gamma-delta T-cell" EXACT [] synonym: "immature gamma-delta T-lymphocyte" EXACT [] +xref: ZFA:0009337 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000798 {is_inferred="true"} ! gamma-delta T cell is_a: CL:0002420 ! immature T cell intersection_of: CL:0000798 ! gamma-delta T cell @@ -9044,6 +9359,7 @@ subset: cellxgene_subset synonym: "mature gamma-delta T lymphocyte" EXACT [] synonym: "mature gamma-delta T-cell" EXACT [] synonym: "mature gamma-delta T-lymphocyte" EXACT [] +xref: ZFA:0009338 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000798 {is_inferred="true"} ! gamma-delta T cell is_a: CL:0002419 ! mature T cell intersection_of: CL:0000798 ! gamma-delta T cell @@ -9059,6 +9375,7 @@ synonym: "gamma-delta intraepithelial T-cell" EXACT [] synonym: "gamma-delta intraepithelial T-lymphocyte" EXACT [] synonym: "IEL" BROAD [] synonym: "intraepithelial lymphocyte" BROAD [] +xref: ZFA:0009339 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000800 {is_inferred="true"} ! mature gamma-delta T cell is_a: CL:0002496 ! intraepithelial lymphocyte intersection_of: CL:0000800 ! mature gamma-delta T cell @@ -9272,6 +9589,7 @@ synonym: "memory T lymphocyte" EXACT [] synonym: "memory T-cell" EXACT [] synonym: "memory T-lymphocyte" EXACT [] xref: BTO:0003435 +xref: ZFA:0009342 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002419 {is_inferred="true"} ! mature T cell intersection_of: CL:0002419 ! mature T cell intersection_of: bearer_of PATO:0001603 ! increased life span @@ -9344,6 +9662,7 @@ synonym: "immature B lymphocyte" EXACT [] synonym: "immature B-cell" EXACT [] synonym: "immature B-lymphocyte" EXACT [] synonym: "newly formed B cell" EXACT [ISBN:781735149] +xref: ZFA:0009343 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0001201 ! B cell, CD19-positive intersection_of: CL:0001201 ! B cell, CD19-positive intersection_of: CL:4030044 GO:0045190 ! has_not_completed isotype switching @@ -9366,6 +9685,7 @@ subset: human_reference_atlas synonym: "pre-B cell" RELATED [] xref: BTO:0001133 xref: CALOHA:TS-0819 +xref: ZFA:0009344 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0001201 {is_inferred="true"} ! B cell, CD19-positive intersection_of: CL:0001201 ! B cell, CD19-positive intersection_of: CL:4030046 GO:0071753 ! lacks_plasma_membrane_part IgM immunoglobulin complex @@ -9389,6 +9709,7 @@ synonym: "transitional B cell" EXACT [PMID:22343568] synonym: "transitional stage B lymphocyte" EXACT [] synonym: "transitional stage B-cell" EXACT [] synonym: "transitional stage B-lymphocyte" EXACT [] +xref: ZFA:0009345 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0001201 {is_inferred="true"} ! B cell, CD19-positive intersection_of: CL:0001201 ! B cell, CD19-positive intersection_of: CL:4030044 GO:0002335 ! has_not_completed mature B cell differentiation @@ -9501,6 +9822,7 @@ comment: In mouse the NKR are Ly49 molecules and in human these cells express KI subset: cellxgene_subset synonym: "immature NK cell" EXACT [] synonym: "p-NK" RELATED [PMID:12457618] +xref: ZFA:0009346 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000623 ! natural killer cell is_a: CL:0001082 ! immature innate lymphoid cell intersection_of: CL:0000623 ! natural killer cell @@ -9517,6 +9839,7 @@ subset: human_reference_atlas synonym: "LAK cell" BROAD [PMID:14685782] synonym: "lymphokine activated killer cell" BROAD [PMID:14685782] synonym: "mature NK cell" EXACT [] +xref: ZFA:0009347 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000623 ! natural killer cell relationship: RO:0002202 CL:0000823 ! develops from immature natural killer cell property_value: RO:0002175 NCBITaxon:9606 @@ -9531,8 +9854,8 @@ synonym: "NKP" EXACT [PMID:12457618, PMID:15032583, PMID:15766674] synonym: "null cell" RELATED [PMID:11532393] synonym: "preNK cell" RELATED [PMID:11532393] synonym: "pro-natural killer cell" EXACT [] +xref: ZFA:0009348 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000838 {is_inferred="true"} ! lymphoid lineage restricted progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000838 ! lymphoid lineage restricted progenitor cell intersection_of: CL:4030046 PR:000001874 ! lacks_plasma_membrane_part KLRB1-like protein intersection_of: CL:4030046 PR:000002065 ! lacks_plasma_membrane_part mast/stem cell growth factor receptor @@ -9565,8 +9888,8 @@ synonym: "progenitor B lymphocyte" EXACT [] synonym: "progenitor B-cell" EXACT [] synonym: "progenitor B-lymphocyte" EXACT [] xref: BTO:0003104 +xref: ZFA:0009349 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000838 {is_inferred="true"} ! lymphoid lineage restricted progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000838 ! lymphoid lineage restricted progenitor cell intersection_of: has_part PR:000001903 ! paired box protein PAX-5 intersection_of: has_part PR:000006611 ! DNA nucleotidylexotransferase @@ -9587,6 +9910,7 @@ synonym: "DN1 thymocyte" NARROW [] synonym: "pro-T lymphocyte" EXACT [] synonym: "progenitor T cell" EXACT [] synonym: "TN1 cell" NARROW [] +xref: ZFA:0009350 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000838 {is_inferred="true"} ! lymphoid lineage restricted progenitor cell intersection_of: CL:0000838 ! lymphoid lineage restricted progenitor cell intersection_of: capable_of GO:0030217 ! T cell differentiation @@ -9598,6 +9922,7 @@ id: CL:0000828 name: thromboblast def: "A progenitor cell of the thrombocyte, a nucleated blood cell involved in coagulation typically seen in birds and other non-mammalian vertebrates." [GOC:add, GOC:tfm, PMID:7758949] comment: Note that this is a non-mammalian cell type. +xref: ZFA:0009351 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000226 ! single nucleate cell is_a: CL:0000763 ! myeloid cell is_a: CL:0000839 {is_inferred="true"} ! myeloid lineage restricted progenitor cell @@ -9639,7 +9964,6 @@ synonym: "colony forming unit mast cell" RELATED [] synonym: "MCP" EXACT [] is_a: CL:0000763 ! myeloid cell is_a: CL:0000839 {is_inferred="true"} ! myeloid lineage restricted progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000839 ! myeloid lineage restricted progenitor cell intersection_of: capable_of GO:0060374 ! mast cell differentiation intersection_of: CL:4030045 PR:000005307 ! lacks_part CCAAT/enhancer-binding protein alpha @@ -9718,6 +10042,7 @@ name: neutrophil progenitor cell def: "A progenitor cell of the neutrophil lineage." [GOC:add, GOC:tfm, ISBN:0721601464] subset: cellxgene_subset synonym: "neutrophil stem cell" RELATED [] +xref: ZFA:0009352 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0002191 {is_inferred="true"} ! granulocytopoietic cell intersection_of: CL:0002191 ! granulocytopoietic cell @@ -9731,9 +10056,9 @@ name: myeloblast def: "The most primitive precursor in the granulocytic series, having fine, evenly distributed chromatin, several nucleoli, a high nuclear-to-cytoplasmic ration (5:1-7:1), and a nongranular basophilic cytoplasm. They reside in the bone marrow." [GOC:add, http://en.wikipedia.org/wiki/Myeloblast, http://www.cap.org, ISBN:0721601464] xref: BTO:0000187 xref: FMA:83524 +xref: ZFA:0009353 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0002191 {is_inferred="true"} ! granulocytopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002191 ! granulocytopoietic cell intersection_of: bearer_of PATO:0040072 ! high nuclear/cytoplasmic ratio intersection_of: CL:4030045 GO:0042582 ! lacks_part azurophil granule @@ -9755,7 +10080,6 @@ xref: CALOHA:TS-0825 xref: FMA:83530 is_a: CL:0000763 ! myeloid cell is_a: CL:0002191 ! granulocytopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000839 ! myeloid lineage restricted progenitor cell intersection_of: bearer_of PATO:0040072 ! high nuclear/cytoplasmic ratio intersection_of: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M @@ -9790,8 +10114,9 @@ synonym: "hemopoietic progenitor cell" EXACT [] synonym: "MPP" EXACT [] xref: BTO:0000725 xref: CALOHA:TS-0448 +xref: ZFA:0009354 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0008001 ! hematopoietic precursor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000988 ! hematopoietic cell intersection_of: bearer_of PATO:0001402 ! multipotent intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -9837,6 +10162,7 @@ synonym: "lymphoid progenitor cell" BROAD [] xref: BTO:0004731 xref: CALOHA:TS-2025 xref: FMA:70338 +xref: ZFA:0009355 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002031 {is_inferred="true"} ! hematopoietic lineage restricted progenitor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0002031 ! hematopoietic lineage restricted progenitor cell @@ -9855,6 +10181,7 @@ synonym: "myeloid progenitor cell" BROAD [] xref: BTO:0004730 xref: CALOHA:TS-2099 xref: FMA:70339 +xref: ZFA:0009356 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002031 {is_inferred="true"} ! hematopoietic lineage restricted progenitor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0002031 ! hematopoietic lineage restricted progenitor cell @@ -9912,6 +10239,7 @@ synonym: "peripheral blood mononuclear cell" NARROW [] xref: BTO:0000878 xref: CALOHA:TS-0768 xref: FMA:86713 +xref: ZFA:0009357 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000226 ! single nucleate cell is_a: CL:0000738 {is_inferred="true"} ! leukocyte intersection_of: CL:0000738 ! leukocyte @@ -10015,6 +10343,7 @@ name: ciliated olfactory receptor neuron def: "An olfactory receptor cell in which the apical ending of the dendrite is a pronounced ciliated olfactory knob." [PMID:16841163] synonym: "ciliated olfactory sensory neuron" EXACT [] synonym: "ciliated sensory neuron" EXACT [] +xref: ZFA:0009358 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000064 ! ciliated cell is_a: CL:0000207 ! olfactory receptor cell intersection_of: CL:0000207 ! olfactory receptor cell @@ -10026,6 +10355,7 @@ name: microvillous olfactory receptor neuron def: "An olfactory receptor cell in which the apical ending of the dendrite is a knob that bears numerous microvilli." [PMID:16841163] synonym: "microvillous olfactory sensory neuron" EXACT [] synonym: "microvillous sensory neuron" RELATED [] +xref: ZFA:0009359 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000207 ! olfactory receptor cell [Term] @@ -10035,6 +10365,7 @@ def: "An olfactory receptor cell with short cilia growing in an invagination bor synonym: "crypt cell" EXACT [] synonym: "crypt olfactory sensory neuron" EXACT [] synonym: "crypt sensory neuron" EXACT [] +xref: ZFA:0009360 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000207 ! olfactory receptor cell [Term] @@ -10045,9 +10376,10 @@ def: "A neuron that releases serotonin as a neurotransmitter." [SANBI:mhl] synonym: "5-HT neuron" EXACT [] synonym: "5-hydroxytryptamine neuron" EXACT [] synonym: "serotinergic neuron" RELATED [] -xref: FBbt:00005133 +xref: FBbt:00005133 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: MESH:D059326 xref: WBbt:0006837 +xref: ZFA:0009361 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000458 ! serotonin secreting cell is_a: CL:0000540 ! neuron intersection_of: CL:0000540 ! neuron @@ -10058,6 +10390,7 @@ relationship: capable_of GO:0060096 ! serotonin secretion, neurotransmission id: CL:0000851 name: neuromast mantle cell def: "Neuromast mantle cell is a non-sensory cell. Neuromast mantle cells surround the neuromast support cells and neuromast hair cells, separating the neuromast from the epidermis, and secrete cupula in which the ciliary bundles of all the hair cells are embedded." [ISBN:0125296509] +xref: ZFA:0009362 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell disjoint_from: CL:0000855 ! sensory hair cell relationship: part_of UBERON:0008904 ! neuromast @@ -10067,6 +10400,7 @@ id: CL:0000852 name: neuromast supporting cell def: "Neuromast support cell is a non-sensory cell of the neuromast that extend between the sensory hair cells from the basement membrane to the apical surface; neuromast support cells are surrounded by neuromast mantle cells." [ISBN:0125296509] synonym: "neuromast support cell" EXACT [] +xref: ZFA:0009363 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000630 ! supporting cell disjoint_from: CL:0000855 ! sensory hair cell relationship: part_of UBERON:0008904 ! neuromast @@ -10080,6 +10414,7 @@ synonym: "olfactory sustentacular cell" EXACT [] synonym: "supporting cell of olfactory epithelium" EXACT [] synonym: "sustentaculocyte of olfactory epithelium" EXACT [] xref: FMA:62302 +xref: ZFA:0009364 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000630 ! supporting cell is_a: CL:0002169 ! basal cell of olfactory epithelium intersection_of: CL:0000630 ! supporting cell @@ -10089,6 +10424,8 @@ intersection_of: part_of UBERON:0001997 ! olfactory epithelium id: CL:0000854 name: interneuromast cell def: "Interneuromast cell is a neuroectodermal cell deposited by the migrating lateral line primordium between the neuromasts. Interneuromast cells proliferate and migrate to form additional neuromasts." [SANBI:mhl] +xref: ZFA:0009365 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000133 ! neurectodermal cell relationship: RO:0002202 CL:0000032 ! develops from neuroplacodal cell @@ -10098,12 +10435,15 @@ name: sensory hair cell def: "Hair cell is a mechanoreceptor cell that is sensitive to movement of the hair-like projections (stereocilia and kinocilia) which relay the information centrally in the nervous system." [SANBI:mhl] synonym: "hair cell" BROAD [] xref: BTO:0004744 +xref: ZFA:0009366 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000199 ! mechanoreceptor cell [Term] id: CL:0000856 name: neuromast hair cell def: "Neuromast hair cell is a hair cell that acts as a sensory receptor of the neuromast; it is morphologically polarized as a result of the relative position of the single kinocilium and the clusters of stereocilia on its apical surface." [SANBI:mhl] +xref: ZFA:0009367 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000006 ! neuronal receptor cell is_a: CL:0000855 ! sensory hair cell intersection_of: CL:0000855 ! sensory hair cell @@ -10114,6 +10454,7 @@ relationship: part_of UBERON:0008904 ! neuromast id: CL:0000857 name: slow muscle myoblast def: "A skeletal muscle myoblast that differentiates into slow muscle fibers." [SANBI:mhl] +xref: ZFA:0009368 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000515 ! skeletal muscle myoblast intersection_of: CL:0000056 ! myoblast intersection_of: RO:0002203 CL:0000189 ! develops into slow muscle cell @@ -10123,6 +10464,7 @@ relationship: RO:0002203 CL:0000189 ! develops into slow muscle cell id: CL:0000858 name: fast muscle myoblast def: "A skeletal muscle myoblast that differentiates into fast muscle fibers." [SANBI:mhl] +xref: ZFA:0009369 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000515 ! skeletal muscle myoblast intersection_of: CL:0000056 ! myoblast intersection_of: RO:0002203 CL:0000190 ! develops into fast muscle cell @@ -10137,7 +10479,6 @@ subset: cellxgene_subset subset: human_reference_atlas synonym: "inflammatory monocyte" EXACT [] is_a: CL:0000576 {is_inferred="true"} ! monocyte -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000576 ! monocyte intersection_of: capable_of GO:0002548 ! monocyte chemotaxis intersection_of: capable_of GO:0006909 ! phagocytosis @@ -10165,7 +10506,6 @@ synonym: "wandering histiocyte" EXACT [] xref: FMA:84643 xref: FMA:84645 is_a: CL:0000235 {is_inferred="true"} ! macrophage -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000235 ! macrophage intersection_of: participates_in GO:0006954 ! inflammatory response intersection_of: RO:0002104 PR:000001012 ! has plasma membrane part integrin alpha-M @@ -10215,7 +10555,6 @@ id: CL:0000864 name: tissue-resident macrophage def: "A macrophage constitutively resident in a particular tissue under non-inflammatory conditions, and capable of phagocytosing a variety of extracellular particulate material, including immune complexes, microorganisms, and dead cells." [GO_REF:0000031, GOC:ana, PMID:19770654] subset: cellxgene_subset -subset: human_reference_atlas synonym: "fixed macrophage" EXACT [] synonym: "resting histiocyte" EXACT [] xref: FMA:84642 @@ -10224,7 +10563,6 @@ is_a: CL:0000235 {is_inferred="true"} ! macrophage intersection_of: CL:0000235 ! macrophage intersection_of: part_of UBERON:0000479 ! tissue relationship: part_of UBERON:0000479 ! tissue -property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000865 @@ -10265,7 +10603,6 @@ def: "A secondary lymphoid organ macrophage found in a lymph node. This cell is comment: Marker was observed on rat cells. synonym: "MF.LN" EXACT [] is_a: CL:0000867 {is_inferred="true"} ! secondary lymphoid organ macrophage -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000867 ! secondary lymphoid organ macrophage intersection_of: part_of UBERON:0000029 ! lymph node intersection_of: RO:0015015 PR:000001931 ! has high plasma membrane amount sialoadhesin @@ -10316,7 +10653,6 @@ def: "A splenic macrophage found in the marginal zone of the spleen, involved in comment: Markers: Mouse: F4/80-, MARCO+, SR-A+, SIGN-R1+, Dectin2+. subset: human_reference_atlas is_a: CL:0000871 {is_inferred="true"} ! splenic macrophage -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000871 ! splenic macrophage intersection_of: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M intersection_of: part_of UBERON:0001251 ! marginal zone of spleen @@ -10338,7 +10674,6 @@ name: splenic metallophillic macrophage def: "A splenic macrophage found in the areas surrounding the white pulp of the spleen, adjacent to the marginal sinus. Markers include F4/80-negative, Dectin2-low, sialoadhesin-positive." [GO_REF:0000031, GOC:ana, PMID:20018690] comment: Markers: Mouse: F4/80-, Dectin2-low, sialoadhesin+. is_a: CL:0000871 {is_inferred="true"} ! splenic macrophage -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000871 ! splenic macrophage intersection_of: adjacent_to UBERON:0001959 ! white pulp of spleen intersection_of: CL:4030046 PR:000001813 ! lacks_plasma_membrane_part adhesion G protein-coupled receptor E1 @@ -10358,7 +10693,6 @@ def: "A splenic macrophage found in the red-pulp of the spleen, and involved in comment: Markers: Mouse: F4/80+, CD68+, MR+, Dectin2+, macrosialin+, sialoadhesin-low; role or process: immune, clearance of senescent erythrocytes. subset: human_reference_atlas is_a: CL:0000871 {is_inferred="true"} ! splenic macrophage -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000871 ! splenic macrophage intersection_of: capable_of GO:0006955 ! immune response intersection_of: capable_of GO:0034102 ! erythrocyte clearance @@ -10391,7 +10725,6 @@ subset: human_reference_atlas synonym: "patrolling monocyte" EXACT [] synonym: "resident monocyte" EXACT [] is_a: CL:0000576 {is_inferred="true"} ! monocyte -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000576 ! monocyte intersection_of: bearer_of PATO:0000587 ! decreased size intersection_of: capable_of GO:0031294 ! lymphocyte costimulation @@ -10417,7 +10750,6 @@ def: "A splenic macrophage found in the white pulp of the spleen. Markers includ comment: Markers: Mouse: F4/80-, CD68+, macrosialin+. subset: human_reference_atlas is_a: CL:0000871 {is_inferred="true"} ! splenic macrophage -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000871 ! splenic macrophage intersection_of: CL:4030046 PR:000001813 ! lacks_plasma_membrane_part adhesion G protein-coupled receptor E1 intersection_of: part_of UBERON:0001959 ! white pulp of spleen @@ -10489,7 +10821,6 @@ def: "A border associated macrophage that is adjacent to a small blood vessel of synonym: "pvMΦ" RELATED OMO:0003000 [PMID:37232741] is_a: CL:4033054 ! perivascular cell is_a: CL:4042003 {is_inferred="true"} ! border associated macrophage -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:4042003 ! border associated macrophage intersection_of: part_of UBERON:0001981 ! blood vessel intersection_of: RO:0002104 PR:000001483 ! has plasma membrane part low affinity immunoglobulin gamma Fc region receptor III @@ -10590,7 +10921,6 @@ def: "An immature myeloid leukocyte of heterogeneous phenotype found particularl comment: Markers: Mouse: CD11b+GR1+CD31+; Human: CD34+ CD33+CD15-CD13+. (According to some reports in humans these cells are iNOS+ARG1+IL13+IFNg+); location: In cancerous tissue; in the blood and lymphoid organs in sepsis. subset: blood_and_immune_upper_slim is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000766 ! myeloid leukocyte intersection_of: bearer_of PATO:0001501 ! immature intersection_of: capable_of GO:0050777 ! negative regulation of immune response @@ -10628,6 +10958,7 @@ is_a: CL:0000000 ! cell id: CL:0000892 name: smooth muscle cell derived foam cell def: "A type of foam cell derived from a smooth muscle cell containing lipids in small vacuoles and typically seen in atherolosclerotic lesions, as well as other conditions." [GOC:add, PMID:30664015] +is_a: BFO:0000002 is_a: CL:0000891 ! foam cell relationship: RO:0002202 CL:0000192 ! develops from smooth muscle cell @@ -10665,7 +10996,6 @@ synonym: "DN1 thymocyte" EXACT [] synonym: "double negative 1" EXACT [] synonym: "preT.DN1.Th" EXACT [] is_a: CL:0000827 {is_inferred="true"} ! pro-T cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000827 ! pro-T cell intersection_of: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule intersection_of: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain @@ -12383,6 +12713,7 @@ xref: BTO:0000574 xref: CALOHA:TS-2017 xref: FMA:70366 xref: FMA:83598 +xref: ZFA:0005830 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -12703,7 +13034,6 @@ comment: Cell markers are associated with mouse hematopoietic stem cell. Origina synonym: "LSK stem cell" EXACT [] synonym: "Sca1-positive hematopoietic stem cell" EXACT [] is_a: CL:0000037 {is_inferred="true"} ! hematopoietic stem cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000037 ! hematopoietic stem cell intersection_of: CL:4030046 PR:000001014 ! lacks_plasma_membrane_part receptor-type tyrosine-protein phosphatase C isoform CD45RABC intersection_of: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain @@ -12881,7 +13211,6 @@ synonym: "CD10-positive common lymphocyte progenitor" EXACT [] synonym: "CD10-positive common lymphoid precursor" EXACT [] is_a: CL:0000051 {is_inferred="true"} ! common lymphoid progenitor is_a: CL:0000995 ! CD34-positive, CD38-positive common myeloid progenitor OR CD34-positive, CD38-positive common lymphoid progenitor -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000051 ! common lymphoid progenitor intersection_of: RO:0002104 PR:000001003 ! has plasma membrane part CD34 molecule intersection_of: RO:0002104 PR:000001015 ! has plasma membrane part receptor-type tyrosine-protein phosphatase C isoform CD45RA @@ -12902,7 +13231,6 @@ comment: These markers are associated with human cells. Originally described in is_a: CL:0000576 {is_inferred="true"} ! monocyte is_a: CL:0000839 ! myeloid lineage restricted progenitor cell is_a: CL:0001019 ! CD115-positive monocyte OR common dendritic progenitor -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000576 ! monocyte intersection_of: RO:0002104 PR:000001012 ! has plasma membrane part integrin alpha-M intersection_of: RO:0002104 PR:000002062 ! has plasma membrane part macrophage colony-stimulating factor 1 receptor @@ -12941,7 +13269,6 @@ subset: cellxgene_subset synonym: "CD133-positive hematopoietic stem cell" EXACT [PMID:16140871] xref: CALOHA:TS-0448 is_a: CL:0000037 {is_inferred="true"} ! hematopoietic stem cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000037 ! hematopoietic stem cell intersection_of: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 intersection_of: CL:4030046 PR:000001408 ! lacks_plasma_membrane_part ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 @@ -12971,7 +13298,6 @@ synonym: "CD217-positive common lymphocyte progenitor" EXACT [] synonym: "CD217-positive common lymphoid precursor" EXACT [] is_a: CL:0000051 {is_inferred="true"} ! common lymphoid progenitor is_a: CL:0001030 ! CD117-positive common myeloid progenitor OR CD217-positive common lymphoid progenitor -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000051 ! common lymphoid progenitor intersection_of: CL:4030046 PR:000001014 ! lacks_plasma_membrane_part receptor-type tyrosine-protein phosphatase C isoform CD45RABC intersection_of: RO:0002104 PR:000001869 ! has plasma membrane part interleukin-7 receptor subunit alpha @@ -13020,7 +13346,6 @@ comment: These markers are associated with human cells. Originally described in synonym: "CD7-negative lymphoid precursor" EXACT [] is_a: CL:0000051 {is_inferred="true"} ! common lymphoid progenitor is_a: CL:0001012 ! CD7-negative lymphoid progenitor OR granulocyte monocyte progenitor -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000051 ! common lymphoid progenitor intersection_of: CL:4030046 PR:000001015 ! lacks_plasma_membrane_part receptor-type tyrosine-protein phosphatase C isoform CD45RA intersection_of: CL:4030046 PR:000001836 ! lacks_plasma_membrane_part CD7 molecule @@ -13037,7 +13362,6 @@ def: "CD7-positive lymphoid progenitor cell is a lymphoid progenitor cell that i comment: These markers are associated with human cells. Originally described in the dendritic cell ontology (DC_CL:0000040)(PMID:19243617). synonym: "CD7-positive lymphoid precursor" EXACT [] is_a: CL:0000051 {is_inferred="true"} ! common lymphoid progenitor -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000051 ! common lymphoid progenitor intersection_of: CL:4030046 PR:000001015 ! lacks_plasma_membrane_part receptor-type tyrosine-protein phosphatase C isoform CD45RA intersection_of: RO:0002104 PR:000001003 ! has plasma membrane part CD34 molecule @@ -13058,7 +13382,6 @@ synonym: "common dendritic precursor" EXACT [] synonym: "pro-DCs" EXACT [PMID:21219184] is_a: CL:0000763 ! myeloid cell is_a: CL:0001019 ! CD115-positive monocyte OR common dendritic progenitor -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002031 ! hematopoietic lineage restricted progenitor cell intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule intersection_of: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule @@ -13108,6 +13431,7 @@ comment: It has been noted in at least some mammalian species that granule cells subset: cellxgene_subset synonym: "granule cell of the cerebellum" EXACT [doi:10.3389/fncir.2020.611841] xref: BTO:0004278 +xref: ZFA:0001691 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000120 ! granule cell is_a: CL:2000028 ! cerebellum glutamatergic neuron is_a: UBERON:0004121 ! ectoderm-derived structure @@ -13410,7 +13734,6 @@ subset: cellxgene_subset subset: human_reference_atlas synonym: "monocyte" NARROW [PMID:22343568] is_a: CL:0000576 ! monocyte -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000576 ! monocyte intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule intersection_of: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon @@ -13496,7 +13819,6 @@ synonym: "myeloid stem cell" RELATED [ISBN:0878932437] synonym: "pluripotent stem cell (bone marrow)" RELATED [ISBN:0878932437] is_a: CL:0000049 ! common myeloid progenitor is_a: CL:0011026 ! progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000049 ! common myeloid progenitor intersection_of: capable_of GO:0002573 ! myeloid leukocyte differentiation intersection_of: capable_of GO:0043011 ! myeloid dendritic cell differentiation @@ -13650,7 +13972,6 @@ synonym: "colony forming unit erythroid" RELATED [] synonym: "erythroid stem cell" RELATED [] xref: BTO:0004911 is_a: CL:0000038 ! erythroid progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000038 ! erythroid progenitor cell intersection_of: capable_of GO:0030218 ! erythrocyte differentiation intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -14031,7 +14352,7 @@ relationship: RO:0015015 PR:000001381 ! has high plasma membrane amount interleu [Term] id: CL:0001658 name: visual pigment cell (sensu Nematoda and Protostomia) -xref: FBbt:00004230 +xref: FBbt:00004230 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000149 ! visual pigment cell is_a: CL:0000341 ! pigment cell (sensu Nematoda and Protostomia) @@ -14143,7 +14464,6 @@ name: CD34-positive, CD38-positive megakaryocyte erythroid progenitor cell def: "A megakaryocyte erythroid progenitor cell is CD34-positive, CD38-positive and is IL3-receptor alpha-negative and CD45RA-negative." [GOC:tfm, PMID:12615892, PMID:190227700] comment: Markers are associated with human cell type. is_a: CL:0000050 {is_inferred="true"} ! megakaryocyte-erythroid progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000050 ! megakaryocyte-erythroid progenitor cell intersection_of: CL:4030046 PR:000001015 ! lacks_plasma_membrane_part receptor-type tyrosine-protein phosphatase C isoform CD45RA intersection_of: CL:4030046 PR:000001865 ! lacks_plasma_membrane_part interleukin-3 receptor class 2 alpha chain @@ -14162,7 +14482,6 @@ name: Kit-positive, CD34-negative megakaryocyte erythroid progenitor cell def: "A megakaryocyte erythroid progenitor cell that is Kit-positive and is Sca1-negative, CD34-negative, CD90-negative, IL7r-alpha-negative and Fcgr II/III-low." [GOC:tfm, http://www.immgen.org/index_content.html, PMID:12615892, PMID:19022770] comment: Markers are associated with mouse cells. is_a: CL:0000050 {is_inferred="true"} ! megakaryocyte-erythroid progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000050 ! megakaryocyte-erythroid progenitor cell intersection_of: CL:4030046 PR:000001003 ! lacks_plasma_membrane_part CD34 molecule intersection_of: CL:4030046 PR:000001479 ! lacks_plasma_membrane_part low affinity immunoglobulin gamma Fc region receptor II @@ -14238,7 +14557,6 @@ def: "A lin-negative, MHC-II-negative, CD11c-positive, FLT3-positive cell with i subset: cellxgene_subset is_a: CL:0000763 ! myeloid cell is_a: CL:0002031 {is_inferred="true"} ! hematopoietic lineage restricted progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002031 ! hematopoietic lineage restricted progenitor cell intersection_of: CL:4030046 GO:0042613 ! lacks_plasma_membrane_part MHC class II protein complex intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -14282,7 +14600,6 @@ def: "A progenitor cell that can give rise to plasmacytoid and myeloid dendritic comment: Markers are associated with mouse cells. synonym: "murine MDP" EXACT [] is_a: CL:0002009 {is_inferred="true"} ! macrophage dendritic cell progenitor -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002009 ! macrophage dendritic cell progenitor intersection_of: RO:0002104 PR:000001206 ! has plasma membrane part CX3C chemokine receptor 1 intersection_of: RO:0002104 PR:000002001 ! has plasma membrane part receptor-type tyrosine-protein kinase FLT3 @@ -14391,7 +14708,6 @@ name: Kit-negative, Ly-76 high orthochromatophilic erythroblasts def: "An orthochromatophilic erythroblast that is ter119-high, CD71-low, and Kit-negative." [GOC:ak, GOC:tfm, PMID:19805084] comment: Cell surface markers associated with mouse cells. is_a: CL:0000552 {is_inferred="true"} ! orthochromatic erythroblast -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000552 ! orthochromatic erythroblast intersection_of: CL:4030046 PR:000001869 ! lacks_plasma_membrane_part interleukin-7 receptor subunit alpha intersection_of: CL:4030046 PR:000002065 ! lacks_plasma_membrane_part mast/stem cell growth factor receptor @@ -14413,7 +14729,6 @@ name: CD71-negative, GlyA-positive orthochromatic erythroblast def: "An erythroblast that is GlyA-positive and CD71-negative." [GOC:ak, GOC:tfm, PMID:1638021] comment: Markers associated with human cells. is_a: CL:0000552 {is_inferred="true"} ! orthochromatic erythroblast -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000552 ! orthochromatic erythroblast intersection_of: CL:4030046 PR:000001945 ! lacks_plasma_membrane_part transferrin receptor protein 1 intersection_of: RO:0002104 PR:000001460 ! has plasma membrane part glycophorin-A @@ -14455,7 +14770,6 @@ name: GlyA-positive erythrocyte def: "An enucleate erythrocyte that is GlyA-positive." [GOC:ak, GOC:tfm, PMID:20134094] comment: Marker is associated with human cell types. is_a: CL:0000595 {is_inferred="true"} ! enucleate erythrocyte -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000595 ! enucleate erythrocyte intersection_of: RO:0002104 PR:000001460 ! has plasma membrane part glycophorin-A relationship: RO:0002104 PR:000001460 ! has plasma membrane part glycophorin-A @@ -14469,7 +14783,6 @@ name: Ly-76 high positive erythrocyte def: "An enucleate erythrocyte that is Lyg-76-high." [GOC:ak, GOC:tfm, PMID:19805084] comment: Marker is associated with mouse cell types. is_a: CL:0000595 {is_inferred="true"} ! enucleate erythrocyte -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000595 ! enucleate erythrocyte intersection_of: RO:0015015 PR:000002981 ! has high plasma membrane amount lymphocyte antigen 76 (mouse) relationship: RO:0002202 CL:0002019 ! develops from Ly-76 high reticulocyte @@ -14483,7 +14796,6 @@ name: CD34-positive, CD41-positive, CD42-positive megakaryocyte progenitor cell def: "A megakaroycotye progenitor cell that is CD34-positive, CD41-positive and CD42-positive on the cell surface." [GOC:ak, GOC:tfm, PMID:15232614] comment: Markers are associated with human cell type. is_a: CL:0000553 {is_inferred="true"} ! megakaryocyte progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000553 ! megakaryocyte progenitor cell intersection_of: RO:0002104 PR:000001003 ! has plasma membrane part CD34 molecule intersection_of: RO:0002104 PR:000001907 ! has plasma membrane part platelet glycoprotein Ib alpha chain @@ -14501,7 +14813,6 @@ name: Kit-positive megakaryocyte progenitor cell def: "A megakaryocyte progenitor cell that is Kit-positive, CD41-positive, CD9-positive, Sca-1-negative, IL7ralpha-negative, CD150-negative, and Fcgamma receptor II/III-low." [GOC:ak, GOC:tfm, PMID:16951553] comment: Markers are associated with mouse cells. is_a: CL:0000553 {is_inferred="true"} ! megakaryocyte progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000553 ! megakaryocyte progenitor cell intersection_of: CL:4030046 PR:000001833 ! lacks_plasma_membrane_part SLAM family member 1 intersection_of: CL:4030046 PR:000001869 ! lacks_plasma_membrane_part interleukin-7 receptor subunit alpha @@ -14527,7 +14838,6 @@ name: CD34-positive, CD41-positive, CD42-negative megakaryocyte progenitor cell def: "A megakaryocyte progenitor cell that is CD34-positive, CD41-positive, and CD42-negative." [GOC:ak, GOC:tfm, PMID:15232614] comment: Markers are commonly associated with human cells. is_a: CL:0000553 {is_inferred="true"} ! megakaryocyte progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000553 ! megakaryocyte progenitor cell intersection_of: CL:4030046 PR:000001907 ! lacks_plasma_membrane_part platelet glycoprotein Ib alpha chain intersection_of: RO:0002104 PR:000001003 ! has plasma membrane part CD34 molecule @@ -14545,7 +14855,6 @@ name: CD34-negative, CD41-positive, CD42-positive megakaryocyte cell def: "A megakaryocyte progenitor cell that is CD34-negative, CD41-positive and CD42-positive." [GOC:ak, GOC:tfm, PMID:15232614] comment: Markers are commonly associated with human cells. is_a: CL:0000556 {is_inferred="true"} ! megakaryocyte -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000556 ! megakaryocyte intersection_of: CL:4030046 PR:000001003 ! lacks_plasma_membrane_part CD34 molecule intersection_of: RO:0002104 PR:000001907 ! has plasma membrane part platelet glycoprotein Ib alpha chain @@ -14563,7 +14872,6 @@ name: CD9-positive, CD41-positive megakaryocyte cell def: "A megakaryocyte cell with is CD9-positive and CD41-positive." [GOC:tfm] comment: Markers are commonly associated with mouse cells. is_a: CL:0000556 {is_inferred="true"} ! megakaryocyte -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000556 ! megakaryocyte intersection_of: RO:0002104 PR:000005178 ! has plasma membrane part CD9 molecule intersection_of: RO:0002104 PR:000009127 ! has plasma membrane part integrin alpha-IIb @@ -14582,7 +14890,6 @@ subset: cellxgene_subset synonym: "BMCP" EXACT [] is_a: CL:0000763 ! myeloid cell is_a: CL:0002191 ! granulocytopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000839 ! myeloid lineage restricted progenitor cell intersection_of: capable_of GO:0030221 ! basophil differentiation intersection_of: capable_of GO:0060374 ! mast cell differentiation @@ -14644,6 +14951,7 @@ id: CL:0002031 name: hematopoietic lineage restricted progenitor cell def: "A hematopoietic progenitor cell that is capable of developing into only one lineage of hematopoietic cells." [GOC:tfm, PMID:19022770] subset: blood_and_immune_upper_slim +is_a: BFO:0000002 is_a: CL:0008001 ! hematopoietic precursor cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: bearer_of PATO:0001400 ! unipotent @@ -14659,6 +14967,7 @@ name: hematopoietic oligopotent progenitor cell def: "A hematopoietic oligopotent progenitor cell that has the ability to differentiate into limited cell types but lacks lineage cell markers and self renewal capabilities." [GOC:tfm, https://orcid.org/0000-0001-5208-3432, PMID:19022770] comment: This cell type is intended to be compatible with any vertebrate hematopoietic oligopotent progenitor cell. For mammalian hematopoietic oligopotent progenitor cells known to be lineage-negative, please use the term 'hematopoietic oligopotent progenitor cell' (CL_0001060). subset: blood_and_immune_upper_slim +is_a: BFO:0000002 is_a: CL:0008001 ! hematopoietic precursor cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: bearer_of PATO:0001401 ! oligopotent @@ -15312,6 +15621,7 @@ synonym: "type II alveolar epithelial cell" EXACT [] synonym: "type II alveolocyte" EXACT [] xref: BTO:0000538 xref: FMA:62501 +is_a: BFO:0000002 is_a: CL:0000157 ! surfactant secreting cell is_a: CL:0000322 ! pneumocyte is_a: CL:1000272 ! lung secretory cell @@ -15333,6 +15643,7 @@ synonym: "acinar cell of pancreas" EXACT [] xref: BTO:0000028 xref: CALOHA:TS-0737 xref: FMA:63032 +xref: ZFA:0005739 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000622 {is_inferred="true"} ! acinar cell is_a: CL:1001599 ! pancreas exocrine glandular cell intersection_of: CL:0000622 ! acinar cell @@ -15463,7 +15774,7 @@ creation_date: 2010-06-29T11:50:47Z [Term] id: CL:0002075 -name: brush cell of trachebronchial tree +name: brush cell of tracheobronchial tree def: "Infrequent type of columnar epithelial cell. This cell is characterized by the presence of a tuft of blunt, squat microvilli (approximately 120-140/cell) on the cell surface. The microvilli contain filaments that stretch into the underlying cytoplasm. They have a distinctive pear shape with a wide base and a narrow microvillous apex. Function not known." [GOC:tfm, ISBN:0517223651, PMID:15817800] subset: cellxgene_subset synonym: "pulmonary brush cell" RELATED [] @@ -15479,6 +15790,8 @@ id: CL:0002076 name: endo-epithelial cell def: "An epithelial cell derived from endoderm." [FMA:69075, GOC:tfm] xref: FMA:69075 +xref: ZFA:0009383 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000066 ! epithelial cell relationship: RO:0002202 CL:0000223 ! develops from endodermal cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 @@ -15489,6 +15802,8 @@ id: CL:0002077 name: ecto-epithelial cell def: "An epithelial cell derived from ectoderm." [FMA:69074, GOC:tfm] xref: FMA:69074 +xref: ZFA:0009385 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: RO:0002202 CL:0000221 ! develops from ectodermal cell @@ -15502,6 +15817,8 @@ name: meso-epithelial cell def: "Epithelial cell derived from mesoderm or mesenchyme." [FMA:69076, GOC:tfm] synonym: "epithelial mesenchymal cell" EXACT [] xref: FMA:69076 +xref: ZFA:0009388 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: RO:0002202 CL:0000222 ! develops from mesodermal cell @@ -15516,6 +15833,7 @@ def: "Epithelial cell found in the ducts of the pancreas. This cell type contrib subset: cellxgene_subset subset: human_reference_atlas xref: FMA:63099 +xref: ZFA:0009380 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000069 ! branched duct epithelial cell is_a: CL:1001433 ! epithelial cell of exocrine pancreas intersection_of: CL:0000083 ! epithelial cell of pancreas @@ -15535,6 +15853,7 @@ subset: human_reference_atlas synonym: "centroacinar cell of Langerhans" EXACT [] synonym: "pancreatic centroacinar cell" EXACT [] xref: FMA:62455 +xref: ZFA:0005740 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:1001433 ! epithelial cell of exocrine pancreas intersection_of: CL:0000083 ! epithelial cell of pancreas intersection_of: capable_of GO:0015106 ! bicarbonate transmembrane transporter activity @@ -16540,6 +16859,7 @@ def: "The dead keratin-filled squamous cell of the stratum corneum. This cell ty subset: human_reference_atlas xref: BTO:0001943 xref: FMA:68650 +is_a: BFO:0000002 is_a: CL:0000225 ! anucleate cell is_a: CL:0000311 ! keratin accumulating cell relationship: part_of UBERON:0002027 ! stratum corneum of epidermis @@ -17127,7 +17447,7 @@ alt_id: CL:1000386 def: "A brush cell found in the epithelium of lobular bronchiole." [GOC:tfm] xref: FMA:263220 is_a: CL:0000082 ! epithelial cell of lung -is_a: CL:0002075 ! brush cell of trachebronchial tree +is_a: CL:0002075 ! brush cell of tracheobronchial tree intersection_of: CL:0002204 ! brush cell intersection_of: part_of UBERON:8600001 ! epithelium of lobular bronchiole relationship: part_of UBERON:8600001 ! epithelium of lobular bronchiole @@ -17141,7 +17461,7 @@ alt_id: CL:1000390 def: "A brush cell of the epithelium in the terminal bronchiole." [GOC:tfm] xref: FMA:263228 is_a: CL:0000082 ! epithelial cell of lung -is_a: CL:0002075 ! brush cell of trachebronchial tree +is_a: CL:0002075 ! brush cell of tracheobronchial tree intersection_of: CL:0002204 ! brush cell intersection_of: part_of UBERON:0001958 ! terminal bronchiole epithelium relationship: part_of UBERON:0001958 ! terminal bronchiole epithelium @@ -17157,7 +17477,7 @@ subset: cellxgene_subset subset: human_reference_atlas xref: FMA:263224 is_a: CL:0000307 {is_inferred="true"} ! tracheal epithelial cell -is_a: CL:0002075 {is_inferred="true"} ! brush cell of trachebronchial tree +is_a: CL:0002075 {is_inferred="true"} ! brush cell of tracheobronchial tree intersection_of: CL:0002204 ! brush cell intersection_of: part_of UBERON:0001901 ! epithelium of trachea relationship: part_of UBERON:0001901 ! epithelium of trachea @@ -17172,7 +17492,7 @@ alt_id: CL:1000389 def: "A brush cell found in the epithelium of bronchus." [GOC:tfm] subset: human_reference_atlas xref: FMA:263226 -is_a: CL:0002075 ! brush cell of trachebronchial tree +is_a: CL:0002075 ! brush cell of tracheobronchial tree is_a: CL:0002328 ! bronchial epithelial cell intersection_of: CL:0002204 ! brush cell intersection_of: part_of UBERON:0002031 ! epithelium of bronchus @@ -17374,6 +17694,7 @@ def: "A lens fiber cell that develops from primary lens fiber; located towards t subset: cellxgene_subset subset: human_reference_atlas synonym: "secondary lens fibre" EXACT [] +is_a: BFO:0000002 is_a: CL:0011004 ! lens fiber cell relationship: RO:0002202 CL:0002228 ! develops from primary lens fiber property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 @@ -17408,6 +17729,7 @@ def: "An elongating cell that rapidly obliterates the lumen of the lens vesicle. subset: human_reference_atlas synonym: "primary lens fibre" EXACT [] xref: FMA:70613 +is_a: BFO:0000002 is_a: CL:0011004 ! lens fiber cell relationship: RO:0002202 CL:0002223 ! develops from anterior lens cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 @@ -17709,6 +18031,7 @@ alt_id: CL:1000402 def: "An epithelial cell of the esophagus." [GOC:tfm] subset: cellxgene_subset xref: FMA:63071 +xref: ZFA:0009400 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002251 {is_inferred="true"} ! epithelial cell of alimentary canal intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0001043 ! esophagus @@ -18003,6 +18326,7 @@ synonym: "PP-cell of pancreatic islet" EXACT [] xref: BTO:0000805 xref: FMA:70588 xref: MESH:D050418 +xref: ZFA:0005742 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000696 ! PP cell is_a: CL:0008024 ! pancreatic endocrine cell intersection_of: CL:0000696 ! PP cell @@ -18540,6 +18864,7 @@ id: CL:0002318 name: peripheral blood mesothelial cell def: "A mesothelial cell capable of circulating in the blood by first losing its squamous character. This cell can incorporate into the regenerating mesothelium." [GOC:tfm, PMID:14592528] xref: FMA:86712 +is_a: BFO:0000002 is_a: CL:0000081 ! blood cell relationship: RO:0002202 CL:0000077 ! develops from mesothelial cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 @@ -18568,6 +18893,7 @@ subset: cellxgene_subset xref: CALOHA:TS-2096 xref: FMA:63875 xref: MESH:D003239 +xref: ZFA:0009392 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0002384 ! connective tissue @@ -18582,6 +18908,7 @@ def: "A cell of the embryo." [FMA:0618947256] xref: CALOHA:TS-0263 xref: FMA:82840 xref: WBbt:0007028 +xref: ZFA:0007089 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 creation_date: 2010-09-15T03:39:21Z @@ -18675,6 +19002,7 @@ def: "A mammary epithelial cell that occurs in the lumen of the ductal and alveo subset: cellxgene_subset synonym: "mature luminal cell" BROAD [PMID:21930782] xref: FMA:73280 +is_a: BFO:0000002 is_a: CL:0000069 ! branched duct epithelial cell is_a: CL:0002327 ! mammary gland epithelial cell relationship: RO:0002202 CL:0009116 ! develops from progenitor cell of mammary luminal epithelium @@ -19037,7 +19365,6 @@ id: CL:0002353 name: fetal liver hematopoietic progenitor cell def: "A hematopoietic stem cell that resides in the fetal liver. In mice, this cell type is first observed at E10.5. This cell type is MHC-positive, HSA-positive, AA4.1-positive, CD45-positive, Sca-1 positive, CD150-positive, CD48-negative and CD244-negative." [GOC:tfm, ISBN:978-1-60327-346-6, PMID:16569764] is_a: CL:0002352 {is_inferred="true"} ! gestational hematopoietic stem cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002352 ! gestational hematopoietic stem cell intersection_of: CL:4030046 PR:000001308 ! lacks_plasma_membrane_part CD48 molecule intersection_of: CL:4030046 PR:000001896 ! lacks_plasma_membrane_part natural killer cell receptor 2B4 @@ -19065,7 +19392,6 @@ name: yolk sac hematopoietic stem cell def: "A hematopoietic stem found in the yolk sac. In mice, this cell type is Sca-1-negative, CD45-negative, MHC-negative, HSA-positive, AA4.1-positive, CD44-positive." [doi:10.1097/MOH.0b013e3282f97ae1, GOC:tfm] synonym: "hemangioblast precursor" EXACT [] is_a: CL:0002352 {is_inferred="true"} ! gestational hematopoietic stem cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002352 ! gestational hematopoietic stem cell intersection_of: CL:4030046 GO:0042611 ! lacks_plasma_membrane_part MHC protein complex intersection_of: CL:4030046 PR:000001006 ! lacks_plasma_membrane_part receptor-type tyrosine-protein phosphatase C @@ -19092,7 +19418,6 @@ synonym: "primitive erythroblast" EXACT [] synonym: "primitive erythrocyte" EXACT [] synonym: "primitive erythroid cell" EXACT [] is_a: CL:0002417 {is_inferred="true"} ! primitive erythroid lineage cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002417 ! primitive erythroid lineage cell intersection_of: bearer_of PATO:0000586 ! increased size intersection_of: has_part PR:000008467 ! hemoglobin subunit zeta @@ -19126,7 +19451,6 @@ name: fetal derived definitive erythrocyte def: "A fetal liver derived enucleated erythrocyte. This erythrocyte resembles adult erythrocytes in that they are small (3- to 6- times smaller than primitive erythrocytes) and produce adult hemaglobins." [GOC:tfm, PMID:11495698] synonym: "macrocyte" EXACT [] is_a: CL:0000595 {is_inferred="true"} ! enucleate erythrocyte -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000595 ! enucleate erythrocyte intersection_of: has_part PR:000008857 ! hemoglobin subunit beta-1 intersection_of: part_of UBERON:0000922 ! embryo @@ -19175,7 +19499,6 @@ def: "A progenitor cell that is capable of forming colonies of primitive erythro synonym: "EryP-CFC" EXACT [] synonym: "inner blood island hemangioblast" EXACT [] is_a: CL:0002417 {is_inferred="true"} ! primitive erythroid lineage cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002417 ! primitive erythroid lineage cell intersection_of: RO:0002104 PR:000009127 ! has plasma membrane part integrin alpha-IIb relationship: RO:0002104 PR:000009127 ! has plasma membrane part integrin alpha-IIb @@ -19327,7 +19650,7 @@ alt_id: CL:0000369 def: "A transversely striated, synctial muscle cell, formed by the fusion of myoblasts." [GOC:dos, GOC:tfm, ISBN:0323052908, PMID:22274696] synonym: "myotubule" EXACT [] synonym: "single cell sarcomere" EXACT [] -xref: FBbt:00005812 +xref: FBbt:00005812 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000228 ! multinucleate cell is_a: CL:0000737 ! striated muscle cell intersection_of: CL:0000187 ! muscle cell @@ -19389,7 +19712,7 @@ name: immature Schwann cell def: "A glial cell that develops from a Schwann cell precursor. The immature Schwann cell is embedded among neurons (axons) with minimal extracellular spaces separating them from nerve cell membranes and has a basal lamina. Cells can survive without an axon present. Immature Schwann cell can be found communally ensheathing large groups of axons." [GOC:cvs, GOC:tfm, ISBN:0721662544] subset: cellxgene_subset synonym: "Schwann cell" BROAD [] -xref: ZFA:0001725 +xref: ZFA:0001725 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002573 ! Schwann cell relationship: RO:0002202 CL:0002375 ! develops from Schwann cell precursor property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 @@ -19865,6 +20188,7 @@ id: CL:0002418 name: hemangioblast def: "A pluripotent cell in the yolk sac that can give rise to mesenchymal cells including erythrocytes and endothelial cells." [GOC:tfm, ISBN:0813817986, PMID:11495698] xref: MESH:D055018 +is_a: BFO:0000002 is_a: CL:0000222 ! mesodermal cell relationship: RO:0002202 CL:0002354 ! develops from yolk sac hematopoietic stem cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 @@ -19965,7 +20289,6 @@ subset: human_reference_atlas synonym: "ETP" EXACT [] synonym: "preT.ETP.Th" EXACT [] is_a: CL:0000827 {is_inferred="true"} ! pro-T cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000827 ! pro-T cell intersection_of: CL:4030046 PR:000001380 ! lacks_plasma_membrane_part interleukin-2 receptor subunit alpha intersection_of: RO:0002104 PR:000001307 ! has plasma membrane part CD44 molecule @@ -20349,6 +20672,7 @@ creation_date: 2010-10-25T03:56:27Z id: CL:0002450 name: tether cell def: "A specialized hair cell that has an elongated kinocilium upon which an otolith accretes. The tether cell then anchors the otolith in place." [GOC:cvs, GOC:tfm, PMID:9398434] +xref: ZFA:0005565 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002374 ! ear hair cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 creation_date: 2010-11-10T01:41:00Z @@ -20688,7 +21012,6 @@ synonym: "MF.BM" RELATED OMO:0003000 [] xref: BTO:0004732 is_a: CL:0000864 {is_inferred="true"} ! tissue-resident macrophage is_a: CL:0010004 ! mononuclear cell of bone marrow -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000864 ! tissue-resident macrophage intersection_of: CL:4030046 PR:000001014 ! lacks_plasma_membrane_part receptor-type tyrosine-protein phosphatase C isoform CD45RABC intersection_of: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon @@ -20708,7 +21031,6 @@ id: CL:0002477 name: adipose macrophage def: "A macrophage located in adipose tissue that is CD45-positive, CD11c-positive, and SIRPa-positive." [GOC:tfm] is_a: CL:0000864 {is_inferred="true"} ! tissue-resident macrophage -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000864 ! tissue-resident macrophage intersection_of: RO:0002104 PR:000001006 ! has plasma membrane part receptor-type tyrosine-protein phosphatase C intersection_of: RO:0002104 PR:000001013 ! has plasma membrane part integrin alpha-X @@ -21222,6 +21544,7 @@ name: kidney epithelial cell def: "An epithelial cell of the kidney." [GOC:tfm, KUPO:SJ] subset: cellxgene_subset xref: KUPO:0001019 +xref: ZFA:0009374 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell is_a: CL:1000497 {is_inferred="true"} ! kidney cell intersection_of: CL:0000066 ! epithelial cell @@ -21470,6 +21793,7 @@ name: intrahepatic cholangiocyte def: "An epithelial cell of the intrahepatic portion of the bile duct. These cells are flattened or cuboidal in shape, and have a small nuclear-to-cytoplasmic ratio relative to large/extrahepatic cholangiocytes." [GOC:tfm, PMID:23720296] subset: cellxgene_subset synonym: "small bile duct cholangiocyte" EXACT [PMID:23720296] +xref: ZFA:0009379 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:1000488 {is_inferred="true"} ! cholangiocyte intersection_of: CL:1000488 ! cholangiocyte intersection_of: part_of UBERON:0004823 ! intrahepatic bile duct epithelium @@ -21505,13 +21829,11 @@ creation_date: 2011-02-28T01:47:47Z id: CL:0002541 name: chorionic membrane mesenchymal stem cell def: "A mesenchymal stem cell of the chorionic membrane." [GOC:tfm] -subset: human_reference_atlas is_a: CL:0000134 ! mesenchymal stem cell intersection_of: CL:0000134 ! mesenchymal stem cell intersection_of: part_of UBERON:0003124 ! chorion membrane relationship: part_of UBERON:0003124 ! chorion membrane property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 -property_value: RO:0002175 NCBITaxon:9606 creation_date: 2011-02-28T03:04:35Z [Term] @@ -21560,6 +21882,7 @@ id: CL:0002546 name: embryonic blood vessel endothelial progenitor cell def: "An endothelial progenitor cell that participates in angiogenesis during development." [GOC:tfm] comment: See CL:0002619. +xref: ZFA:0005773 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000222 ! mesodermal cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 creation_date: 2011-02-28T04:20:39Z @@ -21615,6 +21938,7 @@ creation_date: 2011-02-28T05:03:44Z [Term] id: CL:0002551 name: fibroblast of dermis +def: "Any skin fibroblast that is part of some dermis." [FBC:Autogenerated] is_a: CL:0002620 {is_inferred="true"} ! skin fibroblast intersection_of: CL:0002620 ! skin fibroblast intersection_of: part_of UBERON:0002067 ! dermis @@ -21625,6 +21949,7 @@ creation_date: 2011-02-28T05:05:33Z [Term] id: CL:0002552 name: fibroblast of gingiva +def: "Any fibroblast that is part of some gingiva." [FBC:Autogenerated] is_a: CL:0000057 {is_inferred="true"} ! fibroblast intersection_of: CL:0000057 ! fibroblast intersection_of: part_of UBERON:0001828 ! gingiva @@ -21757,6 +22082,7 @@ id: CL:0002563 name: intestinal epithelial cell def: "An epithelial cell of the intestine." [GOC:tfm] subset: cellxgene_subset +xref: ZFA:0009399 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002251 ! epithelial cell of alimentary canal intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0000160 ! intestine @@ -22168,6 +22494,7 @@ creation_date: 2011-03-06T05:43:24Z [Term] id: CL:0002598 name: bronchial smooth muscle cell +def: "Any smooth muscle cell that is part of some bronchus." [FBC:Autogenerated] subset: cellxgene_subset subset: human_reference_atlas xref: BTO:0004402 @@ -22217,6 +22544,7 @@ creation_date: 2011-03-06T05:53:28Z [Term] id: CL:0002602 name: annulus pulposus cell +def: "Any connective tissue cell that is part of some annulus fibrosus disci intervertebralis." [FBC:Autogenerated] synonym: "anulus pulposus cell" EXACT [] is_a: CL:0002320 {is_inferred="true"} ! connective tissue cell intersection_of: CL:0002320 ! connective tissue cell @@ -22445,6 +22773,7 @@ creation_date: 2011-03-14T12:31:49Z [Term] id: CL:0002621 name: gingival epithelial cell +def: "Any epithelial cell that is part of some gingival epithelium." [FBC:Autogenerated] is_a: CL:0002251 ! epithelial cell of alimentary canal intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0001949 ! gingival epithelium @@ -22558,6 +22887,7 @@ creation_date: 2011-06-16T01:01:41Z [Term] id: CL:0002631 name: epithelial cell of upper respiratory tract +def: "Any respiratory epithelial cell that is part of some upper respiratory tract." [FBC:Autogenerated] is_a: CL:0002368 {is_inferred="true"} ! respiratory epithelial cell intersection_of: CL:0002368 ! respiratory epithelial cell intersection_of: part_of UBERON:0001557 ! upper respiratory tract @@ -22568,6 +22898,7 @@ creation_date: 2011-06-21T12:28:55Z [Term] id: CL:0002632 name: epithelial cell of lower respiratory tract +def: "Any respiratory epithelial cell that is part of some lower respiratory tract." [FBC:Autogenerated] subset: cellxgene_subset is_a: CL:0002368 {is_inferred="true"} ! respiratory epithelial cell intersection_of: CL:0002368 ! respiratory epithelial cell @@ -22981,6 +23312,7 @@ creation_date: 2011-08-16T01:49:32Z id: CL:0002672 name: retinal progenitor cell def: "A multi-fate stem cell that can give rise to different retinal cell types including rod and cone cells." [GOC:tfm, PMID:20959166, PMID:21148186] +is_a: BFO:0000002 is_a: CL:0000048 ! multi fate stem cell relationship: RO:0002202 CL:0000133 ! develops from neurectodermal cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 @@ -23623,7 +23955,6 @@ synonym: "long wavelength sensitive cone" EXACT [PMID:31117170] synonym: "long- (L) wavelength-sensitive cone" EXACT [https://doi.org/10.7554/eLife.39166] synonym: "long-wavelength cone" EXACT [https://doi.org/10.1038/323623a0] is_a: CL:0000573 ! retinal cone cell -is_a: PR:000050567 ! protein-containing material entity relationship: has_part PR:000001244 ! long-wave-sensitive opsin 1 property_value: http://purl.org/dc/terms/contributor "https://orcid.org/0000-0002-5260-9315" xsd:string @@ -23638,7 +23969,6 @@ synonym: "middle wavelength sensitive cone" EXACT [PMID:31117170] synonym: "middle- (M) wavelength-sensitive cone" EXACT [https://doi.org/10.7554/eLife.39166] synonym: "middle-wavelength-sensitive (M) cone" EXACT [https://opg.optica.org/josaa/abstract.cfm?URI=josaa-6-1-153] is_a: CL:0000573 ! retinal cone cell -is_a: PR:000050567 ! protein-containing material entity relationship: has_part PR:000001224 ! medium-wave-sensitive opsin property_value: http://purl.org/dc/terms/contributor "https://orcid.org/0000-0002-5260-9315" xsd:string @@ -24308,6 +24638,7 @@ id: CL:0005000 name: spinal cord interneuron def: "A CNS interneuron located in the spinal cord." [CL:CVS] comment: Is_a interneuron, part_of UBERON:0002240. +xref: ZFA:0000778 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000402 {is_inferred="true"} ! CNS interneuron intersection_of: CL:0000099 ! interneuron intersection_of: RO:0002100 UBERON:0002240 ! has soma location spinal cord @@ -24318,6 +24649,7 @@ id: CL:0005001 name: iridoblast def: "A non-terminally differentiated cell that originates from the neural crest and differentiates into an iridophore." [CL:CVS] comment: Derived from UBERON:0002342 neural crest. +xref: ZFA:0005328 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0011026 ! progenitor cell relationship: RO:0002202 CL:0000333 ! develops from migratory neural crest cell @@ -24326,6 +24658,7 @@ relationship: RO:0002202 CL:0000333 ! develops from migratory neural crest cell id: CL:0005002 name: xanthoblast def: "A non-terminally differentiated cell that differentiates into a xanthophore." [CL:CVS] +xref: ZFA:0005245 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0011026 ! progenitor cell relationship: RO:0002202 CL:0000333 ! develops from migratory neural crest cell @@ -24334,6 +24667,7 @@ relationship: RO:0002202 CL:0000333 ! develops from migratory neural crest cell id: CL:0005003 name: leucoblast def: "A non-terminally differentiated cell that originates from the neural crest and differentiates into a leucophore." [CL:CVS] +xref: ZFA:0005329 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0011026 ! progenitor cell relationship: RO:0002202 CL:0000333 ! develops from migratory neural crest cell @@ -24342,6 +24676,7 @@ relationship: RO:0002202 CL:0000333 ! develops from migratory neural crest cell id: CL:0005004 name: pigment erythroblast def: "A non-terminally differentiated cell that originates from the neural crest and differentiates into an erythrophore." [CL:CVS] +xref: ZFA:0005331 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0011026 ! progenitor cell relationship: RO:0002202 CL:0000333 ! develops from migratory neural crest cell @@ -24350,6 +24685,7 @@ relationship: RO:0002202 CL:0000333 ! develops from migratory neural crest cell id: CL:0005005 name: cyanoblast def: "A non-terminally differentiated cell that originates from the neural crest and differentiates into a cyanophore." [CL:CVS] +xref: ZFA:0005332 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0011026 ! progenitor cell relationship: RO:0002202 CL:0000333 ! develops from migratory neural crest cell @@ -24360,6 +24696,7 @@ name: ionocyte def: "Specialized epithelial cells involved in the maintenance of osmotic homeostasis. They are characterized by abundant mitochondria and ion transporters. In amniotes, they are present in the renal system. In freshwater fish, ionocytes in the skin and gills help maintain osmotic homeostasis by absorbing salt from the external environment." [PMID:17555741, PMID:19268451] subset: cellxgene_subset subset: human_reference_atlas +xref: ZFA:0005323 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell property_value: RO:0002175 NCBITaxon:9606 @@ -24371,6 +24708,7 @@ synonym: "KA cell" EXACT [] synonym: "KA interneuron" EXACT [PMID:15539490] synonym: "KA neuron" EXACT [PMID:9634146] synonym: "Kolmer-Agduhr cell" EXACT [] +xref: ZFA:0005240 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0005000 ! spinal cord interneuron is_a: CL:0011005 ! GABAergic interneuron @@ -24389,6 +24727,7 @@ id: CL:0005009 name: renal principal cell def: "A cuboidal epithelial cell of the kidney which regulates sodium and potassium balance. The activity of sodium and potassium channels on the apical membrane of the cell is regulated by aldosterone and vasopressin. In mammals this cell type is located in the renal collecting duct system." [CL:CVS] subset: cellxgene_subset +xref: ZFA:0005322 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000075 ! columnar/cuboidal epithelial cell is_a: CL:0002518 ! kidney epithelial cell @@ -24400,6 +24739,7 @@ comment: Intercalated cells are also called “mitochondria-rich cells”, refle subset: cellxgene_subset synonym: "intercalated cell" EXACT [] xref: FMA:86560 +xref: ZFA:0009375 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000075 ! columnar/cuboidal epithelial cell is_a: CL:0002078 ! meso-epithelial cell is_a: CL:1000449 ! epithelial cell of nephron @@ -24412,6 +24752,7 @@ comment: Type A intercalated cells are the more abundant type of intercalated ce subset: cellxgene_subset synonym: "type A intercalated cell" EXACT [PMID:25632105] synonym: "type A-IC" EXACT [PMID:25632105] +xref: ZFA:0009376 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0005010 ! renal intercalated cell relationship: capable_of GO:0046717 ! acid secretion @@ -24424,12 +24765,14 @@ synonym: "MCC" RELATED OMO:0003000 [] synonym: "multi-ciliated cell" BROAD [] synonym: "multiciliated cell" BROAD [] synonym: "multiciliated epithelial cell" EXACT [] +xref: ZFA:0005242 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000067 ! ciliated epithelial cell [Term] id: CL:0005013 name: single ciliated epithelial cell def: "A ciliated epithelial cell with a single cilium." [CL:CVS] +xref: ZFA:0005243 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000067 ! ciliated epithelial cell [Term] @@ -24437,6 +24780,7 @@ id: CL:0005014 name: auditory epithelial supporting cell def: "A non-sensory cell that extends from the basement membrane to the apical surface of the auditory epithelium and provides support for auditory hair cells." [CL:CVS, GOC:tfm] synonym: "auditory epithelial support cell" EXACT [] +xref: ZFA:0005244 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000630 ! supporting cell is_a: CL:0000710 ! neurecto-epithelial cell is_a: CL:0002491 ! auditory epithelial cell @@ -24466,6 +24810,7 @@ replaced_by: PO:0002002 id: CL:0005018 name: ghrelin secreting cell def: "A cell that secretes ghrelin, the peptide hormone that stimulates hunger." [CL:curator] +xref: ZFA:0005599 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000167 ! peptide hormone secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0036321 ! ghrelin secretion @@ -24479,6 +24824,7 @@ comment: In mammals the endocrine pancreas is called the Islets of Langerhans. subset: cellxgene_subset subset: human_reference_atlas synonym: "pancreatic E cell" EXACT [] +xref: ZFA:0005598 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0005018 ! ghrelin secreting cell is_a: CL:0008024 ! pancreatic endocrine cell intersection_of: CL:0008024 ! pancreatic endocrine cell @@ -24490,6 +24836,7 @@ id: CL:0005020 name: lymphangioblast def: "Lymphatic progenitor cells." [CL:CVS] comment: Usually express Prox1, or prox1b. +xref: ZFA:0009393 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000048 {is_inferred="true"} ! multi fate stem cell is_a: CL:4033054 ! perivascular cell intersection_of: CL:0000048 ! multi fate stem cell @@ -24503,6 +24850,7 @@ id: CL:0005021 name: mesenchymal lymphangioblast def: "Mesenchymal derived lymphatic progenitor cells that give rise to the superficial lymphatics." [PMID:15624319, PMID:18430230] subset: cellxgene_subset +xref: ZFA:0009394 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000134 ! mesenchymal stem cell is_a: CL:0005020 ! lymphangioblast property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2244-7917 @@ -24514,6 +24862,7 @@ name: vascular lymphangioblast def: "Lymphatic progenitor cells, derived from the veins, that give rise to lymphatic endothelial cells." [CL:CVS] subset: cellxgene_subset synonym: "parachordal lymphangioblast" NARROW [] +xref: ZFA:0009395 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0005020 {is_inferred="true"} ! lymphangioblast intersection_of: CL:0005020 ! lymphangioblast intersection_of: adjacent_to UBERON:0001638 ! vein @@ -24528,6 +24877,7 @@ def: "Cranial motor neuron which innervates muscles derived from the branchial ( synonym: "branchi motor neuron" EXACT [] synonym: "special visceral motor neuron" EXACT [] xref: PMID:14699587 +xref: ZFA:0005731 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0015000 ! cranial motor neuron intersection_of: CL:0015000 ! cranial motor neuron intersection_of: RO:0002130 UBERON:0004164 ! has synaptic terminal in branchiomeric muscle @@ -24538,6 +24888,7 @@ id: CL:0005024 name: somatomotor neuron def: "A motor neuron that innervates a skeletal muscle. These motor neurons are all excitatory and cholinergic." [ZFIN:CVS] synonym: "somatic motor neuron" EXACT [] +xref: ZFA:0005733 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000100 ! motor neuron is_a: CL:0000108 ! cholinergic neuron intersection_of: CL:0000100 ! motor neuron @@ -24551,6 +24902,7 @@ def: "A motor neuron that synapses to parasympathetic neurons that innervate tea comment: Note that these neurons do not synapse directly onto muscles subset: cellxgene_subset synonym: "general visceral motor neuron" EXACT [] +xref: ZFA:0005732 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000100 ! motor neuron relationship: RO:0002120 CL:0011102 ! synapsed to parasympathetic neuron @@ -24567,6 +24919,7 @@ id: CL:0007000 name: preameloblast def: "Skeletogenic cell that has the potential to develop into an ameloblast. Located in the inner enamel epithelium, these cells elongate, their nuclei shift distally (away from the dental papilla), and their cytoplasm becomes filled with organelles needed for synthesis and secretion of enamel proteins." [GO_REF:0000034, PMCID:PMC2737325] comment: unsure of neural crest contribution. In VSAO we have develops_from CL:0000008 +is_a: BFO:0000002 is_a: CL:0000055 ! non-terminally differentiated cell relationship: adjacent_to UBERON:0001763 ! odontogenic papilla relationship: part_of UBERON:0005176 ! tooth enamel organ @@ -24608,6 +24961,8 @@ creation_date: 2012-06-15T05:15:11Z id: CL:0007004 name: premigratory neural crest cell def: "Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells." [UBERONREF:0000002] +xref: ZFA:0007084 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0011012 ! neural crest cell relationship: part_of UBERON:0002342 ! neural crest relationship: RO:0002202 CL:0000133 ! develops from neurectodermal cell @@ -24619,6 +24974,7 @@ id: CL:0007005 name: notochordal cell def: "Cell that is part of the notochord." [GO_REF:0000034] comment: NOTE: TO DO, notochord development still needs work. +is_a: BFO:0000002 is_a: CL:0000000 ! cell relationship: part_of UBERON:0002328 ! notochord relationship: RO:0002202 CL:0007006 ! develops from chordamesodermal cell @@ -24639,6 +24995,7 @@ creation_date: 2012-06-27T08:52:41Z id: CL:0007007 name: notochordal sheath cell def: "Notochordal cell that is part of the outer epithelium of the notochord and surrounds the vacuolated notochord cells." [CL:MAH] +xref: ZFA:0005744 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0007005 ! notochordal cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-9114-8737 creation_date: 2012-06-27T09:26:37Z @@ -24682,6 +25039,7 @@ id: CL:0007011 name: enteric neuron def: "Neuron that is part of the enteric nervous system." [CL:MAH] subset: cellxgene_subset +xref: ZFA:0005775 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000029 ! neural crest derived neuron is_a: CL:0000107 ! autonomic neuron intersection_of: CL:0000540 ! neuron @@ -24732,6 +25090,7 @@ id: CL:0007016 name: adaxial cell def: "Muscle precursor cell that is adjacent to the notochord and part of the presomitic mesoderm." [PMID:8951054] comment: In teleosts, adaxial cells give rise to slow muscle myoblasts. +xref: ZFA:0000003 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000680 ! muscle precursor cell relationship: part_of UBERON:0003059 ! presomitic mesoderm property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-9114-8737 @@ -24788,6 +25147,7 @@ id: CL:0007022 name: micropylar cell def: "A specialized pore forming cell of the follicle, located adjacent to the animal pole of the oocyte. The micropylar cell makes the single micropyle (pore) through the chorion through which the sperm fertilizes the egg." [PMID:18582455, ZFA:0005239] synonym: "plug cell" EXACT [] +xref: ZFA:0005239 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell relationship: part_of UBERON:0001305 ! ovarian follicle property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-9114-8737 @@ -24843,7 +25203,7 @@ intersection_of: has_part GO:0030017 ! sarcomere id: CL:0008004 name: somatic muscle cell def: "A muscle cell that is part of some somatic muscle." [GOC:dos] -xref: FBbt:00005073 +xref: FBbt:00005073 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000187 ! muscle cell [Term] @@ -24868,7 +25228,7 @@ is_a: CL:0008018 ! somatic muscle myoblast id: CL:0008007 name: visceral muscle cell def: "A muscle cell that is part of some visceral muscle." [GOC:dos] -xref: FBbt:00005070 +xref: FBbt:00005070 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000187 ! muscle cell intersection_of: CL:0000187 ! muscle cell intersection_of: part_of UBERON:8600004 ! visceral muscle tissue @@ -24996,6 +25356,7 @@ relationship: RO:0002203 CL:0008017 ! develops into adult skeletal muscle myobla [Term] id: CL:0008021 name: anterior lateral line ganglion neuron +def: "Any neuron that has its soma located in some anterior lateral line ganglion." [FBC:Autogenerated] is_a: CL:2000031 ! lateral line ganglion neuron intersection_of: CL:0000540 ! neuron intersection_of: RO:0002100 UBERON:2001391 ! has soma location anterior lateral line ganglion @@ -25034,6 +25395,7 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0008025 name: noradrenergic neuron def: "A neuron that release noradrenaline (noriphinephrine) as a neurotransmitter." [GOC:dos] +xref: ZFA:0005873 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000459 ! noradrenergic cell is_a: CL:4033050 ! catecholaminergic neuron intersection_of: CL:0000540 ! neuron @@ -25044,7 +25406,7 @@ relationship: capable_of GO:0061533 ! norepinephrine secretion, neurotransmissio id: CL:0008026 name: open tracheal system tracheocyte def: "An epithelial cell that is part of the epithelium of a tracheal tube in an open tracheal system, such as that found in insects." [GOC:dos] -xref: FBbt:00005038 +xref: FBbt:00005038 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0003127 ! open tracheal system trachea @@ -25061,6 +25423,7 @@ creation_date: 2017-06-29T11:05:22Z [Term] id: CL:0008028 name: visual system neuron +def: "Any neuron that is capable of part of some visual perception." [FBC:Autogenerated] is_a: CL:0000540 ! neuron intersection_of: CL:0000540 ! neuron intersection_of: capable_of_part_of GO:0007601 ! visual perception @@ -25102,6 +25465,7 @@ id: CL:0008032 name: rosehip neuron def: "A GABAergic interneuron in human cortical layer 1 that has large rosehip-shaped axonal boutons and compact arborization." [doi:10.1038/s41593-018-0205-2] comment: A rosehip cell has been shown to have an immunohistochemical profile GAD1+CCK+, CNR1–SST–CALB2–PVALB– that matches a single transcriptomically defined cell type whose specific molecular marker signature is not seen in mouse cortex. {xref="doi:10.1038/s41593-018-0205-2"} +is_a: BFO:0000002 is_a: CL:0000255 ! eukaryotic cell is_a: CL:0010011 ! cerebral cortex GABAergic interneuron relationship: RO:0002100 UBERON:0005390 ! has soma location cortical layer I @@ -25131,6 +25495,7 @@ def: "Mural cells are pericytes and the vascular smooth muscle cells (vSMCs) of subset: added_for_HCA subset: cellxgene_subset subset: human_reference_atlas +xref: ZFA:0005944 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:4033054 ! perivascular cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-7073-9172 property_value: RO:0002175 NCBITaxon:9606 @@ -25139,6 +25504,7 @@ creation_date: 2020-02-29T17:33:55Z [Term] id: CL:0008035 name: microcirculation associated smooth muscle cell +def: "Any vascular associated smooth muscle cell that is part of some microcirculatory vessel." [FBC:Autogenerated] is_a: CL:0000359 ! vascular associated smooth muscle cell is_a: CL:0008034 ! mural cell intersection_of: CL:0000359 ! vascular associated smooth muscle cell @@ -25187,6 +25553,7 @@ id: CL:0008039 name: lower motor neuron def: "The motor neurons of vertebrates that directly innervate skeletal muscles. They receive input from upper motor neurons." [Wikipedia:Lower_motor_neuron&oldid=952547294] xref: FMA:84632 +is_a: BFO:0000002 is_a: CL:0005024 ! somatomotor neuron relationship: RO:0002162 NCBITaxon:7742 ! in taxon Vertebrata property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-7073-9172 @@ -25371,6 +25738,7 @@ synonym: "TACs" RELATED [] synonym: "transient amplifying cell" EXACT [] synonym: "transit amplifying progenitor cell" EXACT [PMID:30827895] synonym: "transit-amplifying cell" EXACT [] +is_a: BFO:0000002 is_a: CL:0000000 ! cell relationship: RO:0002202 CL:0000034 ! develops from stem cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2825-0621 @@ -26306,7 +26674,6 @@ id: CL:0009082 name: committed double negative thymocyte (Homo sapiens) def: "The human equivalent of a DN3 thymocyte; these thymocytes finish the process of beta selection." [PMID:32304633] comment: There is growing evidence that molecular markers characterizing double negative thymocytes are different across species, especially in human versus mouse thymus. This term is restricted for use with human data. -subset: human_reference_atlas is_a: CL:0002489 ! double negative thymocyte property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2825-0621 property_value: http://purl.org/dc/terms/date "2021-11-25T09:30:45Z" xsd:dateTime @@ -26826,6 +27193,7 @@ relationship: part_of UBERON:0002353 ! bundle of His [Term] id: CL:0010006 name: cardiac blood vessel endothelial cell +def: "Any blood vessel endothelial cell that is part of some heart." [FBC:Autogenerated] is_a: CL:0000071 ! blood vessel endothelial cell is_a: CL:0010008 ! cardiac endothelial cell intersection_of: CL:0000071 ! blood vessel endothelial cell @@ -26834,6 +27202,7 @@ intersection_of: part_of UBERON:0000948 ! heart [Term] id: CL:0010007 name: His-Purkinje system cell +def: "Any cell that is part of some His-Purkinje system." [FBC:Autogenerated] is_a: CL:0002494 ! cardiocyte intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0004146 ! His-Purkinje system @@ -26842,6 +27211,7 @@ relationship: part_of UBERON:0004146 ! His-Purkinje system [Term] id: CL:0010008 name: cardiac endothelial cell +def: "Any endothelial cell that is part of some heart." [FBC:Autogenerated] subset: cellxgene_subset subset: human_reference_atlas is_a: CL:0000115 ! endothelial cell @@ -26854,7 +27224,9 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0010009 name: camera-type eye photoreceptor cell +def: "Any photoreceptor cell that is part of some camera-type eye." [FBC:Autogenerated] synonym: "camera type eye photoreceptor cell" EXACT [] +is_a: BFO:0000002 is_a: CL:0000287 ! eye photoreceptor cell is_a: CL:0009004 ! retinal cell intersection_of: CL:0000210 ! photoreceptor cell @@ -26864,6 +27236,7 @@ relationship: part_of UBERON:0000966 {seeAlso="https://github.com/obophenotype/c [Term] id: CL:0010010 name: cerebellar stellate cell +def: "Any stellate neuron that has its soma located in some cerebellum." [FBC:Autogenerated] is_a: CL:0000122 ! stellate neuron is_a: CL:1001611 ! cerebellar neuron intersection_of: CL:0000122 ! stellate neuron @@ -26934,6 +27307,7 @@ property_value: seeAlso https://github.com/obophenotype/cell-ontology/issues/786 [Term] id: CL:0010020 name: cardiac glial cell +def: "Any glial cell that is part of some heart." [FBC:Autogenerated] is_a: CL:0000125 ! glial cell is_a: CL:0002494 ! cardiocyte intersection_of: CL:0000125 ! glial cell @@ -26943,6 +27317,7 @@ relationship: part_of UBERON:0000948 ! heart [Term] id: CL:0010021 name: cardiac myoblast +def: "Any myoblast that develops into some cardiac muscle cell." [FBC:Autogenerated] xref: MESH:D032386 is_a: CL:0000056 ! myoblast intersection_of: CL:0000056 ! myoblast @@ -27006,6 +27381,7 @@ def: "A vetebrate lens cell that is any of the elongated, tightly packed cells t subset: cellxgene_subset subset: human_reference_atlas synonym: "lens fibre cell" EXACT [] +xref: ZFA:0009401 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002222 ! vertebrate lens cell property_value: RO:0002175 NCBITaxon:9606 @@ -27172,7 +27548,6 @@ def: "A mast cell that is CD25+." [] comment: Mast cells do not normally express CD25, but neoplastic mast cells may be CD25-positive. synonym: "CD25+ neoplastic mast cell" EXACT [] is_a: CL:0001063 ! neoplastic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0001063 ! neoplastic cell intersection_of: RO:0001000 CL:0000097 ! derives from mast cell intersection_of: RO:0002104 PR:000001380 ! has plasma membrane part interleukin-2 receptor subunit alpha @@ -27208,6 +27583,7 @@ id: CL:0011026 name: progenitor cell def: "A precursor cell that has a tendency to differentiate into a specific type of cell. They are descendants of stem cells, only they are more constrained in their differentiation potential or capacity for self-renewal, and are often more limited in both senses." [https://doi.org/10.1016/B978-0-12-409503-8.00002-0, ISBN:978-1-62808-994-3] subset: cellxgene_subset +is_a: BFO:0000002 is_a: CL:0011115 ! precursor cell intersection_of: CL:0011115 ! precursor cell intersection_of: RO:0002202 CL:0000034 ! develops from stem cell @@ -27300,6 +27676,7 @@ relationship: part_of UBERON:0003124 ! chorion membrane id: CL:0011102 name: parasympathetic neuron def: "Parasympathetic neurons are part of the parasympathetic nervous sysem and the cell bodies lie in the brain and sacral region of the spinal cord. The neurons are mainly cholinergic." [GOC:NV, isbn:0080923437] +xref: ZFA:0005776 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000107 ! autonomic neuron [Term] @@ -27308,6 +27685,7 @@ name: sympathetic neuron def: "Sympathetic neurons are part of the sympathetic nervous system and are primarily adrenergic producing the neurotransmitter noradrenalin along with other neuropeptides." [GOC:NV, isbn:0080923437] subset: cellxgene_subset subset: human_reference_atlas +xref: ZFA:0005777 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000107 ! autonomic neuron property_value: RO:0002175 NCBITaxon:9606 @@ -27317,6 +27695,7 @@ name: interplexiform cell def: "A type of interneuron in the retinal inner nuclear layer which\ncarries information from the inner plexiform layer and the outer\nplexiform layer." [GOC:NV, PMID:12771169] comment: Need to MIREOT retinal inner nuclear layer (part of) subset: eye_upper_slim +is_a: BFO:0000002 is_a: CL:0000099 ! interneuron is_a: CL:0009004 ! retinal cell relationship: part_of UBERON:0001791 ! inner nuclear layer of retina @@ -27367,6 +27746,7 @@ id: CL:0011109 name: hypocretin-secreting neuron def: "A neuron that releases hypocretin as a neurotransmitter." [GOC:NV, PMID:23848055] synonym: "orexin" EXACT [] +xref: ZFA:0005778 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell is_a: CL:0000540 ! neuron intersection_of: CL:0000540 ! neuron @@ -27377,7 +27757,7 @@ relationship: capable_of GO:0061585 ! orexin secretion, neurotransmission id: CL:0011110 name: histaminergic neuron def: "Neuron that secretes histamine." [GOC:NV, PMID:22677810] -xref: FBbt:00007367 +xref: FBbt:00007367 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000540 ! neuron is_a: CL:0002274 ! histamine secreting cell intersection_of: CL:0000540 ! neuron @@ -27459,6 +27839,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0013000 name: forebrain radial glial cell +def: "Any radial glial cell that is part of some forebrain." [FBC:Autogenerated] subset: cellxgene_subset is_a: CL:0000681 ! radial glial cell intersection_of: CL:0000681 ! radial glial cell @@ -27471,6 +27852,7 @@ name: cranial motor neuron def: "Motor neuron that innervate muscles that control eye, jaw, and facial movements of the vertebrate head and parasympathetic neurons that innervate certain glands and organs." [ZFIN:CVS] synonym: "cranial motoneuron" EXACT [] xref: PMID:14699587 +xref: ZFA:0005730 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000100 ! motor neuron [Term] @@ -27690,6 +28072,7 @@ creation_date: 2009-12-28T04:28:35Z [Term] id: CL:0017509 name: alobate nucleus +def: "Any nucleus that has characteristic some alobate." [FBC:Autogenerated] is_a: GO:0005634 ! nucleus intersection_of: GO:0005634 ! nucleus intersection_of: bearer_of PATO:0002506 ! alobate @@ -27927,6 +28310,7 @@ replaced_by: CL:4030005 [Term] id: CL:1000001 name: retrotrapezoid nucleus neuron +def: "Any neuron that has its soma located in some retrotrapezoid nucleus." [FBC:Autogenerated] is_a: CL:2000029 ! central nervous system neuron intersection_of: CL:0000540 ! neuron intersection_of: RO:0002100 UBERON:0009918 ! has soma location retrotrapezoid nucleus @@ -27935,6 +28319,7 @@ relationship: RO:0002100 UBERON:0009918 ! has soma location retrotrapezoid nucle [Term] id: CL:1000022 name: mesonephric nephron tubule epithelial cell +def: "Any epithelial cell that is part of some mesonephric nephron tubule." [FBC:Autogenerated] is_a: CL:1000449 ! epithelial cell of nephron is_a: CL:1000507 ! kidney tubule cell intersection_of: CL:0000066 ! epithelial cell @@ -27944,6 +28329,7 @@ relationship: part_of UBERON:0005329 ! mesonephric nephron tubule [Term] id: CL:1000042 name: forebrain neuroblast +def: "Any neuroblast (sensu Vertebrata) that is part of some forebrain." [FBC:Autogenerated] is_a: CL:0000031 ! neuroblast (sensu Vertebrata) is_a: CL:0002319 ! neural cell intersection_of: CL:0000031 ! neuroblast (sensu Vertebrata) @@ -27953,6 +28339,7 @@ relationship: part_of UBERON:0001890 ! forebrain [Term] id: CL:1000050 name: lateral line nerve glial cell +def: "Any glial cell that is part of some lateral line nerve." [FBC:Autogenerated] is_a: CL:0000125 ! glial cell intersection_of: CL:0000125 ! glial cell intersection_of: part_of UBERON:0008906 ! lateral line nerve @@ -27961,6 +28348,7 @@ relationship: part_of UBERON:0008906 ! lateral line nerve [Term] id: CL:1000073 name: spinal cord radial glial cell +def: "Any radial glial cell that is part of some spinal cord." [FBC:Autogenerated] is_a: CL:0000681 ! radial glial cell intersection_of: CL:0000681 ! radial glial cell intersection_of: part_of UBERON:0002240 ! spinal cord @@ -27969,11 +28357,13 @@ relationship: part_of UBERON:0002240 ! spinal cord [Term] id: CL:1000082 name: stretch receptor cell +xref: ZFA:0009370 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000006 ! neuronal receptor cell [Term] id: CL:1000083 name: stratified keratinized epithelial stem cell +xref: ZFA:0009371 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000357 ! stratified epithelial stem cell [Term] @@ -27984,6 +28374,7 @@ is_a: CL:0000357 ! stratified epithelial stem cell [Term] id: CL:1000090 name: pronephric nephron tubule epithelial cell +def: "Any epithelial cell that is part of some pronephric nephron tubule." [FBC:Autogenerated] is_a: CL:1000449 ! epithelial cell of nephron is_a: CL:1000507 ! kidney tubule cell intersection_of: CL:0000066 ! epithelial cell @@ -27993,6 +28384,7 @@ relationship: part_of UBERON:0005310 ! pronephric nephron tubule [Term] id: CL:1000123 name: metanephric nephron tubule epithelial cell +def: "Any epithelial cell that is part of some metanephric nephron tubule." [FBC:Autogenerated] is_a: CL:1000449 ! epithelial cell of nephron is_a: CL:1000507 ! kidney tubule cell intersection_of: CL:0000066 ! epithelial cell @@ -28002,6 +28394,7 @@ relationship: part_of UBERON:0005146 ! metanephric nephron tubule [Term] id: CL:1000143 name: lung goblet cell +def: "Any goblet cell that is part of some lung." [FBC:Autogenerated] subset: cellxgene_subset is_a: CL:0000082 ! epithelial cell of lung is_a: CL:0002370 ! respiratory goblet cell @@ -28015,6 +28408,7 @@ name: cardiac valve cell def: "A cell that is part of a cardiac valve." [PMID:25311230] subset: cellxgene_subset synonym: "heart valve cell" EXACT [PMID:30796046] +xref: ZFA:0009402 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002494 ! cardiocyte intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0000946 ! cardiac valve @@ -28025,13 +28419,14 @@ id: CL:1000155 name: Malpighian tubule stellate cell def: "A specialized epithelial secretory cell that moves chloride ions and water across the tubule epithelium." [GO:0061330] synonym: "Malpighian tubule Type II cell" EXACT [FBbt:00005797] -xref: FBbt:00005797 +xref: FBbt:00005797 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000151 ! secretory cell relationship: part_of UBERON:0001054 ! Malpighian tubule [Term] id: CL:1000182 name: malpighian tubule tip cell +def: "Any tip cell that is part of some Malpighian tubule." [FBC:Autogenerated] is_a: CL:0000423 ! tip cell intersection_of: CL:0000423 ! tip cell intersection_of: part_of UBERON:0001054 ! Malpighian tubule @@ -28051,6 +28446,7 @@ is_a: CL:0002490 ! organ of Corti supporting cell [Term] id: CL:1000217 name: growth plate cartilage chondrocyte +def: "Any chondrocyte that is part of some growth plate cartilage." [FBC:Autogenerated] is_a: CL:0000138 ! chondrocyte intersection_of: CL:0000138 ! chondrocyte intersection_of: part_of UBERON:0004129 ! growth plate cartilage @@ -28059,6 +28455,7 @@ relationship: part_of UBERON:0004129 ! growth plate cartilage [Term] id: CL:1000222 name: stomach neuroendocrine cell +def: "Any neuroendocrine cell that is part of some stomach." [FBC:Autogenerated] is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0000165 ! neuroendocrine cell is_a: CL:0002659 ! glandular cell of stomach @@ -28089,6 +28486,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1000236 name: posterior lateral line nerve glial cell +def: "Any glial cell that is part of some posterior lateral line nerve." [FBC:Autogenerated] is_a: CL:1000050 ! lateral line nerve glial cell intersection_of: CL:0000125 ! glial cell intersection_of: part_of UBERON:2000175 ! posterior lateral line nerve @@ -28097,6 +28495,7 @@ relationship: part_of UBERON:2000175 ! posterior lateral line nerve [Term] id: CL:1000239 name: anterior lateral line nerve glial cell +def: "Any glial cell that is part of some anterior lateral line nerve." [FBC:Autogenerated] is_a: CL:1000050 ! lateral line nerve glial cell intersection_of: CL:0000125 ! glial cell intersection_of: part_of UBERON:2000425 ! anterior lateral line nerve @@ -28105,6 +28504,7 @@ relationship: part_of UBERON:2000425 ! anterior lateral line nerve [Term] id: CL:1000245 name: posterior lateral line ganglion neuron +def: "Any neuron that has its soma located in some posterior lateral line ganglion." [FBC:Autogenerated] is_a: CL:2000031 ! lateral line ganglion neuron intersection_of: CL:0000540 ! neuron intersection_of: RO:0002100 UBERON:2001314 ! has soma location posterior lateral line ganglion @@ -28113,6 +28513,7 @@ relationship: RO:0002100 UBERON:2001314 ! has soma location posterior lateral li [Term] id: CL:1000271 name: lung ciliated cell +def: "Any ciliated cell that is part of some lung." [FBC:Autogenerated] subset: cellxgene_subset subset: human_reference_atlas is_a: CL:4030034 ! respiratory ciliated cell @@ -28124,6 +28525,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1000272 name: lung secretory cell +def: "Any secretory cell that is part of some lung." [FBC:Autogenerated] subset: cellxgene_subset is_a: CL:0000151 ! secretory cell intersection_of: CL:0000151 ! secretory cell @@ -29475,6 +29877,7 @@ def: "A somatic stem cell that is part of the epidermis." [GOC:tfm] subset: cellxgene_subset synonym: "epidermal stem cell" EXACT [FMA:70541] xref: FMA:70541 +xref: ZFA:0007122 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000723 {is_inferred="true"} ! somatic stem cell intersection_of: CL:0000723 ! somatic stem cell intersection_of: part_of UBERON:0001003 ! skin epidermis @@ -29933,6 +30336,8 @@ def: "An epithelial cell that is part of the bile duct. Cholangiocytes contribut subset: cellxgene_subset synonym: "epithelial cell of bile duct" EXACT [] xref: FMA:86481 +xref: ZFA:0009397 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} +is_a: BFO:0000002 is_a: CL:0000069 {is_inferred="true"} ! branched duct epithelial cell intersection_of: CL:0000069 ! branched duct epithelial cell intersection_of: capable_of GO:0015106 ! bicarbonate transmembrane transporter activity @@ -30035,6 +30440,7 @@ name: kidney cell def: "A cell that is part of a kidney." [] subset: cellxgene_subset xref: KUPO:0001010 +xref: ZFA:0009389 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0002113 ! kidney @@ -30047,6 +30453,7 @@ def: "A cell that is part of kidney interstitium." [] subset: cellxgene_subset subset: kidney_upper_slim xref: KUPO:0001013 +xref: ZFA:0009390 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:1000497 ! kidney cell is_a: CL:4030031 ! interstitial cell intersection_of: CL:1000497 ! kidney cell @@ -30058,6 +30465,7 @@ id: CL:1000504 name: kidney medulla cell def: "A cell that is part of a renal medulla." [PMID:22343825] xref: KUPO:0001017 +xref: ZFA:0009391 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:1000497 ! kidney cell intersection_of: CL:1000497 ! kidney cell intersection_of: part_of UBERON:0000362 ! renal medulla @@ -30088,6 +30496,7 @@ relationship: part_of UBERON:0001231 ! nephron tubule [Term] id: CL:1000510 name: kidney glomerular epithelial cell +def: "Any kidney epithelial cell that is part of some glomerular epithelium." [FBC:Autogenerated] subset: cellxgene_subset xref: KUPO:0001023 is_a: CL:1000746 ! glomerular cell @@ -30143,6 +30552,7 @@ relationship: part_of UBERON:0004203 ! cortical collecting duct [Term] id: CL:1000550 name: kidney papillary duct principal epithelial cell +def: "Any kidney cell that is part of some papillary duct." [FBC:Autogenerated] subset: kidney_upper_slim xref: KUPO:0001064 is_a: CL:1001225 ! kidney collecting duct cell @@ -30153,6 +30563,7 @@ relationship: part_of UBERON:0005167 ! papillary duct [Term] id: CL:1000596 name: inner renal cortex cell +def: "Any kidney cell that is part of some juxtamedullary cortex." [FBC:Autogenerated] xref: KUPO:0001111 is_a: CL:0002681 ! kidney cortical cell intersection_of: CL:1000497 ! kidney cell @@ -30176,6 +30587,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1000600 name: lower urinary tract cell +def: "Any cell that is part of some lower urinary tract." [FBC:Autogenerated] xref: KUPO:0001115 is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell @@ -30185,6 +30597,7 @@ relationship: part_of UBERON:0001556 ! lower urinary tract [Term] id: CL:1000601 name: ureteral cell +def: "Any cell that is part of some ureter." [FBC:Autogenerated] xref: KUPO:0001116 is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell @@ -30194,7 +30607,9 @@ relationship: part_of UBERON:0000056 ! ureter [Term] id: CL:1000606 name: kidney nerve cell +def: "Any neuron that has its soma located in some kidney." [FBC:Autogenerated] xref: KUPO:0001015 +is_a: BFO:0000002 is_a: CL:1000500 ! kidney interstitial cell is_a: CL:2000032 ! peripheral nervous system neuron intersection_of: CL:0000540 ! neuron @@ -30204,6 +30619,7 @@ relationship: RO:0002100 UBERON:0002113 ! has soma location kidney [Term] id: CL:1000612 name: kidney corpuscule cell +def: "Any renal cortical epithelial cell that is part of some renal corpuscle." [FBC:Autogenerated] subset: kidney_upper_slim xref: KUPO:0001021 is_a: CL:0002584 {is_inferred="true"} ! renal cortical epithelial cell @@ -30215,6 +30631,7 @@ relationship: part_of UBERON:0001229 ! renal corpuscle [Term] id: CL:1000615 name: kidney cortex tubule cell +def: "Any kidney tubule cell that is part of some renal cortex tubule." [FBC:Autogenerated] subset: cellxgene_subset xref: KUPO:0001024 is_a: CL:0002584 ! renal cortical epithelial cell @@ -30227,6 +30644,7 @@ relationship: part_of UBERON:0006853 ! renal cortex tubule [Term] id: CL:1000616 name: kidney outer medulla cell +def: "Any kidney medulla cell that is part of some outer medulla of kidney." [FBC:Autogenerated] xref: KUPO:0001025 is_a: CL:1000504 {is_inferred="true"} ! kidney medulla cell intersection_of: CL:1000504 ! kidney medulla cell @@ -30236,6 +30654,7 @@ relationship: part_of UBERON:0001293 ! outer medulla of kidney [Term] id: CL:1000617 name: kidney inner medulla cell +def: "Any kidney medulla cell that is part of some inner medulla of kidney." [FBC:Autogenerated] xref: KUPO:0001026 is_a: CL:1000504 {is_inferred="true"} ! kidney medulla cell intersection_of: CL:1000504 ! kidney medulla cell @@ -30245,6 +30664,7 @@ relationship: part_of UBERON:0001294 ! inner medulla of kidney [Term] id: CL:1000618 name: juxtaglomerular complex cell +def: "Any kidney cortical cell that is part of some juxtaglomerular apparatus." [FBC:Autogenerated] subset: kidney_upper_slim synonym: "juxtaglomerulus cell" EXACT [GO:0072052] xref: KUPO:0001028 @@ -30347,6 +30767,7 @@ is_a: CL:1000500 ! kidney interstitial cell [Term] id: CL:1000702 name: kidney pelvis smooth muscle cell +def: "Any smooth muscle cell that is part of some kidney pelvis smooth muscle." [FBC:Autogenerated] xref: KUPO:0001113 is_a: CL:0000192 {is_inferred="true"} ! smooth muscle cell is_a: CL:1000505 {is_inferred="true"} ! kidney pelvis cell @@ -30357,6 +30778,7 @@ relationship: part_of UBERON:0004227 ! kidney pelvis smooth muscle [Term] id: CL:1000703 name: kidney pelvis urothelial cell +def: "Any kidney epithelial cell that is part of some kidney pelvis urothelium." [FBC:Autogenerated] subset: cellxgene_subset xref: KUPO:0001114 is_a: CL:0000731 ! urothelial cell @@ -30369,6 +30791,7 @@ relationship: part_of UBERON:0004788 ! kidney pelvis urothelium [Term] id: CL:1000706 name: ureter urothelial cell +def: "Any urothelial cell that is part of some urothelium of ureter." [FBC:Autogenerated] xref: KUPO:0001117 is_a: CL:0000731 {is_inferred="true"} ! urothelial cell is_a: CL:1000601 {is_inferred="true"} ! ureteral cell @@ -30379,6 +30802,7 @@ relationship: part_of UBERON:0001254 ! urothelium of ureter [Term] id: CL:1000708 name: ureter adventitial cell +def: "Any ureteral cell that is part of some adventitia of ureter." [FBC:Autogenerated] subset: human_reference_atlas xref: KUPO:0001119 is_a: CL:0000115 ! endothelial cell @@ -30392,6 +30816,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1000714 name: kidney cortex collecting duct principal cell +def: "Any renal principal cell that is part of some cortical collecting duct." [FBC:Autogenerated] subset: human_reference_atlas xref: KUPO:0001130 is_a: CL:1000549 {is_inferred="true"} ! kidney cortex collecting duct epithelial cell @@ -30403,6 +30828,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1000715 name: kidney cortex collecting duct intercalated cell +def: "Any renal intercalated cell that is part of some cortical collecting duct." [FBC:Autogenerated] subset: human_reference_atlas xref: KUPO:0001131 is_a: CL:1000549 {is_inferred="true"} ! kidney cortex collecting duct epithelial cell @@ -30438,6 +30864,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1000718 name: kidney inner medulla collecting duct principal cell +def: "Any renal principal cell that is part of some inner medullary collecting duct." [FBC:Autogenerated] subset: human_reference_atlas xref: KUPO:0001134 is_a: CL:1000547 {is_inferred="true"} ! kidney inner medulla collecting duct epithelial cell @@ -30449,6 +30876,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1000719 name: kidney inner medulla collecting duct intercalated cell +def: "Any renal intercalated cell that is part of some inner medullary collecting duct." [FBC:Autogenerated] xref: KUPO:0001135 is_a: CL:1000547 {is_inferred="true"} ! kidney inner medulla collecting duct epithelial cell is_a: CL:1001432 ! kidney collecting duct intercalated cell @@ -30458,6 +30886,7 @@ intersection_of: part_of UBERON:0004205 ! inner medullary collecting duct [Term] id: CL:1000720 name: kidney papillary duct intercalated cell +def: "Any renal intercalated cell that is part of some papillary duct." [FBC:Autogenerated] xref: KUPO:0001136 is_a: CL:1000550 {is_inferred="true"} ! kidney papillary duct principal epithelial cell is_a: CL:1001432 ! kidney collecting duct intercalated cell @@ -30467,6 +30896,7 @@ intersection_of: part_of UBERON:0005167 ! papillary duct [Term] id: CL:1000721 name: kidney papillary duct principal cell +def: "Any renal principal cell that is part of some papillary duct." [FBC:Autogenerated] xref: KUPO:0001137 is_a: CL:1000550 {is_inferred="true"} ! kidney papillary duct principal epithelial cell is_a: CL:1001431 ! kidney collecting duct principal cell @@ -30492,6 +30922,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1000746 name: glomerular cell +def: "Any kidney corpuscule cell that is part of some renal glomerulus." [FBC:Autogenerated] xref: KUPO:0001036 is_a: CL:1000612 {is_inferred="true"} ! kidney corpuscule cell intersection_of: CL:1000612 ! kidney corpuscule cell @@ -30501,6 +30932,7 @@ relationship: part_of UBERON:0000074 ! renal glomerulus [Term] id: CL:1000768 name: kidney connecting tubule epithelial cell +def: "Any nephron tubule epithelial cell that is part of some renal connecting tubule." [FBC:Autogenerated] subset: cellxgene_subset subset: human_reference_atlas subset: kidney_upper_slim @@ -30537,6 +30969,7 @@ relationship: part_of UBERON:0005213 ! outer renal medulla interstitium [Term] id: CL:1000838 name: kidney proximal convoluted tubule epithelial cell +def: "Any epithelial cell of proximal tubule that is part of some proximal convoluted tubule." [FBC:Autogenerated] subset: cellxgene_subset xref: KUPO:0001045 is_a: CL:0002306 {is_inferred="true"} ! epithelial cell of proximal tubule @@ -30547,6 +30980,7 @@ relationship: part_of UBERON:0001287 ! proximal convoluted tubule [Term] id: CL:1000839 name: kidney proximal straight tubule epithelial cell +def: "Any epithelial cell of proximal tubule that is part of some proximal straight tubule." [FBC:Autogenerated] subset: cellxgene_subset xref: KUPO:0001046 is_a: CL:0002306 {is_inferred="true"} ! epithelial cell of proximal tubule @@ -30559,6 +30993,7 @@ relationship: part_of UBERON:0001290 ! proximal straight tubule [Term] id: CL:1000849 name: kidney distal convoluted tubule epithelial cell +def: "Any epithelial cell of distal tubule that is part of some distal convoluted tubule." [FBC:Autogenerated] subset: cellxgene_subset subset: human_reference_atlas subset: kidney_upper_slim @@ -30572,6 +31007,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1000850 name: macula densa epithelial cell +def: "Any epithelial cell of distal tubule that is part of some macula densa." [FBC:Autogenerated] subset: cellxgene_subset subset: human_reference_atlas xref: KUPO:0001057 @@ -30587,6 +31023,7 @@ id: CL:1000854 name: kidney blood vessel cell def: "A blood vessel cell that is part of a kidney." [PMID:34843404] xref: KUPO:0001014 +is_a: BFO:0000002 is_a: CL:0002584 ! renal cortical epithelial cell is_a: CL:1000504 {is_inferred="true"} ! kidney medulla cell intersection_of: CL:0000000 ! cell @@ -30597,6 +31034,7 @@ relationship: participates_in GO:0008015 ! blood circulation [Term] id: CL:1000891 name: kidney arterial blood vessel cell +def: "Any kidney blood vessel cell that is part of some kidney arterial blood vessel." [FBC:Autogenerated] subset: kidney_upper_slim xref: KUPO:0001029 is_a: CL:1000854 {is_inferred="true"} ! kidney blood vessel cell @@ -30607,6 +31045,7 @@ relationship: part_of UBERON:0003644 ! kidney arterial blood vessel [Term] id: CL:1000892 name: kidney capillary endothelial cell +def: "Any kidney blood vessel cell that is part of some kidney capillary." [FBC:Autogenerated] subset: cellxgene_subset subset: kidney_upper_slim xref: KUPO:0001030 @@ -30619,6 +31058,7 @@ relationship: part_of UBERON:0003527 ! kidney capillary [Term] id: CL:1000893 name: kidney venous blood vessel cell +def: "Any kidney blood vessel cell that is part of some renal vein." [FBC:Autogenerated] subset: kidney_upper_slim xref: KUPO:0001031 is_a: CL:1000854 {is_inferred="true"} ! kidney blood vessel cell @@ -30629,6 +31069,7 @@ relationship: part_of UBERON:0001140 ! renal vein [Term] id: CL:1000909 name: kidney loop of Henle epithelial cell +def: "Any nephron tubule epithelial cell that is part of some loop of Henle." [FBC:Autogenerated] subset: cellxgene_subset xref: KUPO:0001047 is_a: CL:1000494 {is_inferred="true"} ! nephron tubule epithelial cell @@ -30639,16 +31080,20 @@ relationship: part_of UBERON:0001288 ! loop of Henle [Term] id: CL:1000979 name: ureter smooth muscle cell +def: "Any smooth muscle cell that is part of some muscular coat of ureter." [FBC:Autogenerated] +subset: human_reference_atlas xref: KUPO:0001118 is_a: CL:0000192 {is_inferred="true"} ! smooth muscle cell is_a: CL:1000601 {is_inferred="true"} ! ureteral cell intersection_of: CL:0000192 ! smooth muscle cell intersection_of: part_of UBERON:0006855 ! muscular coat of ureter relationship: part_of UBERON:0006855 ! muscular coat of ureter +property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1001005 name: glomerular capillary endothelial cell +def: "Any kidney capillary endothelial cell that is part of some glomerular capillary endothelium." [FBC:Autogenerated] subset: cellxgene_subset subset: human_reference_atlas xref: KUPO:0001037 @@ -30664,6 +31109,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1001006 name: kidney afferent arteriole cell +def: "Any kidney arterial blood vessel cell that is part of some renal afferent arteriole." [FBC:Autogenerated] xref: KUPO:0001038 is_a: CL:1000612 ! kidney corpuscule cell is_a: CL:1000891 {is_inferred="true"} ! kidney arterial blood vessel cell @@ -30674,6 +31120,7 @@ relationship: part_of UBERON:0004639 ! renal afferent arteriole [Term] id: CL:1001009 name: kidney efferent arteriole cell +def: "Any kidney arterial blood vessel cell that is part of some renal efferent arteriole." [FBC:Autogenerated] xref: KUPO:0001041 is_a: CL:1000612 ! kidney corpuscule cell is_a: CL:1000891 {is_inferred="true"} ! kidney arterial blood vessel cell @@ -30684,6 +31131,7 @@ relationship: part_of UBERON:0004640 ! renal efferent arteriole [Term] id: CL:1001016 name: kidney loop of Henle ascending limb epithelial cell +def: "Any kidney loop of Henle epithelial cell that is part of some ascending limb of loop of Henle." [FBC:Autogenerated] subset: cellxgene_subset subset: kidney_upper_slim xref: KUPO:0001048 @@ -30696,6 +31144,7 @@ relationship: part_of UBERON:0005164 ! ascending limb of loop of Henle [Term] id: CL:1001021 name: kidney loop of Henle descending limb epithelial cell +def: "Any kidney loop of Henle epithelial cell that is part of some descending limb of loop of Henle." [FBC:Autogenerated] subset: kidney_upper_slim xref: KUPO:0001053 is_a: CL:1000909 {is_inferred="true"} ! kidney loop of Henle epithelial cell @@ -30732,6 +31181,7 @@ relationship: part_of UBERON:0004726 ! vasa recta [Term] id: CL:1001045 name: kidney cortex artery cell +def: "Any kidney arterial blood vessel cell that is part of some renal cortex artery." [FBC:Autogenerated] subset: cellxgene_subset xref: KUPO:0001077 is_a: CL:1000891 {is_inferred="true"} ! kidney arterial blood vessel cell @@ -30742,6 +31192,7 @@ relationship: part_of UBERON:0005268 ! renal cortex artery [Term] id: CL:1001052 name: kidney cortex vein cell +def: "Any kidney venous blood vessel cell that is part of some renal cortex vein." [FBC:Autogenerated] xref: KUPO:0001084 is_a: CL:1000893 {is_inferred="true"} ! kidney venous blood vessel cell intersection_of: CL:1000893 ! kidney venous blood vessel cell @@ -30778,6 +31229,7 @@ is_a: CL:1000893 ! kidney venous blood vessel cell [Term] id: CL:1001096 name: kidney afferent arteriole endothelial cell +def: "Any endothelial cell that is part of some renal afferent arteriole." [FBC:Autogenerated] subset: cellxgene_subset subset: human_reference_atlas xref: KUPO:0001039 @@ -30791,6 +31243,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1001097 name: kidney afferent arteriole smooth muscle cell +def: "Any smooth muscle cell that is part of some renal afferent arteriole." [FBC:Autogenerated] xref: KUPO:0001040 is_a: CL:0008035 ! microcirculation associated smooth muscle cell is_a: CL:1001006 ! kidney afferent arteriole cell @@ -30801,6 +31254,7 @@ intersection_of: part_of UBERON:0004639 ! renal afferent arteriole [Term] id: CL:1001099 name: kidney efferent arteriole endothelial cell +def: "Any endothelial cell that is part of some renal efferent arteriole." [FBC:Autogenerated] subset: cellxgene_subset subset: human_reference_atlas xref: KUPO:0001042 @@ -30813,6 +31267,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1001100 name: kidney efferent arteriole smooth muscle cell +def: "Any smooth muscle cell that is part of some renal efferent arteriole." [FBC:Autogenerated] xref: KUPO:0001043 is_a: CL:0008035 ! microcirculation associated smooth muscle cell is_a: CL:1001009 ! kidney efferent arteriole cell @@ -30893,6 +31348,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1001123 name: kidney outer medulla peritubular capillary cell +def: "Any peritubular capillary endothelial cell that is part of some outer renal medulla peritubular capillary." [FBC:Autogenerated] xref: KUPO:0001066 is_a: CL:1000616 {is_inferred="true"} ! kidney outer medulla cell is_a: CL:1001033 {is_inferred="true"} ! peritubular capillary endothelial cell @@ -30903,6 +31359,7 @@ relationship: part_of UBERON:0006341 ! outer renal medulla peritubular capillary [Term] id: CL:1001124 name: kidney cortex peritubular capillary cell +def: "Any peritubular capillary endothelial cell that is part of some renal cortex peritubular capillary." [FBC:Autogenerated] xref: KUPO:0001067 is_a: CL:1001033 {is_inferred="true"} ! peritubular capillary endothelial cell intersection_of: CL:1001033 ! peritubular capillary endothelial cell @@ -30912,6 +31369,7 @@ relationship: part_of UBERON:0006851 ! renal cortex peritubular capillary [Term] id: CL:1001126 name: inner renal medulla vasa recta cell +def: "Any vasa recta cell that is part of some inner renal medulla vasa recta." [FBC:Autogenerated] xref: KUPO:0001069 is_a: CL:1000617 {is_inferred="true"} ! kidney inner medulla cell is_a: CL:1001036 {is_inferred="true"} ! vasa recta cell @@ -30922,6 +31380,7 @@ relationship: part_of UBERON:0004776 ! inner renal medulla vasa recta [Term] id: CL:1001127 name: outer renal medulla vasa recta cell +def: "Any vasa recta cell that is part of some outer renal medulla vasa recta." [FBC:Autogenerated] xref: KUPO:0001070 is_a: CL:1000616 {is_inferred="true"} ! kidney outer medulla cell is_a: CL:1001036 {is_inferred="true"} ! vasa recta cell @@ -30946,6 +31405,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1001135 name: arcuate artery cell +def: "Any kidney cortex artery cell that is part of some kidney arcuate artery." [FBC:Autogenerated] xref: KUPO:0001078 is_a: CL:1001045 {is_inferred="true"} ! kidney cortex artery cell intersection_of: CL:1001045 ! kidney cortex artery cell @@ -30955,6 +31415,7 @@ relationship: part_of UBERON:0001552 ! kidney arcuate artery [Term] id: CL:1001138 name: interlobular artery cell +def: "Any kidney cortex artery cell that is part of some interlobular artery." [FBC:Autogenerated] xref: KUPO:0001081 is_a: CL:1001045 {is_inferred="true"} ! kidney cortex artery cell intersection_of: CL:1001045 ! kidney cortex artery cell @@ -30964,6 +31425,7 @@ relationship: part_of UBERON:0004723 ! interlobular artery [Term] id: CL:1001142 name: arcuate vein cell +def: "Any kidney cortex vein cell that is part of some kidney arcuate vein." [FBC:Autogenerated] xref: KUPO:0001085 is_a: CL:1001052 {is_inferred="true"} ! kidney cortex vein cell intersection_of: CL:1001052 ! kidney cortex vein cell @@ -30973,6 +31435,7 @@ relationship: part_of UBERON:0004719 ! kidney arcuate vein [Term] id: CL:1001145 name: interlobular vein cell +def: "Any kidney cortex vein cell that is part of some renal interlobular vein." [FBC:Autogenerated] xref: KUPO:0001088 is_a: CL:1001052 {is_inferred="true"} ! kidney cortex vein cell intersection_of: CL:1001052 ! kidney cortex vein cell @@ -30982,6 +31445,7 @@ relationship: part_of UBERON:0005168 ! renal interlobular vein [Term] id: CL:1001209 name: inner medulla vasa recta ascending limb cell +def: "Any vasa recta ascending limb cell that is part of some inner medulla vasa recta ascending limb." [FBC:Autogenerated] xref: KUPO:0001075 is_a: CL:1001126 {is_inferred="true"} ! inner renal medulla vasa recta cell is_a: CL:1001131 {is_inferred="true"} ! vasa recta ascending limb cell @@ -30992,6 +31456,7 @@ relationship: part_of UBERON:0009092 ! inner medulla vasa recta ascending limb [Term] id: CL:1001210 name: outer medulla vasa recta ascending limb cell +def: "Any vasa recta ascending limb cell that is part of some outer medulla vasa recta ascending limb." [FBC:Autogenerated] xref: KUPO:0001076 is_a: CL:1001127 {is_inferred="true"} ! outer renal medulla vasa recta cell is_a: CL:1001131 {is_inferred="true"} ! vasa recta ascending limb cell @@ -31002,6 +31467,7 @@ relationship: part_of UBERON:0009093 ! outer medulla vasa recta ascending limb [Term] id: CL:1001213 name: arcuate artery endothelial cell +def: "Any endothelial cell that is part of some kidney arcuate artery." [FBC:Autogenerated] xref: KUPO:0001079 is_a: CL:1000413 {is_inferred="true"} ! endothelial cell of artery is_a: CL:1001135 ! arcuate artery cell @@ -31011,6 +31477,7 @@ intersection_of: part_of UBERON:0001552 ! kidney arcuate artery [Term] id: CL:1001214 name: arcuate artery smooth muscle cell +def: "Any smooth muscle cell that is part of some kidney arcuate artery." [FBC:Autogenerated] xref: KUPO:0001080 is_a: CL:1001064 ! kidney artery smooth muscle cell is_a: CL:1001135 ! arcuate artery cell @@ -31020,6 +31487,7 @@ intersection_of: part_of UBERON:0001552 ! kidney arcuate artery [Term] id: CL:1001216 name: interlobulary artery endothelial cell +def: "Any endothelial cell that is part of some interlobular artery." [FBC:Autogenerated] xref: KUPO:0001082 is_a: CL:1000413 ! endothelial cell of artery is_a: CL:1001138 ! interlobular artery cell @@ -31029,6 +31497,7 @@ intersection_of: part_of UBERON:0004723 ! interlobular artery [Term] id: CL:1001217 name: interlobulary artery smooth muscle cell +def: "Any smooth muscle cell that is part of some interlobular artery." [FBC:Autogenerated] xref: KUPO:0001083 is_a: CL:1001064 ! kidney artery smooth muscle cell is_a: CL:1001138 ! interlobular artery cell @@ -31038,6 +31507,7 @@ intersection_of: part_of UBERON:0004723 ! interlobular artery [Term] id: CL:1001220 name: arcuate vein endothelial cell +def: "Any endothelial cell that is part of some kidney arcuate vein." [FBC:Autogenerated] xref: KUPO:0001086 is_a: CL:0002543 ! vein endothelial cell is_a: CL:1001142 ! arcuate vein cell @@ -31047,6 +31517,7 @@ intersection_of: part_of UBERON:0004719 ! kidney arcuate vein [Term] id: CL:1001221 name: arcuate vein smooth muscle cell +def: "Any smooth muscle cell that is part of some kidney arcuate vein." [FBC:Autogenerated] xref: KUPO:0001087 is_a: CL:1001068 ! kidney venous system smooth muscle cell is_a: CL:1001142 ! arcuate vein cell @@ -31056,6 +31527,7 @@ intersection_of: part_of UBERON:0004719 ! kidney arcuate vein [Term] id: CL:1001223 name: interlobulary vein endothelial cell +def: "Any endothelial cell that is part of some renal interlobular vein." [FBC:Autogenerated] xref: KUPO:0001089 is_a: CL:0002543 ! vein endothelial cell is_a: CL:1001145 ! interlobular vein cell @@ -31065,6 +31537,7 @@ intersection_of: part_of UBERON:0005168 ! renal interlobular vein [Term] id: CL:1001224 name: interlobulary vein smooth muscle cell +def: "Any smooth muscle cell that is part of some renal interlobular vein." [FBC:Autogenerated] xref: KUPO:0001090 is_a: CL:1001068 ! kidney venous system smooth muscle cell is_a: CL:1001145 ! interlobular vein cell @@ -31100,6 +31573,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1001286 name: inner medulla vasa recta descending limb cell +def: "Any vasa recta descending limb cell that is part of some inner medulla vasa recta descending limb." [FBC:Autogenerated] xref: KUPO:0001072 is_a: CL:1001126 {is_inferred="true"} ! inner renal medulla vasa recta cell is_a: CL:1001285 {is_inferred="true"} ! vasa recta descending limb cell @@ -31110,6 +31584,7 @@ relationship: part_of UBERON:0009089 ! inner medulla vasa recta descending limb [Term] id: CL:1001287 name: outer medulla vasa recta descending limb cell +def: "Any vasa recta descending limb cell that is part of some outer medulla vasa recta descending limb." [FBC:Autogenerated] xref: KUPO:0001073 is_a: CL:1001127 {is_inferred="true"} ! outer renal medulla vasa recta cell is_a: CL:1001285 {is_inferred="true"} ! vasa recta descending limb cell @@ -31133,6 +31608,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1001319 name: bladder cell +def: "Any cell that is part of some urinary bladder." [FBC:Autogenerated] subset: cellxgene_subset subset: human_reference_atlas xref: KUPO:0001120 @@ -31145,6 +31621,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1001320 name: urethra cell +def: "Any cell that is part of some urethra." [FBC:Autogenerated] xref: KUPO:0001123 is_a: CL:1000600 ! lower urinary tract cell intersection_of: CL:0000000 ! cell @@ -31171,6 +31648,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1001430 name: urethra urothelial cell +def: "Any urothelial cell that is part of some urethra urothelium." [FBC:Autogenerated] subset: cellxgene_subset xref: KUPO:0001124 is_a: CL:0000731 {is_inferred="true"} ! urothelial cell @@ -31182,6 +31660,7 @@ relationship: part_of UBERON:0004787 ! urethra urothelium [Term] id: CL:1001431 name: kidney collecting duct principal cell +def: "Any renal principal cell that is part of some collecting duct of renal tubule." [FBC:Autogenerated] subset: cellxgene_subset subset: human_reference_atlas xref: KUPO:0001128 @@ -31194,6 +31673,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1001432 name: kidney collecting duct intercalated cell +def: "Any renal intercalated cell that is part of some collecting duct of renal tubule." [FBC:Autogenerated] subset: cellxgene_subset subset: human_reference_atlas xref: http://en.wikipedia.org/wiki/Collecting_duct_system#Intercalated_cells @@ -31222,6 +31702,7 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:1001434 name: olfactory bulb interneuron def: "A neuron residing in the olfactory bulb that serve to process and refine signals arising from olfactory sensory neurons" [PMID:18603310] +is_a: BFO:0000002 is_a: CL:0000101 ! sensory neuron is_a: CL:0000402 ! CNS interneuron intersection_of: CL:0000099 ! interneuron @@ -31294,6 +31775,7 @@ relationship: RO:0002100 UBERON:0004186 ! has soma location olfactory bulb mitra id: CL:1001503 name: olfactory bulb tufted cell def: "The principal glutaminergic neuron located in the outer third of the external plexiform layer of the olfactory bulb; a single short primary dendrite traverses the outer external plexiform layer and terminates within an olfactory glomerulus in a tuft of branches, where it receives the input from olfactory receptor neuron axon terminals; axons of the tufted cells transfer information to a number of areas in the brain, including the piriform cortex, entorhinal cortex, olfactory tubercle, and amygdala." [MP:0009955] +is_a: BFO:0000002 is_a: CL:0000540 ! neuron relationship: part_of UBERON:0005376 ! olfactory bulb external plexiform layer @@ -31313,7 +31795,8 @@ relationship: part_of UBERON:0001930 ! paraventricular nucleus of hypothalamus id: CL:1001509 name: glycinergic neuron def: "The neurons that utilize glycine as a neurotransmitter." [MP:0010385] -xref: FBbt:00048032 +xref: FBbt:00048032 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} +xref: ZFA:0009396 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell is_a: CL:0000540 ! neuron intersection_of: CL:0000540 ! neuron @@ -31363,6 +31846,7 @@ replaced_by: CL:0002638 [Term] id: CL:1001567 name: lung endothelial cell +def: "Any endothelial cell of vascular tree that is part of some lung." [FBC:Autogenerated] synonym: "endothelial cell of lung" RELATED [] synonym: "pulmonary vessel endothelial cell" RELATED [] is_a: CL:0000082 ! epithelial cell of lung @@ -31374,6 +31858,7 @@ relationship: part_of UBERON:0000102 ! lung vasculature [Term] id: CL:1001568 name: pulmonary artery endothelial cell +def: "Any endothelial cell of vascular tree that is part of some pulmonary artery." [FBC:Autogenerated] subset: cellxgene_subset subset: human_reference_atlas synonym: "PAEC cell" RELATED [BTO:0001141] @@ -31402,6 +31887,7 @@ synonym: "hippocampus (CA) pyramidal cell" NARROW [NIFSTD:sao131261273] synonym: "hippocampus (CA) pyramidal neuron" NARROW [NIFSTD:sao131261273] xref: NIFSTD:sao131261273 xref: SAO:sao131261273 +is_a: BFO:0000002 is_a: CL:0002608 ! hippocampal neuron is_a: CL:4023111 ! cerebral cortex pyramidal neuron intersection_of: CL:0000598 ! pyramidal neuron @@ -32061,7 +32547,7 @@ creation_date: 2014-06-04T17:08:47Z id: CL:2000019 name: compound eye photoreceptor cell def: "Any photoreceptor cell that is part of a compound eye." [GOC:TermGenie] -xref: FBbt:00004211 +xref: FBbt:00006009 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000287 ! eye photoreceptor cell intersection_of: CL:0000210 ! photoreceptor cell intersection_of: part_of UBERON:0000018 ! compound eye @@ -32206,6 +32692,7 @@ name: peripheral nervous system neuron alt_id: CL:0000111 def: "A neuron that is part of a peripheral nervous system." [GOC:TermGenie, ISBN:0721662544] subset: cellxgene_subset +subset: human_reference_atlas synonym: "peripheral neuron" EXACT [] synonym: "PNS neuron" EXACT [] xref: FMA:84664 @@ -32214,6 +32701,7 @@ intersection_of: CL:0000540 ! neuron intersection_of: RO:0002100 UBERON:0000010 ! has soma location peripheral nervous system relationship: RO:0002100 UBERON:0000010 ! has soma location peripheral nervous system property_value: http://purl.org/dc/terms/contributor https://www.wikidata.org/entity/Q35563349 +property_value: RO:0002175 NCBITaxon:9606 creation_date: 2014-06-25T02:28:17Z [Term] @@ -32359,11 +32847,13 @@ creation_date: 2014-07-09T00:24:53Z [Term] id: CL:2000045 name: foreskin melanocyte -def: "Any melanocyte that is part of a prepuce of penis." [GOC:TermGenie] -is_a: CL:0000148 ! melanocyte -intersection_of: CL:0000148 ! melanocyte -intersection_of: part_of UBERON:0001332 ! prepuce of penis -relationship: part_of UBERON:0001332 ! prepuce of penis +def: "Any melanocyte of skin that is part of a skin of prepuce of penis." [GOC:TermGenie] +synonym: "melanocyte of foreskin" EXACT [] +is_a: CL:1000458 ! melanocyte of skin +intersection_of: CL:1000458 ! melanocyte of skin +intersection_of: part_of UBERON:0001471 ! skin of prepuce of penis +relationship: part_of UBERON:0001471 ! skin of prepuce of penis +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0009-0000-8480-9277 property_value: http://purl.org/dc/terms/contributor https://www.wikidata.org/entity/Q35563349 creation_date: 2014-07-09T00:45:07Z @@ -32571,12 +33061,14 @@ id: CL:2000062 name: placental villus capillary endothelial cell def: "Any capillary endothelial cell that is part of a placenta." [GOC:TermGenie] comment: http://www.ncbi.nlm.nih.gov/books/NBK53245/ +subset: human_reference_atlas is_a: CL:0002144 ! capillary endothelial cell is_a: CL:0009092 ! endothelial cell of placenta intersection_of: CL:0002144 ! capillary endothelial cell intersection_of: part_of UBERON:0010005 ! placental labyrinth villous relationship: part_of UBERON:0010005 ! placental labyrinth villous property_value: http://purl.org/dc/terms/contributor https://www.wikidata.org/entity/Q35563349 +property_value: RO:0002175 NCBITaxon:9606 creation_date: 2014-10-07T17:55:56Z [Term] @@ -32811,14 +33303,13 @@ creation_date: 2014-12-02T19:10:40Z [Term] id: CL:2000082 -name: melanocyte of foreskin -def: "Any melanocyte of skin that is part of a skin of prepuce of penis." [GOC:TermGenie] -is_a: CL:1000458 ! melanocyte of skin -is_a: CL:2000045 ! foreskin melanocyte -intersection_of: CL:1000458 ! melanocyte of skin -intersection_of: part_of UBERON:0001471 ! skin of prepuce of penis -relationship: part_of UBERON:0001471 ! skin of prepuce of penis +name: obsolete melanocyte of foreskin +def: "OBSOLETE. Any melanocyte of skin that is part of a skin of prepuce of penis." [GOC:TermGenie] +comment: Term was merged into foreskin melanocyte CL_2000045 +relationship: term_tracker_item https://github.com/obophenotype/cell-ontology/issues/1562 property_value: http://purl.org/dc/terms/contributor https://www.wikidata.org/entity/Q35563349 +is_obsolete: true +replaced_by: CL:2000045 creation_date: 2014-12-02T19:10:45Z [Term] @@ -33022,11 +33513,13 @@ name: Hofbauer cell def: "A tissue-resident macrophage that is part of the placenta. A Hofbauer cell expresses high levels of growth factors and metalloproteinases that support vasculogenesis, angiogenesis, branching morphogenesis and tissue remodeling. A Hofbauer cell has a fetal origin and is present throughout pregnancy." [GOC:CellBLAST, PMID:30429548, PMID:30498493, PMID:34745147, PMID:35438172] comment: Hofbauer cells are a heterogenic group of macrophages that resemble M2-like cells. Initially described in chorionic villi in humans, a Hofbauer cell is now often used to describe any fetal-derived placental macrophage that resides within the placental villous core, amnion, and chorion laeve. {xref="PMID:30498493"} subset: cellxgene_subset +subset: human_reference_atlas synonym: "HBC" RELATED OMO:0003000 [] is_a: CL:0000864 ! tissue-resident macrophage relationship: part_of UBERON:0001987 ! placenta property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-6677-8489 property_value: http://purl.org/dc/terms/contributor https://www.wikidata.org/entity/Q97529981 +property_value: RO:0002175 NCBITaxon:9606 creation_date: 2019-02-18T19:41:20Z [Term] @@ -33159,10 +33652,10 @@ property_value: IAO:0000028 "L2/3 bipolar vip interneuron (Mus)" xsd:string [Term] id: CL:4023008 name: intratelencephalic-projecting glutamatergic cortical neuron -def: "A glutamatergic neuron located in the cerebral cortex that projects to structures of telencephalic origins." [DOI:10.1101/2020.10.19.343129] +def: "A glutamatergic neuron located in the cerebral cortex that projects to structures of telencephalic origins." [PMID:34616075] subset: BDS_subset subset: human_reference_atlas -synonym: "IT projecting neuron" EXACT [] +synonym: "IT neuron" EXACT [doi:10.1038/s41467-021-24565-z] xref: ILX:0770100 is_a: CL:0000679 ! glutamatergic neuron is_a: CL:0010012 ! cerebral cortex neuron @@ -33171,7 +33664,7 @@ intersection_of: bearer_of PATO:0070034 ! intratelencephalic projecting intersection_of: RO:0002100 UBERON:0000956 ! has soma location cerebral cortex relationship: bearer_of PATO:0070034 ! intratelencephalic projecting property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-7258-9596 -property_value: IAO:0000028 "IT glut" xsd:string +property_value: IAO:0000028 "IT neuron" xsd:string property_value: RO:0002175 NCBITaxon:9606 [Term] @@ -33199,6 +33692,7 @@ def: "A GABAergic cortical interneuron that is strongly labelled for α7 nAChRs. comment: Unlike typical Lamp5 electrophysiology, A7 cells have Vip- and Sst-like firing properties, with active depolarizing hump at near-threshold membrane potentials, and larger hyperpolarization sag, stronger burst, and rebound firing. A7 cells have a transcriptomics signature that looks like Lamp5 GABAergic interneuron. {xref="PMID:33184512", xref="PMID:30413647", xref="DOI:10.1101/2020.10.19.343129"} subset: BDS_subset synonym: "A7 cell (Mus musculus)" EXACT [] +is_a: BFO:0000002 is_a: CL:0010011 ! cerebral cortex GABAergic interneuron relationship: RO:0002162 NCBITaxon:10090 ! in taxon Mus musculus relationship: RO:0002292 PR:000005460 ! expresses neuronal acetylcholine receptor subunit alpha-7 @@ -33208,10 +33702,11 @@ property_value: IAO:0000028 "A7 interneuron" xsd:string [Term] id: CL:4023011 name: lamp5 GABAergic cortical interneuron -def: "A GABAergic neuron located in the cerebral cortex that expresses Lamp5" [PMID:30382198] +def: "A GABAergic neuron located in the cerebral cortex that expresses Lamp5" [PMID:30382198, PMID:37824655] subset: BDS_subset subset: cellxgene_subset xref: ILX:0770149 +is_a: BFO:0000002 is_a: CL:0010011 ! cerebral cortex GABAergic interneuron intersection_of: CL:0000099 ! interneuron intersection_of: capable_of GO:0061534 ! gamma-aminobutyric acid secretion, neurotransmission @@ -33274,10 +33769,11 @@ property_value: IAO:0000028 "L5 vip interneuron (Mus)" xsd:string [Term] id: CL:4023015 name: sncg GABAergic cortical interneuron -def: "A GABAergic neuron located in the cerebral cortex that expresses Gamma-synuclein" [PMID:33186530] +def: "A GABAergic neuron located in the cerebral cortex that expresses Gamma-synuclein" [PMID:33186530, PMID:37824655] subset: BDS_subset subset: cellxgene_subset xref: ILX:0770150 +is_a: BFO:0000002 is_a: CL:0010011 ! cerebral cortex GABAergic interneuron intersection_of: CL:0000099 ! interneuron intersection_of: capable_of GO:0061534 ! gamma-aminobutyric acid secretion, neurotransmission @@ -33290,10 +33786,11 @@ property_value: IAO:0000028 "sncg cortical interneuron" xsd:string [Term] id: CL:4023016 name: vip GABAergic cortical interneuron -def: "A GABAergic neuron located in the cerebral cortex that expresses vasoactive intestinal polypeptide" [PMID:33186530] +def: "A GABAergic neuron located in the cerebral cortex that expresses vasoactive intestinal polypeptide" [PMID:33186530, PMID:37824655] subset: BDS_subset subset: cellxgene_subset xref: ILX:0770151 +is_a: BFO:0000002 is_a: CL:0010011 ! cerebral cortex GABAergic interneuron intersection_of: CL:0000099 ! interneuron intersection_of: capable_of GO:0061534 ! gamma-aminobutyric acid secretion, neurotransmission @@ -33306,10 +33803,11 @@ property_value: IAO:0000028 "vip cortical interneuron" xsd:string [Term] id: CL:4023017 name: sst GABAergic cortical interneuron -def: "A GABAergic neuron located in the cerebral cortex that expresses somatostatin (sst)" [PMID:27477017] +def: "A GABAergic neuron located in the cerebral cortex that expresses somatostatin (sst)" [PMID:27477017, PMID:37824655] subset: BDS_subset subset: cellxgene_subset xref: ILX:0770152 +is_a: BFO:0000002 is_a: CL:0010011 ! cerebral cortex GABAergic interneuron intersection_of: CL:0000099 ! interneuron intersection_of: capable_of GO:0061534 ! gamma-aminobutyric acid secretion, neurotransmission @@ -33322,10 +33820,11 @@ property_value: IAO:0000028 "sst cortical interneuron" xsd:string [Term] id: CL:4023018 name: pvalb GABAergic cortical interneuron -def: "A GABAergic interneuron located in the cerebral cortex that expresses Parvalbumin." [PMID:27477017] +def: "A GABAergic interneuron located in the cerebral cortex that expresses Parvalbumin." [PMID:27477017, PMID:37824655] subset: BDS_subset subset: cellxgene_subset xref: ILX:0770154 +is_a: BFO:0000002 is_a: CL:0010011 ! cerebral cortex GABAergic interneuron intersection_of: CL:0000099 ! interneuron intersection_of: capable_of GO:0061534 ! gamma-aminobutyric acid secretion, neurotransmission @@ -33419,6 +33918,7 @@ def: "A medium spiny neuron that expresses dopamine type 1 receptors and project synonym: "D1-MSN" EXACT OMO:0003000 [PMID:34727523] synonym: "dopamine 1 medium spiny neuron" EXACT [https://orcid.org/0000-0001-7258-9596] synonym: "dSPN" EXACT OMO:0003000 [PMID:30096299] +is_a: BFO:0000002 is_a: CL:1001474 ! medium spiny neuron relationship: RO:0002292 PR:000001175 ! expresses D(1A) dopamine receptor property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-7258-9596 @@ -33457,6 +33957,7 @@ def: "A medium spiny neuron that expresses dopamine type 2 receptors and project synonym: "D2-MSN" EXACT OMO:0003000 [PMID:34727523] synonym: "dopamine 2 medium spiny neuron" EXACT [https://orcid.org/0000-0001-7258-9596] synonym: "iSPN" EXACT OMO:0003000 [PMID:30096299] +is_a: BFO:0000002 is_a: CL:1001474 ! medium spiny neuron relationship: RO:0002292 PR:000001177 ! expresses D(2) dopamine receptor property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-7258-9596 @@ -33521,6 +34022,7 @@ id: CL:4023035 name: lateral ganglionic eminence derived neuron def: "A neuron that is derived from a precursor cell in the lateral ganglion eminence." [wikipediaversioned:Ganglionic_eminence&oldid=1186824360] synonym: "LGE-derived neuron" EXACT [PMID:10377350] +is_a: BFO:0000002 is_a: CL:0000540 ! neuron intersection_of: CL:0000540 ! neuron intersection_of: RO:0002202 UBERON:0004025 ! develops from lateral ganglionic eminence @@ -33545,7 +34047,7 @@ property_value: IAO:0000028 "chandelier PV interneuron" xsd:string [Term] id: CL:4023038 name: L6b glutamatergic cortical neuron -def: "A glutamatergic neuron with a soma found in cortical layer 6b. They are transcriptomically related to corticothalamic-projecting neurons but have differential projections to the thalamus or anterior cingulate." [DOI:10.1101/2020.10.19.34312, PMID:30382198] +def: "A glutamatergic neuron with a soma found in cortical layer 6b. They are transcriptomically related to corticothalamic-projecting neurons but have differential projections to the thalamus or anterior cingulate." [DOI:10.1101/2020.10.19.34312, PMID:30382198, PMID:37824655] subset: BDS_subset subset: cellxgene_subset xref: ILX:0770163 @@ -33560,6 +34062,7 @@ property_value: IAO:0000028 "L6b glut" xsd:string [Term] id: CL:4023039 name: amygdala excitatory neuron +def: "Any neuron that has its soma located in some amygdala and is capable of some glutamate secretion, neurotransmission." [FBC:Autogenerated] comment: An excitatory neuron that is located in the amygdala. {xref="DOI:10.1101/2022.10.12.511898"} subset: human_reference_atlas is_a: CL:0000679 ! glutamatergic neuron @@ -33574,7 +34077,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:4023040 name: L2/3-6 intratelencephalic projecting glutamatergic neuron -def: "A intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layers L2/3-6" [DOI:10.1101/2020.10.19.343129] +def: "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layers L2/3-6." [https://cellxgene.cziscience.com/e/c3aa4f95-7a18-4a7d-8dd8-ca324d714363.cxg/, PMID:34616075] subset: BDS_subset subset: cellxgene_subset synonym: "L2/3-6 IT projecting neuron" EXACT [] @@ -33585,13 +34088,13 @@ property_value: IAO:0000028 "L2/3-6 IT glut" xsd:string [Term] id: CL:4023041 name: L5 extratelencephalic projecting glutamatergic cortical neuron -def: "A glutamatergic neuron, with a soma found in the deeper portion of L5, that has long-range axonal projections including deep subcortical targets outside of the telencephalon and, in some cases, the spinal cord. While the L5 ET neuron projections are not limited to ET targets, they are clearly differentiated from the neuron subclasses whose projections are constrained to intratelencephalic (IT) targets. L5 ET neurons are generally the largest excitatory cortical neurons, typically having a thick apical dendrite with a prominent dendritic tuft in layer 1 and displaying burst-firing physiological characteristics." [DOI:10.1101/2020.10.19.343129] +def: "A glutamatergic neuron, with a soma found in the deeper portion of L5, that has long-range axonal projections including deep subcortical targets outside of the telencephalon and, in some cases, the spinal cord. While the L5 ET neuron projections are not limited to ET targets, they are clearly differentiated from the neuron subclasses whose projections are constrained to intratelencephalic (IT) targets. L5 ET neurons are generally the largest excitatory cortical neurons, typically having a thick apical dendrite with a prominent dendritic tuft in layer 1 and displaying burst-firing physiological characteristics." [PMID:34616075, PMID:37824655] subset: BDS_subset subset: cellxgene_subset synonym: "burst-firing layer 5 neuron" EXACT [DOI:10.3389/fncel.2011.00001] synonym: "L5b neuron" RELATED OMO:0003000 [DOI:10.1016/j.neuron.2011.07.029] synonym: "pyramidal tract (PT) neuron" NARROW [DOI:10.1038/nrn3469] -synonym: "Pyramidal tract-like (PT-l)" EXACT [DOI:10.1016/j.cell.2019.09.023] {comment="pyramidal tract-like is used because, unlike pyramidal tract neurons in the motor cortex, neurons in the structures like the auditory cortex do not project to the spinal cord."} +synonym: "Pyramidal tract-like (PT-l)" EXACT [PMID:31626774] {comment="pyramidal tract-like is used because, unlike pyramidal tract neurons in the motor cortex, neurons in the structures like the auditory cortex do not project to the spinal cord."} synonym: "subcerebral projection (SCPN) neuron" BROAD [DOI:10.1016/j.neuron.2005.08.030] synonym: "thick-tufted layer 5 (TTL5) pyramidal neuron" EXACT [DOI:10.3389/fncel.2015.00233] is_a: CL:4023009 ! extratelencephalic-projecting glutamatergic cortical neuron @@ -33605,10 +34108,10 @@ property_value: IAO:0000028 "L5 ET glut" xsd:string [Term] id: CL:4023042 name: L6 corticothalamic-projecting glutamatergic cortical neuron -def: "A corticothalamic-projecting neuron with a soma found in cortical layer 6." [DOI:10.1101/2020.10.19.343129] +def: "A corticothalamic-projecting neuron with a soma found in cortical layer 6." [PMID:34616075, PMID:37824655] subset: BDS_subset subset: cellxgene_subset -synonym: "L6 CT" EXACT [] +synonym: "L6 CT" EXACT [PMID:28625486, PMID:34616075] is_a: CL:4023013 ! corticothalamic-projecting glutamatergic cortical neuron intersection_of: CL:4023013 ! corticothalamic-projecting glutamatergic cortical neuron intersection_of: RO:0002100 UBERON:0005395 ! has soma location cortical layer VI @@ -33620,7 +34123,7 @@ property_value: IAO:0000028 "L6 CT glut" xsd:string [Term] id: CL:4023043 name: L5/6 near-projecting glutamatergic neuron of the primary motor cortex -def: "A near-projecting glutamatergic neuron with a soma found in layer 5/6 of the primary motor cortex." [DOI:10.1101/2020.10.19.343129, PMID:31209381] +def: "A near-projecting glutamatergic neuron with a soma found in layer 5/6 of the primary motor cortex." [PMID:31209381, PMID:34616075] subset: BDS_subset subset: cellxgene_subset synonym: "L5/6 NP M1" EXACT [] @@ -33674,11 +34177,11 @@ property_value: IAO:0000028 "L6b subplate glut" xsd:string [Term] id: CL:4023047 name: L2/3 intratelencephalic projecting glutamatergic neuron of the primary motor cortex -def: "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 2/3 of the primary motor cortex." [DOI:10.1101/2020.10.19.343129] +def: "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 2/3 of the primary motor cortex." [PMID:34616075] subset: BDS_subset subset: cellxgene_subset -synonym: "L2/3 IT M1" EXACT [] -synonym: "L2/3 IT MOp" EXACT [] +synonym: "L2/3 IT M1" EXACT [PMID:34616075] +synonym: "L2/3 IT MOp" EXACT [PMID:34616075] is_a: CL:4030059 ! L2/3 intratelencephalic projecting glutamatergic neuron intersection_of: CL:4030059 ! L2/3 intratelencephalic projecting glutamatergic neuron intersection_of: RO:0002100 UBERON:0001384 ! has soma location primary motor cortex @@ -33720,7 +34223,7 @@ property_value: IAO:0000028 "L5 IT glut MOp" xsd:string [Term] id: CL:4023050 name: L6 intratelencephalic projecting glutamatergic neuron of the primary motor cortex -def: "An intratelencephalic-projecting glutamatergic neuron with a soma found in L6 of the primary motor cortex. These cells are short untufted pyramidal cells, which could be stellate or inverted." [PMID:9236245] +def: "An intratelencephalic-projecting glutamatergic neuron with a soma found in L6 of the primary motor cortex. These cells are short untufted pyramidal cells, which could be stellate or inverted." [PMID:33184512, PMID:34616063, PMID:34616075, PMID:9236245] subset: BDS_subset subset: cellxgene_subset synonym: "L6 IT M1" EXACT [] @@ -33737,7 +34240,7 @@ property_value: IAO:0000028 "L6 IT glut MOp" xsd:string [Term] id: CL:4023051 name: vascular leptomeningeal cell -def: "A type of mesothelial fibroblast that is derived from the neural crest, is localized on blood vessels, and is a key component of the pia and arachnoid membranes surrounding the brain." [PMID:27284195, PMID:29443965, PMID:30096314] +def: "A type of mesothelial fibroblast that is derived from the neural crest, is localized on blood vessels, and is a key component of the pia and arachnoid membranes surrounding the brain." [PMID:27284195, PMID:29443965, PMID:30096314, PMID:37824655] subset: BDS_subset subset: cellxgene_subset synonym: "VLMC" EXACT [] @@ -33805,6 +34308,7 @@ property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001 [Term] id: CL:4023057 name: cerebellar inhibitory GABAergic interneuron +def: "Any GABAergic interneuron that has its soma located in some cerebellar cortex." [FBC:Autogenerated] comment: A GABAergic interneuron whose soma is located in the cerebellar cortex. {xref="DOI:10.1101/2022.10.12.511898"} subset: human_reference_atlas is_a: CL:0000402 ! CNS interneuron @@ -33879,6 +34383,7 @@ name: medial ganglionic eminence derived interneuron def: "An interneuron that is derived from the medial ganglionic eminence." [DOI:10.1101/2022.10.12.511898] subset: human_reference_atlas synonym: "MGE interneuron" EXACT [] +is_a: BFO:0000002 is_a: CL:0000099 ! interneuron intersection_of: CL:0000099 ! interneuron intersection_of: RO:0002202 UBERON:0004024 ! develops from medial ganglionic eminence @@ -33893,6 +34398,7 @@ name: caudal ganglionic eminence derived interneuron def: "An interneuron that is derived from the caudal ganglionic eminence." [DOI:10.1101/2022.10.12.511898] subset: human_reference_atlas synonym: "CGE interneuron" EXACT [] +is_a: BFO:0000002 is_a: CL:0000099 ! interneuron intersection_of: CL:0000099 ! interneuron intersection_of: RO:0002202 UBERON:0004026 ! develops from caudal ganglionic eminence @@ -33907,6 +34413,7 @@ name: meis2 expressing cortical GABAergic cell def: "A GABAergic cell located in the cerebral cortex that expresses meis2." [PMID:33372656] subset: BDS_subset subset: cellxgene_subset +is_a: BFO:0000002 is_a: CL:0000617 ! GABAergic neuron is_a: CL:0010012 ! cerebral cortex neuron relationship: RO:0002292 PR:000010317 ! expresses homeobox protein Meis2 @@ -33985,6 +34492,7 @@ name: L5/6 cck GABAergic interneuron (Mmus) def: "A GABAergic cortical interneuron that expresses cck. L5/6 cck cells have soma found mainly in L5 and L6 and have large axonal arborization." [PMID:33184512] subset: BDS_subset synonym: "L5/6 CCK (Mus musculus)" EXACT [] +is_a: BFO:0000002 is_a: CL:0010011 ! cerebral cortex GABAergic interneuron relationship: RO:0002100 UBERON:8440002 ! has soma location cortical layer V/VI relationship: RO:0002162 NCBITaxon:10090 ! in taxon Mus musculus @@ -34116,7 +34624,7 @@ property_value: IAO:0000028 "inverted L6 IT glut MOp" xsd:string [Term] id: CL:4023083 name: chandelier cell -def: "A GABAergic interneuron that selectively innervates the axon initial segment of pyramidal cells. Their local axonal clusters are formed by high-frequency branching at shallow angles, often ramifying around, above or below their somata with a high bouton density. The characteristic terminal portions of the axon form short vertical rows of boutons, resembling the candlesticks and candles of a chandelier. Chandelier cells can be multipolar or bitufted." [PMID:15378039, PMID:27199673] +def: "A GABAergic interneuron that selectively innervates the axon initial segment of pyramidal cells. Their local axonal clusters are formed by high-frequency branching at shallow angles, often ramifying around, above or below their somata with a high bouton density. The characteristic terminal portions of the axon form short vertical rows of boutons, resembling the candlesticks and candles of a chandelier. Chandelier cells can be multipolar or bitufted." [PMID:15378039, PMID:27199673, PMID:37824655] subset: BDS_subset synonym: "axo-axonic cell" BROAD [PMID:27199673, PMID:33862423] synonym: "ChC" RELATED OMO:0003000 [PMID:15378039] @@ -34488,6 +34996,7 @@ name: cochlea auditory hair cell def: "An auditory hair cell found in the cochlea." [Wikipedia:Hair_cell] synonym: "cochlear hair cell" EXACT [] xref: FMA:62364 +is_a: BFO:0000002 is_a: CL:0000202 ! auditory hair cell is_a: CL:0002374 ! ear hair cell intersection_of: CL:0000202 ! auditory hair cell @@ -34498,7 +35007,7 @@ property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001 [Term] id: CL:4023121 name: sst chodl GABAergic cortical interneuron -def: "A sst GABAergic cortical interneuron that also expresses Chodl. These neurons are rare and correspond to the only known cortical interneurons with long-range projection." [PMID:15845086, PMID:31209381, PMID:33372656] +def: "A sst GABAergic cortical interneuron that also expresses Chodl. These neurons are rare and correspond to the only known cortical interneurons with long-range projection." [PMID:15845086, PMID:31209381, PMID:33372656, PMID:37824655] subset: cellxgene_subset synonym: "long-range GABAergic interneuron" BROAD [] is_a: CL:4023017 ! sst GABAergic cortical interneuron @@ -34595,6 +35104,7 @@ id: CL:4023130 name: kisspeptin neuron def: "A neuron that expresses kisspeptin. These neurons are predominantly located in the hypothalamus, but also found in other parts of the brain including the hippocampal dentate gyrus." [PMID:30042117] comment: Gonadal sex steroids stimulate kisspeptin neurons in the RP3V, but inhibit kisspeptin neurons in the ARC. {xref="PMID:30042117"} +is_a: BFO:0000002 is_a: CL:0000540 ! neuron intersection_of: CL:0000540 ! neuron intersection_of: RO:0002292 PR:000009344 ! expresses metastasis-suppressor KiSS-1 @@ -35196,6 +35706,7 @@ id: CL:4030026 name: BEST4+ intestinal epithelial cell, human def: "An absorptive epithelial cell of the human intestine expressing bestrophin-4 (BEST4) calcium-activated ion channels." [https://orcid.org/0000-0002-7431-4139, PMID:24223998, PMID:35176508] subset: cellxgene_subset +is_a: BFO:0000002 is_a: CL:0000255 ! eukaryotic cell is_a: CL:0000677 ! gut absorptive cell relationship: RO:0002160 NCBITaxon:9606 ! only in taxon Homo sapiens @@ -35445,6 +35956,7 @@ synonym: "D1/2" RELATED OMO:0003000 [doi:10.1016/j.cub.2021.10.015] synonym: "D1/D2 hybrid" RELATED OMO:0003000 [doi:10.1016/j.cub.2021.10.015] synonym: "D1/D2-hybrid MSN" RELATED OMO:0003000 [doi:10.1016/j.cub.2021.10.015] synonym: "hybrid D1/2 cell type" RELATED OMO:0003000 [doi:10.1016/j.cub.2021.10.015] +is_a: BFO:0000002 is_a: CL:1001474 ! medium spiny neuron relationship: RO:0002100 UBERON:0005382 ! has soma location dorsal striatum relationship: RO:0002292 PR:000001175 ! expresses D(1A) dopamine receptor @@ -35459,6 +35971,7 @@ comment: In Rhesus macaques, both nucleus accumbens shell and olfactory tubercle synonym: "D1Sh" RELATED OMO:0003000 [doi:10.1016/j.cub.2021.10.015] synonym: "NAc shell and OT D1 medium spiny neuron" EXACT [doi:10.1016/j.cub.2021.10.015] synonym: "NAc shell and OT D1-MSN" RELATED OMO:0003000 [doi:10.1016/j.cub.2021.10.015] +is_a: BFO:0000002 is_a: CL:1001474 ! medium spiny neuron relationship: RO:0002100 UBERON:0005403 ! has soma location ventral striatum relationship: RO:0002292 PR:000001175 ! expresses D(1A) dopamine receptor @@ -35473,6 +35986,7 @@ synonym: "D2Sh" RELATED OMO:0003000 [doi:10.1016/j.cub.2021.10.015] synonym: "NAc shell and OT D2 medium spiny neuron" EXACT [doi:10.1016/j.cub.2021.10.015] synonym: "NAc shell and OT D2-MSN" RELATED OMO:0003000 [doi:10.1016/j.cub.2021.10.015] synonym: "nucleus accumbens shell and olfactory tubercle D2-MSN" RELATED OMO:0003000 [doi:10.1016/j.cub.2021.10.015] +is_a: BFO:0000002 is_a: CL:1001474 ! medium spiny neuron relationship: RO:0002100 UBERON:0005403 ! has soma location ventral striatum relationship: RO:0002292 PR:000001177 ! expresses D(2) dopamine receptor @@ -35496,6 +36010,7 @@ def: "A DRD1-expressing medium spiny neuron that is part of dense, RXFP1-positiv comment: Regarding the abbreviation D1-NUDAP, NUDAP stands for "neurochemically unique domains in the accumbens and putamen". In Rhesus macaques, the RXFP1-positive interface island D1-medium spiny neuron (D1-NUDAP) has been noted to have upregulation of OPRM1 compared to DRD1-expressing medium spiny neurons located outside of the D1-exclusive island and in Islands of Calleja. Kappa-opioid receptor gene (OPRK1) has been noted to be absent from D1-NUDAP cells. Many striosome-specific markers have been noted to be upregulated in D1-NUDAP cells, including KCNIP1, KCNT1, KHDRBS3, and BACH2. PDYN, an acknowledged D1-striosome marker gene, has also been noted to be expressed in D1-NUDAPs. D1-NUDAPs also express some genes found to be selectively expressed in the matrix, including STXBP6, GDA, and SEMA3E. Gene enrichment analysis has revealed that D1-NUDAP neurons express genes that have been implicated in drug addiction and many other functions. {xref="doi:10.1016/j.cub.2021.10.015"} synonym: "D1-NUDAP" RELATED OMO:0003000 [doi:10.1016/j.cub.2021.10.015] synonym: "RXFP1-positive island D1-medium spiny neuron" EXACT [doi:10.1016/j.cub.2021.10.015] +is_a: BFO:0000002 is_a: CL:1001474 ! medium spiny neuron relationship: RO:0002100 UBERON:0005403 ! has soma location ventral striatum relationship: RO:0002292 PR:000001175 ! expresses D(1A) dopamine receptor @@ -35507,23 +36022,27 @@ id: CL:4030055 name: intermediate cell of urothelium def: "A urothelial cell that is part of the regenerative layer(s) of cells directly superficial to basal cells in urothelium. The layer of intermediate cells in the urothelium ranges from one to several layers thick depending on the species with intermediate cells attached to adjacent cell layers and one another via desmosomes." [doi:10.1038/s41385-022-00565-0] comment: It has been noted in at least some mammalian species that the urothelial intermediate cell type is similar to basal cells by expressing CK17 and (unlike umbrella cells) p63 but is positive for uroplakins (UPK) and negative for CK5. Urothelial intermediate cells have also been noted to be larger in diameter than urothelial basal cells. {xref="doi:10.1038/s41385-022-00565-0"} +subset: human_reference_atlas synonym: "urothelial intermediate cell" EXACT [doi:10.1007/978-3-030-14366-4_8] xref: FMA:84155 is_a: CL:0000731 ! urothelial cell property_value: http://purl.org/dc/terms/contributor "https://orcid.org/0000-0003-3065-9183" xsd:string property_value: http://purl.org/dc/terms/date "2023-06-16T07:53:43Z" xsd:dateTime +property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:4030056 name: umbrella cell of urothelium def: "A urothelial cell that is terminally differentiated and part of the urothelial apical surface that forms the high-resistance barrier of urothelium. Umbrella cells have been described as the largest of urothelial cell types, highly polarized, and, in some species, multinucleated. In the relaxed state, these cells form a dome-shaped structure at the apical pole and can also cover multiple underlying intermediate cells, leading to the name umbrella cells. In contrast, these cells flatten when the bladder is filled." [doi:10.1038/s41385-022-00565-0] comment: Umbrella cells are attached to sub-superficial cell layers via desmosomes, while tight junctions localized between superficial cells aid in forming a high-resistance barrier function. Another distinguishing feature of an umbrella cell type is the presence of subapical discoidal/fusiform-shaped vesicles contributing to the plasticity in urothelial cell surface area through a regulated process of endocytosis/exocytosis. It has been noted in at least some mammalian species that the urothelial umbrella cell type expresses UPK1A, UPK1B, UPK2 and UPK3A. Unlike intermediate and basal cells of the urothelium, CK17 is reported to be completely absent and p63 not expressed in umbrella cells. {xref="doi:10.1038/s41385-022-00565-0"} +subset: human_reference_atlas synonym: "facet cell of urothelium" EXACT [doi:10.1038/s41385-022-00565-0] synonym: "superficial cell of urothelium" EXACT [doi:10.1038/s41385-022-00565-0] xref: FMA:84149 is_a: CL:0000731 ! urothelial cell property_value: http://purl.org/dc/terms/contributor "https://orcid.org/0000-0003-3065-9183" xsd:string property_value: http://purl.org/dc/terms/date "2023-06-16T07:59:43Z" xsd:dateTime +property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:4030057 @@ -35545,7 +36064,6 @@ synonym: "T cell receptor positive macrophage" EXACT [PMID:26074923] synonym: "TCR+ macrophage" EXACT [PMID:26074923] synonym: "TCR.macs" RELATED [PMID:37500727] {synonymtypedef="OMO:0003000"} is_a: CL:0000235 ! macrophage -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000235 ! macrophage intersection_of: RO:0002104 GO:0042101 ! has plasma membrane part T cell receptor complex relationship: RO:0002104 GO:0042101 ! has plasma membrane part T cell receptor complex @@ -35555,14 +36073,17 @@ property_value: http://purl.org/dc/terms/date "2023-09-26T12:27:14Z" xsd:dateTim [Term] id: CL:4030059 name: L2/3 intratelencephalic projecting glutamatergic neuron -def: "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 2/3." [PMID:34004146, PMID:37292694] +def: "A transcriptomically distinct intratelencephalic-projecting glutamatergic neuron with a soma found between cortical layer 2-4. This intratelencephalic-projecting glutamatergic neuron has thin-tufted apical dendrites and extends its axonal projection into L5 in the neocortex. This neuronal type has a hyperpolarised resting membrane potential. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', clusters L2/3 IT." [https://cellxgene.cziscience.com/e/c3aa4f95-7a18-4a7d-8dd8-ca324d714363.cxg/, PMID:25622573, PMID:34004146, PMID:37292694, PMID:37824655] +comment: Hystorically, the L2/3 intratelencephalic projectic glutametergic neuron was known to have its soma in cortical layer 2/3. MERFISH data showed that this intratelencephalic-projecting glutametergic neuron can have its soma in layer 2/3, 4B, 4C. The position of the soma in layer 4b and 4C is less frequent for this neuronal type in comparison to cortical layer 2/3. {xref="PMID:37824655"} synonym: "L2/3 IT" RELATED OMO:0003000 [PMID:34004146] +xref: ILX:0770156 is_a: CL:4023040 ! L2/3-6 intratelencephalic projecting glutamatergic neuron intersection_of: CL:4023040 ! L2/3-6 intratelencephalic projecting glutamatergic neuron intersection_of: RO:0002100 UBERON:8440000 ! has soma location cortical layer II/III relationship: RO:0002100 UBERON:8440000 ! has soma location cortical layer II/III property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-4389-9821 property_value: http://purl.org/dc/terms/date "2023-10-10T14:10:21Z" xsd:dateTime +property_value: IAO:0000028 "L2/3 IT" xsd:string [Term] id: CL:4030060 @@ -35575,6 +36096,7 @@ intersection_of: RO:0002100 UBERON:0005391 ! has soma location cortical layer II relationship: RO:0002100 UBERON:0005391 ! has soma location cortical layer II property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-4389-9821 property_value: http://purl.org/dc/terms/date "2023-10-10T14:10:36Z" xsd:dateTime +property_value: IAO:0000028 "L2 IT" xsd:string [Term] id: CL:4030061 @@ -35587,6 +36109,7 @@ intersection_of: RO:0002100 UBERON:0005392 ! has soma location cortical layer II relationship: RO:0002100 UBERON:0005392 ! has soma location cortical layer III property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-4389-9821 property_value: http://purl.org/dc/terms/date "2023-10-10T14:10:47Z" xsd:dateTime +property_value: IAO:0000028 "L3 IT" xsd:string [Term] id: CL:4030062 @@ -35599,11 +36122,13 @@ intersection_of: RO:0002100 UBERON:8440001 ! has soma location cortical layer IV relationship: RO:0002100 UBERON:8440001 ! has soma location cortical layer IV/V property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-4389-9821 property_value: http://purl.org/dc/terms/date "2023-10-10T14:11:04Z" xsd:dateTime +property_value: IAO:0000028 "L4/5 IT" xsd:string [Term] id: CL:4030063 name: L4 intratelencephalic projecting glutamatergic neuron -def: "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 4." [PMID:37292694] +def: "A transcriptomically distinct intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 3-4. This neuron type can have a pyramidal, star-pyramidal or spiny stellate morphology and projects its output to L2/3 and L5A/B. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', L4 IT." [https://cellxgene.cziscience.com/e/c3aa4f95-7a18-4a7d-8dd8-ca324d714363.cxg/, PMID:37292694, PMID:37824655] +comment: Historically, the L4 intratelencephalic projectic glutametergic neuron was known to have its soma in cortical layer 4. MERFISH data showed that this intratelencephalic-projecting glutametergic neuron can also have its soma in layer 3. synonym: "L4 IT" RELATED OMO:0003000 [PMID:37292694] is_a: CL:4023040 ! L2/3-6 intratelencephalic projecting glutamatergic neuron intersection_of: CL:4023040 ! L2/3-6 intratelencephalic projecting glutamatergic neuron @@ -35611,36 +36136,42 @@ intersection_of: RO:0002100 UBERON:0005393 ! has soma location cortical layer IV relationship: RO:0002100 UBERON:0005393 ! has soma location cortical layer IV property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-4389-9821 property_value: http://purl.org/dc/terms/date "2023-10-10T14:11:25Z" xsd:dateTime +property_value: IAO:0000028 "L4 IT" xsd:string [Term] id: CL:4030064 name: L5 intratelencephalic projecting glutamatergic neuron -def: "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 5." [PMID:37292694, PMID:37609206] +def: "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 5. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', L5 IT." [https://cellxgene.cziscience.com/e/c3aa4f95-7a18-4a7d-8dd8-ca324d714363.cxg/, PMID:37292694, PMID:37609206, PMID:37824655] synonym: "L5 IT" RELATED [PMID:37292694] {synonymtypedef="OMO:0003000"} +xref: ILX:0770157 is_a: CL:4023040 ! L2/3-6 intratelencephalic projecting glutamatergic neuron intersection_of: CL:4023040 ! L2/3-6 intratelencephalic projecting glutamatergic neuron intersection_of: RO:0002100 UBERON:0005394 ! has soma location cortical layer V relationship: RO:0002100 UBERON:0005394 ! has soma location cortical layer V property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-4389-9821 property_value: http://purl.org/dc/terms/date "2023-10-10T14:11:59Z" xsd:dateTime +property_value: IAO:0000028 "L5 IT" xsd:string [Term] id: CL:4030065 name: L6 intratelencephalic projecting glutamatergic neuron -def: "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 6." [PMID:37292694, PMID:37609206] +def: "A transcriptomically distinct intratelencephalic-projecting glutamatergic neuron with a soma found in L6 of the primary motor cortex. These cells are short untufted pyramidal cells, which could be stellate or inverted. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', L6 IT." [https://cellxgene.cziscience.com/e/c3aa4f95-7a18-4a7d-8dd8-ca324d714363.cxg/, PMID:37292694, PMID:37609206, PMID:37824655] synonym: "L6 IT" RELATED OMO:0003000 [PMID:37292694] +xref: ILX:0770158 is_a: CL:4023040 ! L2/3-6 intratelencephalic projecting glutamatergic neuron intersection_of: CL:4023040 ! L2/3-6 intratelencephalic projecting glutamatergic neuron intersection_of: RO:0002100 UBERON:0005395 ! has soma location cortical layer VI relationship: RO:0002100 UBERON:0005395 ! has soma location cortical layer VI property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-4389-9821 property_value: http://purl.org/dc/terms/date "2023-10-10T14:12:23Z" xsd:dateTime +property_value: IAO:0000028 "L6 IT" xsd:string [Term] id: CL:4030066 name: ureteric bud cell def: "An epithelial cell that is part of a ureteric bud. A ureteric bud cell has the potential to induce metanephric mesenchymal cells to proliferate and convert to epithelia that form renal tubules via: (1) the secretion of multiple diffusible growth factors that rescue renal progenitors from apoptosis and stimulate them to proliferate and (2) contact-dependent mechanisms that induce mesenchymal-epithelial conversion." [PMID:17133361, PMID:24183650, PMID:9374839] synonym: "UB cell" RELATED OMO:0003000 [PMID:24183650] +is_a: BFO:0000002 is_a: CL:0000068 ! duct epithelial cell is_a: CL:0002518 ! kidney epithelial cell intersection_of: CL:0000066 ! epithelial cell @@ -35653,7 +36184,7 @@ property_value: http://purl.org/dc/terms/date "2023-10-13T11:22:42Z" xsd:dateTim [Term] id: CL:4030067 name: L5/6 near-projecting glutamatergic neuron -def: "A near-projecting glutamatergic neuron with a soma found in cortical layer 5/6." [PMID:34004146, PMID:37292694] +def: "A near-projecting glutamatergic neuron with a soma found in cortical layer 5/6." [PMID:34004146, PMID:37292694, PMID:37824655] synonym: "L5/6 NP" RELATED OMO:0003000 [PMID:34004146] is_a: CL:4023012 ! near-projecting glutamatergic cortical neuron intersection_of: CL:4023012 ! near-projecting glutamatergic cortical neuron @@ -35665,12 +36196,13 @@ property_value: http://purl.org/dc/terms/date "2023-11-17T11:35:06Z" xsd:dateTim [Term] id: CL:4030068 name: L6 intratelencephalic projecting Car3 glutamatergic neuron -def: "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 6 that expresses Car3." [doi:10.1016/j.cell.2021.04.021, doi:10.1101/2022.11.06.515349, doi:10.1101/2022.11.30.518285] +def: "A transcriptomically distinct intratelencepalic-projecting glutamatergic neuron that expresses Car3 with a soma found in L6 . The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_cluster', L6 IT Car3." [doi:10.1007/s00424-024-02923-2, doi:10.1101/2022.11.30.518285, PMID:34004146, PMID:37824655] synonym: "L6 IT Car3" RELATED OMO:0003000 [doi:10.1101/2022.11.06.515349] synonym: "L6 IT Car3 glutamatergic neuron" EXACT OMO:0003000 [https://orcid.org/0000-0003-4389-9821] -synonym: "L6 IT Car3 neuron" RELATED OMO:0003000 [doi:10.1101/2022.11.06.515349] +synonym: "L6 IT Car3 neuron" RELATED OMO:0003000 [PMID:37824655] synonym: "L6-IT-Car3" RELATED OMO:0003000 [doi:10.1101/2022.11.30.518285] -synonym: "L6-IT-Car3 cell" RELATED OMO:0003000 [doi:10.1101/2022.11.30.518285] +synonym: "L6-IT-Car3 cell" RELATED OMO:0003000 [PMID:37824655] +is_a: BFO:0000002 is_a: CL:4030065 ! L6 intratelencephalic projecting glutamatergic neuron intersection_of: CL:4030065 ! L6 intratelencephalic projecting glutamatergic neuron intersection_of: RO:0002100 UBERON:0005395 ! has soma location cortical layer VI @@ -35678,6 +36210,7 @@ intersection_of: RO:0002292 PR:000004919 ! expresses relationship: RO:0002292 PR:000004919 ! expresses property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-4389-9821 property_value: http://purl.org/dc/terms/date "2023-11-23T09:16:14Z" xsd:dateTime +property_value: IAO:0000028 "L6 IT Car3" xsd:string [Term] id: CL:4032000 @@ -35688,6 +36221,7 @@ subset: human_reference_atlas synonym: "club cell of the urethra epithelium" EXACT [] synonym: "club-like cell of the prostatic urethra epithelium" EXACT [https://orcid.org/0000-0001-7258-9596] synonym: "prostate club cell" EXACT [PMID:30566875] +is_a: BFO:0000002 is_a: CL:1000296 ! epithelial cell of urethra relationship: RO:0002292 PR:000014505 ! expresses uteroglobin property_value: http://purl.org/dc/terms/contributor http://orcid.org/0000-0001-6757-4744 @@ -35699,6 +36233,7 @@ id: CL:4032001 name: reelin GABAergic cortical interneuron def: "A GABAergic interneuron located in the cerebral cortex that expresses reelin (rln)." [PMID:23803971] synonym: "rln GABAergic cortical interneuron" EXACT [PMID:29904965] +is_a: BFO:0000002 is_a: CL:0010011 ! cerebral cortex GABAergic interneuron intersection_of: CL:0000099 ! interneuron intersection_of: capable_of GO:0061534 ! gamma-aminobutyric acid secretion, neurotransmission @@ -35908,6 +36443,7 @@ synonym: "alveolar myofibroblast" RELATED [PMID:31331942] synonym: "SCMF" RELATED OMO:0003000 [PMID:33624948] synonym: "SCMFs" RELATED OMO:0003004 [PMID:25448080] synonym: "secondary-crest myofibroblast" EXACT [PMID:31331942] +is_a: BFO:0000002 is_a: CL:0000186 ! myofibroblast cell relationship: part_of UBERON:0000114 ! lung connective tissue relationship: participates_in GO:0048286 ! lung alveolus development @@ -36171,6 +36707,7 @@ property_value: http://purl.org/dc/terms/date "2023-04-04T09:54:15Z" xsd:dateTim id: CL:4033036 name: OFFx cell def: "An OFF bipolar cell that is fovea-specific and expresses FEZF1, NXPH1 and NXPH2." [PMID:30712875, PMID:31995762, PMID:32555229] +is_a: BFO:0000002 is_a: CL:0000750 ! OFF-bipolar cell relationship: part_of UBERON:0001786 ! fovea centralis property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-6677-8489 @@ -36491,7 +37028,6 @@ synonym: "luminal mature cell" BROAD [PMID:20346151] is_a: CL:0000152 ! exocrine cell is_a: CL:0000512 ! paracrine cell is_a: CL:0002326 ! luminal epithelial cell of mammary gland -is_a: PR:000050567 ! protein-containing material entity relationship: RO:0002104 PR:000007204 ! has plasma membrane part estrogen receptor property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-6677-8489 property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-4969-670X @@ -36537,33 +37073,40 @@ property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001 id: CL:4033062 name: interstitial extravillous trophoblast cell def: "A trophoblast cell that invades the uterine wall to anchor the placenta to the uterus. An interstitial extravillous trophoblast cell differentiates from an extravillous trophoblast cell, becoming hyperchromatic and changing its morphology to a fibroblast-like spindle-shaped cell. In humans, this cell can be distinguished by the expression of placental-specific protein 8, which stimulates migration." [doi:10.1007/978-3-030-84725-8, PMID:37630754] +subset: human_reference_atlas synonym: "iEVT" RELATED OMO:0003000 [PMID:37630754] synonym: "interstitial extravillous trophoblast" RELATED [PMID:37630754] synonym: "interstitial trophoblast" RELATED [PMID:11337369] synonym: "invasive interstitial extravillous trophoblast cell" EXACT [doi:10.1007/978-3-030-84725-8] +is_a: BFO:0000002 is_a: CL:0000351 ! trophoblast cell relationship: RO:0002202 CL:0008036 ! develops from extravillous trophoblast property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-6677-8489 property_value: http://purl.org/dc/terms/date "2024-01-08T15:43:15Z" xsd:dateTime +property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:4033063 name: endovascular extravillous trophoblast cell def: "A trophoblast cell that invades the maternal spiral arteries and replace the endothelial lining, remodeling the vessels and allowing for adequate blood transport into the placenta. An endovascular extravillous trophoblast cell differentiates from an extravillous trophoblast cell. In humans, this cell can be distinguished by the expression of CD56." [doi:10.1007/978-3-030-84725-8, PMID:37630754] comment: Shortly after implantation, the endovascular extravillous trophoblast cells occlude the maternal spiral arteries, preventing premature oxygen delivery to the placental villi and reducing fetal oxidative stress. {xref="PMID:37630754"} +subset: human_reference_atlas synonym: "eEVT" RELATED OMO:0003000 [PMID:37630754] synonym: "endovascular extravillous trophoblast" RELATED [PMID:37630754] synonym: "endovascular trophoblast" RELATED [PMID:11337369] +is_a: BFO:0000002 is_a: CL:0000351 ! trophoblast cell relationship: RO:0002202 CL:0008036 ! develops from extravillous trophoblast property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-6677-8489 property_value: http://purl.org/dc/terms/date "2024-01-08T15:43:32Z" xsd:dateTime +property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:4033064 name: uterine resident macrophage def: "A tissue-resident macrophage that is part of the uterus." [PMID:36113384] comment: Uterine macrophages are reported to be evenly distributed throughout the endometrial stroma but with aggregations observed close to the lumen of superficial secretory glands. {xref="PMID:36113384"} +subset: human_reference_atlas synonym: "uterine macrophage" BROAD [PMID:36113384] is_a: CL:0000864 ! tissue-resident macrophage intersection_of: CL:0000864 ! tissue-resident macrophage @@ -36571,6 +37114,21 @@ intersection_of: part_of UBERON:0000995 ! uterus relationship: part_of UBERON:0000995 ! uterus property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-6677-8489 property_value: http://purl.org/dc/terms/date "2024-01-08T16:05:09Z" xsd:dateTime +property_value: RO:0002175 NCBITaxon:9606 + +[Term] +id: CL:4033065 +name: preplasmablast +def: "A mature B cell that serves as an intermediate stage in the differentiation of naive B cells into a plasmablast. A preplasmablast expresses CD30 and IL-6R and lacks expression of CD20, CD23, CD38 and CD138." [PMID:21918187, PMID:30755708, PMID:33150420] +synonym: "pre-plasmablast" EXACT [PMID:23613519] +synonym: "prePB" RELATED OMO:0003000 [PMID:21918187] +synonym: "preplasmablastic cell" EXACT [PMID:33661294] +is_a: CL:0000785 ! mature B cell +relationship: RO:0002202 CL:0000788 ! develops from naive B cell +relationship: RO:0002203 CL:0000980 ! develops into plasmablast +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-6677-8489 +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-7655-4833 +property_value: http://purl.org/dc/terms/date "2024-04-25T09:14:58Z" xsd:dateTime [Term] id: CL:4040000 @@ -36664,7 +37222,6 @@ def: "A GABAergic interneuron that has its soma located in the striatum and that synonym: "TAC3 interneuron" EXACT [PMID:34727523] is_a: CL:0000402 ! CNS interneuron is_a: CL:0011005 ! GABAergic interneuron -is_a: PR:000050567 ! protein-containing material entity relationship: RO:0002100 UBERON:0002435 ! has soma location striatum relationship: RO:0002104 PR:000016004 ! has plasma membrane part tachykinin-3 property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-0098-8958 @@ -36679,7 +37236,6 @@ synonym: "D1Sh TAC3 archetype" RELATED OMO:0003000 [PMID:34727523] synonym: "TAC3-positive D1Sh-MSN" RELATED OMO:0003000 [PMID:34727523] synonym: "TAC3-positive MSN" RELATED OMO:0003000 [PMID:34727523] is_a: CL:4030051 ! nucleus accumbens shell and olfactory tubercle D1 medium spiny neuron -is_a: PR:000050567 ! protein-containing material entity relationship: RO:0002104 PR:000016004 ! has plasma membrane part tachykinin-3 property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-0098-8958 property_value: http://purl.org/dc/terms/date "2024-03-05T13:36:54Z" xsd:dateTime @@ -36729,6 +37285,62 @@ relationship: part_of UBERON:0002092 ! brain dura mater property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-0098-8958 property_value: http://purl.org/dc/terms/date "2024-03-26T19:27:03Z" xsd:dateTime +[Term] +id: CL:4042007 +name: protoplasmic astrocyte +def: "An astrocyte with highly branched protrusions, found in neocortex layers 2-6. It is involved with the formation and elimination of synapses, glutamate clearance, modulation of synaptic functions and regulation of blood flow in response to synaptic activity." [PMID:19279265, PMID:25904839, PMID:34616062, PMID:37139179, PMID:37824655] +comment: This astrocyte extends its branches to several hundred of dendrites to multiple neurons to envelope 100,000 or more synapses. In humans, a protoplasmic astrocyte has an average diameter of 142 µm, and its diameter ranges between 100 and 400 µm. In rodents the average diameter of a protoplasmic astrocites is 56 µm. {xref="PMID:20012068", xref="PMID:19279265"} +is_a: CL:0000029 ! neural crest derived neuron +is_a: CL:0002605 ! astrocyte of the cerebral cortex +is_a: CL:0010012 ! cerebral cortex neuron +relationship: part_of UBERON:0001950 ! neocortex +relationship: RO:0002100 UBERON:0001950 ! has soma location neocortex +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-0098-8958 +property_value: http://purl.org/dc/terms/date "2024-04-08T16:01:24Z" xsd:dateTime + +[Term] +id: CL:4042008 +name: fibrous astrocyte +def: "A cell type located in the first layer of the neocortex with radial protrusions extending transversely into the deeper cortex layers, herby facilitating communication across neurons, astrocytes, capillaries, meninges and cerebrospinal fluid through contact with neurons, pia mater and capillaries." [PMID:19279265, PMID:22144298, PMID:28280934, PMID:31435019, PMID:34616062, PMID:37824655] +comment: In humans, a fibrous astrocyte diameter is circa 182 µm. In rodents, a fibrous astrocyte diameter is circa 85 µm. {xref="PMID:28280934"} +is_a: CL:0000029 ! neural crest derived neuron +is_a: CL:0000127 ! astrocyte +is_a: CL:2000029 ! central nervous system neuron +relationship: part_of UBERON:0002316 ! white matter +relationship: RO:0002100 UBERON:0002316 ! has soma location white matter +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-0098-8958 +property_value: http://purl.org/dc/terms/date "2024-04-08T16:29:28Z" xsd:dateTime + +[Term] +id: CL:4042009 +name: interlaminar astrocyte +def: "An astrocyte type that presents radial protrusions across the layers of a cortex. The soma of this astrocyte is part of the first layer of a neocortex. This astrocyte extents its protrusions transversally to the deeper layers of a cortex and it creates contact with neurons, the pia matter and capillaries. This astrocyte is involved in facilitating the communication across neurons, astrocytes, capillaries, meninges and the cerebrospinal fluid." [PMID:19279265, PMID:30552685, PMID:31435019, PMID:32930323, PMID:34616062, PMID:37824655] +synonym: "ILA" RELATED OMO:0003000 [PMID:30552685] +is_a: CL:0000029 ! neural crest derived neuron +is_a: CL:0002605 ! astrocyte of the cerebral cortex +is_a: CL:0010012 ! cerebral cortex neuron +relationship: part_of UBERON:0001950 ! neocortex +relationship: RO:0002100 UBERON:0001950 ! has soma location neocortex +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-0098-8958 +property_value: http://purl.org/dc/terms/date "2024-04-08T16:33:45Z" xsd:dateTime + +[Term] +id: CL:4042010 +name: pial interlaminar astrocyte +def: "An interlaminar astrocyte whose soma is part of the first layer of a neocortex and is in contact with a pia surface." [PMID:32930323, PMID:37139179] +is_a: CL:4042009 ! interlaminar astrocyte +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-0098-8958 +property_value: http://purl.org/dc/terms/date "2024-04-08T16:37:57Z" xsd:dateTime + +[Term] +id: CL:4042011 +name: subpial interlaminar astrocyte +def: "An interlaminar astrocyte type whose soma is part of the upper first layer of the neocortex and its processes extend to a pia surface." [PMID:32930323, PMID:37139179] +is_a: CL:4042009 ! interlaminar astrocyte +relationship: RO:0002170 UBERON:0002361 ! connected to pia mater +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-0098-8958 +property_value: http://purl.org/dc/terms/date "2024-04-08T16:39:09Z" xsd:dateTime + [Term] id: CP:0000000 name: obsolete CP:0000000 @@ -36792,22 +37404,6 @@ comment: ID was moved to the CL namespace. Use CL:0017508. is_obsolete: true replaced_by: CL:0017508 -[Term] -id: GO:0000003 -name: reproduction -namespace: biological_process -alt_id: GO:0019952 -alt_id: GO:0050876 -def: "The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms." [GOC:go_curators, GOC:isa_complete, GOC:jl, ISBN:0198506732] -subset: goslim_agr -subset: goslim_chembl -subset: goslim_flybase_ribbon -subset: goslim_pir -subset: goslim_plant -synonym: "reproductive physiological process" EXACT [] -xref: Wikipedia:Reproduction -is_a: GO:0008150 ! biological_process - [Term] id: GO:0000011 name: vacuole inheritance @@ -36845,6 +37441,32 @@ intersection_of: GO:0098813 ! nuclear chromosome segregation intersection_of: part_of GO:0140014 ! mitotic nuclear division relationship: part_of GO:0140014 ! mitotic nuclear division +[Term] +id: GO:0000122 +name: negative regulation of transcription by RNA polymerase II +namespace: biological_process +alt_id: GO:0010553 +alt_id: GO:0045816 +def: "Any process that stops, prevents, or reduces the frequency, rate or extent of transcription mediated by RNA polymerase II." [GOC:go_curators, GOC:txnOH] +synonym: "down regulation of global transcription from RNA polymerase II promoter" RELATED [] +synonym: "down regulation of transcription from RNA polymerase II promoter" EXACT [] +synonym: "down-regulation of global transcription from RNA polymerase II promoter" RELATED [] +synonym: "down-regulation of transcription from RNA polymerase II promoter" EXACT [] +synonym: "downregulation of global transcription from RNA polymerase II promoter" RELATED [] +synonym: "downregulation of transcription from RNA polymerase II promoter" EXACT [] +synonym: "inhibition of global transcription from RNA polymerase II promoter" RELATED [] +synonym: "inhibition of transcription from RNA polymerase II promoter" EXACT [] +synonym: "negative regulation of gene-specific transcription from RNA polymerase II promoter" RELATED [] +synonym: "negative regulation of global transcription from Pol II promoter" RELATED [] +synonym: "negative regulation of transcription from Pol II promoter" EXACT [] +synonym: "negative regulation of transcription from RNA polymerase II promoter" EXACT [] +synonym: "negative regulation of transcription from RNA polymerase II promoter, global" RELATED [] +is_a: GO:0006357 ! regulation of transcription by RNA polymerase II +is_a: GO:0045892 ! negative regulation of DNA-templated transcription +intersection_of: GO:0065007 ! biological regulation +intersection_of: negatively_regulates GO:0006366 ! transcription by RNA polymerase II +relationship: negatively_regulates GO:0006366 ! transcription by RNA polymerase II + [Term] id: GO:0000139 name: Golgi membrane @@ -36931,6 +37553,7 @@ subset: goslim_generic subset: goslim_yeast synonym: "mitosis" RELATED [] xref: Wikipedia:Mitosis +is_a: BFO:0000003 is_a: GO:0007049 ! cell cycle intersection_of: GO:0007049 ! cell cycle intersection_of: has_part GO:0140014 ! mitotic nuclear division @@ -36955,6 +37578,7 @@ id: GO:0000303 name: response to superoxide namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a superoxide stimulus. Superoxide is the anion, oxygen-, formed by addition of one electron to dioxygen (O2) or any compound containing the superoxide anion." [GOC:krc, ISBN:0198506732] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:18421 @@ -37037,6 +37661,7 @@ synonym: "chromosome scaffold" RELATED [] synonym: "cytoplasmic chromatin" NARROW [] synonym: "nuclear chromatin" NARROW [] xref: NIF_Subcellular:sao1615953555 +is_a: BFO:0000004 is_a: GO:0032993 ! protein-DNA complex relationship: part_of GO:0005694 ! chromosome @@ -37100,23 +37725,259 @@ subset: goslim_chembl subset: goslim_drosophila subset: goslim_yeast synonym: "cellular morphogenesis" EXACT [] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of CL:0000000 ! cell relationship: results_in_morphogenesis_of CL:0000000 ! cell +[Term] +id: GO:0000976 +name: transcription cis-regulatory region binding +namespace: molecular_function +alt_id: GO:0000975 +alt_id: GO:0000984 +alt_id: GO:0001017 +alt_id: GO:0044212 +def: "Binding to a specific sequence of DNA that is part of a regulatory region that controls transcription of that section of the DNA. The transcribed region might be described as a gene, cistron, or operon." [GOC:txnOH] +comment: Note that this term is meant to also capture non-specific binding to regulatory regions. Also, to minimize ambiguity in the use of the word "promoter" in GO, we have chosen the phrase "transcription regulatory region" to refer to all of the regulatory regions. Regulatory regions in the DNA which control initiation may include the "core promoter" where the basal transcription machinery binds, the "core promoter proximal region" where regulatory factors other than the basal machinery bind. There are also additional regulatory regions, in both the DNA and the RNA transcript, which regulate elongation or termination of transcription. +synonym: "bacterial-type RNA polymerase regulatory region DNA binding" NARROW [] +synonym: "bacterial-type RNA polymerase transcription regulatory region sequence-specific DNA binding" NARROW [] +synonym: "eubacterial-type RNA polymerase regulatory region DNA binding" NARROW [] +synonym: "eubacterial-type RNA polymerase regulatory region sequence-specific DNA binding" NARROW [] +synonym: "regulatory region DNA binding" BROAD [] +synonym: "transcription regulatory region DNA binding" RELATED [] +synonym: "transcription regulatory region sequence-specific DNA binding" EXACT [] +is_a: GO:0001067 ! transcription regulatory region nucleic acid binding +is_a: GO:1990837 ! sequence-specific double-stranded DNA binding +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19312" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20791" xsd:anyURI +created_by: krc +creation_date: 2010-08-10T02:58:18Z + +[Term] +id: GO:0000977 +name: RNA polymerase II transcription regulatory region sequence-specific DNA binding +namespace: molecular_function +alt_id: GO:0001012 +def: "Binding to a specific sequence of DNA that is part of a regulatory region that controls the transcription of a gene or cistron by RNA polymerase II." [GOC:txnOH] +comment: To minimize ambiguity in the use of the word "promoter" in GO, we have chosen the phrase "transcription regulatory region" to refer to all of the regulatory regions. Regulatory regions in the DNA which control initiation may include the "core promoter" where the basal transcription machinery binds, the "core promoter proximal region" where regulatory factors other than the basal machinery bind. There are also additional regulatory regions, in both the DNA and the RNA transcript, which regulate elongation or termination of transcription. +synonym: "RNA polymerase II regulatory region DNA binding" RELATED [] +is_a: GO:0000976 ! transcription cis-regulatory region binding +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19312" xsd:anyURI +created_by: krc +creation_date: 2010-08-10T11:05:36Z + +[Term] +id: GO:0000981 +name: DNA-binding transcription factor activity, RNA polymerase II-specific +namespace: molecular_function +alt_id: GO:0000982 +alt_id: GO:0001133 +alt_id: GO:0001200 +alt_id: GO:0001201 +alt_id: GO:0001202 +alt_id: GO:0001203 +alt_id: GO:0003705 +def: "A DNA-binding transcription factor activity that modulates the transcription of specific gene sets transcribed by RNA polymerase II." [GOC:txnOH-2018] +comment: For usage guidance, see comment in GO:0003700 ; DNA-binding transcription factor activity. +synonym: "copper ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity" NARROW [] +synonym: "metal ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity" NARROW [] +synonym: "metal ion regulated sequence-specific DNA binding RNA polymerase II transcription factor activity" NARROW [] +synonym: "RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity" NARROW [] +synonym: "RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity" NARROW [] +synonym: "RNA polymerase II transcription factor activity, copper ion regulated core promoter proximal region sequence-specific binding" NARROW [] +synonym: "RNA polymerase II transcription factor activity, copper ion regulated proximal promoter sequence-specific DNA binding" NARROW [] +synonym: "RNA polymerase II transcription factor activity, metal ion regulated core promoter proximal region sequence-specific binding" NARROW [] +synonym: "RNA polymerase II transcription factor activity, metal ion regulated proximal promoter sequence-specific DNA binding" NARROW [] +synonym: "RNA polymerase II transcription factor activity, metal ion regulated sequence-specific DNA binding" NARROW [] +synonym: "RNA polymerase II transcription factor activity, sequence-specific DNA binding" EXACT [] +synonym: "RNA polymerase II transcription factor activity, sequence-specific transcription regulatory region DNA binding" EXACT [] +synonym: "RNA polymerase II transcription factor activity, zinc ion regulated core promoter proximal region sequence-specific DNA binding" NARROW [] +synonym: "RNA polymerase II transcription factor activity, zinc ion regulated proximal promoter sequence-specific DNA binding" NARROW [] +synonym: "sequence-specific distal enhancer binding RNA polymerase II transcription factor activity" NARROW [] +synonym: "sequence-specific DNA binding RNA polymerase II transcription factor activity" EXACT [] +synonym: "sequence-specific transcription regulatory region DNA binding RNA polymerase II transcription factor recruiting transcription factor activity" RELATED [] +synonym: "transcription factor" BROAD [GOC:vw] +synonym: "transcription factor activity, RNA polymerase II core promoter proximal region sequence-specific binding" NARROW [] +synonym: "transcription factor activity, RNA polymerase II distal enhancer sequence-specific binding" NARROW [] +synonym: "transcription factor activity, RNA polymerase II proximal promoter sequence-specific DNA binding" NARROW [] +synonym: "zinc ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity" NARROW [] +is_a: GO:0003700 ! DNA-binding transcription factor activity +intersection_of: GO:0140110 ! transcription regulator activity +intersection_of: has_part GO:0000977 ! RNA polymerase II transcription regulatory region sequence-specific DNA binding +intersection_of: part_of GO:0006357 ! regulation of transcription by RNA polymerase II +relationship: has_part GO:0000977 ! RNA polymerase II transcription regulatory region sequence-specific DNA binding +relationship: occurs_in GO:0000785 ! chromatin +relationship: part_of GO:0006357 ! regulation of transcription by RNA polymerase II +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/15530" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/16131" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/16152" xsd:anyURI +created_by: krc +creation_date: 2010-08-10T02:37:21Z + +[Term] +id: GO:0001067 +name: transcription regulatory region nucleic acid binding +namespace: molecular_function +def: "Binding to a nucleic acid region that regulates a nucleic acid-based process. Such processes include transcription, DNA replication, and DNA repair." [GOC:txnOH] +synonym: "regulatory region nucleic acid binding" RELATED [] +is_a: GO:0003676 ! nucleic acid binding +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20791" xsd:anyURI +created_by: krc +creation_date: 2010-10-21T04:08:56Z + [Term] id: GO:0001101 name: response to acid chemical namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus by the chemical structure of the anion portion of a dissociated acid (rather than the acid acting as a proton donor). The acid chemical may be in gaseous, liquid or solid form." [GOC:go_curators, GOC:rn] comment: This term should be used to describe a response to a specific acid as a chemical. E.g., if an organism were responding to glutamate, then the response would be glutamate-specific; the organism is actually responding to the chemical structure of the anion portion of the dissociated acid. Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. If annotating experiments where an acid is playing a role as a proton donor, please annotate to GO:0010447 'response to acidic pH' instead. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "response to acid" BROAD [] synonym: "response to acid anion" RELATED [] synonym: "response to oxoanion" RELATED [] is_a: GO:0042221 ! response to chemical +[Term] +id: GO:0001216 +name: DNA-binding transcription activator activity +namespace: molecular_function +alt_id: GO:0001140 +alt_id: GO:0001215 +def: "A DNA-binding transcription factor activity that activates or increases transcription of specific gene sets." [GOC:txnOH-2018] +comment: For usage guidance, see comment in GO:0003700 ; DNA-binding transcription factor activity. +synonym: "bacterial-type RNA polymerase core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription" RELATED [] +synonym: "bacterial-type RNA polymerase transcriptional activator activity, metal ion regulated sequence-specific DNA binding" NARROW [] +synonym: "bacterial-type RNA polymerase transcriptional activator activity, sequence-specific DNA binding" NARROW [] +synonym: "metal ion regulated sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity involved in positive regulation of transcription" NARROW [] +synonym: "sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity involved in positive regulation of transcription" NARROW [] +synonym: "transcriptional activator activity, bacterial-type RNA polymerase core promoter proximal region sequence-specific binding" NARROW [] +synonym: "transcriptional activator activity, bacterial-type RNA polymerase proximal promoter sequence-specific DNA binding" RELATED [] +is_a: GO:0003700 ! DNA-binding transcription factor activity +intersection_of: GO:0140110 ! transcription regulator activity +intersection_of: has_part GO:0000976 ! transcription cis-regulatory region binding +intersection_of: part_of GO:0045893 ! positive regulation of DNA-templated transcription +relationship: part_of GO:0045893 ! positive regulation of DNA-templated transcription +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/16534" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/16736" xsd:anyURI +created_by: krc +creation_date: 2011-01-26T03:09:27Z + +[Term] +id: GO:0001217 +name: DNA-binding transcription repressor activity +namespace: molecular_function +alt_id: GO:0001141 +alt_id: GO:0001218 +alt_id: GO:0001219 +alt_id: GO:0001220 +def: "A DNA-binding transcription factor activity that represses or decreases the transcription of specific gene sets." [GOC:txnOH-2018] +comment: For usage guidance, see comment in GO:0003700 ; DNA-binding transcription factor activity. +synonym: "bacterial-type DNA binding transcription repressor activity" NARROW [] +synonym: "bacterial-type RNA polymerase core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription" NARROW [] +synonym: "bacterial-type RNA polymerase transcriptional repressor activity, cadmium ion regulated sequence-specific DNA binding" NARROW [] +synonym: "bacterial-type RNA polymerase transcriptional repressor activity, copper ion regulated sequence-specific DNA binding" NARROW [] +synonym: "bacterial-type RNA polymerase transcriptional repressor activity, metal ion regulated sequence-specific DNA binding" NARROW [] +synonym: "bacterial-type RNA polymerase transcriptional repressor activity, sequence-specific DNA binding" NARROW [] +synonym: "cadmium ion regulated sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity involved in negative regulation of transcription" NARROW [] +synonym: "copper ion regulated sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity involved in negative regulation of transcription" NARROW [] +synonym: "metal ion regulated sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity involved in negative regulation of transcription" NARROW [] +synonym: "sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity involved in negative regulation of transcription" NARROW [] +synonym: "transcriptional repressor activity, bacterial-type RNA polymerase core promoter proximal region sequence-specific binding" NARROW [] +synonym: "transcriptional repressor activity, bacterial-type RNA polymerase proximal promoter sequence-specific DNA binding" NARROW [] +is_a: GO:0003700 ! DNA-binding transcription factor activity +intersection_of: GO:0140110 ! transcription regulator activity +intersection_of: has_part GO:0000976 ! transcription cis-regulatory region binding +intersection_of: part_of GO:0045892 ! negative regulation of DNA-templated transcription +relationship: part_of GO:0045892 ! negative regulation of DNA-templated transcription +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/16736" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20253" xsd:anyURI +created_by: krc +creation_date: 2011-01-26T03:15:45Z + +[Term] +id: GO:0001227 +name: DNA-binding transcription repressor activity, RNA polymerase II-specific +namespace: molecular_function +alt_id: GO:0001078 +alt_id: GO:0001206 +alt_id: GO:0001210 +alt_id: GO:0001214 +def: "A DNA-binding transcription factor activity that represses or decreases the transcription of specific gene sets transcribed by RNA polymerase II." [GOC:txnOH-2018] +comment: For usage guidance, see comment in GO:0003700 ; DNA-binding transcription factor activity. +synonym: "distal enhancer DNA-binding transcription repressor activity, RNA polymerase II-specific" NARROW [] +synonym: "metal ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity involved in negative regulation of transcription" NARROW [] +synonym: "metal ion regulated sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription" NARROW [] +synonym: "proximal promoter DNA-binding transcription repressor activity, RNA polymerase II-specific" NARROW [] +synonym: "RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription" NARROW [] +synonym: "RNA polymerase II distal enhancer sequence-specific DNA-binding transcription factor activity involved in negative regulation of transcription" NARROW [] +synonym: "RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription" EXACT [] +synonym: "RNA polymerase II transcriptional repressor activity, metal ion regulated core promoter proximal region sequence-specific binding" NARROW [] +synonym: "RNA polymerase II transcriptional repressor activity, metal ion regulated proximal promoter sequence-specific DNA binding" NARROW [] +synonym: "sequence-specific distal enhancer binding RNA polymerase II transcription factor activity involved in negative regulation of transcription" NARROW [] +synonym: "transcriptional repressor activity, metal ion regulated sequence-specific DNA binding" NARROW [] +synonym: "transcriptional repressor activity, RNA polymerase II distal enhancer sequence-specific binding" NARROW [] +synonym: "transcriptional repressor activity, RNA polymerase II proximal promoter sequence-specific DNA binding" NARROW [] +synonym: "transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific DNA binding" EXACT [] +is_a: GO:0000981 ! DNA-binding transcription factor activity, RNA polymerase II-specific +is_a: GO:0001217 ! DNA-binding transcription repressor activity +intersection_of: GO:0140110 ! transcription regulator activity +intersection_of: has_part GO:0000977 ! RNA polymerase II transcription regulatory region sequence-specific DNA binding +intersection_of: part_of GO:0000122 ! negative regulation of transcription by RNA polymerase II +relationship: part_of GO:0000122 ! negative regulation of transcription by RNA polymerase II +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/16131" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/16152" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/16534" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20253" xsd:anyURI +created_by: krc +creation_date: 2010-10-26T03:56:48Z + +[Term] +id: GO:0001228 +name: DNA-binding transcription activator activity, RNA polymerase II-specific +namespace: molecular_function +alt_id: GO:0001077 +alt_id: GO:0001205 +alt_id: GO:0001209 +alt_id: GO:0001211 +alt_id: GO:0001212 +alt_id: GO:0001213 +def: "A DNA-binding transcription factor activity that activates or increases transcription of specific gene sets transcribed by RNA polymerase II." [GOC:aruk, GOC:txnOH-2018, PMID:20737563, PMID:27145859] +comment: For usage guidance, see comment in GO:0003700 ; DNA-binding transcription factor activity. +synonym: "copper ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity involved in positive regulation of transcription" NARROW [] +synonym: "distal enhancer DNA-binding transcription activator activity, RNA polymerase II-specific" NARROW [] +synonym: "metal ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity involved in positive regulation of transcription" NARROW [] +synonym: "metal ion regulated sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription" NARROW [] +synonym: "proximal promoter DNA-binding transcription activator activity, RNA polymerase II-specific" NARROW [] +synonym: "RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription" NARROW [] +synonym: "RNA polymerase II distal enhancer sequence-specific DNA-binding transcription factor activity involved in positive regulation of transcription" NARROW [] +synonym: "RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription" EXACT [] +synonym: "RNA polymerase II transcriptional activator activity, copper ion regulated proximal promoter sequence-specific DNA binding" NARROW [] +synonym: "RNA polymerase II transcriptional activator activity, metal ion regulated core promoter proximal region sequence-specific binding" NARROW [] +synonym: "RNA polymerase II transcriptional activator activity, metal ion regulated proximal promoter sequence-specific DNA binding" NARROW [] +synonym: "RNA polymerase II transcriptional activator activity, zinc ion regulated core promoter proximal region sequence-specific binding" NARROW [] +synonym: "RNA polymerase II transcriptional activator activity, zinc ion regulated proximal promoter sequence-specific DNA binding" NARROW [] +synonym: "sequence-specific distal enhancer binding RNA polymerase II transcription factor activity involved in positive regulation of transcription" NARROW [] +synonym: "transcriptional activator activity, metal ion regulated sequence-specific DNA binding" NARROW [] +synonym: "transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding" NARROW [] +synonym: "transcriptional activator activity, RNA polymerase II distal enhancer sequence-specific DNA binding" NARROW [] +synonym: "transcriptional activator activity, RNA polymerase II proximal promoter sequence-specific DNA binding" NARROW [] +synonym: "transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific DNA binding" EXACT [] +synonym: "zinc ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity involved in positive regulation of transcription" NARROW [] +is_a: GO:0000981 ! DNA-binding transcription factor activity, RNA polymerase II-specific +is_a: GO:0001216 ! DNA-binding transcription activator activity +intersection_of: GO:0140110 ! transcription regulator activity +intersection_of: has_part GO:0000977 ! RNA polymerase II transcription regulatory region sequence-specific DNA binding +intersection_of: part_of GO:0045944 ! positive regulation of transcription by RNA polymerase II +relationship: part_of GO:0045944 ! positive regulation of transcription by RNA polymerase II +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/16131" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/16152" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/16534" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20253" xsd:anyURI +created_by: krc +creation_date: 2012-01-26T03:10:20Z + [Term] id: GO:0001501 name: skeletal system development @@ -37138,6 +37999,7 @@ synonym: "bone biosynthesis" EXACT [] synonym: "bone formation" EXACT [] synonym: "osteogenesis" EXACT [] xref: Wikipedia:Ossification +is_a: BFO:0000003 is_a: GO:0032501 ! multicellular organismal process intersection_of: GO:0032501 ! multicellular organismal process intersection_of: results_in_formation_of UBERON:0001474 ! bone element @@ -37171,6 +38033,7 @@ namespace: biological_process def: "Blood vessel formation when new vessels emerge from the proliferation of pre-existing blood vessels." [ISBN:0878932453] synonym: "blood vessel formation from pre-existing blood vessels" EXACT systematic_synonym [] xref: Wikipedia:Angiogenesis +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0001981 ! blood vessel @@ -37183,7 +38046,7 @@ name: cilium or flagellum-dependent cell motility namespace: biological_process def: "Cell motility due to movement of eukaryotic cilia or bacterial-type flagella or archaeal-type flagella." [GOC:cilia, GOC:hjd, GOC:krc] comment: Note that we deem eukaryotic cilia and microtubule-based flagella to be equivalent, while the bacterial- and archaeal-type flagella have a different structure. The former are microtubule-based structures that lash back and forth and are present only in eukaryotes, while the latter achieve motility by rotation. Bacterial- and archaeal-type flagella are superficially similar but have a different molecular composition and fine structure. These three structures never co-exist in the same organism. Therefore, GO:0001539 'cilium or flagellum-dependent cell motility' is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term. Direct annotations to GO:0001539 'cilium or flagellum-dependent cell motility' may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "ciliary or bacterial-type flagellar motility" RELATED [] synonym: "ciliary/flagellar motility" EXACT [] is_a: GO:0048870 ! cell motility @@ -37194,7 +38057,6 @@ name: ovarian follicle development namespace: biological_process def: "The process whose specific outcome is the progression of the ovarian follicle over time, from its formation to the mature structure." [https://www.ncbi.nlm.nih.gov/books/NBK279054/] synonym: "follicular phase" RELATED [] -is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001305 ! ovarian follicle @@ -37206,6 +38068,7 @@ id: GO:0001545 name: primary ovarian follicle growth namespace: biological_process def: "Increase in size of primary follicles including oocyte growth and granulosa and/or theca cell proliferation until more than one layer of granulosa cells is present (preantral follicle)." [GOC:mtg_mpo, https://www.ncbi.nlm.nih.gov/books/NBK279054/] +is_a: BFO:0000003 is_a: GO:0022602 ! ovulation cycle process is_a: GO:0048589 ! developmental growth intersection_of: GO:0040007 ! growth @@ -37218,6 +38081,7 @@ id: GO:0001546 name: preantral ovarian follicle growth namespace: biological_process def: "Increase in size of follicles surrounded by two or more layers of granulosa cells up to the onset of antrum formation." [https://www.ncbi.nlm.nih.gov/books/NBK279054/] +is_a: BFO:0000003 is_a: GO:0022602 ! ovulation cycle process is_a: GO:0048589 ! developmental growth intersection_of: GO:0040007 ! growth @@ -37231,6 +38095,7 @@ id: GO:0001547 name: antral ovarian follicle growth namespace: biological_process def: "Increase in size of antral follicles due to cell proliferation and/or growth of the antral cavity." [https://www.ncbi.nlm.nih.gov/books/NBK279054/] +is_a: BFO:0000003 is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0022602 ! ovulation cycle process is_a: GO:0048589 ! developmental growth @@ -37246,7 +38111,6 @@ namespace: biological_process def: "The process in which a subpopulation of granulosa cells surrounding the oocyte acquires the specialized features of an ovarian cumulus cell." [PMID:30010832] synonym: "ovarian cumulus cell differentiation" EXACT [] is_a: GO:0003006 ! developmental process involved in reproduction -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0030855 ! epithelial cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000711 ! cumulus cell @@ -37271,7 +38135,6 @@ name: oocyte growth namespace: biological_process def: "The developmental growth process in which an oocyte irreversibly increases in size over time by accretion and biosynthetic production of matter similar to that already present." [https://www.ncbi.nlm.nih.gov/books/NBK279054/] is_a: GO:0003006 ! developmental process involved in reproduction -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0048588 ! developmental cell growth intersection_of: GO:0040007 ! growth intersection_of: results_in_growth_of CL:0000023 ! oocyte @@ -37287,7 +38150,6 @@ namespace: biological_process def: "A developmental process, independent of morphogenetic (shape) change, that is required for an oocyte to attain its fully functional state. Oocyte maturation commences after reinitiation of meiosis commonly starting with germinal vesicle breakdown, and continues up to the second meiotic arrest prior to fertilization." [GOC:devbiol, https://www.ncbi.nlm.nih.gov/books/NBK279054/] xref: Wikipedia:Oocyte_maturation is_a: GO:0003006 ! developmental process involved in reproduction -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0048469 ! cell maturation intersection_of: GO:0021700 ! developmental maturation intersection_of: results_in_maturation_of CL:0000023 ! oocyte @@ -37307,6 +38169,25 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0016049 ! cell growth relationship: regulates GO:0016049 ! cell growth +[Term] +id: GO:0001560 +name: regulation of cell growth by extracellular stimulus +namespace: biological_process +def: "Any process in which external signals modulate the frequency, rate or extent of cell growth, the irreversible increase in size of a cell over time." [GOC:dph] +synonym: "interpretation of external signals that regulate cell growth" EXACT [] +synonym: "regulation of cell growth by detection of exogenous stimulus" EXACT [] +synonym: "regulation of cell growth by sensing of exogenous stimulus" EXACT [] +synonym: "regulation of growth by exogenous signal" EXACT [] +synonym: "regulation of growth by exogenous stimuli" EXACT [] +synonym: "regulation of growth by exogenous stimulus" EXACT [] +synonym: "regulation of growth by external signal" EXACT [] +synonym: "regulation of growth by external stimuli" EXACT [] +synonym: "regulation of growth by external stimulus" EXACT [] +is_a: GO:0001558 ! regulation of cell growth +intersection_of: GO:0001558 ! regulation of cell growth +intersection_of: part_of GO:0051716 ! cellular response to stimulus +relationship: part_of GO:0051716 ! cellular response to stimulus + [Term] id: GO:0001568 name: blood vessel development @@ -37388,11 +38269,12 @@ namespace: molecular_function def: "Combining with an extracellular or intracellular peptide to initiate a change in cell activity." [GOC:jl] synonym: "endogenous peptide receptor activity" NARROW [] synonym: "exogenous peptide receptor activity" NARROW [] +is_a: BFO:0000003 is_a: GO:0038023 ! signaling receptor activity intersection_of: GO:0038023 ! signaling receptor activity -intersection_of: has_primary_input CHEBI:16670 +intersection_of: has_primary_input CHEBI:60466 relationship: has_part GO:0042277 ! peptide binding -relationship: has_primary_input CHEBI:16670 +relationship: has_primary_input CHEBI:60466 [Term] id: GO:0001654 @@ -37569,8 +38451,8 @@ synonym: "cell glucose homeostasis" EXACT [GOC:dph, GOC:tb] synonym: "cellular glucose homeostasis" EXACT [] is_a: GO:0019725 ! cellular homeostasis intersection_of: GO:0019725 ! cellular homeostasis -intersection_of: regulates_levels_of CHEBI:17234 -relationship: regulates_levels_of CHEBI:17234 +intersection_of: regulates_levels_of CHEBI:4167 +relationship: regulates_levels_of CHEBI:4167 [Term] id: GO:0001692 @@ -37669,6 +38551,7 @@ id: GO:0001704 name: formation of primary germ layer namespace: biological_process def: "The formation of the ectoderm, mesoderm and endoderm during gastrulation." [GOC:go_curators] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0000923 ! germ layer @@ -37786,6 +38669,7 @@ namespace: biological_process def: "The formation of mesodermal clusters that are arranged segmentally along the anterior posterior axis of an embryo." [ISBN:0721662544] synonym: "formation of mesodermal clusters" EXACT systematic_synonym [] xref: Wikipedia:Somitogenesis +is_a: BFO:0000003 is_a: GO:0009952 ! anterior/posterior pattern specification is_a: GO:0035282 ! segmentation is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis @@ -37814,6 +38698,7 @@ synonym: "neuron guidance" RELATED [] synonym: "neuronal migration" EXACT [] xref: Wikipedia:Neural_development#Neuron_migration xref: Wikipedia:Neuron_migration +is_a: BFO:0000003 is_a: GO:0016477 ! cell migration intersection_of: GO:0016477 ! cell migration intersection_of: results_in_movement_of CL:0000540 ! neuron @@ -37826,6 +38711,7 @@ name: establishment of lymphocyte polarity namespace: biological_process def: "The directed orientation of lymphocyte signaling molecules and associated membrane rafts towards a chemokine gradient or a contact point with an appropriate activating cell." [GOC:mgi_curators, PMID:11244041, PMID:12615889] synonym: "lymphocyte polarization" EXACT [] +is_a: BFO:0000003 is_a: GO:0030010 ! establishment of cell polarity intersection_of: GO:0030010 ! establishment of cell polarity intersection_of: occurs_in CL:0000542 ! lymphocyte @@ -37923,6 +38809,7 @@ def: "The process of regulating the proliferation and elimination of cells of th comment: Note that this term represents the return of immune system cell levels to stable numbers following an immune response as well as the proliferation and elimination of cells of the immune system required to maintain stable numbers in the absence of an outside stimulus. synonym: "immune cell homeostasis" EXACT [] synonym: "leucocyte homeostasis" EXACT [] +is_a: BFO:0000003 is_a: GO:0002376 ! immune system process is_a: GO:0048872 ! homeostasis of number of cells intersection_of: GO:0048872 ! homeostasis of number of cells @@ -38088,6 +38975,8 @@ is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001816 ! cytokine production relationship: regulates GO:0001816 ! cytokine production +property_value: RO:0002161 NCBITaxon:4896 +property_value: RO:0002161 NCBITaxon:4932 [Term] id: GO:0001818 @@ -38205,6 +39094,7 @@ name: blastocyst formation namespace: biological_process def: "The initial formation of a blastocyst from a solid ball of cells known as a morula." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology term 'TS3, compacted morula ; EMAP:9'. +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0000358 ! blastocyst @@ -38256,6 +39146,7 @@ name: blastocyst growth namespace: biological_process def: "An increase in size of a blastocyst due to expansion of the blastocoelic cavity cell shape changes and cell proliferation." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, blastocoelic cavity ; EMAP:17', 'TS5, blastocoelic cavity ; EMAP:27' and 'TS6, blastocoelic cavity ; EMAP:36'. +is_a: BFO:0000003 is_a: GO:0048589 ! developmental growth intersection_of: GO:0040007 ! growth intersection_of: results_in_growth_of UBERON:0000358 ! blastocyst @@ -38268,6 +39159,7 @@ name: inner cell mass cell proliferation namespace: biological_process def: "The proliferation of cells in the inner cell mass." [GOC:dph, GOC:isa_complete, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, inner cell mass ; EMAP:14' and 'TS5, inner cell mass ; EMAP:24'. +is_a: BFO:0000003 is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:2000020 ! inner cell mass cell @@ -38281,6 +39173,7 @@ namespace: biological_process def: "The proliferation of cells in the trophectoderm." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, trophectoderm ; EMAP:19', 'TS5, trophectoderm ; EMAP:28' and 'TS6, trophectoderm ; EMAP:39'. synonym: "trophectoderm cell proliferation" EXACT [] +is_a: BFO:0000003 is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:1000274 ! trophectodermal cell @@ -38404,6 +39297,7 @@ name: polysaccharide immune receptor activity namespace: molecular_function def: "Combining with a polysaccharide and transmitting the signal to initiate an innate immune response. A polysaccharide is a polymer of many (typically more than 10) monosaccharide residues linked glycosidically." [PMID:14707091] synonym: "polysaccharide receptor activity" BROAD [] +is_a: BFO:0000003 is_a: GO:0038187 ! pattern recognition receptor activity intersection_of: GO:0038023 ! signaling receptor activity intersection_of: has_primary_input CHEBI:18154 @@ -38797,6 +39691,7 @@ id: GO:0001934 name: positive regulation of protein phosphorylation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of addition of phosphate groups to amino acids within a protein." [GOC:hjd] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. synonym: "activation of protein amino acid phosphorylation" NARROW [] synonym: "positive regulation of protein amino acid phosphorylation" EXACT [GOC:bf] synonym: "stimulation of protein amino acid phosphorylation" NARROW [] @@ -38809,6 +39704,7 @@ is_a: GO:0042327 ! positive regulation of phosphorylation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006468 ! protein phosphorylation relationship: positively_regulates GO:0006468 ! protein phosphorylation +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0001935 @@ -38924,6 +39820,7 @@ namespace: biological_process def: "Lymph vessel formation when new vessels emerge from the proliferation of pre-existing vessels." [GOC:dph, PMID:11596157] synonym: "lymph vessel formation" EXACT systematic_synonym [] xref: Wikipedia:Lymphangiogenesis +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis @@ -39474,6 +40371,7 @@ namespace: biological_process def: "The process in which the anatomical structures of the lens are generated and organized. The lens is a transparent structure in the eye through which light is focused onto the retina. An example of this process is found in Mus musculus." [GOC:dph, GOC:mtg_sensu] synonym: "lens morphogenesis" EXACT [] synonym: "lens morphogenesis in camera-style eye" EXACT [] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000965 ! lens of camera-type eye @@ -39626,6 +40524,7 @@ namespace: biological_process alt_id: GO:0002214 def: "A response to protect an organism from a directly detected or perceived external threat from an insect or insects to that organism." [GOC:add] synonym: "physiological defense response to insect" EXACT [] +is_a: BFO:0000003 is_a: GO:0006952 ! defense response intersection_of: GO:0006952 ! defense response intersection_of: has_primary_input NCBITaxon:50557 ! Insecta @@ -39638,6 +40537,7 @@ namespace: biological_process alt_id: GO:0002216 def: "A response to protect an organism from a directly detected or perceived external threat from a nematode or nematodes, which results in restriction of damage to the organism attacked or prevention/recovery from the infection caused by the attack." [GOC:add, PMID:11516579, PMID:14506883] synonym: "physiological defense response to nematode" EXACT [] +is_a: BFO:0000003 is_a: GO:0006952 ! defense response intersection_of: GO:0006952 ! defense response intersection_of: has_primary_input NCBITaxon:6231 ! Nematoda @@ -39666,6 +40566,7 @@ id: GO:0002227 name: innate immune response in mucosa namespace: biological_process def: "Any process of the innate immune response that takes place in the mucosal tissues." [GOC:add, PMID:10719665, PMID:15971105] +is_a: BFO:0000003 is_a: GO:0002385 ! mucosal immune response is_a: GO:0045087 ! innate immune response intersection_of: GO:0045087 ! innate immune response @@ -39742,6 +40643,7 @@ id: GO:0002249 name: lymphocyte anergy namespace: biological_process def: "Any process contributing to lymphocyte anergy, a state of functional inactivation." [GOC:add] +is_a: BFO:0000003 is_a: GO:0002507 ! tolerance induction relationship: occurs_in CL:0000542 ! lymphocyte @@ -39788,6 +40690,7 @@ id: GO:0002262 name: myeloid cell homeostasis namespace: biological_process def: "The process of regulating the proliferation and elimination of myeloid cells such that the total number of myeloid cells within a whole or part of an organism is stable over time in the absence of an outside stimulus." [CL:0000763, GOC:add] +is_a: BFO:0000003 is_a: GO:0002376 ! immune system process is_a: GO:0048872 ! homeostasis of number of cells intersection_of: GO:0048872 ! homeostasis of number of cells @@ -39833,6 +40736,7 @@ id: GO:0002266 name: follicular dendritic cell activation namespace: biological_process def: "A change in the morphology or behavior of a follicular dendritic cell resulting from exposure to an activating factor such as a cellular or soluble ligand." [GOC:add, PMID:15606789] +is_a: BFO:0000003 is_a: GO:0001775 ! cell activation intersection_of: GO:0001775 ! cell activation intersection_of: has_primary_input CL:0000442 ! follicular dendritic cell @@ -40684,6 +41588,7 @@ def: "The process dependent upon B cell antigen receptor signaling in response t synonym: "B lymphocyte selection" EXACT [] synonym: "B-cell selection" EXACT [] synonym: "B-lymphocyte selection" EXACT [] +is_a: BFO:0000003 is_a: GO:0002376 ! immune system process relationship: has_participant CL:0000236 ! B cell relationship: part_of GO:0030183 ! B cell differentiation @@ -40938,6 +41843,7 @@ id: GO:0002384 name: hepatic immune response namespace: biological_process def: "An immune response taking place in the liver." [GO_REF:0000022, GOC:jal, ISBN:0781735149] +is_a: BFO:0000003 is_a: GO:0002251 ! organ or tissue specific immune response intersection_of: GO:0006955 ! immune response intersection_of: occurs_in UBERON:0002107 ! liver @@ -40963,6 +41869,7 @@ name: immune response in gut-associated lymphoid tissue namespace: biological_process def: "Immune response taking place in the gut-associated lymphoid tissue (GALT). GALT includes Peyer's patches, appendix, and solitary lymph nodules." [GOC:jal, ISBN:0781735149] synonym: "immune response in GALT" EXACT [] +is_a: BFO:0000003 is_a: GO:0006955 ! immune response intersection_of: GO:0006955 ! immune response intersection_of: occurs_in UBERON:0001962 ! gut-associated lymphoid tissue @@ -41052,6 +41959,7 @@ name: tolerance induction in mucosal-associated lymphoid tissue namespace: biological_process def: "Tolerance induction taking place in the mucosal-associated lymphoid tissue (MALT)." [GOC:jal, ISBN:0781735149] synonym: "tolerance induction in MALT" EXACT [] +is_a: BFO:0000003 is_a: GO:0002427 ! mucosal tolerance induction intersection_of: GO:0002507 ! tolerance induction intersection_of: occurs_in UBERON:0001961 ! mucosa-associated lymphoid tissue @@ -41255,6 +42163,7 @@ def: "The process in which a B cell expresses antigen (peptide or lipid) on its synonym: "B lymphocyte antigen processing and presentation" EXACT [] synonym: "B-cell antigen processing and presentation" EXACT [] synonym: "B-lymphocyte antigen processing and presentation" EXACT [] +is_a: BFO:0000003 is_a: GO:0019882 ! antigen processing and presentation intersection_of: GO:0019882 ! antigen processing and presentation intersection_of: occurs_in CL:0000236 ! B cell @@ -41297,6 +42206,7 @@ def: "The process in which a T cell expresses antigen (peptide or lipid) on its synonym: "T lymphocyte antigen processing and presentation" EXACT [] synonym: "T-cell antigen processing and presentation" EXACT [] synonym: "T-lymphocyte antigen processing and presentation" EXACT [] +is_a: BFO:0000003 is_a: GO:0019882 ! antigen processing and presentation intersection_of: GO:0019882 ! antigen processing and presentation intersection_of: occurs_in CL:0000084 ! T cell @@ -41350,6 +42260,7 @@ id: GO:0002467 name: germinal center formation namespace: biological_process def: "The process in which germinal centers form. A germinal center is a specialized microenvironment formed when activated B cells enter lymphoid follicles. Germinal centers are the foci for B cell proliferation and somatic hypermutation." [GO_REF:0000022, GOC:jal, ISBN:081533642X] +is_a: BFO:0000003 is_a: GO:0002460 ! adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis @@ -41361,6 +42272,7 @@ id: GO:0002468 name: dendritic cell antigen processing and presentation namespace: biological_process def: "The process in which a dendritic cell expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex." [GOC:add, ISBN:0781735149, PMID:15771591] +is_a: BFO:0000003 is_a: GO:0019882 ! antigen processing and presentation intersection_of: GO:0019882 ! antigen processing and presentation intersection_of: occurs_in CL:0000451 ! dendritic cell @@ -41391,6 +42303,7 @@ id: GO:0002471 name: monocyte antigen processing and presentation namespace: biological_process def: "The process in which a monocyte expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex." [GOC:add, PMID:11200054] +is_a: BFO:0000003 is_a: GO:0019882 ! antigen processing and presentation intersection_of: GO:0019882 ! antigen processing and presentation intersection_of: occurs_in CL:0000576 ! monocyte @@ -41401,6 +42314,7 @@ id: GO:0002472 name: macrophage antigen processing and presentation namespace: biological_process def: "The process in which a macrophage expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex." [GOC:add, ISBN:0781735149, PMID:15771591] +is_a: BFO:0000003 is_a: GO:0019882 ! antigen processing and presentation intersection_of: GO:0019882 ! antigen processing and presentation intersection_of: occurs_in CL:0000235 ! macrophage @@ -41477,6 +42391,7 @@ def: "A process involving any mechanism for tolerance induction in B cells." [GO synonym: "B lymphocyte tolerance induction" EXACT [] synonym: "B-cell tolerance induction" EXACT [] synonym: "B-lymphocyte tolerance induction" EXACT [] +is_a: BFO:0000003 is_a: GO:0002507 ! tolerance induction intersection_of: GO:0002507 ! tolerance induction intersection_of: occurs_in CL:0000236 ! B cell @@ -41518,6 +42433,7 @@ def: "A process involving any mechanism for tolerance induction in T cells." [GO synonym: "T lymphocyte tolerance induction" EXACT [] synonym: "T-cell tolerance induction" EXACT [] synonym: "T-lymphocyte tolerance induction" EXACT [] +is_a: BFO:0000003 is_a: GO:0002507 ! tolerance induction intersection_of: GO:0002507 ! tolerance induction intersection_of: occurs_in CL:0000084 ! T cell @@ -41529,6 +42445,7 @@ name: natural killer cell tolerance induction namespace: biological_process def: "Tolerance induction of natural killer cells." [GOC:jal, PMID:16546094] synonym: "NK cell tolerance induction" EXACT [] +is_a: BFO:0000003 is_a: GO:0002507 ! tolerance induction intersection_of: GO:0002507 ! tolerance induction intersection_of: occurs_in CL:0000623 ! natural killer cell @@ -44069,7 +44986,7 @@ def: "The controlled release of a peptide from a cell or a tissue." [GOC:add] is_a: GO:0015833 ! peptide transport is_a: GO:0046903 ! secretion intersection_of: GO:0046903 ! secretion -intersection_of: has_primary_input CHEBI:16670 +intersection_of: has_primary_input CHEBI:60466 [Term] id: GO:0002791 @@ -44326,7 +45243,7 @@ name: regulation of response to biotic stimulus namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of a response to biotic stimulus." [GOC:add] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0048583 ! regulation of response to stimulus intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0009607 ! response to biotic stimulus @@ -44338,7 +45255,7 @@ name: negative regulation of response to biotic stimulus namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of a response to biotic stimulus." [GOC:add] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "down regulation of response to biotic stimulus" EXACT [] synonym: "down-regulation of response to biotic stimulus" EXACT [] synonym: "downregulation of response to biotic stimulus" EXACT [] @@ -44355,7 +45272,7 @@ name: positive regulation of response to biotic stimulus namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of a response to biotic stimulus." [GOC:add] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "activation of response to biotic stimulus" NARROW [] synonym: "stimulation of response to biotic stimulus" NARROW [] synonym: "up regulation of response to biotic stimulus" EXACT [] @@ -44872,8 +45789,8 @@ synonym: "puberty" NARROW [GOC:dph] synonym: "reproductive developmental process" RELATED [GOC:dph, GOC:tb] is_a: GO:0022414 ! reproductive process is_a: GO:0032502 ! developmental process +intersection_of: GO:0022414 ! reproductive process intersection_of: GO:0032502 ! developmental process -intersection_of: part_of GO:0000003 ! reproduction [Term] id: GO:0003007 @@ -45031,6 +45948,7 @@ id: GO:0003094 name: glomerular filtration namespace: biological_process def: "The process in which plasma is filtered through the glomerular membrane which consists of capillary endothelial cells, the basement membrane, and epithelial cells. The glomerular filtrate is the same as plasma except it has no significant amount of protein." [GOC:mtg_cardio, GOC:sart, ISBN:0721643949] +is_a: BFO:0000003 is_a: GO:0097205 ! renal filtration intersection_of: GO:0097205 ! renal filtration intersection_of: occurs_in UBERON:0000074 ! renal glomerulus @@ -45106,6 +46024,7 @@ name: cardiogenic plate morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the cardiogenic plate are generated and organized. The cardiogenic plate is the first recognizable structure derived from the heart field." [GOC:mtg_heart] synonym: "cardiac crescent morphogenesis" EXACT [GOC:mtg_heart] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004139 ! cardiogenic plate @@ -45183,6 +46102,7 @@ id: GO:0003149 name: membranous septum morphogenesis namespace: biological_process def: "The process in which the membranous septum is generated and organized. The membranous septum is the upper part of ventricular septum." [GOC:mtg_heart] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004666 ! interventricular septum membranous part @@ -45209,6 +46129,7 @@ id: GO:0003151 name: outflow tract morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the outflow tract are generated and organized. The outflow tract is the portion of the heart through which blood flows into the arteries." [GOC:mtg_heart, UBERON:0004145] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004145 ! outflow tract @@ -45285,6 +46206,7 @@ id: GO:0003160 name: endocardium morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the endocardium is generated and organized. The endocardium is an anatomical structure comprised of an endothelium and an extracellular matrix that forms the innermost layer of tissue of the heart, and lines the heart chambers." [GOC:mtg_heart] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002165 ! endocardium @@ -45440,6 +46362,7 @@ namespace: biological_process def: "The process in which the structure of a heart valve is generated and organized." [GOC:mtg_heart] synonym: "heart valve remodeling" NARROW [GOC:vk, GOC:yaf] synonym: "heart valve remodelling" NARROW [GOC:vk, GOC:yaf] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000946 ! cardiac valve @@ -45453,6 +46376,7 @@ id: GO:0003188 name: heart valve formation namespace: biological_process def: "The developmental process pertaining to the initial formation of a heart valve from unspecified parts. This process begins with the specific processes that contribute to the appearance of the discrete structure and ends when the structural rudiment is recognizable." [GOC:mtg_heart] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0000946 ! cardiac valve @@ -45521,6 +46445,7 @@ name: cardiac chamber morphogenesis namespace: biological_process def: "The process in which a cardiac chamber is generated and organized. A cardiac chamber is an enclosed cavity within the heart." [GOC:mtg_heart] synonym: "heart chamber morphogenesis" EXACT [GOC:mtg_heart] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004151 ! cardiac chamber @@ -45536,6 +46461,7 @@ name: cardiac chamber formation namespace: biological_process def: "The developmental process pertaining to the initial formation of a cardiac chamber from unspecified parts. A cardiac chamber is an enclosed cavity within the heart." [GOC:mtg_heart] synonym: "heart chamber formation" EXACT [GOC:mtg_heart] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0004151 ! cardiac chamber @@ -45922,6 +46848,7 @@ id: GO:0003248 name: heart capillary growth namespace: biological_process def: "The increase in heart capillaries that accompanies physiological hypertrophy of cardiac muscle." [GOC:mtg_heart] +is_a: BFO:0000003 is_a: GO:0048589 ! developmental growth intersection_of: GO:0048589 ! developmental growth intersection_of: results_in_growth_of UBERON:0006966 ! coronary capillary @@ -46000,6 +46927,7 @@ id: GO:0003260 name: cardioblast migration namespace: biological_process def: "The orderly movement of a cardiac progenitor cell to form the heart field. Cardiac progenitor cells are non-terminally differentiated, mesoderm-derived cells that are committed to differentiate into cells of the heart. A cardioblast is a cardiac precursor cell. It is a cell that has been committed to a cardiac fate, but will undergo more cell division rather than terminally differentiating." [GOC:mtg_heart] +is_a: BFO:0000003 is_a: GO:0060974 ! cell migration involved in heart formation intersection_of: GO:0016477 ! cell migration intersection_of: results_in_movement_of CL:0002664 ! cardioblast @@ -46012,6 +46940,7 @@ id: GO:0003272 name: endocardial cushion formation namespace: biological_process def: "The developmental process pertaining to the initial formation of an endocardial cushion. The endocardial cushion is a specialized region of mesenchymal cells that will give rise to the heart septa and valves." [GOC:mtg_heart, PMID:15797462] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002062 ! endocardial cushion @@ -46273,6 +47202,7 @@ name: heart rudiment formation namespace: biological_process def: "The developmental process pertaining to the initial formation of the heart rudiment." [GOC:mtg_heart] synonym: "heart cone formation" EXACT [GOC:mtg_heart] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0004291 ! heart rudiment @@ -46388,7 +47318,7 @@ synonym: "amino acid membrane transport" EXACT [] is_a: GO:0006865 ! amino acid transport is_a: GO:0055085 ! transmembrane transport intersection_of: GO:0006810 ! transport -intersection_of: has_primary_input CHEBI:33709 +intersection_of: has_primary_input CHEBI:35238 intersection_of: results_in_transport_across GO:0016020 ! membrane created_by: dph creation_date: 2009-11-02T02:36:11Z @@ -46485,6 +47415,7 @@ synonym: "flagellar motility" RELATED [] synonym: "flagellar movement" NARROW [GOC:bf] synonym: "flagellum movement" NARROW [] synonym: "microtubule-based flagellum movement" EXACT [] +is_a: BFO:0000003 is_a: GO:0007018 ! microtubule-based movement intersection_of: GO:0007018 ! microtubule-based movement intersection_of: process_has_causal_agent GO:0005874 ! microtubule @@ -46736,6 +47667,7 @@ id: GO:0003403 name: optic vesicle formation namespace: biological_process def: "The developmental process pertaining to the initial formation of the optic vesicle from the lateral wall of the forebrain. This process begins with the specific processes that contribute to the appearance of the vesicle and ends when the vesicle has evaginated. The optic vesicle is the evagination of neurectoderm that precedes formation of the optic cup." [GOC:ascb_2009, GOC:dph, GOC:tb] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0004128 ! optic vesicle @@ -46987,7 +47919,7 @@ subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "molecular function" EXACT [] -is_a: BFO:0000015 ! process +is_a: BFO:0000015 disjoint_from: GO:0005575 ! cellular_component disjoint_from: GO:0008150 ! biological_process @@ -47002,6 +47934,7 @@ subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant synonym: "base pairing" NARROW [] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:33696 @@ -47017,16 +47950,20 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "microtubule/chromatin interaction" RELATED [] synonym: "plasmid binding" NARROW [] synonym: "structure specific DNA binding" RELATED [] synonym: "structure-specific DNA binding" RELATED [] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:16991 @@ -47050,18 +47987,79 @@ intersection_of: GO:0005488 ! binding intersection_of: has_primary_input GO:0000785 ! chromatin relationship: has_primary_input GO:0000785 ! chromatin +[Term] +id: GO:0003690 +name: double-stranded DNA binding +namespace: molecular_function +def: "Binding to double-stranded DNA." [GOC:elh, GOC:vw] +synonym: "dsDNA binding" EXACT [GOC:elh] +is_a: GO:0003677 ! DNA binding +intersection_of: GO:0005488 ! binding +intersection_of: has_primary_input CHEBI:4705 +relationship: has_primary_input CHEBI:4705 + +[Term] +id: GO:0003700 +name: DNA-binding transcription factor activity +namespace: molecular_function +alt_id: GO:0000130 +alt_id: GO:0001071 +alt_id: GO:0001130 +alt_id: GO:0001131 +alt_id: GO:0001151 +alt_id: GO:0001199 +alt_id: GO:0001204 +def: "A transcription regulator activity that modulates transcription of gene sets via selective and non-covalent binding to a specific double-stranded genomic DNA sequence (sometimes referred to as a motif) within a cis-regulatory region. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units, and include bacterial operons." [GOC:txnOH-2018] +comment: Usage guidance: Most DNA-binding transcription factors do not have enzymatic activity. The presence of specific DNA-binding domains known to be present in DNA-binding transcription factors (HOX, GATA etc) should be used to help decide whether a protein is a DNA binding transcription factor or a coregulator. If a protein has an enzymatic activity (for example, ubiquitin ligase, histone acetyl transferase) and no known DNA binding domain, consider annotating to GO:0003712 transcription coregulator activity. Special care should be taken with proteins containing zinc fingers, Myb/SANT and ARID domains, since only a subset of proteins containing these domains directly and selectively bind to regulatory DNA motifs in cis-regulatory regions. +subset: goslim_agr +subset: goslim_candida +subset: goslim_chembl +subset: goslim_drosophila +subset: goslim_metagenomics +subset: goslim_mouse +subset: goslim_plant +subset: goslim_yeast +synonym: "bacterial-type DNA binding transcription factor activity" NARROW [] +synonym: "bacterial-type RNA polymerase core promoter proximal region sequence-specific DNA binding transcription factor activity" NARROW [] +synonym: "bacterial-type RNA polymerase transcription enhancer sequence-specific DNA binding transcription factor activity" NARROW [] +synonym: "bacterial-type RNA polymerase transcription factor activity, metal ion regulated sequence-specific DNA binding" NARROW [] +synonym: "bacterial-type RNA polymerase transcription factor activity, sequence-specific DNA binding" NARROW [] +synonym: "DNA binding transcription factor activity" EXACT [] +synonym: "gene-specific transcription factor activity" EXACT [] +synonym: "metal ion regulated sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity" NARROW [] +synonym: "metal ion regulated sequence-specific DNA binding transcription factor activity" NARROW [] +synonym: "nucleic acid binding transcription factor activity" BROAD [] +synonym: "sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity" NARROW [] +synonym: "sequence-specific DNA binding transcription factor activity" EXACT [] +synonym: "transcription factor activity" BROAD [] +synonym: "transcription factor activity, bacterial-type RNA polymerase core promoter proximal region sequence-specific binding" NARROW [] +synonym: "transcription factor activity, bacterial-type RNA polymerase proximal promoter sequence-specific DNA binding" NARROW [] +synonym: "transcription factor activity, bacterial-type RNA polymerase transcription enhancer sequence-specific binding" NARROW [] +synonym: "transcription factor activity, metal ion regulated sequence-specific DNA binding" NARROW [] +is_a: BFO:0000003 +is_a: GO:0140110 ! transcription regulator activity +intersection_of: GO:0140110 ! transcription regulator activity +intersection_of: has_part GO:0000976 ! transcription cis-regulatory region binding +intersection_of: part_of GO:0006355 ! regulation of DNA-templated transcription +relationship: has_part GO:0000976 ! transcription cis-regulatory region binding +relationship: part_of GO:0006355 ! regulation of DNA-templated transcription +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/15704" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/16534" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20253" xsd:anyURI +created_by: krc +creation_date: 2010-10-21T04:37:54Z + [Term] id: GO:0003707 name: nuclear steroid receptor activity namespace: molecular_function def: "Combining with a steroid hormone and transmitting the signal within the cell to initiate a change in cell activity or function." [GOC:signaling, PMID:14708019] synonym: "steroid hormone receptor activity" BROAD [] +is_a: GO:0000981 ! DNA-binding transcription factor activity, RNA polymerase II-specific is_a: GO:0038023 ! signaling receptor activity -intersection_of: GO:0038023 ! signaling receptor activity -intersection_of: has_primary_input CHEBI:26764 -relationship: has_primary_input CHEBI:26764 relationship: part_of GO:0043401 ! steroid hormone mediated signaling pathway property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/16717" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26957" xsd:anyURI [Term] id: GO:0003723 @@ -47074,11 +48072,14 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "base pairing with RNA" NARROW [] synonym: "poly(A) RNA binding" RELATED [] @@ -47097,11 +48098,14 @@ namespace: molecular_function def: "Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic." [GOC:vw, ISBN:0198506732] subset: goslim_agr subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon +subset: goslim_prokaryote_ribbon synonym: "enzyme activity" EXACT [GOC:dph, GOC:tb] xref: Wikipedia:Enzyme is_a: GO:0003674 ! molecular_function @@ -47146,7 +48150,21 @@ xref: Reactome:R-HSA-156832 "INF-gamma induced phosphorylation of L13a" xref: Reactome:R-HSA-937034 "IRAK1 phosphorylates Pellino" xref: Reactome:R-HSA-9604606 "Unknown kinase phosphorylates NICD4" xref: Reactome:R-HSA-9673284 "GTP-bound RAC1 contributes to MAPK8 activation" +xref: Reactome:R-HSA-9732753 "JAK1-activated RAF1 phosphorylates MAPKs" xref: Reactome:R-HSA-975139 "IRAK1 phosphorylates Pellino upon TLR7/8 or 9 activation" +xref: Reactome:R-HSA-9833820 "PKR dimer autophosphorylates" +xref: Reactome:R-HSA-9835885 "p-PKR dimer phosphorylates eIF2-alpha" +xref: Reactome:R-HSA-9836159 "p-PKR dimer phosphorylates DHX9" +xref: Reactome:R-HSA-9836184 "p-PKR dimer phosphorylates CDK1" +xref: Reactome:R-HSA-9836322 "p-PKR dimer phosphorylates MKK6" +xref: Reactome:R-HSA-9836362 "p-PKR dimer phosphorylates TP53 tetramer" +xref: Reactome:R-HSA-9836383 "p-PKR dimer phosphorylates ILF3:ILF2" +xref: Reactome:R-HSA-9836404 "p-PKR dimer phosphorylates MAPT" +xref: Reactome:R-HSA-9836435 "p-PKR dimer phosphorylates SNCA" +xref: Reactome:R-HSA-9836449 "p-PKR dimer phosphorylates HIV tat" +xref: Reactome:R-HSA-9836515 "p-PKR dimer phosphorylates PTPN2" +xref: Reactome:R-HSA-9836617 "p-PKR dimer phosphorylates SPHK1" +xref: Reactome:R-HSA-9836664 "p-PKR dimer phosphorylates PPP2R5A" is_a: GO:0016301 ! kinase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor is_a: GO:0140096 ! catalytic activity, acting on a protein @@ -47189,7 +48207,6 @@ xref: Reactome:R-HSA-170156 "Wee1-mediated phosphorylation of Cyclin A:phospho-C xref: Reactome:R-HSA-170991 "SRC-1 autophosphorylates" xref: Reactome:R-HSA-171011 "Binding and activation of MAP Kinase" xref: Reactome:R-HSA-174164 "Phosphorylation of Cyclin A:Cdk2 at Tyr 15" -xref: Reactome:R-HSA-177930 "GAB1 phosphorylation by EGFR kinase" xref: Reactome:R-HSA-177934 "EGFR autophosphorylation" xref: Reactome:R-HSA-177937 "Phosphorylation of EGFR by SRC kinase" xref: Reactome:R-HSA-182969 "Phosphorylation of CBL (EGFR:CBL)" @@ -47217,7 +48234,7 @@ xref: Reactome:R-HSA-1982066 "Ligand-independent phosphorylation of overexpresse xref: Reactome:R-HSA-2012073 "Autocatalytic phosphorylation of FGFR3c P250R mutant" xref: Reactome:R-HSA-2012082 "Autocatalytic phosphorylation of FGFR3 cysteine mutants" xref: Reactome:R-HSA-2012087 "Autocatalytic phosphorylation of FGFR4 Y367C mutant" -xref: Reactome:R-HSA-201521 "ALK autophosphorylation downstream of PTN and MDK" +xref: Reactome:R-HSA-201521 "ALK autophosphorylation" xref: Reactome:R-HSA-202165 "Phosphorylation of ITAM motifs in CD3 complexes" xref: Reactome:R-HSA-202168 "Phosphorylation of ZAP-70 by Lck" xref: Reactome:R-HSA-202174 "Activation of ZAP-70" @@ -47339,7 +48356,7 @@ xref: Reactome:R-HSA-5218820 "Src kinases phosphorylate VAV" xref: Reactome:R-HSA-5218828 "PTK2/SRC-1 phosphorylates BCAR1" xref: Reactome:R-HSA-5218830 "SRC-1 phosphorylates PTK2-beta" xref: Reactome:R-HSA-5218851 "p-Y402-PTK2B phosphorylates p-5Y,S732-PTK2 on Y407" -xref: Reactome:R-HSA-5357429 "AXL autophosphorylates on Y772 and Y814" +xref: Reactome:R-HSA-5357429 "AXL autophosphorylates on Y779 and Y821" xref: Reactome:R-HSA-5607745 "1,3-beta-D-glucan:p-Y15-CLEC7A:SYK phosphorylates PLCG" xref: Reactome:R-HSA-5607750 "SRC kinase phosphorylates CLEC7A:1,3-beta-D-glucan" xref: Reactome:R-HSA-5621355 "LYN and FYN phosphorylate FCER1G in CLEC6A:FCERG and CLEC4E:FCERG" @@ -47434,8 +48451,8 @@ xref: Reactome:R-HSA-8937844 "SRC,YES1 phosphorylate YAP1" xref: Reactome:R-HSA-8942607 "Tyrosine kinases phosphorylate Cip/Kip inhibitors bound to CDK4/6:CCND complexes" xref: Reactome:R-HSA-8948143 "p-S13, FUNDC1 is phosphorylated by CK2 at Tyr18" xref: Reactome:R-HSA-8956659 "ABL1 phosphorylates YAP1" -xref: Reactome:R-HSA-8964242 "G protein alpha (i)-SRC complex catalyzes SRC to p-Y416-SRC" -xref: Reactome:R-HSA-8964252 "G alpha (s):GTP:SRC catalyzes SRC to p-Y416-SRC" +xref: Reactome:R-HSA-8964242 "G protein alpha (i)-SRC complex catalyzes SRC to p-Y419-SRC" +xref: Reactome:R-HSA-8964252 "G alpha (s):GTP:SRC catalyzes SRC to p-Y419-SRC" xref: Reactome:R-HSA-8983872 "JAK2 bound to IL12RB2:IL12RB2 phosphorylate STAT4" xref: Reactome:R-HSA-9006323 "Phospho-JAK2 phosphorylates EPOR" xref: Reactome:R-HSA-9006332 "JAK2 transphosphorylates and is activated in response to Erythropoietin" @@ -47527,10 +48544,12 @@ xref: Reactome:R-HSA-9712085 "ALK mutants phosphorylate STAT3" xref: Reactome:R-HSA-9712086 "ALK fusions phosphorylate PLCG1" xref: Reactome:R-HSA-9712087 "ALK fusions phosphorylate FRS" xref: Reactome:R-HSA-9726848 "SRC phosphorylates RHOU" +xref: Reactome:R-HSA-9732738 "JAK1-mediated phosphorylation of RAF1" xref: Reactome:R-HSA-9733314 "CSF1R trans-autophosphorylates on tyrosine-561" xref: Reactome:R-HSA-9733323 "Src family kinases phosphorylate CBL in CSF1 dimer:p-Y561-CSF1R dimer:CBL" -xref: Reactome:R-HSA-9762209 "BACH1 is phosphorylated at tyrosine 486" +xref: Reactome:R-HSA-9762209 "BACH1 is phosphorylated at tyrosine 483" xref: Reactome:R-HSA-982807 "JAK2 phosphorylation of GHR" +xref: Reactome:R-HSA-9831136 "SH pentamer is phosphorylated" xref: Reactome:R-HSA-983703 "p-6Y-SYK phosphorylates BLNK (SLP65)" xref: Reactome:R-HSA-983707 "SYK autophosphorylates at the activated BCR" xref: Reactome:R-HSA-983709 "LYN, FYN, BLK phosphorylate ITAMs of Ig-alpha (CD79A) and Ig-beta (CD79B)" @@ -47555,6 +48574,7 @@ xref: Reactome:R-HSA-166544 "TrkA receptor autophosphorylates" xref: Reactome:R-HSA-167019 "SHC, complexed with TrkA, is tyrosine-phosphorylated" xref: Reactome:R-HSA-167683 "TrkA phosphorylates PLCG1" xref: Reactome:R-HSA-169905 "ARMS is phosphorylated by active TrkA receptor" +xref: Reactome:R-HSA-177930 "GAB1 phosphorylation by EGFR kinase" xref: Reactome:R-HSA-177933 "SHC1 phosphorylation by phosphorylated EGFR" xref: Reactome:R-HSA-198295 "TRKA phosphorylates IRS" xref: Reactome:R-HSA-6784324 "p-Y-JAK1,p-Y-TYK2 phosphorylate IL10RA" @@ -47606,7 +48626,7 @@ is_a: GO:0003707 ! nuclear steroid receptor activity intersection_of: GO:0038023 ! signaling receptor activity intersection_of: has_primary_input CHEBI:24261 relationship: has_primary_input CHEBI:24261 -relationship: part_of GO:0042921 ! glucocorticoid receptor signaling pathway +relationship: part_of GO:0042921 ! intracellular glucocorticoid receptor signaling pathway relationship: part_of GO:0043402 ! glucocorticoid mediated signaling pathway property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/16717" xsd:anyURI @@ -47632,6 +48652,7 @@ def: "Combining with a cytokine and transmitting the signal from one side of the synonym: "hematopoietin/interferon-class (D200-domain) cytokine receptor activity" RELATED [] synonym: "IL receptor" NARROW [] synonym: "interleukin receptor activity" NARROW [http://wiki.geneontology.org/index.php/Why_isn%27t_interleukin_in_GO%3F] +is_a: BFO:0000003 is_a: GO:0004888 ! transmembrane signaling receptor activity is_a: GO:0140375 ! immune receptor activity relationship: has_part GO:0019955 ! cytokine binding @@ -47681,6 +48702,7 @@ xref: Reactome:R-HSA-114552 "Thrombin-activated PARs activate G12/13" xref: Reactome:R-HSA-114558 "Thrombin-activated PARs activate Gq" xref: Reactome:R-HSA-167408 "The high affinity receptor complex binds to G-protein" xref: Wikipedia:GPCR +is_a: BFO:0000003 is_a: GO:0004888 ! transmembrane signaling receptor activity relationship: part_of GO:0007186 ! G protein-coupled receptor signaling pathway @@ -47932,16 +48954,17 @@ subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_candida subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "carrier" RELATED [] -xref: Reactome:R-HSA-168313 "Virion-associated M2 protein mediated ion infusion" -xref: Reactome:R-HSA-178215 "SMAD7:SMURF1 complex is exported to the cytosol" is_a: GO:0003674 ! molecular_function [Term] @@ -47969,8 +48992,8 @@ is_a: GO:0005261 ! monoatomic cation channel activity is_a: GO:0022836 ! gated channel activity intersection_of: GO:0022836 ! gated channel activity intersection_of: has_primary_input CHEBI:23906 -intersection_of: has_small_molecule_activator CHEBI:39124 -relationship: has_small_molecule_activator CHEBI:39124 +intersection_of: has_small_molecule_activator CHEBI:29108 +relationship: has_small_molecule_activator CHEBI:29108 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24605" xsd:anyURI [Term] @@ -48015,6 +49038,7 @@ xref: Reactome:R-HSA-4420052 "Decreasing cGMP concentration promotes intracellul xref: Reactome:R-HSA-9706720 "SARS-CoV-1 E transports Ca2+" xref: Reactome:R-HSA-9712190 "cAMP:olfactory CNG channel translocates Na+ and Ca2+ from the extracellular region to the cytosol" xref: Reactome:R-HSA-9754616 "SARS-CoV-2 E pentamer transports Ca2+" +xref: Reactome:R-HSA-9837835 "SH pentamer transports K+" is_a: GO:0008324 ! monoatomic cation transmembrane transporter activity is_a: GO:0015267 ! channel activity intersection_of: GO:0015267 ! channel activity @@ -48116,6 +49140,7 @@ xref: Reactome:R-HSA-5688397 "Defective ABCA3 does not transport PC, PG from ER xref: Reactome:R-HSA-6801250 "TRIAP1:PRELID1, PRELID3A transports PA from the outer to the inner mitochondrial membrane" xref: Reactome:R-HSA-8848053 "ABCA5 transports CHOL from lysosomal lumen to cytosol" xref: Reactome:R-HSA-8866329 "MTTP lipidates APOB-100, forming a pre-VLDL" +is_a: BFO:0000003 is_a: GO:0005215 ! transporter activity intersection_of: GO:0005215 ! transporter activity intersection_of: has_primary_input CHEBI:18059 @@ -48171,8 +49196,8 @@ xref: Reactome:R-HSA-499981 "Transport of Extracellular Glucose to the Cytosol b xref: Reactome:R-HSA-5653873 "SLC2A1 tetramer transports Glc from cytosol to Golgi lumen" is_a: GO:0022857 ! transmembrane transporter activity intersection_of: GO:0022857 ! transmembrane transporter activity -intersection_of: has_primary_input CHEBI:17234 -relationship: has_primary_input CHEBI:17234 +intersection_of: has_primary_input CHEBI:4167 +relationship: has_primary_input CHEBI:4167 relationship: part_of GO:1904659 ! glucose transmembrane transport [Term] @@ -48233,6 +49258,7 @@ name: steroid binding namespace: molecular_function def: "Binding to a steroid, any of a large group of substances that have in common a ring system based on 1,2-cyclopentanoperhydrophenanthrene." [GOC:jl, ISBN:0198506732] subset: goslim_pir +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:35341 @@ -48243,6 +49269,7 @@ id: GO:0005500 name: juvenile hormone binding namespace: molecular_function def: "Binding to a juvenile hormone, a sesquiterpenoid derivative that function to maintain the larval state of insects at molting and that may be required for other processes, e.g. oogenesis." [GOC:jl, ISBN:0198506732] +is_a: BFO:0000003 is_a: GO:0042562 ! hormone binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:24943 @@ -48254,6 +49281,7 @@ name: iron ion binding namespace: molecular_function def: "Binding to an iron (Fe) ion." [GOC:ai] synonym: "iron binding" EXACT [] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:24875 @@ -48265,6 +49293,7 @@ name: calcium ion binding namespace: molecular_function def: "Binding to a calcium ion (Ca2+)." [GOC:ai] synonym: "calcium ion storage activity" RELATED [] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:29108 @@ -48279,11 +49308,15 @@ alt_id: GO:0045308 def: "Binding to a protein." [GOC:go_curators] subset: goslim_candida subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon +subset: goslim_prokaryote_ribbon synonym: "glycoprotein binding" NARROW [] synonym: "protein amino acid binding" EXACT [] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input PR:000000001 ! protein @@ -48307,6 +49340,7 @@ def: "Binding to ATP, adenosine 5'-triphosphate, a universally important coenzym synonym: "Mg-ATP binding" EXACT [] synonym: "MgATP binding" EXACT [] xref: Reactome:R-HSA-265682 "KCNJ11 tetramer:ABCC8 tetramer binds 4xATP, closing the channel" +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:30616 @@ -48317,10 +49351,11 @@ id: GO:0005536 name: glucose binding namespace: molecular_function def: "Binding to D- or L-enantiomers of glucose." [GOC:jl] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding -intersection_of: has_primary_input CHEBI:17234 -relationship: has_primary_input CHEBI:17234 +intersection_of: has_primary_input CHEBI:4167 +relationship: has_primary_input CHEBI:4167 [Term] id: GO:0005539 @@ -48339,6 +49374,7 @@ name: hyaluronic acid binding namespace: molecular_function def: "Binding to hyaluronic acid, a polymer composed of repeating dimeric units of glucuronic acid and N-acetyl glucosamine." [GOC:jl] synonym: "hyaluronan binding" EXACT [] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:16336 @@ -48361,7 +49397,7 @@ synonym: "cell or subcellular entity" EXACT [] synonym: "cellular component" EXACT [] synonym: "subcellular entity" RELATED [NIF_Subcellular:nlx_subcell_100315] xref: NIF_Subcellular:sao1337158144 -is_a: BFO:0000040 ! material entity +is_a: BFO:0000040 disjoint_from: GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/17729" xsd:anyURI @@ -48374,13 +49410,16 @@ comment: Note that this term is intended to annotate gene products that are not subset: goslim_agr subset: goslim_candida subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "extracellular" EXACT [] xref: Wikipedia:Extracellular @@ -48395,6 +49434,7 @@ synonym: "fibrinogen" EXACT [] synonym: "fibrinogen alpha chain" NARROW [] synonym: "fibrinogen beta chain" NARROW [] synonym: "fibrinogen gamma chain" NARROW [] +is_a: BFO:0000004 is_a: GO:0032991 ! protein-containing complex relationship: part_of GO:0005615 ! extracellular space @@ -48413,6 +49453,7 @@ id: GO:0005583 name: fibrillar collagen trimer namespace: cellular_component def: "Any triple helical collagen trimer that forms fibrils." [GOC:mah, ISBN:0721639976, PMID:21421911] +is_a: BFO:0000004 is_a: GO:0005581 ! collagen trimer intersection_of: GO:0005581 ! collagen trimer intersection_of: part_of GO:0098643 ! banded collagen fibril @@ -48467,7 +49508,6 @@ comment: Note that for multicellular organisms, the extracellular space refers t subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic -subset: goslim_prokaryote synonym: "intercellular space" RELATED [] xref: NIF_Subcellular:sao1425028079 is_a: GO:0110165 ! cellular anatomical entity @@ -48501,12 +49541,14 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "cell nucleus" EXACT [] synonym: "horsetail nucleus" NARROW [GOC:al, GOC:mah, GOC:vw, PMID:15030757] @@ -48547,6 +49589,25 @@ intersection_of: bounding_layer_of GO:0005634 ! nucleus relationship: bounding_layer_of GO:0005634 ! nucleus relationship: part_of GO:0042175 ! nuclear outer membrane-endoplasmic reticulum membrane network +[Term] +id: GO:0005667 +name: transcription regulator complex +namespace: cellular_component +alt_id: GO:0044797 +alt_id: GO:0044798 +def: "A protein complex that is capable of associating with DNA by direct binding, or via other DNA-binding proteins or complexes, and regulating transcription." [GOC:jl] +subset: goslim_pir +synonym: "cytoplasmic transcription factor complex" RELATED [] +synonym: "nuclear transcription factor complex" RELATED [] +synonym: "transcription factor complex" RELATED [] +is_a: BFO:0000004 +is_a: GO:0032991 ! protein-containing complex +intersection_of: GO:0032991 ! protein-containing complex +intersection_of: capable_of GO:0140110 ! transcription regulator activity +relationship: capable_of GO:0140110 ! transcription regulator activity +created_by: jl +creation_date: 2013-08-28T12:11:37Z + [Term] id: GO:0005694 name: chromosome @@ -48562,6 +49623,7 @@ subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "chromatid" RELATED [] synonym: "interphase chromosome" NARROW [] @@ -48596,7 +49658,9 @@ subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast xref: Wikipedia:Cytoplasm is_a: GO:0110165 ! cellular anatomical entity @@ -48646,11 +49710,13 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "vacuolar carboxypeptidase Y" RELATED [] xref: Wikipedia:Vacuole @@ -48688,10 +49754,12 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "Golgi" BROAD [] synonym: "Golgi complex" EXACT [] @@ -48723,6 +49791,7 @@ def: "The part of the cytoplasm that does not contain organelles but which does subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse @@ -48740,11 +49809,14 @@ alt_id: GO:0033279 def: "An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins." [ISBN:0198506732] subset: goslim_candida subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "free ribosome" NARROW [NIF_Subcellular:sao1139385046] synonym: "membrane bound ribosome" NARROW [NIF_Subcellular:sao1291545653] @@ -48752,9 +49824,9 @@ synonym: "ribosomal RNA" RELATED [] xref: NIF_Subcellular:sao1429207766 xref: Wikipedia:Ribosome is_a: GO:0043232 ! intracellular non-membrane-bounded organelle -is_a: PR:000050567 ! protein-containing material entity relationship: capable_of_part_of GO:0006412 ! translation relationship: has_part CHEBI:33697 +relationship: has_part PR:000000001 ! protein [Term] id: GO:0005856 @@ -48765,11 +49837,13 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote subset: goslim_yeast xref: Wikipedia:Cytoskeleton @@ -48857,11 +49931,14 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "bacterial inner membrane" NARROW [] synonym: "cell membrane" EXACT [] @@ -48949,7 +50026,6 @@ xref: NIF_Subcellular:sao787716553 xref: Wikipedia:Cilium is_a: GO:0043227 ! membrane-bounded organelle is_a: GO:0120025 ! plasma membrane bounded cell projection -is_a: PR:000050567 ! protein-containing material entity relationship: has_part GO:0030990 ! intraciliary transport particle relationship: RO:0002160 NCBITaxon:2759 ! only in taxon Eukaryota relationship: RO:0002162 NCBITaxon:2759 {all_only="true"} ! in taxon Eukaryota @@ -49011,11 +50087,13 @@ subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_pombe subset: goslim_prokaryote subset: goslim_yeast synonym: "carbohydrate metabolism" EXACT [] xref: Wikipedia:Carbohydrate_metabolism +is_a: BFO:0000003 is_a: GO:0044238 ! primary metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:16646 @@ -49035,6 +50113,7 @@ synonym: "glycan metabolic process" NARROW [] synonym: "glycan metabolism" NARROW [] synonym: "multicellular organismal polysaccharide metabolic process" NARROW [] synonym: "polysaccharide metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:18154 @@ -49063,11 +50142,14 @@ synonym: "glycogen biosynthesis" EXACT [] synonym: "glycogen formation" EXACT [] synonym: "glycogen synthesis" EXACT [] xref: MetaCyc:GLYCOGENSYNTH-PWY +xref: MetaCyc:PWY-5067 +xref: MetaCyc:PWY-7900 is_a: GO:0005977 ! glycogen metabolic process is_a: GO:0009250 ! glucan biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:28087 relationship: has_primary_output CHEBI:28087 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27107" xsd:anyURI [Term] id: GO:0005979 @@ -49094,11 +50176,14 @@ synonym: "glycogen catabolism" EXACT [] synonym: "glycogen degradation" EXACT [] synonym: "glycogenolysis" EXACT [GOC:sl] xref: MetaCyc:GLYCOCAT-PWY +xref: MetaCyc:PWY-5941 +xref: MetaCyc:PWY-7662 is_a: GO:0005977 ! glycogen metabolic process is_a: GO:0009056 ! catabolic process intersection_of: GO:0009056 ! catabolic process intersection_of: has_primary_input CHEBI:28087 relationship: has_primary_input CHEBI:28087 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27107" xsd:anyURI [Term] id: GO:0005981 @@ -49124,8 +50209,8 @@ synonym: "cellular glucose metabolic process" EXACT [GOC:vw] synonym: "glucose metabolism" EXACT [] is_a: GO:0019318 ! hexose metabolic process intersection_of: GO:0008152 ! metabolic process -intersection_of: has_primary_input_or_output CHEBI:17234 -relationship: has_primary_input_or_output CHEBI:17234 +intersection_of: has_primary_input_or_output CHEBI:4167 +relationship: has_primary_input_or_output CHEBI:4167 [Term] id: GO:0006007 @@ -49138,8 +50223,8 @@ synonym: "glucose degradation" EXACT [] is_a: GO:0006006 ! glucose metabolic process is_a: GO:0009056 ! catabolic process intersection_of: GO:0009056 ! catabolic process -intersection_of: has_primary_input CHEBI:17234 -relationship: has_primary_input CHEBI:17234 +intersection_of: has_primary_input CHEBI:4167 +relationship: has_primary_input CHEBI:4167 [Term] id: GO:0006024 @@ -49177,6 +50262,7 @@ namespace: biological_process def: "The chemical reactions and pathways involving proteoglycans, any glycoprotein in which the carbohydrate units are glycosaminoglycans." [GOC:mah, ISBN:0198506732] synonym: "proteoglycan metabolism" EXACT [] synonym: "proteoglycan sulfate transfer" NARROW [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:37396 @@ -49219,12 +50305,15 @@ def: "The chemical reactions and pathways resulting in the formation of precurso subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_pombe subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "energy pathways" BROAD [] synonym: "intermediary metabolism" RELATED [GOC:mah] @@ -49243,8 +50332,8 @@ xref: Wikipedia:Gluconeogenesis is_a: GO:0006006 ! glucose metabolic process is_a: GO:0009058 ! biosynthetic process intersection_of: GO:0009058 ! biosynthetic process -intersection_of: has_primary_output CHEBI:17234 -relationship: has_primary_output CHEBI:17234 +intersection_of: has_primary_output CHEBI:4167 +relationship: has_primary_output CHEBI:4167 [Term] id: GO:0006109 @@ -49296,7 +50385,7 @@ synonym: "cellular nucleobase, nucleoside, nucleotide and nucleic acid metabolis synonym: "nucleobase, nucleoside and nucleotide metabolic process" RELATED [] synonym: "nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" RELATED [GOC:dph, GOC:tb] synonym: "nucleobase, nucleoside, nucleotide and nucleic acid metabolism" EXACT [] -is_a: GO:0034641 ! cellular nitrogen compound metabolic process +is_a: BFO:0000003 is_a: GO:0044238 ! primary metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:61120 @@ -49330,9 +50419,12 @@ subset: goslim_flybase_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon +subset: goslim_prokaryote_ribbon synonym: "cellular DNA metabolism" EXACT [] synonym: "DNA metabolism" EXACT [] -is_a: GO:0043170 ! macromolecule metabolic process +is_a: BFO:0000003 +is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:16991 relationship: has_primary_input_or_output CHEBI:16991 @@ -49377,6 +50469,7 @@ name: DNA recombination namespace: biological_process def: "Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Interchromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction." [ISBN:0198506732] subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pombe subset: goslim_prokaryote @@ -49416,6 +50509,96 @@ relationship: results_in_organization_of GO:0000785 ! chromatin property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22130" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23549" xsd:anyURI +[Term] +id: GO:0006351 +name: DNA-templated transcription +namespace: biological_process +alt_id: GO:0001121 +alt_id: GO:0006350 +alt_id: GO:0061018 +alt_id: GO:0061022 +def: "The synthesis of an RNA transcript from a DNA template." [GOC:jl, GOC:txnOH] +subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon +subset: goslim_generic +subset: goslim_metagenomics +subset: goslim_mouse +subset: goslim_pir +subset: goslim_pombe +subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon +synonym: "bacterial transcription" NARROW [] +synonym: "cellular transcription" BROAD [] +synonym: "DNA-dependent transcription" EXACT [] +synonym: "transcription" BROAD [] +synonym: "transcription from bacterial-type RNA polymerase promoter" NARROW [] +synonym: "transcription, DNA-dependent" EXACT [GOC:txnOH] +synonym: "transcription, DNA-templated" EXACT [] +xref: Wikipedia:Transcription_(genetics) +relationship: part_of GO:0010467 ! gene expression +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/14854" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/16737" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22258" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22555" xsd:anyURI + +[Term] +id: GO:0006355 +name: regulation of DNA-templated transcription +namespace: biological_process +alt_id: GO:0032583 +alt_id: GO:0045449 +alt_id: GO:0061019 +def: "Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription." [GOC:go_curators, GOC:txnOH] +subset: goslim_drosophila +subset: goslim_generic +subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon +synonym: "regulation of cellular transcription, DNA-dependent" EXACT [] +synonym: "regulation of gene-specific transcription" RELATED [] +synonym: "regulation of transcription, DNA-dependent" EXACT [GOC:txnOH] +synonym: "regulation of transcription, DNA-templated" EXACT [] +synonym: "transcriptional control" BROAD [] +is_a: GO:0010468 ! regulation of gene expression +intersection_of: GO:0065007 ! biological regulation +intersection_of: regulates GO:0006351 ! DNA-templated transcription +relationship: regulates GO:0006351 ! DNA-templated transcription +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25256" xsd:anyURI + +[Term] +id: GO:0006357 +name: regulation of transcription by RNA polymerase II +namespace: biological_process +alt_id: GO:0006358 +alt_id: GO:0010551 +def: "Any process that modulates the frequency, rate or extent of transcription mediated by RNA polymerase II." [GOC:go_curators, GOC:txnOH] +synonym: "global transcription regulation from Pol II promoter" RELATED [] +synonym: "regulation of gene-specific transcription from RNA polymerase II promoter" RELATED [] +synonym: "regulation of global transcription from Pol II promoter" RELATED [] +synonym: "regulation of transcription from Pol II promoter" EXACT [] +synonym: "regulation of transcription from RNA polymerase II promoter" EXACT [] +synonym: "regulation of transcription from RNA polymerase II promoter, global" RELATED [] +is_a: GO:0006355 ! regulation of DNA-templated transcription +intersection_of: GO:0065007 ! biological regulation +intersection_of: regulates GO:0006366 ! transcription by RNA polymerase II +relationship: regulates GO:0006366 ! transcription by RNA polymerase II + +[Term] +id: GO:0006366 +name: transcription by RNA polymerase II +namespace: biological_process +alt_id: GO:0032568 +alt_id: GO:0032569 +def: "The synthesis of RNA from a DNA template by RNA polymerase II (RNAP II), originating at an RNA polymerase II promoter. Includes transcription of messenger RNA (mRNA) and certain small nuclear RNAs (snRNAs)." [GOC:jl, GOC:txnOH, ISBN:0321000382] +subset: goslim_yeast +synonym: "gene-specific transcription from RNA polymerase II promoter" RELATED [] +synonym: "general transcription from RNA polymerase II promoter" RELATED [] +synonym: "RNA polymerase II transcription factor activity" RELATED [] +synonym: "specific transcription from RNA polymerase II promoter" RELATED [GOC:mah] +synonym: "transcription from Pol II promoter" EXACT [] +synonym: "transcription from RNA polymerase II promoter" EXACT [] +is_a: GO:0006351 ! DNA-templated transcription +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/14854" xsd:anyURI + [Term] id: GO:0006401 name: RNA catabolic process @@ -49485,10 +50668,12 @@ def: "The cellular metabolic process in which a protein is formed, using the seq subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "protein anabolism" EXACT [] synonym: "protein biosynthesis" EXACT [] synonym: "protein biosynthetic process" EXACT [] @@ -49499,11 +50684,11 @@ xref: Wikipedia:Translation_(genetics) is_a: GO:0009059 ! macromolecule biosynthetic process is_a: GO:0019538 ! protein metabolic process intersection_of: GO:0009058 ! biosynthetic process -intersection_of: has_primary_output CHEBI:16541 +intersection_of: has_primary_output CHEBI:36080 intersection_of: part_of GO:0010467 ! gene expression relationship: ends_with GO:0006415 ! translational termination relationship: has_part GO:0006414 ! translational elongation -relationship: has_primary_output CHEBI:16541 +relationship: has_primary_output CHEBI:36080 relationship: part_of GO:0010467 ! gene expression relationship: starts_with GO:0006413 ! translational initiation @@ -49519,6 +50704,7 @@ synonym: "biopolymerisation" BROAD [] synonym: "biopolymerization" BROAD [] synonym: "protein synthesis initiation" BROAD [] synonym: "translation initiation" EXACT [] +is_a: BFO:0000003 is_a: GO:0044237 ! cellular metabolic process relationship: part_of GO:0006412 ! translation relationship: starts_with GO:0001677 ! formation of translation initiation ternary complex @@ -49660,10 +50846,11 @@ namespace: biological_process def: "The chemical reactions and pathways involving peptides, compounds of two or more amino acids where the alpha carboxyl group of one is bound to the alpha amino group of another." [GOC:go_curators] subset: goslim_pir synonym: "peptide metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process -intersection_of: has_primary_input_or_output CHEBI:16670 -relationship: has_primary_input_or_output CHEBI:16670 +intersection_of: has_primary_input_or_output CHEBI:60466 +relationship: has_primary_input_or_output CHEBI:60466 [Term] id: GO:0006520 @@ -49677,11 +50864,13 @@ subset: goslim_generic subset: goslim_pir subset: goslim_pombe subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "amino acid and derivative metabolism" RELATED [] synonym: "cellular amino acid and derivative metabolic process" RELATED [] synonym: "cellular amino acid metabolic process" EXACT [] synonym: "cellular amino acid metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0044238 ! primary metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:35238 @@ -49918,13 +51107,16 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_pombe subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "lipid metabolism" EXACT [] xref: Wikipedia:Lipid_metabolism @@ -49940,6 +51132,7 @@ name: glycosphingolipid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving glycosphingolipids, any compound with residues of sphingoid and at least one monosaccharide." [ISBN:0198547684] synonym: "glycosphingolipid metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:24402 @@ -49994,6 +51187,8 @@ is_a: GO:1901617 ! organic hydroxy compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:36235 relationship: has_primary_output CHEBI:36235 +relationship: RO:0002160 NCBITaxon:6072 ! only in taxon Eumetazoa +relationship: RO:0002162 NCBITaxon:6072 {all_only="true"} ! in taxon Eumetazoa [Term] id: GO:0006700 @@ -50120,6 +51315,7 @@ name: juvenile hormone metabolic process namespace: biological_process def: "The chemical reactions and pathways involving juvenile hormones, the three sesquiterpenoid derivatives that function to maintain the larval state of insects at molting and that may be required for other processes, e.g. oogenesis." [GOC:go_curators, ISBN:0198547684] synonym: "juvenile hormone metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process is_a: GO:0042445 ! hormone metabolic process intersection_of: GO:0008152 ! metabolic process @@ -50156,20 +51352,6 @@ intersection_of: GO:0009056 ! catabolic process intersection_of: has_primary_input CHEBI:24943 relationship: has_primary_input CHEBI:24943 -[Term] -id: GO:0006725 -name: cellular aromatic compound metabolic process -namespace: biological_process -def: "The chemical reactions and pathways involving aromatic compounds, any organic compound characterized by one or more planar rings, each of which contains conjugated double bonds and delocalized pi electrons, as carried out by individual cells." [GOC:ai, ISBN:0198506732] -subset: goslim_pir -synonym: "aromatic compound metabolism" EXACT [] -synonym: "aromatic hydrocarbon metabolic process" NARROW [] -synonym: "aromatic hydrocarbon metabolism" NARROW [] -is_a: GO:0044237 ! cellular metabolic process -intersection_of: GO:0008152 ! metabolic process -intersection_of: has_primary_input_or_output CHEBI:33655 -relationship: has_primary_input_or_output CHEBI:33655 - [Term] id: GO:0006754 name: ATP biosynthetic process @@ -50195,6 +51377,7 @@ namespace: biological_process def: "The chemical reactions and pathways involving the phosphate group, the anion or salt of any phosphoric acid." [GOC:ai] synonym: "phosphate metabolic process" RELATED [] synonym: "phosphate metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:26020 @@ -50210,26 +51393,12 @@ synonym: "oxygen free radical metabolism" EXACT [] synonym: "superoxide free radical metabolic process" EXACT [] synonym: "superoxide free radical metabolism" EXACT [] synonym: "superoxide metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:18421 relationship: has_primary_input_or_output CHEBI:18421 -[Term] -id: GO:0006807 -name: nitrogen compound metabolic process -namespace: biological_process -def: "The chemical reactions and pathways involving organic or inorganic compounds that contain nitrogen." [GOC:jl, ISBN:0198506732] -subset: gocheck_do_not_annotate -subset: goslim_metagenomics -subset: goslim_pir -synonym: "nitrogen compound metabolism" EXACT [] -is_a: GO:0008152 ! metabolic process -intersection_of: GO:0008152 ! metabolic process -intersection_of: has_primary_input_or_output CHEBI:51143 -relationship: has_primary_input_or_output CHEBI:51143 -property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI - [Term] id: GO:0006810 name: transport @@ -50245,7 +51414,9 @@ subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "single-organism transport" RELATED [] is_a: GO:0051234 ! establishment of localization property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20292" xsd:anyURI @@ -50261,6 +51432,7 @@ subset: goslim_drosophila subset: goslim_pir subset: goslim_yeast synonym: "ion transport" BROAD [] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:24867 @@ -50277,6 +51449,7 @@ def: "The directed movement of a monoatomic cation, into, out of or within a cel synonym: "cation transport" BROAD [] synonym: "di-, tri-valent inorganic cation transport" NARROW [GOC:mah] synonym: "trivalent inorganic cation transport" NARROW [] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:23906 @@ -50290,6 +51463,7 @@ def: "The directed movement of calcium (Ca) ions into, out of or within a cell, synonym: "calcium transport" EXACT [] synonym: "mitochondrial sodium/calcium ion exchange" NARROW [] synonym: "sodium:calcium exchange" NARROW [] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:29108 @@ -50314,6 +51488,7 @@ synonym: "ferrous ion transport" NARROW [] synonym: "ferrous iron transport" NARROW [] synonym: "iron ion import" RELATED [] synonym: "iron transport" EXACT [] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:24875 @@ -50326,6 +51501,7 @@ id: GO:0006833 name: water transport namespace: biological_process def: "The directed movement of water (H2O) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] +is_a: BFO:0000003 is_a: GO:0042044 ! fluid transport intersection_of: GO:0042044 ! fluid transport intersection_of: has_primary_input CHEBI:15377 @@ -50338,6 +51514,7 @@ namespace: biological_process alt_id: GO:0006841 def: "The directed movement of dicarboxylic acids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:krc] synonym: "sodium:dicarboxylate transport" RELATED [] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:35693 @@ -50359,6 +51536,7 @@ id: GO:0006837 name: serotonin transport namespace: biological_process def: "The directed movement of serotonin into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Serotonin (5-hydroxytryptamine) is a monoamine neurotransmitter occurring in the peripheral and central nervous systems." [GOC:ai] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:350546 @@ -50369,6 +51547,7 @@ id: GO:0006858 name: extracellular transport namespace: biological_process def: "The transport of substances that occurs outside cells." [GOC:go_curators] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: occurs_in GO:0005576 ! extracellular region @@ -50392,10 +51571,11 @@ alt_id: GO:0006866 def: "The directed movement of amino acids, organic acids containing one or more amino substituents, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: goslim_pir subset: goslim_yeast +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport -intersection_of: has_primary_input CHEBI:33709 -relationship: has_primary_input CHEBI:33709 +intersection_of: has_primary_input CHEBI:35238 +relationship: has_primary_input CHEBI:35238 [Term] id: GO:0006869 @@ -50405,6 +51585,7 @@ def: "The directed movement of lipids into, out of or within a cell, or between subset: goslim_drosophila subset: goslim_pir subset: goslim_yeast +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:18059 @@ -50484,6 +51665,7 @@ subset: goslim_yeast synonym: "nonselective vesicle exocytosis" RELATED [] synonym: "vesicle exocytosis" EXACT [] xref: Wikipedia:Exocytosis +is_a: BFO:0000003 is_a: GO:0016192 ! vesicle-mediated transport is_a: GO:0032940 ! secretion by cell intersection_of: GO:0006810 ! transport @@ -50574,6 +51756,7 @@ id: GO:0006903 name: vesicle targeting namespace: biological_process def: "The process in which vesicles are directed to specific destination membranes. Targeting involves coordinated interactions among cytoskeletal elements (microtubules or actin filaments), motor proteins, molecules at the vesicle membrane and target membrane surfaces, and vesicle cargo." [GOC:mah, PMID:17335816] +is_a: BFO:0000003 is_a: GO:0009987 ! cellular process relationship: part_of GO:0016192 ! vesicle-mediated transport relationship: part_of GO:0051650 ! establishment of vesicle localization @@ -50696,6 +51879,7 @@ namespace: biological_process def: "A process in which force is generated within muscle tissue, resulting in a change in muscle geometry. Force generation involves a chemo-mechanical energy conversion step that is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis." [GOC:ef, GOC:mtg_muscle, ISBN:0198506732] subset: goslim_pir xref: Wikipedia:Muscle_contraction +is_a: BFO:0000003 is_a: GO:0003012 ! muscle system process relationship: occurs_in UBERON:0002385 ! muscle tissue @@ -50755,6 +51939,7 @@ name: syncytium formation namespace: biological_process def: "The formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane. Syncytia are normally derived from single cells that fuse or fail to complete cell division." [ISBN:0198506732] subset: goslim_pir +is_a: BFO:0000003 is_a: GO:0009987 ! cellular process is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis @@ -50767,12 +51952,12 @@ name: response to stress namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation)." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_metagenomics subset: goslim_plant +subset: goslim_plant_ribbon synonym: "response to abiotic stress" RELATED [] synonym: "response to biotic stress" RELATED [] is_a: GO:0050896 ! response to stimulus @@ -50825,6 +52010,8 @@ name: organelle organization namespace: biological_process alt_id: GO:1902589 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_candida subset: goslim_pir synonym: "organelle organisation" EXACT [] @@ -50835,6 +52022,7 @@ is_a: GO:0016043 ! cellular component organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0043226 ! organelle relationship: results_in_organization_of GO:0043226 ! organelle +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2013-12-19T15:25:51Z @@ -51108,6 +52296,7 @@ is_a: GO:0080171 ! lytic vacuole organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0005764 ! lysosome relationship: results_in_organization_of GO:0005764 ! lysosome +property_value: RO:0002161 NCBITaxon:4751 [Term] id: GO:0007041 @@ -51118,6 +52307,7 @@ is_a: GO:0007034 ! vacuolar transport intersection_of: GO:0006810 ! transport intersection_of: results_in_transport_to_from_or_in GO:0005764 ! lysosome relationship: results_in_transport_to_from_or_in GO:0005764 ! lysosome +property_value: RO:0002161 NCBITaxon:4751 [Term] id: GO:0007043 @@ -51136,13 +52326,14 @@ id: GO:0007049 name: cell cycle namespace: biological_process def: "The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division." [GOC:go_curators, GOC:mtg_cell_cycle] -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cell-division cycle" EXACT [] xref: Wikipedia:Cell_cycle is_a: GO:0009987 ! cellular process @@ -51253,7 +52444,6 @@ namespace: biological_process def: "A cell cycle process by which the cell nucleus divides as part of a meiotic cell cycle in the male germline." [GOC:dph, GOC:mah, GOC:vw] synonym: "male meiosis" RELATED [] synonym: "male nuclear division" BROAD [] -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0140013 ! meiotic nuclear division intersection_of: GO:0000280 ! nuclear division intersection_of: part_of GO:0048232 ! male gamete generation @@ -51281,7 +52471,6 @@ def: "A cell cycle process by which the cell nucleus divides as part of a meioti comment: Note that female germ lines can be found in female or hermaphroditic organisms, so this term can be used to annotate gene products from hermaphrodites such as those of C. elegans. See also the biological process term 'meiotic nuclear division; GO:0140013'. synonym: "female meiosis" BROAD [] synonym: "female meiotic division" BROAD [] -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0140013 ! meiotic nuclear division intersection_of: GO:0000280 ! nuclear division intersection_of: part_of GO:0007292 ! female gamete generation @@ -51320,6 +52509,7 @@ def: "The attachment of a cell, either to another cell or to an underlying subst subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir @@ -51339,6 +52529,7 @@ namespace: biological_process def: "The attachment of a leukocyte to another cell via adhesion molecules." [GOC:go_curators] synonym: "leukocyte adhesion" EXACT [] synonym: "leukocyte cell adhesion" EXACT [] +is_a: BFO:0000003 is_a: GO:0098609 ! cell-cell adhesion intersection_of: GO:0098609 ! cell-cell adhesion intersection_of: has_participant CL:0000738 ! leukocyte @@ -51394,14 +52585,11 @@ subset: goslim_candida subset: goslim_chembl subset: goslim_metagenomics subset: goslim_plant -synonym: "signal transduction by cis-phosphorylation" NARROW [] -synonym: "signal transduction by conformational transition" NARROW [] -synonym: "signal transduction by protein phosphorylation" NARROW [] -synonym: "signal transduction by trans-phosphorylation" NARROW [] +subset: goslim_plant_ribbon synonym: "signaling cascade" NARROW [] synonym: "signaling pathway" RELATED [] synonym: "signalling cascade" NARROW [] -synonym: "signalling pathway" RELATED [GOC:mah] +synonym: "signalling pathway" RELATED [] xref: Wikipedia:Signal_transduction is_a: GO:0009987 ! cellular process is_a: GO:0050794 ! regulation of cellular process @@ -51413,7 +52601,7 @@ relationship: part_of GO:0051716 ! cellular response to stimulus id: GO:0007166 name: cell surface receptor signaling pathway namespace: biological_process -def: "The series of molecular signals initiated by activation of a receptor on the surface of a cell. The pathway begins with binding of an extracellular ligand to a cell surface receptor, or for receptors that signal in the absence of a ligand, by ligand-withdrawal or the activity of a constitutively active receptor. The pathway ends with regulation of a downstream cellular process, e.g. transcription." [GOC:bf, GOC:mah, GOC:pr, GOC:signaling] +def: "The series of molecular signals initiated by an extracellular ligand binding to a receptor located on the cell surface. The pathway ends with regulation of a downstream cellular process, e.g. transcription." [GOC:signaling] subset: goslim_drosophila synonym: "cell surface receptor linked signal transduction" EXACT [] synonym: "cell surface receptor linked signaling pathway" EXACT [GOC:bf] @@ -51431,11 +52619,13 @@ is_a: GO:0007166 ! cell surface receptor signaling pathway [Term] id: GO:0007169 -name: transmembrane receptor protein tyrosine kinase signaling pathway +name: cell surface receptor protein tyrosine kinase signaling pathway namespace: biological_process def: "The series of molecular signals initiated by an extracellular ligand binding to a receptor on the surface of the target cell where the receptor possesses tyrosine kinase activity, and ending with the regulation of a downstream cellular process, e.g. transcription." [GOC:ceb, GOC:signaling] +synonym: "transmembrane receptor protein serine/threonine kinase signaling pathway" BROAD [] synonym: "transmembrane receptor protein tyrosine kinase signalling pathway" EXACT [] is_a: GO:0007167 ! enzyme-linked receptor protein signaling pathway +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26955" xsd:anyURI [Term] id: GO:0007186 @@ -51592,6 +52782,7 @@ name: ensheathment of neurons namespace: biological_process def: "The process in which glial cells envelop neuronal cell bodies and/or axons to form an insulating layer. This can take the form of myelinating or non-myelinating ensheathment." [GOC:dgh, GOC:dph, GOC:tb] synonym: "ionic insulation of neurons by glial cells" RELATED [] +is_a: BFO:0000003 is_a: GO:0009987 ! cellular process relationship: has_participant CL:0000125 ! glial cell relationship: has_participant CL:0000540 ! neuron @@ -51636,7 +52827,6 @@ name: pole cell development namespace: biological_process def: "The process whose specific outcome is the progression of the pole cell over time, from its formation to the mature structure." [GOC:jid] is_a: GO:0003006 ! developmental process involved in reproduction -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000301 ! pole cell @@ -51649,6 +52839,7 @@ name: pole cell formation namespace: biological_process def: "Formation of a small group of cells (pole cells) at the posterior pole of the insect blastula. They are the first cells to cellularize after the arrival of nuclei at the end of the syncytial blastula stage and are the precursors to the insect germ cells." [GOC:bf, PMID:9988212] comment: See also the Cell Ontology term 'pole cell ; CL:0000301'. +is_a: BFO:0000003 is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0007349 ! cellularization intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis @@ -51656,17 +52847,6 @@ intersection_of: results_in_formation_of CL:0000301 ! pole cell relationship: part_of GO:0007277 ! pole cell development relationship: results_in_formation_of CL:0000301 ! pole cell -[Term] -id: GO:0007280 -name: pole cell migration -namespace: biological_process -def: "The directed movement of a pole cell (germline progenitors in insects) from its site of production at the posterior pole of the embryo through to the site where the gonads will form." [GOC:bf, PMID:9988212] -comment: See also the Cell Ontology term 'pole cell ; CL:0000301'. -is_a: GO:0008354 ! germ cell migration -intersection_of: GO:0016477 ! cell migration -intersection_of: results_in_movement_of CL:0000301 ! pole cell -relationship: results_in_movement_of CL:0000301 ! pole cell - [Term] id: GO:0007281 name: germ cell development @@ -51689,8 +52869,8 @@ name: cystoblast division namespace: biological_process def: "Any of the rounds of incomplete mitosis undergone by a cystoblast to form a cyst of interconnected cells." [PMID:21452446] synonym: "cystoblast cell division" EXACT [] +is_a: BFO:0000003 is_a: GO:0008356 ! asymmetric cell division -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism intersection_of: GO:0008356 ! asymmetric cell division intersection_of: has_primary_input CL:0000722 ! cystoblast relationship: has_primary_input CL:0000722 ! cystoblast @@ -51715,7 +52895,7 @@ namespace: biological_process def: "The mitotic divisions of the primary spermatogonial cell (a primordial male germ cell) to form secondary spermatogonia (primary spermatocytes)." [GOC:bf, GOC:pr, ISBN:0879694238] comment: See also the Cell Ontology terms 'spermatogonium ; CL:0000020' and 'primary spermatocyte ; CL:0000656'. synonym: "spermatogonium division" EXACT [] -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism +is_a: BFO:0000003 is_a: GO:0051301 ! cell division intersection_of: GO:0051301 ! cell division intersection_of: has_primary_input CL:0000020 ! spermatogonium @@ -51728,7 +52908,6 @@ name: primary spermatocyte growth namespace: biological_process def: "The phase of growth and gene expression that male germ cells undergo as they enter the spermatocyte stage. The cells grow in volume and transcribe most of the gene products needed for the morphological events that follow meiosis." [GOC:jid, ISBN:0879694238] is_a: GO:0003006 ! developmental process involved in reproduction -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0048588 ! developmental cell growth intersection_of: GO:0040007 ! growth intersection_of: results_in_growth_of CL:0000656 ! primary spermatocyte @@ -51755,7 +52934,6 @@ name: sperm axoneme assembly namespace: biological_process def: "The assembly and organization of the sperm flagellar axoneme, the bundle of microtubules and associated proteins that forms the core of the eukaryotic sperm flagellum, and is responsible for movement." [GOC:bf, GOC:cilia, ISBN:0198547684] is_a: GO:0003006 ! developmental process involved in reproduction -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0035082 ! axoneme assembly intersection_of: GO:0035082 ! axoneme assembly intersection_of: occurs_in CL:0000019 ! sperm @@ -51770,7 +52948,6 @@ def: "The specialization of the spermatid nucleus during the development of a sp comment: See also the Cell Ontology term 'spermatid ; CL:0000018'. synonym: "spermatid nuclear differentiation" EXACT [] is_a: GO:0006997 ! nucleus organization -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism relationship: part_of GO:0007286 ! spermatid development [Term] @@ -51798,7 +52975,6 @@ namespace: biological_process def: "The directed movement of an ovarian follicle cell that takes place during oogenesis. During egg chamber formation, follicle cells migrate to envelop the germ-line cysts and move in between cysts. At stage 10B, follicle cells migrate centripetally between the nurse cells and the oocyte, enclosing the anterior of the egg. An example of this is found in Drosophila melanogaster." [GOC:mtg_sensu, PMID:10822261] synonym: "follicle cell migration" BROAD [] is_a: GO:0010631 ! epithelial cell migration -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism intersection_of: GO:0016477 ! cell migration intersection_of: results_in_movement_of CL:0000477 ! follicle cell of egg chamber relationship: part_of GO:0030707 ! follicle cell of egg chamber development @@ -51825,7 +53001,6 @@ alt_id: GO:0048110 def: "The synthesis, deposition, and organization of the materials in a cell of an ovary; where the cell can then undergo meiosis and form an ovum. An example of this is found in Drosophila melanogaster." [GOC:dph, GOC:ems, GOC:mtg_sensu, GOC:tb, ISBN:0198506732] synonym: "oocyte arrangement" EXACT [GOC:dph, GOC:tb] is_a: GO:0003006 ! developmental process involved in reproduction -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0048469 ! cell maturation intersection_of: GO:0032502 ! developmental process intersection_of: results_in_formation_of CL:0000023 ! oocyte @@ -51839,6 +53014,7 @@ namespace: biological_process alt_id: GO:0048111 def: "The establishment, maintenance and elaboration of an axis in the oocyte. An example of this is found in Drosophila melanogaster." [GOC:mtg_sensu, ISBN:0879694238] synonym: "oocyte axis determination" RELATED [] +is_a: BFO:0000003 is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0009798 ! axis specification intersection_of: GO:0009798 ! axis specification @@ -51888,8 +53064,8 @@ name: egg activation namespace: biological_process def: "The process in which the egg becomes metabolically active, initiates protein and DNA synthesis and undergoes structural changes to its cortex and/or cytoplasm." [GOC:bf, PMID:9630751] xref: Wikipedia:Egg_activation +is_a: BFO:0000003 is_a: GO:0001775 ! cell activation -is_a: GO:0022414 ! reproductive process intersection_of: GO:0001775 ! cell activation intersection_of: has_primary_input CL:0000025 ! egg cell relationship: has_primary_input CL:0000025 ! egg cell @@ -51941,6 +53117,7 @@ id: GO:0007354 name: zygotic determination of anterior/posterior axis, embryo namespace: biological_process def: "The specification of the anterior/posterior axis of the embryo by products of genes expressed in the zygote; exemplified in insects by the gap genes, pair rule genes and segment polarity gene cascade." [http://fly.ebi.ac.uk/allied-data/lk/interactive-fly/aimain/1aahome.htm, ISBN:0879694238] +is_a: BFO:0000003 is_a: GO:0008595 ! anterior/posterior axis specification, embryo intersection_of: GO:0008595 ! anterior/posterior axis specification, embryo intersection_of: occurs_in CL:0000365 ! animal zygote @@ -51953,6 +53130,7 @@ namespace: biological_process def: "A complex and coordinated series of cellular movements that occurs at the end of cleavage during embryonic development of most animals. The details of gastrulation vary from species to species, but usually result in the formation of the three primary germ layers, ectoderm, mesoderm and endoderm." [GOC:curators, ISBN:9780878933846] subset: goslim_drosophila xref: Wikipedia:Gastrulation +is_a: BFO:0000003 is_a: GO:0048598 ! embryonic morphogenesis relationship: has_part GO:0001705 ! ectoderm formation relationship: has_part GO:0001706 ! endoderm formation @@ -51963,6 +53141,7 @@ id: GO:0007378 name: amnioserosa formation namespace: biological_process def: "Formation of the amnioserosa, an epithelium that occupies a hole in the embryonic dorsal epidermis. This occurs by the transformation of a narrow strip of cells at the dorsal midline of the blastoderm from columnar to squamous cells, accompanied by a lateral shift." [ISBN:0879694238] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0010302 ! amnioserosa @@ -52009,6 +53188,7 @@ namespace: biological_process alt_id: GO:0043349 alt_id: GO:0043350 def: "The expansion of a neuroblast population by cell division. A neuroblast is any cell that will divide and give rise to a neuron." [GOC:ai, GOC:mtg_sensu, GOC:sart] +is_a: BFO:0000003 is_a: GO:0061351 ! neural precursor cell proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000031 ! neuroblast (sensu Vertebrata) @@ -52041,6 +53221,7 @@ namespace: biological_process alt_id: GO:0043351 alt_id: GO:0043352 def: "A change in the morphology or behavior of a neuroblast resulting from exposure to an activating factor such as a cellular or soluble ligand." [GOC:go_curators, GOC:mtg_sensu] +is_a: BFO:0000003 is_a: GO:0001775 ! cell activation intersection_of: GO:0001775 ! cell activation intersection_of: has_primary_input CL:0000031 ! neuroblast (sensu Vertebrata) @@ -52193,6 +53374,7 @@ id: GO:0007440 name: foregut morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the foregut are generated and organized." [GOC:jid] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001041 ! foregut @@ -52204,6 +53386,7 @@ id: GO:0007442 name: hindgut morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the hindgut are generated and organized." [GOC:jid] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001046 ! hindgut @@ -52242,6 +53425,7 @@ id: GO:0007446 name: imaginal disc growth namespace: biological_process def: "The increase in mass of imaginal discs by cell proliferation prior to metamorphosis. Imaginal discs are epithelial infoldings in the larvae of holometabolous insects that develop into adult structures (legs, antennae, wings, etc.) during metamorphosis from larval to adult form." [GOC:bf, GOC:jid, PMID:10679387] +is_a: BFO:0000003 is_a: GO:0048589 ! developmental growth intersection_of: GO:0048589 ! developmental growth intersection_of: results_in_growth_of UBERON:0000939 ! imaginal disc @@ -52318,6 +53502,7 @@ intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0007100 ! primary circulatory organ relationship: part_of GO:0072359 ! circulatory system development relationship: results_in_development_of UBERON:0007100 ! primary circulatory organ +property_value: RO:0002175 NCBITaxon:7227 [Term] id: GO:0007516 @@ -52563,6 +53748,7 @@ namespace: biological_process def: "The sequential process in which the multiple coagulation factors of the blood interact, ultimately resulting in the formation of an insoluble fibrin clot; it may be divided into three stages: stage 1, the formation of intrinsic and extrinsic prothrombin converting principle; stage 2, the formation of thrombin; stage 3, the formation of stable fibrin polymers." [PMID:30700128] synonym: "blood clotting" EXACT [] xref: Wikipedia:Coagulation +is_a: BFO:0000003 is_a: GO:0007599 ! hemostasis is_a: GO:0050817 ! coagulation intersection_of: GO:0050817 ! coagulation @@ -52637,7 +53823,7 @@ alt_id: GO:0044708 alt_id: GO:0044709 def: "The internally coordinated responses (actions or inactions) of animals (individuals or groups) to internal or external stimuli, via a mechanism that involves nervous system activity." [GOC:ems, GOC:jl, ISBN:0395448956, PMID:20160973] comment: 1. Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation reviews.\n2. While a broader definition of behavior encompassing plants and single cell organisms would be justified on the basis of some usage (see PMID:20160973 for discussion), GO uses a tight definition that limits behavior to animals and to responses involving the nervous system, excluding plant responses that GO classifies under development, and responses of unicellular organisms that has general classifications for covering the responses of cells in multicellular organisms (e.g. cell chemotaxis). -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_flybase_ribbon synonym: "behavioral response to stimulus" EXACT [] @@ -52756,6 +53942,7 @@ id: GO:0008066 name: glutamate receptor activity namespace: molecular_function def: "Combining with glutamate and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity." [GOC:ai, GOC:signaling] +is_a: BFO:0000003 is_a: GO:0004888 ! transmembrane signaling receptor activity intersection_of: GO:0038023 ! signaling receptor activity intersection_of: has_primary_input CHEBI:14321 @@ -52768,6 +53955,7 @@ name: mesodermal cell migration namespace: biological_process def: "The orderly movement of mesodermal cells from one site to another." [GOC:ascb_2009, GOC:dph, GOC:mah, GOC:sat, GOC:tb, PMID:25119047] synonym: "mesoderm cell migration" EXACT [] +is_a: BFO:0000003 is_a: GO:0001667 ! ameboidal-type cell migration intersection_of: GO:0016477 ! cell migration intersection_of: results_in_movement_of CL:0000222 ! mesodermal cell @@ -52851,6 +54039,7 @@ synonym: "channel localizer activity" NARROW [GOC:mah] synonym: "establishment and maintenance of asymmetric protein localization" RELATED [] synonym: "establishment and maintenance of protein localization" RELATED [] synonym: "protein localisation" EXACT [GOC:mah] +is_a: BFO:0000003 is_a: GO:0070727 ! cellular macromolecule localization intersection_of: GO:0051179 ! localization intersection_of: has_primary_input PR:000000001 ! protein @@ -52895,7 +54084,7 @@ synonym: "physiological process" EXACT [] synonym: "single organism process" RELATED [] synonym: "single-organism process" RELATED [] xref: Wikipedia:Biological_process -is_a: BFO:0000015 ! process +is_a: BFO:0000015 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24968" xsd:anyURI created_by: jl creation_date: 2012-09-19T15:05:24Z @@ -52908,11 +54097,13 @@ alt_id: GO:0044236 alt_id: GO:0044710 def: "The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation." [GOC:go_curators, ISBN:0198547684] comment: Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_prokaryote_ribbon synonym: "metabolic process resulting in cell growth" NARROW [] synonym: "metabolism" EXACT [] synonym: "metabolism resulting in cell growth" NARROW [] @@ -52921,6 +54112,7 @@ synonym: "single-organism metabolic process" RELATED [] xref: Wikipedia:Metabolism is_a: GO:0008150 ! biological_process disjoint_from: GO:0051179 ! localization +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI created_by: jl creation_date: 2012-10-17T15:46:40Z @@ -52940,6 +54132,7 @@ name: heparin binding namespace: molecular_function def: "Binding to heparin, a member of a group of glycosaminoglycans found mainly as an intracellular component of mast cells and which consist predominantly of alternating alpha-(1->4)-linked D-galactose and N-acetyl-D-glucosamine-6-sulfate residues." [GOC:jl, ISBN:0198506732] synonym: "heparan sulfate binding" RELATED [] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:24505 @@ -53136,7 +54329,7 @@ namespace: biological_process def: "The series of molecular signals generated as a consequence of the insulin receptor binding to insulin." [GOC:ceb] synonym: "daf-2 receptor signaling pathway" NARROW [] synonym: "insulin receptor signalling pathway" EXACT [] -is_a: GO:0007169 ! transmembrane receptor protein tyrosine kinase signaling pathway +is_a: GO:0007169 ! cell surface receptor protein tyrosine kinase signaling pathway relationship: part_of GO:0032869 ! cellular response to insulin stimulus relationship: RO:0002160 NCBITaxon:6072 ! only in taxon Eumetazoa relationship: RO:0002162 NCBITaxon:6072 {all_only="true"} ! in taxon Eumetazoa @@ -53150,13 +54343,17 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:18059 @@ -53168,6 +54365,7 @@ name: acetylcholine metabolic process namespace: biological_process def: "The chemical reactions and pathways involving acetylcholine, the acetic acid ester of the organic base choline. Acetylcholine is a major neurotransmitter and neuromodulator both in the central and peripheral nervous systems. It also acts as a paracrine signal in various non-neural tissues." [GOC:jl, GOC:nln, ISBN:0192800752] synonym: "acetylcholine metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:15355 @@ -53267,6 +54465,7 @@ namespace: biological_process alt_id: GO:0043359 def: "The orderly movement of a glial cell, non-neuronal cells that provide support and nutrition, maintain homeostasis, form myelin, and participate in signal transmission in the nervous system." [GOC:jl, GOC:mtg_sensu] synonym: "glia cell migration" EXACT [] +is_a: BFO:0000003 is_a: GO:0016477 ! cell migration intersection_of: GO:0016477 ! cell migration intersection_of: results_in_movement_of CL:0000125 ! glial cell @@ -53301,9 +54500,10 @@ name: germ cell migration namespace: biological_process def: "The orderly movement of a cell specialized to produce haploid gametes through the embryo from its site of production to the place where the gonads will form." [GOC:bf, GOC:jl] synonym: "germ-cell migration" EXACT [] +synonym: "pole cell migration" NARROW [] synonym: "primordial germ cell migration" RELATED [] +is_a: BFO:0000003 is_a: GO:0016477 ! cell migration -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism intersection_of: GO:0016477 ! cell migration intersection_of: results_in_movement_of CL:0000586 ! germ cell relationship: part_of GO:0007276 ! gamete generation @@ -53379,6 +54579,7 @@ alt_id: GO:0051739 def: "Enables the transfer of ammonium from one side of a membrane to the other. Ammonium is the cation NH4+ which is formed from N2 by root-nodule bacteria in leguminous plants and is an excretory product in ammonotelic animals." [PMID:17710640] synonym: "ammonia transmembrane transporter activity" RELATED [] synonym: "ammonium channel activity" RELATED [] +xref: MetaCyc:RXN-9615 xref: Reactome:R-HSA-444393 "RhCG mediates ammonium influx into kidney collecting duct cells" xref: Reactome:R-HSA-444416 "RHAG transports NH4+ from cytosol to extracellular region (red blood cells)" xref: Reactome:R-HSA-444419 "RhBG mediates ammonium effflux out of kidney collecting duct cells" @@ -53394,6 +54595,7 @@ relationship: has_participant CHEBI:28938 relationship: has_primary_input CHEBI:28938 relationship: part_of GO:0072488 ! ammonium transmembrane transport property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22368" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26941" xsd:anyURI [Term] id: GO:0008528 @@ -53492,6 +54694,7 @@ def: "The directed movement of carbohydrate into, out of or within a cell, or be subset: goslim_pir subset: goslim_yeast synonym: "sugar transport" NARROW [] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:16646 @@ -53518,6 +54721,25 @@ relationship: has_primary_input CHEBI:18133 created_by: bf creation_date: 2010-04-08T10:27:23Z +[Term] +id: GO:0008652 +name: amino acid biosynthetic process +namespace: biological_process +def: "The chemical reactions and pathways resulting in the formation of amino acids, organic acids containing one or more amino substituents." [ISBN:0198506732] +synonym: "amino acid anabolism" EXACT [] +synonym: "amino acid biosynthesis" EXACT [] +synonym: "amino acid formation" EXACT [] +synonym: "amino acid synthesis" EXACT [] +synonym: "cellular amino acid biosynthetic process" EXACT [] +xref: Wikipedia:Amino_acid_synthesis +is_a: GO:0006520 ! amino acid metabolic process +is_a: GO:0009058 ! biosynthetic process +intersection_of: GO:0009058 ! biosynthetic process +intersection_of: has_primary_output CHEBI:35238 +relationship: has_primary_output CHEBI:35238 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/17904" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27304" xsd:anyURI + [Term] id: GO:0009056 name: catabolic process @@ -53528,6 +54750,7 @@ def: "The chemical reactions and pathways resulting in the breakdown of substanc subset: goslim_agr subset: goslim_chembl subset: goslim_plant +subset: goslim_plant_ribbon synonym: "breakdown" EXACT [] synonym: "catabolism" EXACT [] synonym: "degradation" EXACT [] @@ -53570,6 +54793,7 @@ def: "The chemical reactions and pathways resulting in the formation of substanc subset: goslim_chembl subset: goslim_metagenomics subset: goslim_plant +subset: goslim_plant_ribbon synonym: "anabolism" EXACT [] synonym: "biosynthesis" EXACT [] synonym: "formation" BROAD [] @@ -53587,6 +54811,8 @@ name: macromolecule biosynthetic process namespace: biological_process alt_id: GO:0043284 def: "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "biopolymer biosynthetic process" EXACT [GOC:mtg_chebi_dec09] synonym: "macromolecule anabolism" EXACT [] @@ -53601,6 +54827,23 @@ intersection_of: has_primary_output CHEBI:33694 relationship: has_primary_output CHEBI:33694 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/15249" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25418" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI + +[Term] +id: GO:0009063 +name: amino acid catabolic process +namespace: biological_process +def: "The chemical reactions and pathways resulting in the breakdown of amino acids, organic acids containing one or more amino substituents." [GOC:ai] +synonym: "amino acid breakdown" EXACT [] +synonym: "amino acid catabolism" EXACT [] +synonym: "amino acid degradation" EXACT [] +synonym: "cellular amino acid catabolic process" EXACT [] +is_a: GO:0006520 ! amino acid metabolic process +is_a: GO:0009056 ! catabolic process +intersection_of: GO:0009056 ! catabolic process +intersection_of: has_primary_input CHEBI:35238 +relationship: has_primary_input CHEBI:35238 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/17904" xsd:anyURI [Term] id: GO:0009064 @@ -53633,6 +54876,7 @@ name: serine family amino acid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving amino acids of the serine family, comprising cysteine, glycine, homoserine, selenocysteine and serine." [GOC:ai] synonym: "serine family amino acid metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:26650 @@ -53689,6 +54933,7 @@ namespace: biological_process def: "The chemical reactions and pathways involving glycoproteins, a protein that contains covalently bound glycose (i.e. monosaccharide) residues; the glycose occurs most commonly as oligosaccharide or fairly small polysaccharide but occasionally as monosaccharide." [GOC:go_curators, ISBN:0198506732] subset: goslim_drosophila synonym: "glycoprotein metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:17089 @@ -53772,6 +55017,7 @@ subset: goslim_chembl subset: goslim_pir synonym: "amine metabolism" EXACT [] synonym: "cellular amine metabolic process" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:32952 @@ -53788,8 +55034,8 @@ synonym: "amine anabolism" EXACT [] synonym: "amine biosynthesis" EXACT [] synonym: "amine formation" EXACT [] synonym: "amine synthesis" EXACT [] +is_a: GO:0009058 ! biosynthetic process is_a: GO:0009308 ! amine metabolic process -is_a: GO:0044271 ! cellular nitrogen compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:32952 relationship: has_primary_output CHEBI:32952 @@ -53870,6 +55116,7 @@ name: response to light stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a light stimulus, electromagnetic radiation of wavelengths classified as infrared, visible or ultraviolet light." [GOC:go_curators, ISBN:0582227089] subset: goslim_plant +is_a: BFO:0000003 is_a: GO:0009314 ! response to radiation intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:30212 @@ -53945,6 +55192,7 @@ namespace: biological_process def: "The union of gametes of opposite sexes during the process of sexual reproduction to form a zygote. It involves the fusion of the gametic nuclei (karyogamy) and cytoplasm (plasmogamy)." [GOC:tb, ISBN:0198506732] synonym: "syngamy" EXACT [] xref: Wikipedia:Fertilisation +is_a: BFO:0000003 is_a: GO:0022414 ! reproductive process intersection_of: GO:0022414 ! reproductive process intersection_of: results_in_formation_of CL:0010017 ! zygote @@ -54033,7 +55281,7 @@ name: response to external stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an external stimulus." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_drosophila subset: goslim_plant synonym: "response to environmental stimulus" EXACT [] @@ -54045,7 +55293,7 @@ name: response to biotic stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a biotic stimulus, a stimulus caused or produced by a living organism." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_metagenomics subset: goslim_plant synonym: "response to biotic stress" NARROW [] @@ -54078,6 +55326,7 @@ alt_id: GO:0009618 alt_id: GO:0009680 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus from a bacterium." [GOC:hb] synonym: "response to bacteria" EXACT [] +is_a: BFO:0000003 is_a: GO:0051707 ! response to other organism intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input NCBITaxon:2 ! Bacteria @@ -54090,6 +55339,7 @@ namespace: biological_process alt_id: GO:0009621 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus from a fungus." [GOC:hb] synonym: "response to fungi" EXACT [] +is_a: BFO:0000003 is_a: GO:0051707 ! response to other organism intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input NCBITaxon:4751 ! Fungi @@ -54101,7 +55351,7 @@ name: response to abiotic stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an abiotic (not derived from living organisms) stimulus." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_metagenomics subset: goslim_plant synonym: "response to abiotic stress" NARROW [] @@ -54175,7 +55425,7 @@ name: response to endogenous stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus arising within the organism." [GOC:sm] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_plant is_a: GO:0050896 ! response to stimulus @@ -54188,6 +55438,8 @@ synonym: "growth regulator" RELATED [] synonym: "response to hormone stimulus" EXACT [GOC:dos] is_a: GO:0009719 ! response to endogenous stimulus is_a: GO:0010033 ! response to organic substance +property_value: RO:0002161 NCBITaxon:4751 +property_value: RO:0002161 NCBITaxon:4890 [Term] id: GO:0009743 @@ -54195,6 +55447,7 @@ name: response to carbohydrate namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a carbohydrate stimulus." [GOC:jl] synonym: "response to carbohydrate stimulus" EXACT [GOC:dos] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:16646 @@ -54206,6 +55459,7 @@ name: response to hexose namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a hexose stimulus." [GOC:jl] synonym: "response to hexose stimulus" EXACT [GOC:dos] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:18133 @@ -54217,10 +55471,11 @@ name: response to glucose namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a glucose stimulus." [GOC:jl] synonym: "response to glucose stimulus" EXACT [GOC:dos] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus -intersection_of: has_primary_input CHEBI:17234 -relationship: has_primary_input CHEBI:17234 +intersection_of: has_primary_input CHEBI:4167 +relationship: has_primary_input CHEBI:4167 [Term] id: GO:0009755 @@ -54230,6 +55485,7 @@ def: "The series of molecular signals mediated by the detection of a hormone." [ synonym: "hormone mediated signalling" EXACT [] is_a: GO:0007165 ! signal transduction relationship: part_of GO:0032870 ! cellular response to hormone stimulus +property_value: RO:0002161 NCBITaxon:4751 [Term] id: GO:0009786 @@ -54247,7 +55503,7 @@ name: embryo development namespace: biological_process alt_id: GO:0009795 def: "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant." [GOC:go_curators, GOC:isa_complete, GOC:mtg_sensu] -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_plant synonym: "embryogenesis" EXACT [] @@ -54312,11 +55568,14 @@ name: animal organ morphogenesis namespace: biological_process def: "Morphogenesis of an animal organ. An organ is defined as a tissue or set of tissues that work together to perform a specific function or functions. Morphogenesis is the process in which anatomical structures are generated and organized. Organs are commonly observed as visibly distinct structures, but may also exist as loosely associated clusters of cells that work together to perform a specific function or functions." [GOC:dgh, GOC:go_curators, ISBN:0471245208, ISBN:0721662544] synonym: "histogenesis and organogenesis" BROAD [] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000062 ! organ relationship: part_of GO:0048513 ! animal organ development relationship: results_in_morphogenesis_of UBERON:0000062 ! organ +relationship: RO:0002160 NCBITaxon:6072 ! only in taxon Eumetazoa +relationship: RO:0002162 NCBITaxon:6072 {all_only="true"} ! in taxon Eumetazoa [Term] id: GO:0009888 @@ -54616,7 +55875,6 @@ namespace: biological_process def: "The process in which a relatively unspecialized immature germ cell acquires the specialized features of a mature female gamete." [GOC:go_curators, GOC:mtg_sensu] synonym: "oocyte cell differentiation" EXACT [] is_a: GO:0003006 ! developmental process involved in reproduction -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000023 ! oocyte @@ -54678,11 +55936,14 @@ name: response to organic substance namespace: biological_process alt_id: GO:1990367 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an organic substance stimulus." [GOC:sm, PMID:23356676] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate synonym: "process resulting in tolerance to organic substance" NARROW [] is_a: GO:0042221 ! response to chemical intersection_of: GO:0042221 ! response to chemical intersection_of: has_primary_input CHEBI:50860 relationship: has_primary_input CHEBI:50860 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27194" xsd:anyURI [Term] id: GO:0010035 @@ -54700,6 +55961,7 @@ name: response to iron ion namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an iron ion stimulus." [GOC:sm] synonym: "response to iron" EXACT [] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:24875 @@ -54711,6 +55973,7 @@ name: zygote asymmetric cell division namespace: biological_process def: "The division of the zygote into two daughter cells that will adopt developmentally distinct potentials." [GOC:tb] synonym: "zygote asymmetric cytokinesis" RELATED [] +is_a: BFO:0000003 is_a: GO:0008356 ! asymmetric cell division intersection_of: GO:0008356 ! asymmetric cell division intersection_of: has_primary_input CL:0000365 ! animal zygote @@ -54726,6 +55989,16 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0015979 ! photosynthesis relationship: regulates GO:0015979 ! photosynthesis +[Term] +id: GO:0010155 +name: regulation of proton transport +namespace: biological_process +def: "Any process that modulates the frequency, rate or extent of proton transport into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:sm] +is_a: GO:0034762 ! regulation of transmembrane transport +intersection_of: GO:0065007 ! biological regulation +intersection_of: regulates GO:1902600 ! proton transmembrane transport +relationship: regulates GO:1902600 ! proton transmembrane transport + [Term] id: GO:0010160 name: formation of animal organ boundary @@ -54745,6 +56018,7 @@ id: GO:0010171 name: body morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the soma are generated and organized." [GOC:ems, ISBN:0140512888] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000468 ! multicellular organism @@ -54763,11 +56037,15 @@ id: GO:0010243 name: response to organonitrogen compound namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an organonitrogen stimulus. An organonitrogen compound is formally a compound containing at least one carbon-nitrogen bond." [PMID:9869419] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate synonym: "response to organic nitrogen" EXACT [] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:35352 relationship: has_primary_input CHEBI:35352 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27194" xsd:anyURI [Term] id: GO:0010256 @@ -54832,6 +56110,7 @@ id: GO:0010456 name: cell proliferation in dorsal spinal cord namespace: biological_process def: "The multiplication or reproduction of cells, resulting in the expansion of the dorsal spinal cord cell population." [GOC:dph, GOC:tb] +is_a: BFO:0000003 is_a: GO:0061351 ! neural precursor cell proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: occurs_in UBERON:0002256 ! dorsal horn of spinal cord @@ -54842,6 +56121,7 @@ id: GO:0010463 name: mesenchymal cell proliferation namespace: biological_process def: "The multiplication or reproduction of cells, resulting in the expansion of a mesenchymal cell population. A mesenchymal cell is a cell that normally gives rise to other cells that are organized as three-dimensional masses, rather than sheets." [GOC:dph, GOC:tb] +is_a: BFO:0000003 is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0008019 ! mesenchymal cell @@ -54874,6 +56154,8 @@ name: regulation of gene expression namespace: biological_process def: "Any process that modulates the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product (protein or RNA)." [GOC:txnOH-2018] comment: This class covers any process that regulates the rate of production of a mature gene product, and so includes processes that regulate that rate by regulating the level, stability or availability of intermediates in the process of gene expression. For example, it covers any process that regulates the level, stability or availability of mRNA or circRNA for translation and thereby regulates the rate of production of the encoded protein via translation. +subset: goslim_euk_cellular_processes_ribbon +subset: goslim_plant_ribbon synonym: "gene regulation" RELATED [GOC:cjm] synonym: "regulation of gene product expression" RELATED [] synonym: "regulation of protein expression" NARROW [] @@ -54915,6 +56197,7 @@ name: epidermal cell division namespace: biological_process def: "Any process resulting in the physical partitioning and separation of an epidermal cell, any of the cells making up the epidermis, into daughter cells." [PMID:17450124] synonym: "hypodermal cell division" RELATED [GOC:kmv, GOC:rk] +is_a: BFO:0000003 is_a: GO:0051301 ! cell division intersection_of: GO:0051301 ! cell division intersection_of: has_primary_input CL:0000362 ! epidermal cell @@ -54939,6 +56222,7 @@ alt_id: GO:1902585 def: "The movement of substances between cells." [GOC:dhl] synonym: "single organism intercellular transport" RELATED [GOC:TermGenie] synonym: "single-organism intercellular transport" RELATED [] +is_a: BFO:0000003 is_a: GO:0006810 ! transport is_a: GO:0009987 ! cellular process intersection_of: GO:0006810 ! transport @@ -55311,6 +56595,7 @@ id: GO:0010631 name: epithelial cell migration namespace: biological_process def: "The orderly movement of an epithelial cell from one site to another, often during the development of a multicellular organism." [GOC:ascb_2009, GOC:BHF, GOC:dph, GOC:tb] +is_a: BFO:0000003 is_a: GO:0001667 ! ameboidal-type cell migration intersection_of: GO:0016477 ! cell migration intersection_of: results_in_movement_of CL:0000066 ! epithelial cell @@ -55839,6 +57124,7 @@ name: fibroblast migration namespace: biological_process def: "Cell migration that is accomplished by extension and retraction of a fibroblast pseudopodium. A fibroblast is a connective tissue cell which secretes an extracellular matrix rich in collagen and other macromolecules." [GOC:BHF, GOC:dph, GOC:tb] synonym: "fibroblast cell migration" EXACT [GOC:dph] +is_a: BFO:0000003 is_a: GO:0001667 ! ameboidal-type cell migration intersection_of: GO:0016477 ! cell migration intersection_of: results_in_movement_of CL:0000057 ! fibroblast @@ -55908,6 +57194,7 @@ id: GO:0010816 name: calcitonin catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of the peptide calcitonin." [GOC:BHF, GOC:rl] +is_a: BFO:0000003 is_a: GO:0042447 ! hormone catabolic process intersection_of: GO:0009056 ! catabolic process intersection_of: has_primary_input CHEBI:3306 @@ -56059,6 +57346,7 @@ namespace: biological_process def: "The process in which the vertebrate retina is organized into three laminae: the outer nuclear layer (ONL), which contains photoreceptor nuclei; the inner nuclear layer (INL), which contains amacrine, bipolar and horizontal cells; and the retinal ganglion cell (RGC) layer. Between the inner and outer nuclear layers, the outer plexiform layer (OPL) contains connections between the photoreceptors and bipolar and horizontal cells. The inner plexiform layer (IPL) is positioned between the INL and the ganglion cell layer and contains the dendrites of RGCs and processes of bipolar and amacrine cells. Spanning all layers of the retina are the radially oriented Mueller glia." [GOC:ascb_2009, GOC:dph, GOC:tb, PMID:1270266] synonym: "retinal lamination" EXACT [GOC:dph, GOC:tb] synonym: "retinal layer formation" EXACT [GOC:dph, GOC:tb] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0001781 ! layer of retina @@ -56072,6 +57360,7 @@ name: lipid localization namespace: biological_process def: "Any process in which a lipid is transported to, or maintained in, a specific location." [GOC:BHF, GOC:dph, GOC:tb] synonym: "lipid localisation" EXACT [GOC:mah] +is_a: BFO:0000003 is_a: GO:0033036 ! macromolecule localization intersection_of: GO:0033036 ! macromolecule localization intersection_of: has_primary_input CHEBI:18059 @@ -56151,6 +57440,7 @@ id: GO:0010931 name: macrophage tolerance induction namespace: biological_process def: "A process involving any mechanism for tolerance induction in macrophages." [GOC:BHF, GOC:dph, GOC:tb] +is_a: BFO:0000003 is_a: GO:0002507 ! tolerance induction intersection_of: GO:0002507 ! tolerance induction intersection_of: occurs_in CL:0000235 ! macrophage @@ -56389,9 +57679,11 @@ comment: Note that this term should be used to annotate gene products in the org subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote synonym: "caspase-independent apoptosis" RELATED [] synonym: "caspase-independent cell death" NARROW [] @@ -56401,6 +57693,7 @@ synonym: "PCD" RELATED [] synonym: "RCD" RELATED [] synonym: "regulated cell death" BROAD [] xref: Wikipedia:Programmed_cell_death +is_a: BFO:0000003 is_a: GO:0008219 ! cell death intersection_of: GO:0008219 ! cell death intersection_of: starts_with GO:0007165 ! signal transduction @@ -56535,6 +57828,7 @@ name: glial cell proliferation namespace: biological_process def: "The multiplication or reproduction of glial cells by cell division, resulting in the expansion of their population. Glial cells exist throughout the nervous system, and include Schwann cells, astrocytes, and oligodendrocytes among others." [GOC:ef, ISBN:0878932585] synonym: "glia proliferation" EXACT [] +is_a: BFO:0000003 is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000125 ! glial cell @@ -56631,6 +57925,7 @@ id: GO:0014023 name: neural rod formation namespace: biological_process def: "The formation of a solid rod of neurectoderm derived from the neural keel. The neural rod is roughly circular in cross section. Neural rod formation occurs during primary neurulation in teleosts." [GOC:dh, GOC:ef] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0005068 ! neural rod @@ -56644,6 +57939,7 @@ id: GO:0014025 name: neural keel formation namespace: biological_process def: "The formation of a thickened region of the neurectoderm that is roughly triangular in cross section. The neural keel develops from the neural plate and develops into the neural rod. Neural keel formation occurs during primary neurulation in teleosts." [GOC:dh, GOC:ef] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0007135 ! neural keel @@ -56655,6 +57951,7 @@ id: GO:0014028 name: notochord formation namespace: biological_process def: "The formation of the notochord from the chordamesoderm. The notochord is composed of large cells packed within a firm connective tissue sheath and is found in all chordates at the ventral surface of the neural tube. In vertebrates, the notochord contributes to the vertebral column." [GOC:dh, GOC:ef] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002328 ! notochord @@ -57075,6 +58372,7 @@ name: response to organic cyclic compound namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an organic cyclic compound stimulus." [GOC:ef] synonym: "response to organic cyclic substance" EXACT [GOC:mah] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:33832 @@ -57086,6 +58384,7 @@ name: response to amine namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an amine stimulus. An amine is a compound formally derived from ammonia by replacing one, two or three hydrogen atoms by hydrocarbyl groups." [GOC:ef] synonym: "response to amine stimulus" EXACT [GOC:dos] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:32952 @@ -57184,6 +58483,7 @@ id: GO:0014719 name: skeletal muscle satellite cell activation namespace: biological_process def: "The change of a skeletal muscle satellite cell from a mitotically quiescent to a mitotically active state following exposure to some activating factor such as a cellular or soluble ligand. In adult muscle, satellite cells become activated to divide and differentiate in response to muscle damage." [GOC:mtg_muscle, PMID:23303905] +is_a: BFO:0000003 is_a: GO:0001775 ! cell activation intersection_of: GO:0001775 ! cell activation intersection_of: has_primary_input CL:0008012 ! quiescent skeletal muscle satellite cell @@ -57309,6 +58609,7 @@ id: GO:0014812 name: muscle cell migration namespace: biological_process def: "The orderly movement of a muscle cell from one site to another, often during the development of a multicellular organism." [CL:0000187, GOC:mtg_muscle] +is_a: BFO:0000003 is_a: GO:0016477 ! cell migration intersection_of: GO:0016477 ! cell migration intersection_of: results_in_movement_of CL:0000187 ! muscle cell @@ -57385,6 +58686,7 @@ def: "Any process by which the number of skeletal muscle satellite cells in a sk synonym: "satellite cell compartment self-renewal involved in skeletal muscle regeneration" EXACT [GOC:dph, GOC:tb] synonym: "satellite cell population maintenance" EXACT [] synonym: "satellite cell self-renewal" BROAD [] +is_a: BFO:0000003 is_a: GO:0098727 ! maintenance of cell number intersection_of: GO:0098727 ! maintenance of cell number intersection_of: acts_on_population_of CL:0000594 ! skeletal muscle satellite cell @@ -57557,6 +58859,7 @@ id: GO:0014872 name: myoblast division namespace: biological_process def: "The process resulting in the physical partitioning and separation of a myoblast into daughter cells. A myoblast is a mononucleate cell type that, by fusion with other myoblasts, gives rise to the myotubes that eventually develop into skeletal muscle fibers." [CL:0000056, GOC:ef, GOC:mtg_muscle] +is_a: BFO:0000003 is_a: GO:0051301 ! cell division intersection_of: GO:0051301 ! cell division intersection_of: has_primary_input CL:0000056 ! myoblast @@ -57568,6 +58871,7 @@ name: response to stimulus involved in regulation of muscle adaptation namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. This occurs as part of the regulation of muscle adaptation." [GOC:ef, GOC:mtg_muscle] synonym: "response to stimulus involved in regulation of muscle plasticity" RELATED [] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: part_of GO:0043502 ! regulation of muscle adaptation @@ -57632,6 +58936,7 @@ name: muscle hypertrophy namespace: biological_process def: "The muscle system process that results in enlargement or overgrowth of all or part of a muscle organ due to an increase in the size of its muscle cells. Physiological hypertrophy is a normal process during development (it stops in cardiac muscle after adolescence) and can also be brought on in response to demand. In athletes cardiac and skeletal muscles undergo hypertrophy stimulated by increasing muscle activity on exercise. Smooth muscle cells in the uterus undergo hypertrophy during pregnancy." [GOC:mtg_muscle] xref: Wikipedia:Muscle_hypertrophy +is_a: BFO:0000003 is_a: GO:0003012 ! muscle system process relationship: occurs_in UBERON:0002385 ! muscle tissue @@ -57767,11 +59072,32 @@ relationship: has_primary_input CHEBI:24867 relationship: part_of GO:0034220 ! monoatomic ion transmembrane transport property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24479" xsd:anyURI +[Term] +id: GO:0015078 +name: proton transmembrane transporter activity +namespace: molecular_function +def: "Enables the transfer of a proton from one side of a membrane to the other." [GOC:ai] +synonym: "hydrogen ion transmembrane transporter activity" EXACT [] +synonym: "proton transporter activity" EXACT [] +xref: Reactome:R-HSA-1222516 "Intraphagosomal pH is lowered to 5 by V-ATPase" +xref: Reactome:R-HSA-164834 "Enzyme-bound ATP is released" +xref: Reactome:R-HSA-168313 "Virion-associated M2 protein mediated ion infusion" +xref: Reactome:R-HSA-170026 "Protons are translocated from the intermembrane space to the matrix" +xref: Reactome:R-HSA-74723 "Endosome acidification" +xref: Reactome:R-HSA-917841 "Acidification of Tf:TfR1 containing endosome" +is_a: GO:0022857 ! transmembrane transporter activity +intersection_of: GO:0005215 ! transporter activity +intersection_of: has_primary_input CHEBI:15378 +intersection_of: results_in_transport_across GO:0016020 ! membrane +relationship: has_primary_input CHEBI:15378 +relationship: part_of GO:1902600 ! proton transmembrane transport + [Term] id: GO:0015085 name: calcium ion transmembrane transporter activity namespace: molecular_function def: "Enables the transfer of calcium (Ca) ions from one side of a membrane to the other." [GOC:dgf, RHEA:29671] +xref: MetaCyc:TRANS-RXN-144 xref: Reactome:R-HSA-2534359 "CatSper Channel Mediated Calcium Transport" xref: RHEA:29671 is_a: GO:0022857 ! transmembrane transporter activity @@ -57780,12 +59106,14 @@ intersection_of: has_primary_input CHEBI:29108 relationship: has_participant CHEBI:29108 relationship: has_primary_input CHEBI:29108 relationship: part_of GO:0070588 ! calcium ion transmembrane transport +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26941" xsd:anyURI [Term] id: GO:0015106 name: bicarbonate transmembrane transporter activity namespace: molecular_function def: "Enables the transfer of bicarbonate from one side of a membrane to the other. Bicarbonate is the hydrogencarbonate ion, HCO3-." [GOC:ai] +synonym: "hydrogencarbonate transmembrane transporter activity" EXACT [] xref: Reactome:R-HSA-2752067 "BESTs transport cytosolic HCO3- to extracellular region" xref: RHEA:28695 is_a: GO:0022857 ! transmembrane transporter activity @@ -57794,6 +59122,7 @@ intersection_of: has_primary_input CHEBI:17544 relationship: has_participant CHEBI:17544 relationship: has_primary_input CHEBI:17544 relationship: part_of GO:0015701 ! bicarbonate transport +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26780" xsd:anyURI [Term] id: GO:0015125 @@ -57909,8 +59238,8 @@ xref: Reactome:R-HSA-888592 "Loading of GABA into clathrin sculpted GABA transpo xref: Reactome:R-HSA-8952726 "SLC38A9 transports L-Arg from lysosomal lumen to cytosol" is_a: GO:0022857 ! transmembrane transporter activity intersection_of: GO:0022857 ! transmembrane transporter activity -intersection_of: has_primary_input CHEBI:33709 -relationship: has_primary_input CHEBI:33709 +intersection_of: has_primary_input CHEBI:35238 +relationship: has_primary_input CHEBI:35238 relationship: part_of GO:0003333 ! amino acid transmembrane transport [Term] @@ -57994,6 +59323,7 @@ name: water channel activity namespace: molecular_function def: "Transport systems of this type enable facilitated diffusion of water (by an energy-independent process) by passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism." [GOC:mtg_transport, ISBN:0815340729] synonym: "aquaporin" NARROW [] +xref: MetaCyc:TRANS-RXN-145 xref: Reactome:R-HSA-432010 "Aquaporin-1 passively transports water into cell" xref: Reactome:R-HSA-432054 "Aquaporin-1 passively transports water out of cell" xref: Reactome:R-HSA-432065 "p-S256-Aquaporin-2 passively transports water into cell" @@ -58007,6 +59337,22 @@ is_a: GO:0015267 ! channel activity intersection_of: GO:0015267 ! channel activity intersection_of: has_primary_input CHEBI:15377 relationship: has_participant CHEBI:15377 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26941" xsd:anyURI + +[Term] +id: GO:0015252 +name: proton channel activity +namespace: molecular_function +def: "Enables the facilitated diffusion of a hydrogen ion (by an energy-independent process) involving passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism." [GOC:mtg_transport, GOC:pr, ISBN:0815340729] +synonym: "hydrogen ion channel activity" EXACT [] +xref: Reactome:R-HSA-9729542 "OTOP1 transports H+ from the extracellular region to the cytosol" +xref: RHEA:34979 {source="skos:broadMatch"} +is_a: GO:0005216 ! monoatomic ion channel activity +is_a: GO:0015078 ! proton transmembrane transporter activity +intersection_of: GO:0005216 ! monoatomic ion channel activity +intersection_of: has_primary_input CHEBI:15378 +relationship: has_participant CHEBI:15378 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27278" xsd:anyURI [Term] id: GO:0015267 @@ -58108,6 +59454,7 @@ id: GO:0015671 name: oxygen transport namespace: biological_process def: "The directed movement of oxygen (O2) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] +is_a: BFO:0000003 is_a: GO:0015669 ! gas transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:15379 @@ -58118,10 +59465,13 @@ id: GO:0015701 name: bicarbonate transport namespace: biological_process def: "The directed movement of bicarbonate into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:krc] +synonym: "hydrogencarbonate transport" EXACT [] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:17544 relationship: has_primary_input CHEBI:17544 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26780" xsd:anyURI [Term] id: GO:0015718 @@ -58152,6 +59502,7 @@ id: GO:0015774 name: polysaccharide transport namespace: biological_process def: "The directed movement of polysaccharides into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. A polysaccharide is a polymer of many (typically more than 10) monosaccharide residues linked glycosidically." [GOC:ai] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:18154 @@ -58188,6 +59539,7 @@ comment: See also the biological process term 'neurotransmitter transport ; GO:0 synonym: "4-aminobutanoate transport" EXACT [] synonym: "4-aminobutyrate transport" EXACT [] synonym: "GABA transport" EXACT [] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:59888 @@ -58198,7 +59550,7 @@ id: GO:0015813 name: L-glutamate transmembrane transport namespace: biological_process alt_id: GO:0089711 -def: "The directed movement of L-glutamate across a membrane." [PMID:21307582] +def: "The directed movement of L-glutamate across a membrane by means of some agent such as a transporter or a pore." [PMID:21307582] synonym: "L-glutamate transport" BROAD [] synonym: "mitochondrial aspartate/glutamate transport" RELATED [] is_a: GO:0003333 ! amino acid transmembrane transport @@ -58226,8 +59578,8 @@ subset: goslim_pir is_a: GO:0042886 ! amide transport is_a: GO:0071702 ! organic substance transport intersection_of: GO:0006810 ! transport -intersection_of: has_primary_input CHEBI:16670 -relationship: has_primary_input CHEBI:16670 +intersection_of: has_primary_input CHEBI:60466 +relationship: has_primary_input CHEBI:60466 [Term] id: GO:0015837 @@ -58236,6 +59588,7 @@ namespace: biological_process def: "The directed movement of amines, including polyamines, organic compounds containing one or more amino groups, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai, ISBN:0198506732] subset: goslim_pir synonym: "amine/polyamine transport" RELATED [] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:32952 @@ -58247,6 +59600,7 @@ name: organic acid transport namespace: biological_process def: "The directed movement of organic acids, any acidic compound containing carbon in covalent linkage, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [ISBN:0198506732] subset: goslim_pir +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:64709 @@ -58268,6 +59622,7 @@ id: GO:0015866 name: ADP transport namespace: biological_process def: "The directed movement of ADP, adenosine diphosphate, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:456216 @@ -58278,6 +59633,7 @@ id: GO:0015867 name: ATP transport namespace: biological_process def: "The directed movement of ATP, adenosine triphosphate, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:30616 @@ -58301,6 +59657,7 @@ id: GO:0015870 name: acetylcholine transport namespace: biological_process def: "The directed movement of acetylcholine into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Acetylcholine is an acetic acid ester of the organic base choline and functions as a neurotransmitter, released at the synapses of parasympathetic nerves and at neuromuscular junctions." [GOC:ai] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:15355 @@ -58311,6 +59668,7 @@ id: GO:0015872 name: dopamine transport namespace: biological_process def: "The directed movement of dopamine into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Dopamine is a catecholamine neurotransmitter and a metabolic precursor of noradrenaline and adrenaline." [GOC:ai] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:59905 @@ -58336,6 +59694,7 @@ def: "The directed movement of nucleobases, nucleosides, nucleotides and nucleic subset: goslim_pir subset: goslim_yeast synonym: "nucleobase, nucleoside, nucleotide and nucleic acid transport" RELATED [GOC:dph, GOC:tb] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:61120 @@ -58363,7 +59722,9 @@ subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon xref: Wikipedia:Photosynthesis is_a: GO:0044237 ! cellular metabolic process property_value: RO:0002161 NCBITaxon:33208 @@ -58431,16 +59792,19 @@ namespace: biological_process alt_id: GO:0044235 alt_id: GO:0071842 def: "A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:ai, GOC:jl, GOC:mah] +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cell organisation" EXACT [] synonym: "cell organization and biogenesis" RELATED [GOC:mah] synonym: "cellular component organisation at cellular level" EXACT [GOC:mah] synonym: "cellular component organisation in other organism" EXACT [GOC:mah] synonym: "cellular component organization at cellular level" EXACT [] synonym: "cellular component organization in other organism" EXACT [] +is_a: BFO:0000003 is_a: GO:0071840 ! cellular component organization or biogenesis intersection_of: GO:0009987 ! cellular process intersection_of: results_in_organization_of GO:0005575 ! cellular_component @@ -58475,6 +59839,7 @@ synonym: "metabolic process resulting in cell growth" RELATED [] synonym: "metabolism resulting in cell growth" RELATED [] synonym: "non-developmental cell growth" RELATED [GOC:mah] synonym: "non-developmental growth of a unicellular organism" RELATED [GOC:mah] +is_a: BFO:0000003 is_a: GO:0009987 ! cellular process is_a: GO:0040007 ! growth intersection_of: GO:0040007 ! growth @@ -58594,10 +59959,12 @@ namespace: biological_process def: "The cellular chemical reactions and pathways involving RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage." [ISBN:0198506732] subset: goslim_agr subset: goslim_candida +subset: goslim_euk_cellular_processes_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_prokaryote synonym: "RNA metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:33697 @@ -58628,6 +59995,7 @@ def: "A cellular transport process in which transported substances are moved in subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pir subset: goslim_pombe @@ -58664,6 +60032,7 @@ subset: goslim_chembl subset: goslim_drosophila subset: goslim_metagenomics subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "phosphokinase activity" EXACT [] xref: Reactome:R-HSA-6788855 "FN3KRP phosphorylates PsiAm, RibAm" @@ -58675,10 +60044,12 @@ id: GO:0016310 name: phosphorylation namespace: biological_process def: "The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide." [ISBN:0198506732] +subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_metagenomics xref: Wikipedia:Phosphorylation is_a: GO:0006796 ! phosphate-containing compound metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI [Term] id: GO:0016319 @@ -58696,7 +60067,6 @@ id: GO:0016321 name: female meiosis chromosome segregation namespace: biological_process def: "The cell cycle process in which genetic material, in the form of chromosomes, is organized and then physically separated and apportioned to two or more sets during the meiotic cell cycle in a female." [GOC:ai] -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0045132 ! meiotic chromosome segregation intersection_of: GO:0098813 ! nuclear chromosome segregation intersection_of: part_of GO:0007143 ! female meiotic nuclear division @@ -58709,7 +60079,6 @@ namespace: biological_process alt_id: GO:0048130 def: "Formation and maintenance of a polarized microtubule array originating from a microtubule-organizing center (MTOC) in the oocyte. An example of this is found in Drosophila melanogaster." [GOC:mtg_sensu, PMID:11231123] synonym: "oocyte microtubule cytoskeleton organisation" EXACT [] -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0030951 ! establishment or maintenance of microtubule cytoskeleton polarity intersection_of: GO:0016043 ! cellular component organization intersection_of: occurs_in CL:0000023 ! oocyte @@ -58742,6 +60111,7 @@ name: somatic cell DNA recombination namespace: biological_process def: "Recombination occurring within or between DNA molecules in somatic cells." [GOC:ma] is_a: GO:0006310 ! DNA recombination +property_value: RO:0002161 NCBITaxon:4751 [Term] id: GO:0016445 @@ -58858,6 +60228,7 @@ def: "Binding to glycine, aminoethanoic acid." [GOC:ai] synonym: "aminoacetic acid binding" EXACT [] synonym: "aminoethanoic acid binding" EXACT [] synonym: "Gly binding" EXACT [] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:57305 @@ -58869,6 +60240,7 @@ name: glutamate binding namespace: molecular_function def: "Binding to glutamate, the anion of 2-aminopentanedioic acid." [GOC:ai] synonym: "glutamic acid binding" EXACT [] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:14321 @@ -58881,10 +60253,11 @@ namespace: molecular_function def: "Binding to an amino acid, organic acids containing one or more amino substituents." [GOC:ai] subset: goslim_metagenomics subset: goslim_pir +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding -intersection_of: has_primary_input CHEBI:33709 -relationship: has_primary_input CHEBI:33709 +intersection_of: has_primary_input CHEBI:35238 +relationship: has_primary_input CHEBI:35238 [Term] id: GO:0016740 @@ -58998,6 +60371,7 @@ synonym: "GABA binding" EXACT [] synonym: "gamma-aminobutyrate binding" EXACT [] synonym: "gamma-aminobutyric acid binding" EXACT [] synonym: "gamma-aminobutyric acid receptor activity" EXACT [] +is_a: BFO:0000003 is_a: GO:0004888 ! transmembrane signaling receptor activity intersection_of: GO:0038023 ! signaling receptor activity intersection_of: has_primary_input CHEBI:59888 @@ -59022,11 +60396,31 @@ name: peptide hormone binding namespace: molecular_function def: "Binding to a peptide with hormonal activity in animals." [GOC:jl, ISBN:0198506732] synonym: "polypeptide hormone binding" EXACT [] +is_a: BFO:0000003 is_a: GO:0042562 ! hormone binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:25905 relationship: has_primary_input CHEBI:25905 +[Term] +id: GO:0017053 +name: transcription repressor complex +namespace: cellular_component +alt_id: GO:0090568 +alt_id: GO:0090569 +def: "A protein complex that possesses activity that prevents or downregulates transcription." [GOC:mah] +subset: goslim_pir +synonym: "cytoplasmic transcriptional repressor complex" RELATED [] +synonym: "nuclear transcriptional repressor complex" RELATED [] +synonym: "transcription factor inhibitor complex" EXACT [GOC:bhm] +synonym: "transcriptional repressor complex" EXACT [] +is_a: GO:0005667 ! transcription regulator complex +intersection_of: GO:0032991 ! protein-containing complex +intersection_of: capable_of GO:0001217 ! DNA-binding transcription repressor activity +relationship: capable_of GO:0001217 ! DNA-binding transcription repressor activity +created_by: tb +creation_date: 2014-05-09T13:23:51Z + [Term] id: GO:0017126 name: nucleologenesis @@ -59046,6 +60440,7 @@ name: stem cell division namespace: biological_process def: "The self-renewing division of a stem cell. A stem cell is an undifferentiated cell, in the embryo or adult, that can undergo unlimited division and give rise to one or several different cell types." [GOC:jid, ISBN:0582227089] synonym: "stem cell renewal" EXACT [] +is_a: BFO:0000003 is_a: GO:0051301 ! cell division intersection_of: GO:0051301 ! cell division intersection_of: has_primary_input CL:0000034 ! stem cell @@ -59096,21 +60491,6 @@ xref: RESID:AA0039 is_a: GO:0006468 ! protein phosphorylation is_a: GO:0018212 ! peptidyl-tyrosine modification -[Term] -id: GO:0018130 -name: heterocycle biosynthetic process -namespace: biological_process -def: "The chemical reactions and pathways resulting in the formation of heterocyclic compounds, those with a cyclic molecular structure and at least two different atoms in the ring (or rings)." [ISBN:0198547684] -synonym: "heterocycle anabolism" EXACT [] -synonym: "heterocycle biosynthesis" EXACT [] -synonym: "heterocycle formation" EXACT [] -synonym: "heterocycle synthesis" EXACT [] -is_a: GO:0044249 ! cellular biosynthetic process -is_a: GO:0046483 ! heterocycle metabolic process -intersection_of: GO:0009058 ! biosynthetic process -intersection_of: has_primary_output CHEBI:5686 -relationship: has_primary_output CHEBI:5686 - [Term] id: GO:0018146 name: keratan sulfate biosynthetic process @@ -59159,7 +60539,6 @@ synonym: "hydroxybenzene metabolic process" EXACT [] synonym: "hydroxybenzene metabolism" EXACT [] synonym: "phenol-containing compound metabolism" EXACT [] xref: UM-BBD_pathwayID:phe -is_a: GO:0006725 ! cellular aromatic compound metabolic process is_a: GO:1901360 ! organic cyclic compound metabolic process is_a: GO:1901615 ! organic hydroxy compound metabolic process intersection_of: GO:0008152 ! metabolic process @@ -59180,10 +60559,9 @@ synonym: "reproductive behavior in a multicellular organism" EXACT [] synonym: "reproductive behaviour" EXACT [] synonym: "single-organism reproductive behavior" RELATED [] is_a: GO:0007610 ! behavior -is_a: GO:0022414 ! reproductive process +is_a: GO:0048609 ! multicellular organismal reproductive process intersection_of: GO:0007610 ! behavior -intersection_of: part_of GO:0032504 ! multicellular organism reproduction -relationship: part_of GO:0032504 ! multicellular organism reproduction +intersection_of: GO:0048609 ! multicellular organismal reproductive process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23491" xsd:anyURI created_by: jl creation_date: 2012-09-19T16:01:37Z @@ -59203,6 +60581,7 @@ id: GO:0019215 name: intermediate filament binding namespace: molecular_function def: "Binding to an intermediate filament, a distinct elongated structure, characteristically 10 nm in diameter, that occurs in the cytoplasm of higher eukaryotic cells. Intermediate filaments form a fibrous system, composed of chemically heterogeneous subunits and involved in mechanically integrating the various components of the cytoplasmic space." [ISBN:0198506732] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input GO:0005882 ! intermediate filament @@ -59237,8 +60616,6 @@ namespace: biological_process def: "Any cellular process that modulates the frequency, rate or extent of the chemical reactions and pathways involving nucleobases, nucleosides, nucleotides and nucleic acids." [GOC:go_curators] synonym: "regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" RELATED [GOC:dph, GOC:tb] synonym: "regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolism" EXACT [] -is_a: GO:0031323 ! regulation of cellular metabolic process -is_a: GO:0051171 ! regulation of nitrogen compound metabolic process is_a: GO:0080090 ! regulation of primary metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006139 ! nucleobase-containing compound metabolic process @@ -59337,6 +60714,7 @@ name: hexose metabolic process namespace: biological_process def: "The chemical reactions and pathways involving a hexose, any monosaccharide with a chain of six carbon atoms in the molecule." [ISBN:0198506732] synonym: "hexose metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:18133 @@ -59386,39 +60764,6 @@ intersection_of: GO:0009056 ! catabolic process intersection_of: has_primary_input CHEBI:33853 relationship: has_primary_input CHEBI:33853 -[Term] -id: GO:0019438 -name: aromatic compound biosynthetic process -namespace: biological_process -def: "The chemical reactions and pathways resulting in the formation of aromatic compounds, any substance containing an aromatic carbon ring." [GOC:ai] -synonym: "aromatic compound anabolism" EXACT [] -synonym: "aromatic compound biosynthesis" EXACT [] -synonym: "aromatic compound formation" EXACT [] -synonym: "aromatic compound synthesis" EXACT [] -synonym: "aromatic hydrocarbon biosynthesis" NARROW [] -synonym: "aromatic hydrocarbon biosynthetic process" NARROW [] -is_a: GO:0006725 ! cellular aromatic compound metabolic process -is_a: GO:0044249 ! cellular biosynthetic process -intersection_of: GO:0009058 ! biosynthetic process -intersection_of: has_primary_output CHEBI:33655 -relationship: has_primary_output CHEBI:33655 - -[Term] -id: GO:0019439 -name: aromatic compound catabolic process -namespace: biological_process -def: "The chemical reactions and pathways resulting in the breakdown of aromatic compounds, any substance containing an aromatic carbon ring." [GOC:ai] -synonym: "aromatic compound breakdown" EXACT [] -synonym: "aromatic compound catabolism" EXACT [] -synonym: "aromatic compound degradation" EXACT [] -synonym: "aromatic hydrocarbon catabolic process" NARROW [] -synonym: "aromatic hydrocarbon catabolism" NARROW [] -is_a: GO:0006725 ! cellular aromatic compound metabolic process -is_a: GO:0044248 ! cellular catabolic process -intersection_of: GO:0009056 ! catabolic process -intersection_of: has_primary_input CHEBI:33655 -relationship: has_primary_input CHEBI:33655 - [Term] id: GO:0019538 name: protein metabolic process @@ -59427,11 +60772,14 @@ alt_id: GO:0006411 alt_id: GO:0044267 alt_id: GO:0044268 def: "The chemical reactions and pathways involving a protein. Includes protein modification." [GOC:ma] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cellular protein metabolic process" EXACT [] synonym: "cellular protein metabolism" EXACT [] synonym: "multicellular organismal protein metabolic process" NARROW [] @@ -59439,11 +60787,13 @@ synonym: "protein metabolic process and modification" EXACT [] synonym: "protein metabolism" EXACT [] synonym: "protein metabolism and modification" EXACT [] xref: Wikipedia:Protein_metabolism +is_a: BFO:0000003 is_a: GO:0044238 ! primary metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output PR:000000001 ! protein relationship: has_primary_input_or_output PR:000000001 ! protein property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23112" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0019614 @@ -59495,7 +60845,9 @@ name: cellular homeostasis namespace: biological_process def: "Any process involved in the maintenance of an internal steady state at the level of the cell." [GOC:isa_complete, GOC:jl, ISBN:0395825172] subset: goslim_candida +subset: goslim_euk_cellular_processes_ribbon subset: goslim_plant +is_a: BFO:0000003 is_a: GO:0042592 ! homeostatic process intersection_of: GO:0042592 ! homeostatic process intersection_of: occurs_in CL:0000000 ! cell @@ -59520,8 +60872,10 @@ name: secondary metabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in many of the chemical changes of compounds that are not necessarily required for growth and maintenance of cells, and are often unique to a taxon. In multicellular organisms secondary metabolism is generally carried out in specific cell types, and may be useful for the organism as a whole. In unicellular organisms, secondary metabolism is often used for the production of antibiotics or for the utilization and acquisition of unusual nutrients." [GOC:go_curators] subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_pombe synonym: "secondary metabolism" EXACT [] synonym: "secondary metabolite metabolic process" EXACT [] @@ -59576,6 +60930,7 @@ subset: goslim_pir subset: goslim_plant synonym: "cytochrome P450" NARROW [] synonym: "cytochrome P450 activity" RELATED [] +is_a: BFO:0000003 is_a: GO:0036094 ! small molecule binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:15379 @@ -59587,6 +60942,7 @@ name: stem cell population maintenance namespace: biological_process def: "The process by which an organism or tissue maintains a population of stem cells of a single type. This can be achieved by a number of mechanisms: stem cell asymmetric division maintains stem cell numbers; stem cell symmetric division increases them; maintenance of a stem cell niche maintains the conditions for commitment to the stem cell fate for some types of stem cell; stem cells may arise de novo from other cell types." [GOC:mah, ISBN:0878932437] synonym: "maintenance of pluripotency" RELATED [GOC:vk] +is_a: BFO:0000003 is_a: GO:0032501 ! multicellular organismal process is_a: GO:0098727 ! maintenance of cell number intersection_of: GO:0098727 ! maintenance of cell number @@ -59637,7 +60993,7 @@ namespace: biological_process def: "A type of reproduction that combines the genetic material of two gametes (such as a sperm or egg cell or fungal spores). The gametes have an haploid genome (with a single set of chromosomes, the product of a meiotic division) and combines with one another to produce a zygote (diploid)." [Wikipedia:Sexual_reproduction] comment: Note that gametes may come from two organisms or from a single organism in the case of self-fertilizing hermaphrodites, e.g. C. elegans, or self-fertilization in plants. Note also that sexual reproduction may be seen as the regular alternation, in the life cycle of haplontic, diplontic and diplohaplontic organisms, of meiosis and fertilization which provides for the production offspring. In diplontic organisms there is a life cycle in which the products of meiosis behave directly as gametes, fusing to form a zygote from which the diploid, or sexually reproductive polyploid, adult organism will develop. In diplohaplontic organisms a haploid phase (gametophyte) exists in the life cycle between meiosis and fertilization (e.g. higher plants, many algae and Fungi); the products of meiosis are spores that develop as haploid individuals from which haploid gametes develop to form a diploid zygote; diplohaplontic organisms show an alternation of haploid and diploid generations. In haplontic organisms meiosis occurs in the zygote, giving rise to four haploid cells (e.g. many algae and protozoa), only the zygote is diploid and this may form a resistant spore, tiding organisms over hard times. xref: Wikipedia:Sexual_reproduction -is_a: GO:0000003 ! reproduction +is_a: GO:0022414 ! reproductive process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22929" xsd:anyURI [Term] @@ -59656,6 +61012,7 @@ id: GO:0021501 name: prechordal plate formation namespace: biological_process def: "The formation of the prechordal plate. The prechordal plate is a thickening of the endoderm at the cranial end of the primitive streak formed by the involution of Spemann's organizer cells. The prechordal plate and the notochord induce the formation of the neural plate from the overlying ectodermal cells." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0003063 ! prechordal plate @@ -59790,6 +61147,7 @@ id: GO:0021534 name: cell proliferation in hindbrain namespace: biological_process def: "The multiplication or reproduction of cells, resulting in the expansion of a cell population in the hindbrain." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid] +is_a: BFO:0000003 is_a: GO:0061351 ! neural precursor cell proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: occurs_in UBERON:0002028 ! hindbrain @@ -59803,6 +61161,7 @@ id: GO:0021535 name: cell migration in hindbrain namespace: biological_process def: "The orderly movement of a cell that will reside in the hindbrain." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid] +is_a: BFO:0000003 is_a: GO:0016477 ! cell migration intersection_of: GO:0016477 ! cell migration intersection_of: occurs_in UBERON:0002028 ! hindbrain @@ -59971,6 +61330,7 @@ id: GO:0021551 name: central nervous system morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the central nervous system is generated and organized. The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the brain and spinal cord. In those invertebrates with a central nervous system it typically consists of a brain, cerebral ganglia and a nerve cord." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0582227089] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001017 ! central nervous system @@ -60010,6 +61370,7 @@ namespace: biological_process def: "The process in which the anatomical structure of the midbrain-hindbrain boundary is generated and organized. The midbrain-hindbrain domain of the embryonic brain is comprised of the mesencephalic vesicle and the first rhombencephalic vesicle at early somitogenesis stages. An organizing center at the boundary patterns the midbrain and hindbrain primordia of the neural plate." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, PMID:15541513] synonym: "isthmus morphogenesis" EXACT [GOC:cls] synonym: "MHB morphogenesis" EXACT [GOC:cls] +is_a: BFO:0000003 is_a: GO:0048598 ! embryonic morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0003052 ! midbrain-hindbrain boundary @@ -60021,6 +61382,7 @@ id: GO:0021556 name: central nervous system formation namespace: biological_process def: "The process that gives rise to the central nervous system. This process pertains to the initial formation of a structure from unspecified parts. The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the brain, spinal cord and spinal nerves. In those invertebrates with a central nervous system it typically consists of a brain, cerebral ganglia and a nerve cord." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0582227089] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0001017 ! central nervous system @@ -60138,6 +61500,7 @@ name: hindbrain morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the hindbrain is generated and organized. The hindbrain is the region consisting of the medulla, pons and cerebellum. Areas of the hindbrain control motor and autonomic functions." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] synonym: "rhombencephalon morphogenesis" RELATED [] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002028 ! hindbrain @@ -60149,6 +61512,7 @@ id: GO:0021576 name: hindbrain formation namespace: biological_process def: "The process that gives rise to the hindbrain. This process pertains to the initial formation of a structure from unspecified parts. The hindbrain is the region consisting of the medulla, pons and cerebellum. Areas of the hindbrain control motor and autonomic functions." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002028 ! hindbrain @@ -60174,6 +61538,7 @@ namespace: biological_process def: "The process in which the anatomical structure of the medulla oblongata is generated and organized. The medulla oblongata lies directly above the spinal cord and controls vital autonomic functions such as digestion, breathing and the control of heart rate." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] synonym: "medulla morphogenesis" RELATED [] synonym: "myelencephalon morphogenesis" RELATED [] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001896 ! medulla oblongata @@ -60190,6 +61555,7 @@ synonym: "medulla biosynthesis" RELATED [] synonym: "medulla formation" RELATED [] synonym: "myelencephalon biosynthesis" RELATED [] synonym: "myelencephalon formation" RELATED [] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0001896 ! medulla oblongata @@ -60216,6 +61582,7 @@ id: GO:0021583 name: pons morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the pons is generated and organized. The pons lies above the medulla and next to the cerebellum. The pons conveys information about movement from the cerebral hemisphere to the cerebellum." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000988 ! pons @@ -60228,6 +61595,7 @@ id: GO:0021584 name: pons formation namespace: biological_process def: "The process that gives rise to the pons. This process pertains to the initial formation of a structure from unspecified parts. The pons lies above the medulla and next to the cerebellum. The pons conveys information about movement from the cerebral hemisphere to the cerebellum." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0000988 ! pons @@ -60252,6 +61620,7 @@ id: GO:0021587 name: cerebellum morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the cerebellum is generated and organized. The cerebellum is the portion of the brain in the back of the head between the cerebrum and the pons. The cerebellum controls balance for walking and standing, modulates the force and range of movement and is involved in the learning of motor skills." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002037 ! cerebellum @@ -60264,6 +61633,7 @@ id: GO:0021588 name: cerebellum formation namespace: biological_process def: "The process that gives rise to the cerebellum. This process pertains to the initial formation of a structure from unspecified parts. The cerebellum is the portion of the brain in the back of the head between the cerebrum and the pons. The cerebellum controls balance for walking and standing, modulates the force and range of movement and is involved in the learning of motor skills." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002037 ! cerebellum @@ -60311,6 +61681,7 @@ id: GO:0021593 name: rhombomere morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the rhombomere is generated and organized. Rhombomeres are transverse segments of the developing rhombencephalon. Rhombomeres are lineage restricted, express different genes from one another, and adopt different developmental fates." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001892 ! rhombomere @@ -60322,6 +61693,7 @@ id: GO:0021594 name: rhombomere formation namespace: biological_process def: "The process that gives rise to the rhombomere. This process pertains to the initial formation of a structure from unspecified parts. Rhombomeres are transverse segments of the developing rhombencephalon. Rhombomeres are lineage restricted, express different genes from one another, and adopt different developmental fates." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0001892 ! rhombomere @@ -60333,6 +61705,7 @@ id: GO:0021602 name: cranial nerve morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the cranial nerves are generated and organized. The cranial nerves are composed of twelve pairs of nerves that emanate from the nervous tissue of the hindbrain. These nerves are sensory, motor, or mixed in nature, and provide the motor and general sensory innervation of the head, neck and viscera. They mediate vision, hearing, olfaction and taste and carry the parasympathetic innervation of the autonomic ganglia that control visceral functions." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001785 ! cranial nerve @@ -60344,6 +61717,7 @@ id: GO:0021603 name: cranial nerve formation namespace: biological_process def: "The process that gives rise to the cranial nerves. This process pertains to the initial formation of a structure from unspecified parts. The cranial nerves are composed of twelve pairs of nerves that emanate from the nervous tissue of the hindbrain. These nerves are sensory, motor, or mixed in nature, and provide the motor and general sensory innervation of the head, neck and viscera. They mediate vision, hearing, olfaction and taste and carry the parasympathetic innervation of the autonomic ganglia that control visceral functions." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0001785 ! cranial nerve @@ -60811,6 +62185,7 @@ id: GO:0021683 name: cerebellar granular layer morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the cerebellar granular layer is generated and organized. The granular layer is the innermost layer of the cerebellar cortex. This layer contains densely packed small neurons, mostly granule cells. Some Golgi cells are found at the outer border. Granule neurons send parallel fibers to the upper molecular layer, where they synapse with Purkinje cell dendrites. Mossy fibers from the pontine nuclei in the white matter synapse with granule cell axons, Golgi cell axons and unipolar brush interneuron axons at cerebellar glomeruli in the granule cell layer." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002956 ! granular layer of cerebellar cortex @@ -60823,6 +62198,7 @@ id: GO:0021684 name: cerebellar granular layer formation namespace: biological_process def: "The process that gives rise to the cerebellar granule layer. This process pertains to the initial formation of a structure from unspecified parts. The granular layer is the innermost layer of the cerebellar cortex. This layer contains densely packed small neurons, mostly granule cells. Some Golgi cells are found at the outer border. Granule neurons send parallel fibers to the upper molecular layer, where they synapse with Purkinje cell dendrites. Mossy fibers from the pontine nuclei in the white matter synapse with granule cell axons, Golgi cell axons and unipolar brush interneuron axons at cerebellar glomeruli in the granule cell layer." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002956 ! granular layer of cerebellar cortex @@ -60847,6 +62223,7 @@ id: GO:0021687 name: cerebellar molecular layer morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the cerebellar molecular layer is generated and organized. The molecular layer is the outermost layer of the cerebellar cortex. It contains the parallel fibers of the granule cells, interneurons such as stellate and basket cells, and the dendrites of the underlying Purkinje cells." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002974 ! molecular layer of cerebellar cortex @@ -60859,6 +62236,7 @@ id: GO:0021688 name: cerebellar molecular layer formation namespace: biological_process def: "The process that gives rise to the cerebellar molecular layer. This process pertains to the initial formation of a structure from unspecified parts. The molecular layer is the outermost layer of the cerebellar cortex. It contains the parallel fibers of the granule cells, interneurons such as stellate and basket cells, and the dendrites of the underlying Purkinje cells." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002974 ! molecular layer of cerebellar cortex @@ -60895,6 +62273,7 @@ id: GO:0021692 name: cerebellar Purkinje cell layer morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the cerebellar Purkinje cell layer is generated and organized. The Purkinje cell layer lies just underneath the molecular layer of the cerebellar cortex. It contains the neuronal cell bodies of the Purkinje cells that are arranged side by side in a single layer. Candelabrum interneurons are vertically oriented between the Purkinje cells. Purkinje neurons are inhibitory and provide the output of the cerebellar cortex through axons that project into the white matter. Extensive dendritic trees from the Purkinje cells extend upward in a single plane into the molecular layer where they synapse with parallel fibers of granule cells." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002979 ! Purkinje cell layer of cerebellar cortex @@ -60907,6 +62286,7 @@ id: GO:0021694 name: cerebellar Purkinje cell layer formation namespace: biological_process def: "The process that gives rise to the cerebellar Purkinje cell layer. This process pertains to the initial formation of a structure from unspecified parts. The Purkinje cell layer lies just underneath the molecular layer of the cerebellar cortex. It contains the neuronal cell bodies of the Purkinje cells that are arranged side by side in a single layer. Candelabrum interneurons are vertically oriented between the Purkinje cells. Purkinje neurons are inhibitory and provide the output of the cerebellar cortex through axons that project into the white matter. Extensive dendritic trees from the Purkinje cells extend upward in a single plane into the molecular layer where they synapse with parallel fibers of granule cells." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002979 ! Purkinje cell layer of cerebellar cortex @@ -60930,6 +62310,7 @@ id: GO:0021696 name: cerebellar cortex morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the cranial nerves are generated and organized. The cerebellar cortex is a thin mantle of gray matter that covers the surface of each cerebral hemisphere. It has a characteristic morphology with convolutions (gyri) and crevices (sulci) that have specific functions. Six layers of nerve cells and the nerve pathways that connect them comprise the cerebellar cortex. Together, these regions are responsible for the processes of conscious thought, perception, emotion and memory as well as advanced motor function." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002129 ! cerebellar cortex @@ -60942,6 +62323,7 @@ id: GO:0021697 name: cerebellar cortex formation namespace: biological_process def: "The process that gives rise to the cerebellar cortex. This process pertains to the initial formation of a structure from unspecified parts. The cerebellar cortex is a thin mantle of gray matter that covers the surface of each cerebral hemisphere. It has a characteristic morphology with convolutions (gyri) and crevices (sulci) that have specific functions. Six layers of nerve cells and the nerve pathways that connect them comprise the cerebellar cortex. Together, these regions are responsible for the processes of conscious thought, perception, emotion and memory as well as advanced motor function." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002129 ! cerebellar cortex @@ -61011,6 +62393,7 @@ id: GO:0021704 name: locus ceruleus morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the locus ceruleus is generated and organized. In mice, the locus ceruleus is a dense cluster of neurons within the dorsorostral pons. This nucleus is the major location of neurons that release norepinephrine throughout the brain, and is responsible for physiological responses to stress and panic." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002148 ! locus ceruleus @@ -61023,6 +62406,7 @@ id: GO:0021705 name: locus ceruleus formation namespace: biological_process def: "The process that gives rise to the locus ceruleus. This process pertains to the initial formation of a structure from unspecified parts. In mice, the locus ceruleus is a dense cluster of neurons within the dorsorostral pons. This nucleus is the major location of neurons that release norepinephrine throughout the brain, and is responsible for physiological responses to stress and panic." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002148 ! locus ceruleus @@ -61098,6 +62482,7 @@ name: superior olivary nucleus morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the superior olivary nucleus is generated and organized. In mice, the superior olivary nucleus is a small cylindrical mass on the dorsal surface of the lateral part of the trapezoid body of the pons, and it is situated immediately above the inferior olivary nucleus. It receives projections from the cochlear nucleus and thus is involved in the perception of sound." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] synonym: "superior olive morphogenesis" RELATED [] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0007247 ! nucleus of superior olivary complex @@ -61110,6 +62495,7 @@ id: GO:0021720 name: superior olivary nucleus formation namespace: biological_process def: "The process that gives rise to the superior olivary nucleus. This process pertains to the initial formation of a structure from unspecified parts. In mice, the superior olivary nucleus is a small cylindrical mass on the dorsal surface of the lateral part of the trapezoid body of the pons, and it is situated immediately above the inferior olivary nucleus. It receives projections from the cochlear nucleus and thus is involved in the perception of sound." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0007247 ! nucleus of superior olivary complex @@ -61508,6 +62894,7 @@ id: GO:0021846 name: cell proliferation in forebrain namespace: biological_process def: "The creation of greater cell numbers in the forebrain due to cell division of progenitor cells." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid] +is_a: BFO:0000003 is_a: GO:0061351 ! neural precursor cell proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: occurs_in UBERON:0001890 ! forebrain @@ -61941,6 +63328,7 @@ id: GO:0021990 name: neural plate formation namespace: biological_process def: "The formation of the flat, thickened layer of ectodermal cells known as the neural plate. The underlying dorsal mesoderm signals the ectodermal cells above it to elongate into columnar neural plate cells. The neural plate subsequently develops into the neural tube, which gives rise to the central nervous system." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0878932437, ISBN:0878932585, PMID:15806586] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0003075 ! neural plate @@ -62092,6 +63480,7 @@ name: cell cycle process namespace: biological_process def: "The cellular process that ensures successive accurate and complete genome replication and chromosome segregation." [GOC:isa_complete, GOC:mtg_cell_cycle] subset: gocheck_do_not_annotate +subset: goslim_euk_cellular_processes_ribbon is_a: GO:0009987 ! cellular process intersection_of: GO:0009987 ! cellular process intersection_of: part_of GO:0007049 ! cell cycle @@ -62168,6 +63557,8 @@ name: cellular component disassembly namespace: biological_process alt_id: GO:0071845 def: "A cellular process that results in the breakdown of a cellular component." [GOC:isa_complete] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "cell structure disassembly" EXACT [] synonym: "cellular component disassembly at cellular level" EXACT [] @@ -62176,6 +63567,7 @@ intersection_of: GO:0009987 ! cellular process intersection_of: results_in_disassembly_of GO:0005575 ! cellular_component disjoint_from: GO:0022607 ! cellular component assembly relationship: results_in_disassembly_of GO:0005575 ! cellular_component +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0022412 @@ -62184,18 +63576,18 @@ namespace: biological_process def: "A process, occurring at the cellular level, that is involved in the reproductive function of a multicellular organism." [GOC:isa_complete] synonym: "reproductive cellular process in multicellular organism" EXACT [] is_a: GO:0009987 ! cellular process -is_a: GO:0022414 ! reproductive process +is_a: GO:0048609 ! multicellular organismal reproductive process intersection_of: GO:0009987 ! cellular process -intersection_of: part_of GO:0032504 ! multicellular organism reproduction -relationship: part_of GO:0032504 ! multicellular organism reproduction +intersection_of: GO:0048609 ! multicellular organismal reproductive process [Term] id: GO:0022413 name: reproductive process in single-celled organism namespace: biological_process def: "A process, occurring at the cellular level, that is involved in the reproductive function of a single-celled organism." [GOC:isa_complete] +subset: gocheck_do_not_annotate is_a: GO:0022414 ! reproductive process -relationship: part_of GO:0032505 ! reproduction of a single-celled organism +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27054" xsd:anyURI [Term] id: GO:0022414 @@ -62203,12 +63595,18 @@ name: reproductive process namespace: biological_process alt_id: GO:0044702 def: "A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." [GOC:dph, GOC:isa_complete] +subset: gocheck_do_not_annotate +subset: goslim_agr +subset: goslim_chembl +subset: goslim_flybase_ribbon subset: goslim_generic +subset: goslim_pir +subset: goslim_plant +subset: goslim_plant_ribbon synonym: "single organism reproductive process" RELATED [] +xref: Wikipedia:Reproduction is_a: GO:0008150 ! biological_process -intersection_of: GO:0008150 ! biological_process -intersection_of: part_of GO:0000003 ! reproduction -relationship: part_of GO:0000003 ! reproduction +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27054" xsd:anyURI created_by: jl creation_date: 2012-09-19T15:56:06Z @@ -62276,6 +63674,7 @@ namespace: biological_process alt_id: GO:0071844 def: "The aggregation, arrangement and bonding together of a cellular component." [GOC:isa_complete] subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_pir synonym: "cell structure assembly" EXACT [] synonym: "cellular component assembly at cellular level" EXACT [] @@ -62485,10 +63884,12 @@ synonym: "uptake permease activity" RELATED [] synonym: "uptake transmembrane transporter activity" RELATED [] xref: Reactome:R-HSA-1236947 "Egress of internalized antigen to the cytosol via sec61" xref: Reactome:R-HSA-429036 "SLC2A9 transports Fru, Glc, urate" +xref: Reactome:R-HSA-434650 "MATEs mediate extrusion of xenobiotics" xref: Reactome:R-HSA-5638209 "Defective SLC2A9 does not transport Fru, Glc, urate" xref: Reactome:R-HSA-5671707 "Fe3+ dissociates from SLC22A17:LCN2:2,5DHBA" xref: Reactome:R-HSA-6784434 "An unknown carrier transports cytosolic glyoxylate to the peroxisome" xref: Reactome:R-HSA-6784436 "An unknown carrier transports mitochondrial glyoxylate to the cytosol" +is_a: BFO:0000003 is_a: GO:0005215 ! transporter activity intersection_of: GO:0005215 ! transporter activity intersection_of: results_in_transport_across GO:0016020 ! membrane @@ -62581,11 +63982,13 @@ alt_id: GO:0044700 def: "The entirety of a process in which information is transmitted within a biological system. This process begins with an active signal and ends when a cellular response has been triggered." [GOC:mtg_signal, GOC:mtg_signaling_feb11, GOC:signaling] comment: Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change. subset: goslim_agr +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pombe subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "biological signaling" EXACT [] synonym: "signaling process" EXACT [] @@ -62630,6 +64033,7 @@ name: signal release namespace: biological_process def: "The process in which a signal is secreted or discharged into the extracellular medium from a cellular source." [GOC:mtg_signal] synonym: "signal secretion" EXACT [GOC:bf] +is_a: BFO:0000003 is_a: GO:0032940 ! secretion by cell intersection_of: GO:0032940 ! secretion by cell intersection_of: part_of GO:0007267 ! cell-cell signaling @@ -62666,8 +64070,8 @@ name: myofibril namespace: cellular_component def: "The contractile element of skeletal and cardiac muscle; a long, highly organized bundle of actin, myosin, and other proteins that contracts by a sliding filament mechanism." [ISBN:0815316194] xref: Wikipedia:Myofibril -is_a: GO:0043292 ! contractile fiber -intersection_of: GO:0043292 ! contractile fiber +is_a: GO:0043292 ! contractile muscle fiber +intersection_of: GO:0043292 ! contractile muscle fiber intersection_of: part_of CL:0000737 ! striated muscle cell relationship: part_of CL:0000737 ! striated muscle cell @@ -62828,6 +64232,8 @@ is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000988 ! hematopoietic cell relationship: results_in_development_of CL:0000988 ! hematopoietic cell +relationship: RO:0002160 NCBITaxon:6072 ! only in taxon Eumetazoa +relationship: RO:0002162 NCBITaxon:6072 {all_only="true"} ! in taxon Eumetazoa property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22178" xsd:anyURI [Term] @@ -62925,7 +64331,9 @@ subset: goslim_drosophila subset: goslim_generic subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon xref: Wikipedia:Cellular_differentiation +is_a: BFO:0000003 is_a: GO:0048869 ! cellular developmental process intersection_of: GO:0048869 ! cellular developmental process intersection_of: results_in_acquisition_of_features_of CL:0000000 ! cell @@ -63020,6 +64428,7 @@ name: platelet activation namespace: biological_process def: "A series of progressive, overlapping events triggered by exposure of the platelets to subendothelial tissue. These events include shape change, adhesiveness, aggregation, and release reactions. When carried through to completion, these events lead to the formation of a stable hemostatic plug." [http://www.graylab.ac.uk/omd/] synonym: "blood coagulation, platelet activation" EXACT [GOC:add, GOC:pde] +is_a: BFO:0000003 is_a: GO:0001775 ! cell activation intersection_of: GO:0001775 ! cell activation intersection_of: has_primary_input CL:0000233 ! platelet @@ -63169,6 +64578,7 @@ namespace: biological_process def: "The chemical reactions and pathways involving heparin, any member of a group of glycosaminoglycans found mainly as an intracellular component of mast cells. They are similar to heparan sulfates but are of somewhat higher average Mr (6000-20000) and contain fewer N-acetyl groups and more N-sulfate and O-sulfate groups; they may be attached in the same manner to protein, forming proteoglycans. They consist predominantly of alternating alpha-(1->4)-linked D-galactose and N-acetyl-D-glucosamine-6-sulfate residues." [GOC:mah, ISBN:0198506732] synonym: "heparan sulfate metabolic process" RELATED [] synonym: "heparin metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:24505 @@ -63180,6 +64590,7 @@ name: glycosaminoglycan metabolic process namespace: biological_process def: "The chemical reactions and pathways involving glycosaminoglycans, any of a group of polysaccharides that contain amino sugars." [ISBN:0192800981] synonym: "glycosaminoglycan metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:18085 @@ -63193,6 +64604,7 @@ def: "The chemical reactions and pathways involving chondroitin sulfate, any mem synonym: "chondroitin sulfate metabolism" EXACT [] synonym: "chondroitin sulphate metabolic process" EXACT [] synonym: "chondroitin sulphate metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:37397 @@ -63210,12 +64622,14 @@ synonym: "chondroitin sulfate formation" EXACT [] synonym: "chondroitin sulfate synthesis" EXACT [] synonym: "chondroitin sulphate biosynthesis" EXACT [] synonym: "chondroitin sulphate biosynthetic process" EXACT [] +xref: MetaCyc:PWY-6567 is_a: GO:0009058 ! biosynthetic process is_a: GO:0030204 ! chondroitin sulfate metabolic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:37397 relationship: has_primary_output CHEBI:37397 relationship: part_of GO:0050650 ! chondroitin sulfate proteoglycan biosynthetic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27107" xsd:anyURI [Term] id: GO:0030207 @@ -63227,11 +64641,14 @@ synonym: "chondroitin sulfate catabolism" EXACT [] synonym: "chondroitin sulfate degradation" EXACT [] synonym: "chondroitin sulphate catabolic process" EXACT [] synonym: "chondroitin sulphate catabolism" EXACT [] +xref: MetaCyc:PWY-6572 +xref: MetaCyc:PWY-6573 is_a: GO:0009056 ! catabolic process is_a: GO:0030204 ! chondroitin sulfate metabolic process intersection_of: GO:0009056 ! catabolic process intersection_of: has_primary_input CHEBI:37397 relationship: has_primary_input CHEBI:37397 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27107" xsd:anyURI [Term] id: GO:0030210 @@ -63270,6 +64687,7 @@ name: hyaluronan metabolic process namespace: biological_process def: "The chemical reactions and pathways involving hyaluronan, the naturally occurring anionic form of hyaluronic acid, any member of a group of glycosaminoglycans, the repeat units of which consist of beta-1,4 linked D-glucuronyl-beta-(1,3)-N-acetyl-D-glucosamine." [GOC:mah, ISBN:0198506732] synonym: "hyaluronan metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:16336 @@ -63298,11 +64716,13 @@ def: "The chemical reactions and pathways resulting in the breakdown of hyaluron synonym: "hyaluronan breakdown" EXACT [] synonym: "hyaluronan catabolism" EXACT [] synonym: "hyaluronan degradation" EXACT [] +xref: MetaCyc:PWY-7645 is_a: GO:0009056 ! catabolic process is_a: GO:0030212 ! hyaluronan metabolic process intersection_of: GO:0009056 ! catabolic process intersection_of: has_primary_input CHEBI:16336 relationship: has_primary_input CHEBI:16336 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27107" xsd:anyURI [Term] id: GO:0030216 @@ -63445,6 +64865,7 @@ def: "Combining with a lipoprotein particle and delivering the lipoprotein parti comment: This term is intended for cell surface receptors that bind and internalize a lipoprotein particle. For members of the lipoprotein receptor family that transduce a signal rather than endocytose their ligand, consider instead the terms 'signaling receptor activity ; GO:0038023' and its children, or 'reelin receptor activity ; GO:0038025'. synonym: "lipoprotein receptor activity" EXACT [GOC:dph] synonym: "plasma lipoprotein particle receptor activity" NARROW [GOC:BHF] +is_a: BFO:0000003 is_a: GO:0038024 ! cargo receptor activity intersection_of: GO:0038024 ! cargo receptor activity intersection_of: has_primary_input CHEBI:6495 @@ -63478,8 +64899,10 @@ subset: goslim_flybase_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "selectin" RELATED [] synonym: "sugar binding" EXACT [] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:16646 @@ -63492,6 +64915,7 @@ namespace: molecular_function alt_id: GO:0002506 def: "Binding to a polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically." [GOC:mah] synonym: "polysaccharide assembly with MHC class II protein complex" NARROW [] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:18154 @@ -63881,8 +65305,8 @@ id: GO:0030485 name: smooth muscle contractile fiber namespace: cellular_component def: "The contractile fiber of smooth muscle cells." [GOC:mah] -is_a: GO:0043292 ! contractile fiber -intersection_of: GO:0043292 ! contractile fiber +is_a: GO:0043292 ! contractile muscle fiber +intersection_of: GO:0043292 ! contractile muscle fiber intersection_of: part_of CL:0000192 ! smooth muscle cell relationship: part_of CL:0000192 ! smooth muscle cell @@ -63937,8 +65361,8 @@ namespace: biological_process def: "The series of molecular signals initiated by a steroid binding to an intracellular steroid hormone receptor." [GOC:mah, GOC:signaling] synonym: "steroid hormone receptor signaling pathway" BROAD [GOC:bf] synonym: "steroid hormone receptor signalling pathway" BROAD [GOC:bf] -is_a: GO:0030522 ! intracellular receptor signaling pathway is_a: GO:0043401 ! steroid hormone mediated signaling pathway +is_a: GO:0141193 ! nuclear receptor signaling pathway [Term] id: GO:0030522 @@ -64116,7 +65540,6 @@ namespace: biological_process def: "The process that occurs during oogenesis involving the ovarian follicle cells, somatic cells which surround the germ cells of an ovary. An example of this is found in Drosophila melanogaster." [GOC:mtg_sensu, PMID:10822261] is_a: GO:0002064 ! epithelial cell development is_a: GO:0003006 ! developmental process involved in reproduction -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism intersection_of: GO:0048468 ! cell development intersection_of: results_in_development_of CL:0000477 ! follicle cell of egg chamber relationship: part_of GO:0048477 ! oogenesis @@ -64147,7 +65570,6 @@ synonym: "oocyte localization during oogenesis" RELATED [] synonym: "oocyte positioning during oogenesis" NARROW [] synonym: "oogenesis, establishment and maintenance of oocyte localization" EXACT [] synonym: "oogenesis, oocyte localization" EXACT [] -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0051674 ! localization of cell intersection_of: GO:0051179 ! localization intersection_of: has_primary_input CL:0000023 ! oocyte @@ -64529,6 +65951,7 @@ alt_id: GO:0005578 def: "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues." [GOC:BHF, GOC:mah, GOC:rph, NIF_Subcellular:nlx_subcell_20090513, PMID:21123617, PMID:28089324] subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote @@ -64617,6 +66040,7 @@ id: GO:0031069 name: hair follicle morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the hair follicle are generated and organized." [GOC:ln] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis is_a: GO:0022405 ! hair cycle process intersection_of: GO:0009653 ! anatomical structure morphogenesis @@ -65021,6 +66445,7 @@ id: GO:0031323 name: regulation of cellular metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate synonym: "regulation of cellular metabolism" EXACT [] is_a: GO:0019222 ! regulation of metabolic process @@ -65028,12 +66453,14 @@ is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0044237 ! cellular metabolic process relationship: regulates GO:0044237 ! cellular metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0031324 name: negative regulation of cellular metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate synonym: "down regulation of cellular metabolic process" EXACT [] synonym: "down-regulation of cellular metabolic process" EXACT [] @@ -65046,12 +66473,14 @@ is_a: GO:0048523 ! negative regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0044237 ! cellular metabolic process relationship: negatively_regulates GO:0044237 ! cellular metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0031325 name: positive regulation of cellular metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate synonym: "activation of cellular metabolic process" NARROW [] synonym: "positive regulation of cellular metabolism" EXACT [] @@ -65065,12 +66494,15 @@ is_a: GO:0048522 ! positive regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0044237 ! cellular metabolic process relationship: positively_regulates GO:0044237 ! cellular metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0031326 name: regulation of cellular biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate synonym: "regulation of cellular anabolism" EXACT [] synonym: "regulation of cellular biosynthesis" EXACT [] synonym: "regulation of cellular formation" EXACT [] @@ -65080,12 +66512,15 @@ is_a: GO:0031323 ! regulation of cellular metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0044249 ! cellular biosynthetic process relationship: regulates GO:0044249 ! cellular biosynthetic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0031327 name: negative regulation of cellular biosynthetic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate synonym: "down regulation of cellular biosynthetic process" EXACT [] synonym: "down-regulation of cellular biosynthetic process" EXACT [] synonym: "downregulation of cellular biosynthetic process" EXACT [] @@ -65100,12 +66535,15 @@ is_a: GO:0031326 ! regulation of cellular biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0044249 ! cellular biosynthetic process relationship: negatively_regulates GO:0044249 ! cellular biosynthetic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0031328 name: positive regulation of cellular biosynthetic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate synonym: "activation of cellular biosynthetic process" NARROW [] synonym: "positive regulation of cellular anabolism" EXACT [] synonym: "positive regulation of cellular biosynthesis" EXACT [] @@ -65121,12 +66559,15 @@ is_a: GO:0031326 ! regulation of cellular biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0044249 ! cellular biosynthetic process relationship: positively_regulates GO:0044249 ! cellular biosynthetic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0031329 name: regulation of cellular catabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of substances, carried out by individual cells." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate synonym: "regulation of cellular breakdown" EXACT [] synonym: "regulation of cellular catabolism" EXACT [] synonym: "regulation of cellular degradation" EXACT [] @@ -65135,12 +66576,15 @@ is_a: GO:0031323 ! regulation of cellular metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0044248 ! cellular catabolic process relationship: regulates GO:0044248 ! cellular catabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0031330 name: negative regulation of cellular catabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of substances, carried out by individual cells." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate synonym: "down regulation of cellular catabolic process" EXACT [] synonym: "down-regulation of cellular catabolic process" EXACT [] synonym: "downregulation of cellular catabolic process" EXACT [] @@ -65154,12 +66598,15 @@ is_a: GO:0031329 ! regulation of cellular catabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0044248 ! cellular catabolic process relationship: negatively_regulates GO:0044248 ! cellular catabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0031331 name: positive regulation of cellular catabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of substances, carried out by individual cells." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate synonym: "activation of cellular catabolic process" NARROW [] synonym: "positive regulation of cellular breakdown" EXACT [] synonym: "positive regulation of cellular catabolism" EXACT [] @@ -65174,6 +66621,7 @@ is_a: GO:0031329 ! regulation of cellular catabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0044248 ! cellular catabolic process relationship: positively_regulates GO:0044248 ! cellular catabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0031333 @@ -65433,6 +66881,7 @@ name: carboxylic acid binding namespace: molecular_function def: "Binding to a carboxylic acid, an organic acid containing one or more carboxyl (COOH) groups or anions (COO-)." [GOC:mah, ISBN:0198506732] subset: goslim_pir +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:29067 @@ -65464,6 +66913,7 @@ id: GO:0031424 name: keratinization namespace: biological_process def: "The process in which the cytoplasm of the outermost cells of the vertebrate epidermis is replaced by keratin. Keratinization occurs in the stratum corneum, feathers, hair, claws, nails, hooves, and horns." [GOC:dph, GOC:ebc, GOC:sdb_2009, GOC:tb] +is_a: BFO:0000003 is_a: GO:0032501 ! multicellular organismal process relationship: occurs_in CL:0000362 ! epidermal cell relationship: part_of GO:0030216 ! keratinocyte differentiation @@ -65481,6 +66931,7 @@ synonym: "establishment and maintenance of cellular protein complex localization synonym: "establishment and maintenance of protein complex localization" EXACT [] synonym: "protein complex localisation" EXACT [GOC:mah] synonym: "protein complex localization" RELATED [] +is_a: BFO:0000003 is_a: GO:0051179 ! localization intersection_of: GO:0051179 ! localization intersection_of: has_primary_input GO:0032991 ! protein-containing complex @@ -65565,6 +67016,7 @@ is_a: GO:0048522 ! positive regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0042552 ! myelination relationship: positively_regulates GO:0042552 ! myelination +relationship: RO:0002162 NCBITaxon:6072 {all_only="true"} ! in taxon Eumetazoa [Term] id: GO:0031644 @@ -65863,10 +67315,11 @@ relationship: positively_regulates GO:0006713 ! glucocorticoid catabolic process [Term] id: GO:0031958 -name: corticosteroid receptor signaling pathway +name: intracellular corticosteroid receptor signaling pathway namespace: biological_process -def: "The series of molecular signals initiated by corticosteroid binding to its receptor, and ending with the regulation of a downstream cellular process, e.g. transcription." [GOC:mah, PMID:11027914, PMID:12606724] -synonym: "corticosteroid receptor signalling pathway" EXACT [] +def: "The series of molecular signals initiated by corticosteroid binding to its nuclear receptor inside the cell, and ending with the regulation of a downstream cellular process, e.g. transcription." [GOC:mah, PMID:11027914, PMID:12606724] +synonym: "corticosteroid receptor signaling pathway" BROAD [] +synonym: "corticosteroid receptor signalling pathway" BROAD [] is_a: GO:0030518 ! intracellular steroid hormone receptor signaling pathway [Term] @@ -65886,7 +67339,7 @@ name: organelle envelope namespace: cellular_component def: "A double membrane structure enclosing an organelle, including two lipid bilayers and the region between them. In some cases, an organelle envelope may have more than two membranes." [GOC:mah, GOC:pz] subset: goslim_mouse -is_a: GO:0031975 ! envelope +is_a: GO:0110165 ! cellular anatomical entity relationship: part_of GO:0043227 ! membrane-bounded organelle relationship: part_of GO:0043229 ! intracellular organelle @@ -65910,14 +67363,6 @@ def: "The enclosed volume within a sealed membrane or between two sealed membran is_a: GO:0110165 ! cellular anatomical entity disjoint_from: GO:0045202 ! synapse -[Term] -id: GO:0031975 -name: envelope -namespace: cellular_component -def: "A multilayered structure surrounding all or part of a cell; encompasses one or more lipid bilayers, and may include a cell wall layer; also includes the space between layers." [GOC:mah, GOC:pz] -is_a: GO:0110165 ! cellular anatomical entity -relationship: part_of CL:0000000 ! cell - [Term] id: GO:0031981 name: nuclear lumen @@ -65972,6 +67417,7 @@ id: GO:0032052 name: bile acid binding namespace: molecular_function def: "Binding to a bile acid, a steroid carboxylic acids occurring in bile." [GOC:rph] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:36235 @@ -66186,7 +67632,7 @@ name: regulation of response to external stimulus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a response to an external stimulus." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0048583 ! regulation of response to stimulus intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0009605 ! response to external stimulus @@ -66198,7 +67644,7 @@ name: negative regulation of response to external stimulus namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a response to an external stimulus." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "down regulation of response to external stimulus" EXACT [] synonym: "down-regulation of response to external stimulus" EXACT [] synonym: "downregulation of response to external stimulus" EXACT [] @@ -66215,7 +67661,7 @@ name: positive regulation of response to external stimulus namespace: biological_process def: "Any process that activates, maintains or increases the rate of a response to an external stimulus." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "activation of response to external stimulus" NARROW [] synonym: "stimulation of response to external stimulus" NARROW [] synonym: "up regulation of response to external stimulus" EXACT [] @@ -66898,6 +68344,7 @@ namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of stimulus by estradiol, a C18 steroid hormone hydroxylated at C3 and C17 that acts as a potent estrogen." [GOC:mah, ISBN:0911910123] synonym: "response to E2 stimulus" EXACT [] synonym: "response to estradiol stimulus" EXACT [GOC:dos] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:23965 @@ -67068,6 +68515,7 @@ comment: Note that this term is intended for annotation of gene products that ac synonym: "alpha-beta T cell receptor activity" RELATED [] synonym: "gamma-delta T cell receptor activity" RELATED [] synonym: "T cell receptor activity" RELATED [] +is_a: BFO:0000003 is_a: GO:0004888 ! transmembrane signaling receptor activity is_a: GO:0140375 ! immune receptor activity relationship: has_part GO:0023029 ! MHC class Ib protein binding @@ -67315,6 +68763,7 @@ namespace: biological_process alt_id: GO:0044707 alt_id: GO:0050874 def: "Any biological process, occurring at the level of a multicellular organism, pertinent to its function." [GOC:curators, GOC:dph, GOC:isa_complete, GOC:tb] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate subset: goslim_pir synonym: "organismal physiological process" EXACT [] @@ -67324,6 +68773,7 @@ property_value: RO:0002161 NCBITaxon:2 property_value: RO:0002161 NCBITaxon:2157 property_value: RO:0002161 NCBITaxon:4896 property_value: RO:0002161 NCBITaxon:4932 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2012-09-19T16:07:47Z @@ -67342,23 +68792,6 @@ is_a: GO:0008150 ! biological_process created_by: jl creation_date: 2012-12-19T12:21:31Z -[Term] -id: GO:0032504 -name: multicellular organism reproduction -namespace: biological_process -def: "The biological process in which new individuals are produced by one or two multicellular organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." [GOC:isa_complete, GOC:jid] -subset: goslim_drosophila -is_a: GO:0000003 ! reproduction -is_a: GO:0032501 ! multicellular organismal process -disjoint_from: GO:0032505 ! reproduction of a single-celled organism - -[Term] -id: GO:0032505 -name: reproduction of a single-celled organism -namespace: biological_process -def: "The biological process in which new individuals are produced by one or two single-celled organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." [GOC:isa_complete] -is_a: GO:0000003 ! reproduction - [Term] id: GO:0032507 name: maintenance of protein location in cell @@ -67439,6 +68872,7 @@ name: response to progesterone namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a progesterone stimulus." [GOC:sl] synonym: "response to progesterone stimulus" EXACT [GOC:dos] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:17026 @@ -68217,6 +69651,8 @@ is_a: GO:0032649 ! regulation of type II interferon production intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0032609 ! type II interferon production relationship: positively_regulates GO:0032609 ! type II interferon production +relationship: RO:0002160 NCBITaxon:6072 ! only in taxon Eumetazoa +relationship: RO:0002162 NCBITaxon:6072 {all_only="true"} ! in taxon Eumetazoa [Term] id: GO:0032731 @@ -68427,6 +69863,8 @@ is_a: GO:0032675 ! regulation of interleukin-6 production intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0032635 ! interleukin-6 production relationship: positively_regulates GO:0032635 ! interleukin-6 production +relationship: RO:0002160 NCBITaxon:6072 ! only in taxon Eumetazoa +relationship: RO:0002162 NCBITaxon:6072 {all_only="true"} ! in taxon Eumetazoa [Term] id: GO:0032757 @@ -68578,6 +70016,7 @@ id: GO:0032782 name: bile acid secretion namespace: biological_process def: "The regulated release of bile acid, composed of any of a group of steroid carboxylic acids occurring in bile, by a cell or a tissue." [GOC:ecd] +is_a: BFO:0000003 is_a: GO:0046717 ! acid secretion intersection_of: GO:0046903 ! secretion intersection_of: has_primary_input CHEBI:36235 @@ -69140,11 +70579,13 @@ id: GO:0032879 name: regulation of localization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of any process in which a cell, a substance, or a cellular entity is transported to, or maintained in, a specific location." [GOC:mah] +subset: gocheck_do_not_annotate synonym: "regulation of localisation" EXACT [GOC:mah] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0051179 ! localization relationship: regulates GO:0051179 ! localization +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI [Term] id: GO:0032880 @@ -69376,6 +70817,7 @@ name: collagen metabolic process namespace: biological_process def: "The chemical reactions and pathways involving collagen, any of a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals. Collagen is highly enriched in glycine (some regions are 33% glycine) and proline, occurring predominantly as 3-hydroxyproline (about 20%)." [GOC:mah, ISBN:0198506732] synonym: "collagen metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output GO:0005581 ! collagen trimer @@ -69465,7 +70907,7 @@ synonym: "amino acid transmembrane export" BROAD [] is_a: GO:0003333 ! amino acid transmembrane transport is_a: GO:0140115 ! export across plasma membrane intersection_of: GO:0006810 ! transport -intersection_of: has_primary_input CHEBI:33709 +intersection_of: has_primary_input CHEBI:35238 intersection_of: has_target_end_location GO:0005576 ! extracellular region intersection_of: has_target_start_location GO:0005829 ! cytosol intersection_of: results_in_transport_across GO:0005886 ! plasma membrane @@ -69482,7 +70924,7 @@ synonym: "vacuolar amino acid export" EXACT [] is_a: GO:0003333 ! amino acid transmembrane transport is_a: GO:0034486 ! vacuolar transmembrane transport intersection_of: GO:0006810 ! transport -intersection_of: has_primary_input CHEBI:33709 +intersection_of: has_primary_input CHEBI:35238 intersection_of: has_target_end_location GO:0005829 ! cytosol intersection_of: has_target_start_location GO:0005775 ! vacuolar lumen intersection_of: results_in_transport_across GO:0016020 ! membrane @@ -69498,7 +70940,7 @@ synonym: "vacuolar amino acid import" EXACT [] is_a: GO:0003333 ! amino acid transmembrane transport is_a: GO:0034486 ! vacuolar transmembrane transport intersection_of: GO:0006810 ! transport -intersection_of: has_primary_input CHEBI:33709 +intersection_of: has_primary_input CHEBI:35238 intersection_of: has_target_end_location GO:0005775 ! vacuolar lumen intersection_of: has_target_start_location GO:0005829 ! cytosol intersection_of: results_in_transport_across GO:0016020 ! membrane @@ -69510,6 +70952,7 @@ id: GO:0032980 name: keratinocyte activation namespace: biological_process def: "A change in the morphology or behavior of a keratinocyte resulting from exposure to an activating factor such as a cellular or soluble ligand. Upon activation, keratinocytes become migratory and hyperproliferative, and produce growth factors and cytokines." [GOC:mah, PMID:15737202] +is_a: BFO:0000003 is_a: GO:0001775 ! cell activation intersection_of: GO:0001775 ! cell activation intersection_of: has_primary_input CL:0000312 ! keratinocyte @@ -69581,10 +71024,7 @@ def: "The process in which a cellular entity is generated and organized. A cellu subset: goslim_pir synonym: "cellular component morphogenesis" EXACT [] synonym: "cellular structure morphogenesis" EXACT [GOC:dph, GOC:tb] -is_a: GO:0009653 ! anatomical structure morphogenesis -intersection_of: GO:0009653 ! anatomical structure morphogenesis -intersection_of: results_in_morphogenesis_of GO:0110165 ! cellular anatomical entity -relationship: results_in_morphogenesis_of GO:0110165 ! cellular anatomical entity +is_a: GO:0016043 ! cellular component organization property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25496" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26249" xsd:anyURI @@ -69597,6 +71037,7 @@ def: "A stable assembly of two or more macromolecules, i.e. proteins, nucleic ac comment: A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole. subset: goslim_agr subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir @@ -69606,8 +71047,8 @@ synonym: "protein complex" NARROW [] synonym: "protein containing complex" EXACT [] synonym: "protein-protein complex" NARROW [] is_a: GO:0005575 ! cellular_component -is_a: PR:000050567 ! protein-containing material entity disjoint_from: GO:0110165 ! cellular anatomical entity +relationship: has_part PR:000000001 ! protein [Term] id: GO:0032993 @@ -69656,6 +71097,7 @@ name: muscle cell proliferation namespace: biological_process def: "The expansion of a muscle cell population by cell division." [CL:0000187, GOC:mah] synonym: "myocyte proliferation" EXACT [] +is_a: BFO:0000003 is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000187 ! muscle cell @@ -69929,6 +71371,7 @@ name: polysaccharide localization namespace: biological_process def: "Any process in which a polysaccharide is transported to, or maintained in, a specific location." [GOC:mah] synonym: "polysaccharide localisation" EXACT [GOC:mah] +is_a: BFO:0000003 is_a: GO:0033036 ! macromolecule localization intersection_of: GO:0033036 ! macromolecule localization intersection_of: has_primary_input CHEBI:18154 @@ -70266,6 +71709,7 @@ namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an ATP (adenosine 5'-triphosphate) stimulus." [GOC:sl] synonym: "response to adenosine 5'-triphosphate" EXACT [] synonym: "response to adenosine triphosphate" EXACT [] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:30616 @@ -70299,6 +71743,7 @@ name: amide binding namespace: molecular_function def: "Binding to an amide, any derivative of an oxoacid in which an acidic hydroxy group has been replaced by an amino or substituted amino group." [GOC:mah] subset: goslim_pir +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:32988 @@ -70395,6 +71840,7 @@ namespace: biological_process def: "The multiplication or reproduction of cells, resulting in the expansion of a cell population in the midbrain." [GO_REF:0000021, GOC:dgf] synonym: "cell proliferation in mesencephalon" EXACT [] synonym: "mesencepahalic cell proliferation" RELATED [] +is_a: BFO:0000003 is_a: GO:0061351 ! neural precursor cell proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: occurs_in UBERON:0001891 ! midbrain @@ -70406,6 +71852,7 @@ id: GO:0033293 name: monocarboxylic acid binding namespace: molecular_function def: "Binding to a monocarboxylic acid, any organic acid containing one carboxyl (COOH) group or anion (COO-)." [GOC:mah] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:35757 @@ -70596,6 +72043,7 @@ id: GO:0033568 name: lactoferrin receptor activity namespace: molecular_function def: "Combining with lactoferrin and delivering lactoferrin into the cell via endocytosis. Lactoferrin is an iron-binding glycoprotein which binds ferric iron most efficiently at low pH." [GOC:bf, GOC:mlg, PMID:16261254] +is_a: BFO:0000003 is_a: GO:0038024 ! cargo receptor activity intersection_of: GO:0038024 ! cargo receptor activity intersection_of: has_primary_input PR:000009978 ! lactotransferrin @@ -70629,6 +72077,7 @@ name: response to testosterone namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a testosterone stimulus." [GOC:sl] synonym: "response to testosterone stimulus" EXACT [GOC:dos] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:17347 @@ -70780,6 +72229,7 @@ id: GO:0033687 name: osteoblast proliferation namespace: biological_process def: "The multiplication or reproduction of osteoblasts, resulting in the expansion of an osteoblast cell population. An osteoblast is a bone-forming cell which secretes an extracellular matrix. Hydroxyapatite crystals are then deposited into the matrix to form bone." [GOC:mah] +is_a: BFO:0000003 is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000062 ! osteoblast @@ -70846,6 +72296,7 @@ name: response to glucagon namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a glucagon stimulus." [GOC:sl] synonym: "response to glucagon stimulus" EXACT [GOC:dos] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:5391 @@ -70856,6 +72307,7 @@ id: GO:0033993 name: response to lipid namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a lipid stimulus." [GOC:sl] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:18059 @@ -71142,6 +72594,7 @@ name: basidiospore formation namespace: biological_process def: "The process in which spores form outside a specialized end cell known as a basidium. Basidia are characteristic of the basidiomycete fungi (phylum Basidiomycota), and give rise to spores that each contain a haploid nucleus that is the product of meiosis. The spores are usually attached to the basidium by short spikes called sterigmata (singular: sterigma). In most basidiomycetes there are four sterigmata (and four spores) to a basidium." [GOC:di, GOC:ds, GOC:mah, GOC:mcc, http://www.gsbs.utmb.edu/microbook/ch073.htm, http://www.ilmyco.gen.chicago.il.us/Terms/basid133.html] comment: Note that basidiospores and basidia are separate biological structures. The basidium is the structure that bear the basidiospores, but the development of the basidium is a different process than the formation of the basidiospores themselves. For this reason, GO:0034295 basidiospore formation and GO:0075313 basidium development are different terms and are not linked. +is_a: BFO:0000003 is_a: GO:0043935 ! sexual sporulation resulting in formation of a cellular spore intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of CL:0000615 ! basidiospore @@ -71152,6 +72605,7 @@ id: GO:0034296 name: zygospore formation namespace: biological_process def: "The process in which zygospores are formed. Zygospores are characteristic of the zygomycete fungi (phylum Zygomycota) thick-walled and darkly colored, and usually heavily ornamented as well, with many spines or ridges. It is formed between two specialized organs called suspensors, which are themselves usually heavily ornamented, one from each mating partner. The zygospore forms between them and then breaks away." [GOC:ds, GOC:mah, http://www.ilmyco.gen.chicago.il.us/Terms/zygos581.html] +is_a: BFO:0000003 is_a: GO:0043935 ! sexual sporulation resulting in formation of a cellular spore intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of CL:0000608 ! zygospore @@ -71345,6 +72799,7 @@ id: GO:0034436 name: glycoprotein transport namespace: biological_process def: "The directed movement of a glycoprotein, a protein that contains covalently bound glycose (i.e. monosaccharide) residues, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:BHF, GOC:mah, GOC:rl] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:17089 @@ -71372,7 +72827,7 @@ comment: Note that this term is not intended for use in annotating lateral movem synonym: "vacuolar amino acid membrane transport" EXACT [] is_a: GO:0003333 ! amino acid transmembrane transport intersection_of: GO:0006810 ! transport -intersection_of: has_primary_input CHEBI:33709 +intersection_of: has_primary_input CHEBI:35238 intersection_of: results_in_transport_across GO:0005774 ! vacuolar membrane relationship: results_in_transport_across GO:0005774 ! vacuolar membrane @@ -71397,7 +72852,7 @@ def: "The directed movement of neutral amino acids out of the vacuole, across th is_a: GO:0015804 ! neutral amino acid transport is_a: GO:0032974 ! amino acid transmembrane export from vacuole intersection_of: GO:0015804 ! neutral amino acid transport -intersection_of: has_primary_input CHEBI:33709 +intersection_of: has_primary_input CHEBI:35238 intersection_of: has_target_end_location GO:0005829 ! cytosol intersection_of: has_target_start_location GO:0005775 ! vacuolar lumen intersection_of: results_in_transport_across GO:0016020 ! membrane @@ -71410,7 +72865,7 @@ def: "The directed movement of basic amino acids into the vacuole across the vac is_a: GO:0032975 ! amino acid transmembrane import into vacuole is_a: GO:1990822 ! basic amino acid transmembrane transport intersection_of: GO:0015802 ! basic amino acid transport -intersection_of: has_primary_input CHEBI:33709 +intersection_of: has_primary_input CHEBI:35238 intersection_of: has_target_end_location GO:0005775 ! vacuolar lumen intersection_of: has_target_start_location GO:0005829 ! cytosol intersection_of: results_in_transport_across GO:0016020 ! membrane @@ -71423,7 +72878,7 @@ def: "The directed movement of neutral amino acids into the vacuole across the v is_a: GO:0015804 ! neutral amino acid transport is_a: GO:0032975 ! amino acid transmembrane import into vacuole intersection_of: GO:0015804 ! neutral amino acid transport -intersection_of: has_primary_input CHEBI:33709 +intersection_of: has_primary_input CHEBI:35238 intersection_of: has_target_end_location GO:0005775 ! vacuolar lumen intersection_of: has_target_start_location GO:0005829 ! cytosol intersection_of: results_in_transport_across GO:0016020 ! membrane @@ -71468,18 +72923,6 @@ intersection_of: results_in_maturation_of UBERON:0001091 ! calcareous tooth relationship: part_of GO:0042476 ! odontogenesis relationship: results_in_maturation_of UBERON:0001091 ! calcareous tooth -[Term] -id: GO:0034641 -name: cellular nitrogen compound metabolic process -namespace: biological_process -def: "The chemical reactions and pathways involving various organic and inorganic nitrogenous compounds, as carried out by individual cells." [GOC:mah] -subset: gocheck_do_not_annotate -subset: goslim_chembl -synonym: "cellular nitrogen compound metabolism" EXACT [] -is_a: GO:0006807 ! nitrogen compound metabolic process -is_a: GO:0044237 ! cellular metabolic process -property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI - [Term] id: GO:0034654 name: nucleobase-containing compound biosynthetic process @@ -71490,7 +72933,7 @@ synonym: "nucleobase, nucleoside, nucleotide and nucleic acid biosynthesis" EXAC synonym: "nucleobase, nucleoside, nucleotide and nucleic acid formation" EXACT [] synonym: "nucleobase, nucleoside, nucleotide and nucleic acid synthesis" NARROW [] is_a: GO:0006139 ! nucleobase-containing compound metabolic process -is_a: GO:0044271 ! cellular nitrogen compound biosynthetic process +is_a: GO:0009058 ! biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:61120 relationship: has_primary_output CHEBI:61120 @@ -71506,7 +72949,7 @@ synonym: "nucleobase, nucleoside, nucleotide and nucleic acid catabolic process" synonym: "nucleobase, nucleoside, nucleotide and nucleic acid catabolism" EXACT [] synonym: "nucleobase, nucleoside, nucleotide and nucleic acid degradation" EXACT [] is_a: GO:0006139 ! nucleobase-containing compound metabolic process -is_a: GO:0044270 ! cellular nitrogen compound catabolic process +is_a: GO:0009056 ! catabolic process intersection_of: GO:0009056 ! catabolic process intersection_of: has_primary_input CHEBI:61120 relationship: has_primary_input CHEBI:61120 @@ -71809,6 +73252,7 @@ name: response to histamine namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a histamine stimulus. Histamine, the biogenic amine 2-(1H-imidazol-4-yl)ethanamine, is involved in local immune responses as well as regulating physiological function in the gut and acting as a neurotransmitter." [GOC:BHF, GOC:mah, GOC:vk] synonym: "response to histamine stimulus" EXACT [] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:58432 @@ -71848,7 +73292,6 @@ namespace: biological_process def: "The conversion at fertilization of the inactive sperm nucleus into a male pronucleus with its chromosomes processed for the first zygotic division." [GOC:bf, PMID:11735001] synonym: "male pronucleus formation" RELATED [GOC:dph] is_a: GO:0006997 ! nucleus organization -is_a: GO:0022414 ! reproductive process is_a: GO:0070925 ! organelle assembly intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0001940 ! male pronucleus @@ -71860,7 +73303,6 @@ id: GO:0035040 name: sperm nuclear envelope removal namespace: biological_process def: "Removal of the sperm nuclear envelope, allowing entry of maternal factors into the sperm nucleus." [GOC:bf, PMID:11735001] -is_a: GO:0022414 ! reproductive process is_a: GO:0051081 ! nuclear membrane disassembly intersection_of: GO:0051081 ! nuclear membrane disassembly intersection_of: occurs_in CL:0000019 ! sperm @@ -71937,6 +73379,7 @@ namespace: biological_process def: "The directed movement of a hemocyte within the embryo. Hemocytes are blood cells associated with a hemocoel (the cavity containing most of the major organs of the arthropod body) which are involved in defense and clotting of hemolymph, but not involved in transport of oxygen. In Drosophila, embryonic hemocytes originate from the head mesoderm as a cluster of cells. The cluster splits into two and one group of cells crosses the amnioserosa. Both populations then spread toward the middle of the embryo and then disperse evenly throughout the embryo." [GOC:bf, GOC:mtg_sensu, PMID:12885551] synonym: "arthropod blood cell migration" EXACT [] synonym: "hemocyte cell migration" EXACT [] +is_a: BFO:0000003 is_a: GO:0016477 ! cell migration intersection_of: GO:0016477 ! cell migration intersection_of: results_in_movement_of CL:0000387 ! hemocyte (sensu Arthropoda) @@ -71950,6 +73393,7 @@ id: GO:0035107 name: appendage morphogenesis namespace: biological_process def: "The process in which the anatomical structures of appendages are generated and organized. An appendage is an organ or part that is attached to the trunk of an organism, such as a limb or a branch." [ISBN:0582227089] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000026 ! appendage @@ -72010,6 +73454,7 @@ namespace: biological_process def: "Creation of the central hole of a tube in an anatomical structure through which gases and/or liquids flow." [GOC:bf] synonym: "lumen formation in an anatomical structure" RELATED [GOC:dph, GOC:mah] synonym: "tube lumen formation" EXACT [GOC:dph, GOC:mah] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0000025 ! tube @@ -72121,6 +73566,7 @@ name: hemocyte proliferation namespace: biological_process def: "The multiplication or reproduction of hemocytes, resulting in the expansion of the cell population. Hemocytes are blood cells associated with a hemocoel (the cavity containing most of the major organs of the arthropod body) which are involved in defense and clotting of hemolymph, but not involved in transport of oxygen." [GOC:bf, GOC:mtg_sensu] synonym: "arthropod blood cell proliferation" EXACT [] +is_a: BFO:0000003 is_a: GO:0002376 ! immune system process is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation @@ -72263,6 +73709,7 @@ id: GO:0035239 name: tube morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a tube are generated and organized. Epithelial and endothelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues, with tube shape and organization varying from the single-celled excretory organ in Caenorhabditis elegans to the branching trees of the mammalian kidney and insect tracheal system." [GOC:bf, PMID:14624839] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000025 ! tube @@ -72274,6 +73721,7 @@ id: GO:0035240 name: dopamine binding namespace: molecular_function def: "Binding to dopamine, a catecholamine neurotransmitter formed by aromatic-L-amino-acid decarboxylase from 3,4-dihydroxy-L-phenylalanine." [ISBN:0198506732] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:59905 @@ -72325,6 +73773,7 @@ name: multicellular organism growth namespace: biological_process def: "The increase in size or mass of an entire multicellular organism, as opposed to cell growth." [GOC:bf, GOC:curators, GOC:dph, GOC:tb] synonym: "body growth" RELATED [] +is_a: BFO:0000003 is_a: GO:0032501 ! multicellular organismal process is_a: GO:0048589 ! developmental growth intersection_of: GO:0048589 ! developmental growth @@ -72336,6 +73785,7 @@ id: GO:0035265 name: organ growth namespace: biological_process def: "The increase in size or mass of an organ. Organs are commonly observed as visibly distinct structures, but may also exist as loosely associated clusters of cells that function together as to perform a specific function." [GOC:bf, ISBN:0471245208, ISBN:0721662544] +is_a: BFO:0000003 is_a: GO:0032501 ! multicellular organismal process is_a: GO:0048589 ! developmental growth intersection_of: GO:0048589 ! developmental growth @@ -72458,6 +73908,7 @@ id: GO:0035374 name: chondroitin sulfate binding namespace: molecular_function def: "Binding to chondroitin sulfate, a glycosaminoglycan made up of two alternating monosaccharides: D-glucuronic acid (GlcA) and N-acetyl-D-galactosamine (GalNAc)." [GOC:kmv, ISBN:0198506732] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:37397 @@ -72620,37 +74071,6 @@ relationship: part_of GO:0042582 ! azurophil granule created_by: bf creation_date: 2010-10-05T01:29:10Z -[Term] -id: GO:0035584 -name: calcium-mediated signaling using intracellular calcium source -namespace: biological_process -def: "The series of molecular signals in which a cell uses calcium ions released from an intracellular store to convert a signal into a response." [GOC:bf, GOC:BHF, PMID:20192754] -synonym: "calcium signaling using intracellular calcium source" EXACT [] -synonym: "calcium signalling using intracellular calcium source" EXACT [] -synonym: "calcium-mediated signalling using intracellular calcium source" EXACT [] -is_a: GO:0019722 ! calcium-mediated signaling -intersection_of: GO:0019722 ! calcium-mediated signaling -intersection_of: starts_with GO:0051209 ! release of sequestered calcium ion into cytosol -relationship: starts_with GO:0051209 ! release of sequestered calcium ion into cytosol -created_by: bf -creation_date: 2010-10-18T11:01:08Z - -[Term] -id: GO:0035585 -name: calcium-mediated signaling using extracellular calcium source -namespace: biological_process -def: "The series of molecular signals in which a cell uses calcium ions imported from an extracellular source to convert a signal into a response." [GOC:bf, GOC:BHF, PMID:20192754] -synonym: "calcium signaling using extracellular calcium source" EXACT [] -synonym: "calcium signalling using extracellular calcium source" EXACT [] -synonym: "calcium-mediated signalling using extracellular calcium source" EXACT [] -synonym: "extracellular calcium influx" NARROW [GOC:BHF] -is_a: GO:0019722 ! calcium-mediated signaling -intersection_of: GO:0019722 ! calcium-mediated signaling -intersection_of: starts_with GO:0098703 ! calcium ion import across plasma membrane -relationship: starts_with GO:0098703 ! calcium ion import across plasma membrane -created_by: bf -creation_date: 2010-10-18T11:04:27Z - [Term] id: GO:0035592 name: establishment of protein localization to extracellular region @@ -72789,6 +74209,7 @@ name: hematopoietic stem cell migration namespace: biological_process def: "The orderly movement of a hematopoietic stem cell from one site to another. A hematopoietic stem cell is a cell from which all cells of the lymphoid and myeloid lineages develop, including blood cells and cells of the immune system." [CL:0000037, GOC:BHF, PMID:20234092] synonym: "hemopoietic stem cell migration" EXACT [CL:0000037] +is_a: BFO:0000003 is_a: GO:0016477 ! cell migration intersection_of: GO:0016477 ! cell migration intersection_of: results_in_movement_of CL:0000037 ! hematopoietic stem cell @@ -73237,6 +74658,7 @@ name: adrenal cortex formation namespace: biological_process def: "The process that gives rise to the adrenal cortex. This process pertains to the initial formation of a structure from unspecified parts. The adrenogonadal primordium from which the adrenal cortex is formed derives from a condensation of coelomic epithelial cells (the urogenital ridge; the same structure from which gonads and kidney also originate)." [PMID:12185666, PMID:21115154] synonym: "adrenal gland cortex formation" EXACT [MA:0000118] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0001235 ! adrenal cortex @@ -73323,7 +74745,6 @@ name: oviduct morphogenesis namespace: biological_process def: "The process in which anatomical structures of the oviduct are generated and organized. An oviduct is a tube through which an ova passes from the ovary to the uterus, or from the ovary to the outside of the organism." [GOC:yaf, http://www.thefreedictionary.com/oviduct] synonym: "fallopian tube morphogenesis" NARROW [GOC:yaf] -is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0009887 ! animal organ morphogenesis is_a: GO:0035239 ! tube morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis @@ -73519,6 +74940,7 @@ id: GO:0035910 name: ascending aorta morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the ascending aorta are generated and organized. The ascending aorta is the portion of the aorta in a two-pass circulatory system that lies between the heart and the arch of aorta. In a two-pass circulatory system blood passes twice through the heart to supply the body once." [GOC:bf, GOC:dgh, MA:0002570, UBERON:0001496, Wikipedia:Ascending_aorta] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001496 ! ascending aorta @@ -73533,6 +74955,7 @@ id: GO:0035911 name: descending aorta morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the descending aorta are generated and organized. The descending aorta is the portion of the aorta in a two-pass circulatory system from the arch of aorta to the point where it divides into the common iliac arteries. In a two-pass circulatory system blood passes twice through the heart to supply the body once." [GOC:bf, GOC:dgh, MA:0002571, UBERON:0001514, Wikipedia:Descending_aorta] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001514 ! descending aorta @@ -73724,6 +75147,7 @@ id: GO:0035992 name: tendon formation namespace: biological_process def: "The process that gives rise to a tendon. This process pertains to the initial formation of a tendon from unspecified parts." [GOC:yaf, PMID:17567668, UBERON:0000043] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0000043 ! tendon @@ -73753,6 +75177,7 @@ namespace: biological_process def: "The process in which the anatomical structures of a limb joint are generated and organized. A limb joint is a flexible region that separates the rigid sections of a limb to allow movement in a controlled manner." [GOC:bf] synonym: "knee morphogenesis" NARROW [GOC:bf] synonym: "leg joint morphogenesis" NARROW [GOC:bf] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0003657 ! limb joint @@ -73812,8 +75237,8 @@ id: GO:0036093 name: germ cell proliferation namespace: biological_process def: "The multiplication or reproduction of germ cells, reproductive cells in multicellular organisms, resulting in the expansion of a cell population." [CL:0000586, GOC:kmv] +is_a: BFO:0000003 is_a: GO:0008283 ! cell population proliferation -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000586 ! germ cell relationship: acts_on_population_of CL:0000586 ! germ cell @@ -73828,7 +75253,10 @@ namespace: molecular_function def: "Binding to a small molecule, any low molecular weight, monomeric, non-encoded molecule." [GOC:curators, GOC:pde, GOC:pm] comment: Small molecules in GO include monosaccharides but exclude disaccharides and polysaccharides. subset: goslim_agr +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon +subset: goslim_plant_ribbon +subset: goslim_prokaryote_ribbon is_a: GO:0005488 ! binding created_by: bf creation_date: 2012-01-17T04:20:34Z @@ -74008,6 +75436,7 @@ id: GO:0036303 name: lymph vessel morphogenesis namespace: biological_process def: "The process in which the anatomical structures of lymph vessels are generated and organized. The lymph vessel is the vasculature carrying lymph." [GOC:BHF, GOC:gr, PMID:18093989] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001473 ! lymphatic vessel @@ -74021,6 +75450,7 @@ id: GO:0036304 name: umbilical cord morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the umbilical cord are generated and organized. The umbilical cord is an organ or embryonic origin consisting of the 2 umbilical arteries and the one umbilical vein. The umbilical cord connects the cardiovascular system of the fetus to the mother via the placenta." [GOC:BHF, GOC:gr, PMID:15107403] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002331 ! umbilical cord @@ -74069,6 +75499,7 @@ id: GO:0036333 name: hepatocyte homeostasis namespace: biological_process def: "Any biological process involved in the maintenance of the steady-state number of hepatocytes within a population of cells. Hepatocytes are specialized epithelial cells of the liver that are organized into interconnected plates called lobules." [CL:0000182, GOC:nhn, PMID:19878874] +is_a: BFO:0000003 is_a: GO:0048872 ! homeostasis of number of cells intersection_of: GO:0048872 ! homeostasis of number of cells intersection_of: acts_on_population_of CL:0000182 ! hepatocyte @@ -74081,6 +75512,7 @@ id: GO:0036334 name: epidermal stem cell homeostasis namespace: biological_process def: "Any biological process involved in the maintenance of the steady-state number of epidermal stem cells within a population of cells." [CL:1000428, GOC:nhn, PMID:17666529] +is_a: BFO:0000003 is_a: GO:0048872 ! homeostasis of number of cells intersection_of: GO:0048872 ! homeostasis of number of cells intersection_of: acts_on_population_of CL:1000428 ! stem cell of epidermis @@ -74105,6 +75537,7 @@ id: GO:0036342 name: post-anal tail morphogenesis namespace: biological_process def: "The process in which a post-anal tail is generated and organized. A post-anal tail is a muscular region of the body that extends posterior to the anus. The post-anal tail may aid locomotion and balance." [GOC:bf, GOC:kmv, Wikipedia:Chordate] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0007812 ! post-anal tail @@ -74232,6 +75665,7 @@ subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "receptor activity" BROAD [] synonym: "receptor activity involved in signal transduction" EXACT [GOC:bf] synonym: "signalling receptor activity" EXACT [] @@ -74243,8 +75677,8 @@ creation_date: 2011-08-01T02:45:27Z id: GO:0038024 name: cargo receptor activity namespace: molecular_function -def: "Binding specifically to a substance (cargo) to deliver it to a transport vesicle. Cargo receptors span a membrane (either the plasma membrane or a vesicle membrane), binding simultaneously to cargo molecules and coat adaptors, to efficiently recruit soluble proteins to nascent vesicles." [PMID:15239958, PMID:27903609] -comment: Notes: (1) this term and its child terms are intended for receptors that bind to and internalize molecules by receptor-mediated endocytosis. For receptors that are coupled to a signal transduction pathway, consider instead the term 'signaling receptor activity ; GO:0038023' and its children. (2) Cargo receptors transport substances by vesicular transport, not by transmembrane transport. For transmembrane transporters, consider instead the term 'transmembrane transporter activity ; GO:0022857. +def: "Binding specifically to a substance (cargo) to deliver it to a transport vesicle. Cargo receptors span membranes (for instance the plasma membrane or the endoplasmic reticulum membrane), binding simultaneously to cargo molecules and coat adaptors, to efficiently recruit the cargo molecules to nascent vesicles." [PMID:15239958, PMID:27903609] +comment: Notes: (1) For receptors binding a molecule but coupled to a signal transduction pathway, consider instead the term 'signaling receptor activity ; GO:0038023' and its children. (2) Cargo receptors transport substances by vesicular transport, not by transmembrane transport. For transmembrane transporters, consider instead the term 'transmembrane transporter activity ; GO:0022857'. subset: goslim_drosophila subset: goslim_generic synonym: "endocytic receptor activity" NARROW [GOC:signaling, ISBN:0123645387, PMID:12671190] @@ -74260,7 +75694,8 @@ xref: Reactome:R-HSA-9759202 "LRP2-mediated TCN2:RCbl uptake and delivery to lys xref: Reactome:R-HSA-9759209 "LRP2 binds extracellular TCN2:RCbl" is_a: GO:0003674 ! molecular_function relationship: has_part GO:0060090 ! molecular adaptor activity -relationship: part_of GO:0006897 ! endocytosis +relationship: part_of GO:0016192 ! vesicle-mediated transport +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26872" xsd:anyURI created_by: bf creation_date: 2011-08-01T02:50:45Z @@ -74757,6 +76192,7 @@ namespace: biological_process def: "The series of events that restore integrity to a damaged tissue, following an injury." [GOC:bf, PMID:15269788] subset: goslim_generic xref: Wikipedia:Wound_healing +is_a: BFO:0000003 is_a: GO:0009611 ! response to wounding relationship: has_part GO:0042246 ! tissue regeneration @@ -74788,7 +76224,6 @@ name: regulation of catecholamine metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving catecholamines." [GOC:go_curators] synonym: "regulation of catecholamine metabolism" EXACT [] -is_a: GO:0031323 ! regulation of cellular metabolic process is_a: GO:0033238 ! regulation of amine metabolic process is_a: GO:0080090 ! regulation of primary metabolic process intersection_of: GO:0065007 ! biological regulation @@ -74842,7 +76277,6 @@ alt_id: GO:0048131 def: "The self-renewing division of a germline stem cell to produce a daughter stem cell and a daughter germ cell, which will divide to form the gametes." [GOC:jid, PMID:2279698] synonym: "germ-line stem cell renewal" EXACT [] is_a: GO:0017145 ! stem cell division -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism intersection_of: GO:0051301 ! cell division intersection_of: has_primary_input CL:0000014 ! germ line stem cell relationship: has_primary_input CL:0000014 ! germ line stem cell @@ -74854,6 +76288,7 @@ name: T-helper 1 type immune response namespace: biological_process def: "An immune response which is associated with resistance to intracellular bacteria, fungi, and protozoa, and pathological conditions such as arthritis, and which is typically orchestrated by the production of particular cytokines by T-helper 1 cells, most notably interferon-gamma, IL-2, and lymphotoxin." [GOC:add, ISBN:0781735149] synonym: "Th1 immune response" EXACT [] +is_a: BFO:0000003 is_a: GO:0002460 ! adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains relationship: has_participant CL:0000545 ! T-helper 1 cell @@ -75034,6 +76469,7 @@ id: GO:0042118 name: endothelial cell activation namespace: biological_process def: "The change in morphology and behavior of an endothelial cell resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor." [GOC:mgi_curators, ISBN:0781735149, PMID:12851652, PMID:14581484] +is_a: BFO:0000003 is_a: GO:0001775 ! cell activation intersection_of: GO:0001775 ! cell activation intersection_of: has_primary_input CL:0000115 ! endothelial cell @@ -75112,6 +76548,7 @@ name: lipoprotein metabolic process namespace: biological_process def: "The chemical reactions and pathways involving any conjugated, water-soluble protein in which the covalently attached nonprotein group consists of a lipid or lipids." [ISBN:0198506732] synonym: "lipoprotein metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:6495 @@ -75152,6 +76589,7 @@ id: GO:0042166 name: acetylcholine binding namespace: molecular_function def: "Binding to acetylcholine, an acetic acid ester of the organic base choline that functions as a neurotransmitter, released at the synapses of parasympathetic nerves and at neuromuscular junctions." [GOC:ai] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:15355 @@ -75340,14 +76778,16 @@ name: response to chemical namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a chemical stimulus." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_candida subset: goslim_drosophila subset: goslim_metagenomics subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "response to chemical stimulus" EXACT [GOC:dos] synonym: "response to chemical substance" EXACT [] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:24431 @@ -75378,6 +76818,7 @@ subset: goslim_generic subset: goslim_pir subset: goslim_pombe subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "ribosome biogenesis and assembly" EXACT [] is_a: GO:0022613 ! ribonucleoprotein complex biogenesis @@ -75441,10 +76882,11 @@ namespace: molecular_function def: "Binding to a peptide, an organic compound comprising two or more amino acids linked by peptide bonds." [GOC:jl] subset: goslim_chembl subset: goslim_pir +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding -intersection_of: has_primary_input CHEBI:16670 -relationship: has_primary_input CHEBI:16670 +intersection_of: has_primary_input CHEBI:60466 +relationship: has_primary_input CHEBI:60466 [Term] id: GO:0042287 @@ -75526,16 +76968,21 @@ id: GO:0042325 name: regulation of phosphorylation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of addition of phosphate groups into a molecule." [GOC:jl] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate is_a: GO:0019220 ! regulation of phosphate metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0016310 ! phosphorylation relationship: regulates GO:0016310 ! phosphorylation +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0042326 name: negative regulation of phosphorylation namespace: biological_process def: "Any process that stops, prevents or decreases the rate of addition of phosphate groups to a molecule." [GOC:jl] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate synonym: "down regulation of phosphorylation" EXACT [] synonym: "down-regulation of phosphorylation" EXACT [] synonym: "downregulation of phosphorylation" EXACT [] @@ -75545,6 +76992,7 @@ is_a: GO:0045936 ! negative regulation of phosphate metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0016310 ! phosphorylation relationship: negatively_regulates GO:0016310 ! phosphorylation +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0042327 @@ -75580,6 +77028,7 @@ def: "The chemical reactions and pathways involving keratan sulfate, a glycosami synonym: "keratan sulfate metabolism" EXACT [] synonym: "keratan sulphate metabolic process" EXACT [] synonym: "keratan sulphate metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:60924 @@ -75642,7 +77091,7 @@ id: GO:0042391 name: regulation of membrane potential namespace: biological_process def: "Any process that modulates the establishment or extent of a membrane potential, the electric potential existing across any membrane arising from charges in the membrane itself and from the charges present in the media on either side of the membrane." [GOC:jl, GOC:mtg_cardio, GOC:tb, ISBN:0198506732] -is_a: BFO:0000003 ! occurrent +is_a: BFO:0000003 relationship: has_part GO:0034220 ! monoatomic ion transmembrane transport [Term] @@ -75707,10 +77156,11 @@ def: "The chemical reactions and pathways involving epinephrine, a hormone produ synonym: "adrenaline metabolic process" EXACT [] synonym: "adrenaline metabolism" EXACT [] synonym: "epinephrine metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process -intersection_of: has_primary_input_or_output CHEBI:33568 -relationship: has_primary_input_or_output CHEBI:33568 +intersection_of: has_primary_input_or_output CHEBI:71406 +relationship: has_primary_input_or_output CHEBI:71406 [Term] id: GO:0042415 @@ -75722,6 +77172,7 @@ synonym: "levarterenol metabolism" EXACT [] synonym: "noradrenaline metabolic process" EXACT [] synonym: "noradrenaline metabolism" EXACT [] synonym: "norepinephrine metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:72587 @@ -75748,10 +77199,12 @@ name: dopamine metabolic process namespace: biological_process def: "The chemical reactions and pathways involving dopamine, a catecholamine neurotransmitter and a metabolic precursor of noradrenaline and adrenaline." [GOC:jl, ISBN:0198506732] synonym: "dopamine metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:59905 relationship: has_primary_input_or_output CHEBI:59905 +property_value: RO:0002161 NCBITaxon:4751 [Term] id: GO:0042418 @@ -75767,8 +77220,8 @@ synonym: "epinephrine synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0042414 ! epinephrine metabolic process intersection_of: GO:0009058 ! biosynthetic process -intersection_of: has_primary_output CHEBI:33568 -relationship: has_primary_output CHEBI:33568 +intersection_of: has_primary_output CHEBI:71406 +relationship: has_primary_output CHEBI:71406 [Term] id: GO:0042419 @@ -75783,8 +77236,8 @@ synonym: "epinephrine degradation" EXACT [] is_a: GO:0009056 ! catabolic process is_a: GO:0042414 ! epinephrine metabolic process intersection_of: GO:0009056 ! catabolic process -intersection_of: has_primary_input CHEBI:33568 -relationship: has_primary_input CHEBI:33568 +intersection_of: has_primary_input CHEBI:71406 +relationship: has_primary_input CHEBI:71406 [Term] id: GO:0042420 @@ -75925,9 +77378,6 @@ synonym: "indole derivative metabolism" NARROW [] synonym: "indole-containing compound metabolism" EXACT [] synonym: "ketole metabolic process" EXACT [] synonym: "ketole metabolism" EXACT [] -is_a: GO:0006725 ! cellular aromatic compound metabolic process -is_a: GO:0034641 ! cellular nitrogen compound metabolic process -is_a: GO:0046483 ! heterocycle metabolic process is_a: GO:1901360 ! organic cyclic compound metabolic process is_a: GO:1901564 ! organonitrogen compound metabolic process intersection_of: GO:0008152 ! metabolic process @@ -75945,12 +77395,8 @@ synonym: "indole-containing compound anabolism" EXACT [] synonym: "indole-containing compound biosynthesis" EXACT [] synonym: "indole-containing compound formation" EXACT [] synonym: "indole-containing compound synthesis" EXACT [] -is_a: GO:0018130 ! heterocycle biosynthetic process -is_a: GO:0019438 ! aromatic compound biosynthetic process is_a: GO:0042430 ! indole-containing compound metabolic process -is_a: GO:0044271 ! cellular nitrogen compound biosynthetic process is_a: GO:1901362 ! organic cyclic compound biosynthetic process -is_a: GO:1901566 ! organonitrogen compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:24828 relationship: has_primary_output CHEBI:24828 @@ -75965,8 +77411,8 @@ synonym: "indole derivative catabolism" EXACT [] synonym: "indole-containing compound breakdown" EXACT [] synonym: "indole-containing compound catabolism" EXACT [] synonym: "indole-containing compound degradation" EXACT [] +is_a: GO:0009056 ! catabolic process is_a: GO:0042430 ! indole-containing compound metabolic process -is_a: GO:0044270 ! cellular nitrogen compound catabolic process intersection_of: GO:0009056 ! catabolic process intersection_of: has_primary_input CHEBI:24828 relationship: has_primary_input CHEBI:24828 @@ -76027,6 +77473,7 @@ name: progesterone metabolic process namespace: biological_process def: "The chemical reactions and pathways involving progesterone, a steroid hormone produced in the ovary which prepares and maintains the uterus for pregnancy. Also found in plants." [GOC:jl, http://www.cogsci.princeton.edu/] synonym: "progesterone metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:17026 @@ -76087,6 +77534,7 @@ id: GO:0042472 name: inner ear morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the inner ear are generated and organized. The inner ear is the structure in vertebrates that contains the organs of balance and hearing. It consists of soft hollow sensory structures (the membranous labyrinth) containing fluid (endolymph) surrounded by fluid (perilymph) and encased in a bony cavity (the bony labyrinth). It consists of two chambers, the sacculus and utriculus, from which arise the cochlea and semicircular canals respectively." [GOC:jl, ISBN:0192801023] +is_a: BFO:0000003 is_a: GO:0048598 ! embryonic morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001846 ! internal ear @@ -76099,6 +77547,7 @@ id: GO:0042473 name: outer ear morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the outer ear are generated and organized. The outer ear is the part of the ear external to the tympanum (eardrum). It consists of a tube (the external auditory meatus) that directs sound waves on to the tympanum, and may also include the external pinna, which extends beyond the skull." [GOC:jl, ISBN:0192801023] +is_a: BFO:0000003 is_a: GO:0048598 ! embryonic morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001691 ! external ear @@ -76110,6 +77559,7 @@ id: GO:0042474 name: middle ear morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the middle ear are generated and organized. The middle ear is the air-filled cavity within the skull of vertebrates that lies between the outer ear and the inner ear. It is linked to the pharynx (and therefore to outside air) via the Eustachian tube and in mammals contains the three ear ossicles, which transmit auditory vibrations from the outer ear (via the tympanum) to the inner ear (via the oval window)." [GOC:jl, ISBN:0192801023] +is_a: BFO:0000003 is_a: GO:0048598 ! embryonic morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001756 ! middle ear @@ -76378,6 +77828,8 @@ def: "An immunoglobulin complex that is secreted into extracellular space and fo comment: Note that an immunoglobulin complex has the function of antigen binding if a suitable antigen is available. synonym: "antibody" EXACT [GOC:add] xref: Wikipedia:Antibody +is_a: BFO:0000002 +is_a: BFO:0000004 is_a: GO:0019814 ! immunoglobulin complex intersection_of: GO:0019814 ! immunoglobulin complex intersection_of: output_of GO:0032940 ! secretion by cell @@ -76388,11 +77840,11 @@ relationship: part_of GO:0005615 ! extracellular space id: GO:0042582 name: azurophil granule namespace: cellular_component -def: "Primary lysosomal granule found in neutrophil granulocytes. Contains a wide range of hydrolytic enzymes and is released into the extracellular fluid." [GOC:jl, PMID:17152095] +def: "Primary lysosomal granule readily stainable with a Romanowsky stain." [GOC:jl, PMID:17152095, PMID:28717070, PMID:5914694, WIKIPEDIA:Azurophilic_granule] synonym: "primary granule" EXACT [] is_a: GO:0005766 ! primary lysosome is_a: GO:0030141 ! secretory granule -relationship: part_of CL:0000775 ! neutrophil +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27231" xsd:anyURI [Term] id: GO:0042585 @@ -76464,8 +77916,8 @@ namespace: biological_process def: "Any process involved in the maintenance of an internal steady state of glucose within an organism or cell." [GOC:go_curators] is_a: GO:0048878 ! chemical homeostasis intersection_of: GO:0048878 ! chemical homeostasis -intersection_of: regulates_levels_of CHEBI:17234 -relationship: regulates_levels_of CHEBI:17234 +intersection_of: regulates_levels_of CHEBI:4167 +relationship: regulates_levels_of CHEBI:4167 [Term] id: GO:0042599 @@ -76690,6 +78142,7 @@ id: GO:0042702 name: uterine wall growth namespace: biological_process def: "The regrowth of the endometrium and blood vessels in the uterus following menstruation, resulting from a rise in progesterone levels." [GOC:jl] +is_a: BFO:0000003 is_a: GO:0022602 ! ovulation cycle process is_a: GO:0048589 ! developmental growth intersection_of: GO:0040007 ! growth @@ -76749,11 +78202,12 @@ relationship: part_of GO:0042886 ! amide transport [Term] id: GO:0042921 -name: glucocorticoid receptor signaling pathway +name: intracellular glucocorticoid receptor signaling pathway namespace: biological_process -def: "The series of molecular signals initiated by glucocorticoid binding to its receptor." [GOC:mah] -synonym: "glucocorticoid receptor signalling pathway" EXACT [] -is_a: GO:0031958 ! corticosteroid receptor signaling pathway +def: "The series of molecular signals initiated by glucocorticoid binding to its nuclear receptor inside the cell, and ending with the regulation of a downstream cellular process, e.g. transcription." [GOC:mah] +synonym: "glucocorticoid receptor signaling pathway" BROAD [] +synonym: "glucocorticoid receptor signalling pathway" BROAD [] +is_a: GO:0031958 ! intracellular corticosteroid receptor signaling pathway [Term] id: GO:0042923 @@ -76784,6 +78238,7 @@ is_a: GO:0043067 ! regulation of programmed cell death intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006915 ! apoptotic process relationship: regulates GO:0006915 ! apoptotic process +property_value: RO:0002161 NCBITaxon:4896 [Term] id: GO:0042995 @@ -76791,10 +78246,12 @@ name: cell projection namespace: cellular_component def: "A prolongation or process extending from a cell, e.g. a flagellum or axon." [GOC:jl, http://www.cogsci.princeton.edu/~wn/] subset: goslim_agr +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "cell process" BROAD [] synonym: "cellular process" BROAD [] synonym: "cellular projection" EXACT [] @@ -77024,8 +78481,8 @@ synonym: "peptide synthesis" EXACT [] is_a: GO:0006518 ! peptide metabolic process is_a: GO:0009058 ! biosynthetic process intersection_of: GO:0009058 ! biosynthetic process -intersection_of: has_primary_output CHEBI:16670 -relationship: has_primary_output CHEBI:16670 +intersection_of: has_primary_output CHEBI:60466 +relationship: has_primary_output CHEBI:60466 [Term] id: GO:0043049 @@ -77092,6 +78549,7 @@ is_a: GO:0043069 ! negative regulation of programmed cell death intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006915 ! apoptotic process relationship: negatively_regulates GO:0006915 ! apoptotic process +property_value: RO:0002161 NCBITaxon:4896 [Term] id: GO:0043067 @@ -77308,6 +78766,7 @@ synonym: "biopolymer metabolic process" EXACT [GOC:mtg_chebi_dec09] synonym: "macromolecule metabolism" EXACT [] synonym: "multicellular organismal macromolecule metabolic process" NARROW [] synonym: "organismal macromolecule metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:33694 @@ -77325,8 +78784,8 @@ synonym: "peptide degradation" EXACT [] is_a: GO:0006518 ! peptide metabolic process is_a: GO:0044248 ! cellular catabolic process intersection_of: GO:0009056 ! catabolic process -intersection_of: has_primary_input CHEBI:16670 -relationship: has_primary_input CHEBI:16670 +intersection_of: has_primary_input CHEBI:60466 +relationship: has_primary_input CHEBI:60466 [Term] id: GO:0043176 @@ -77334,6 +78793,7 @@ name: amine binding namespace: molecular_function def: "Binding to an amine, a weakly basic organic compound that contains an amino or a substituted amino group." [GOC:jl] subset: goslim_pir +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:32952 @@ -77344,6 +78804,7 @@ id: GO:0043177 name: organic acid binding namespace: molecular_function def: "Binding to an organic acid, any acidic compound containing carbon in covalent linkage." [GOC:jl, ISBN:0198506732] +is_a: BFO:0000003 is_a: GO:0036094 ! small molecule binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:64709 @@ -77386,8 +78847,8 @@ def: "Any process that results in a change in state or activity of a cell or an synonym: "response to amino acid stimulus" EXACT [GOC:dos] is_a: GO:0001101 ! response to acid chemical intersection_of: GO:0050896 ! response to stimulus -intersection_of: has_primary_input CHEBI:33709 -relationship: has_primary_input CHEBI:33709 +intersection_of: has_primary_input CHEBI:35238 +relationship: has_primary_input CHEBI:35238 [Term] id: GO:0043207 @@ -77402,6 +78863,7 @@ id: GO:0043208 name: glycosphingolipid binding namespace: molecular_function def: "Binding to glycosphingolipid, a compound with residues of sphingoid and at least one monosaccharide." [GOC:jl] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:24402 @@ -77432,6 +78894,7 @@ subset: goslim_chembl subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon xref: NIF_Subcellular:sao1539965131 xref: Wikipedia:Organelle is_a: GO:0110165 ! cellular anatomical entity @@ -77525,6 +78988,7 @@ name: receptor complex namespace: cellular_component def: "Any protein complex that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function." [GOC:go_curators] subset: goslim_pir +is_a: BFO:0000004 is_a: GO:0032991 ! protein-containing complex intersection_of: GO:0032991 ! protein-containing complex intersection_of: capable_of GO:0038023 ! signaling receptor activity @@ -77693,7 +79157,7 @@ property_value: term_tracker_item "https://github.com/geneontology/go-ontology/i [Term] id: GO:0043292 -name: contractile fiber +name: contractile muscle fiber namespace: cellular_component def: "Fibers, composed of actin, myosin, and associated proteins, found in cells of smooth or striated muscle." [GOC:go_curators, ISBN:0815316194] synonym: "contractile fibre" EXACT [] @@ -77701,6 +79165,9 @@ is_a: GO:0043232 ! intracellular non-membrane-bounded organelle is_a: GO:0099512 ! supramolecular fiber relationship: part_of CL:0000187 ! muscle cell relationship: part_of GO:0005737 ! cytoplasm +relationship: RO:0002160 NCBITaxon:6072 ! only in taxon Eumetazoa +relationship: RO:0002162 NCBITaxon:6072 {all_only="true"} ! in taxon Eumetazoa +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27281" xsd:anyURI [Term] id: GO:0043296 @@ -78511,6 +79978,7 @@ id: GO:0043394 name: proteoglycan binding namespace: molecular_function def: "Binding to a proteoglycan, any glycoprotein in which the carbohydrate units are glycosaminoglycans." [ISBN:0198506732] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:37396 @@ -78550,8 +80018,10 @@ id: GO:0043412 name: macromolecule modification namespace: biological_process def: "The covalent alteration of one or more monomeric units in a polypeptide, polynucleotide, polysaccharide, or other biological macromolecule, resulting in a change in its properties." [GOC:go_curators] +subset: gocheck_do_not_annotate subset: goslim_pir is_a: GO:0043170 ! macromolecule metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI [Term] id: GO:0043415 @@ -78597,6 +80067,30 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0043403 ! skeletal muscle tissue regeneration relationship: negatively_regulates GO:0043403 ! skeletal muscle tissue regeneration +[Term] +id: GO:0043433 +name: negative regulation of DNA-binding transcription factor activity +namespace: biological_process +alt_id: GO:1904168 +alt_id: GO:2000824 +def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the activity of a transcription factor, any factor involved in the initiation or regulation of transcription." [GOC:jl] +subset: gocheck_do_not_annotate +synonym: "down regulation of transcription factor activity" EXACT [] +synonym: "down-regulation of transcription factor activity" EXACT [] +synonym: "downregulation of transcription factor activity" EXACT [] +synonym: "inhibition of transcription factor activity" NARROW [] +synonym: "negative regulation of androgen receptor activity" NARROW [] +synonym: "negative regulation of DNA binding transcription factor activity" EXACT [] +synonym: "negative regulation of sequence-specific DNA binding transcription factor activity" EXACT [] +synonym: "negative regulation of thyroid hormone receptor activity" NARROW [] +synonym: "negative regulation of transcription factor activity" BROAD [GOC:dph, GOC:tb] +is_a: GO:0044092 ! negative regulation of molecular function +is_a: GO:0051090 ! regulation of DNA-binding transcription factor activity +intersection_of: GO:0065007 ! biological regulation +intersection_of: negatively_regulates GO:0003700 ! DNA-binding transcription factor activity +relationship: negatively_regulates GO:0003700 ! DNA-binding transcription factor activity +creation_date: 2011-07-15T10:56:12Z + [Term] id: GO:0043434 name: response to peptide hormone @@ -78676,6 +80170,7 @@ namespace: biological_process def: "A process in which muscle adapts, with consequent modifications to structural and/or functional phenotypes, in response to a stimulus. Stimuli include contractile activity, loading conditions, substrate supply, and environmental factors. These adaptive events occur in both muscle fibers and associated structures (motoneurons and capillaries), and they involve alterations in regulatory mechanisms, contractile properties and metabolic capacities." [GOC:mtg_muscle, PMID:11181628, PMID:11449884, PMID:12605307] subset: goslim_pir synonym: "muscle plasticity" RELATED [] +is_a: BFO:0000003 is_a: GO:0003012 ! muscle system process is_a: GO:0050896 ! response to stimulus relationship: occurs_in UBERON:0002385 ! muscle tissue @@ -78763,6 +80258,7 @@ namespace: molecular_function def: "Binding to ADP, adenosine 5'-diphosphate." [GOC:jl] synonym: "adenosine 5'-diphosphate binding" EXACT [] synonym: "adenosine diphosphate binding" EXACT [] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:456216 @@ -78853,6 +80349,14 @@ intersection_of: has_primary_input PR:000009054 ! insulin gene translation produ relationship: has_primary_input PR:000009054 ! insulin gene translation product property_value: RO:0002161 NCBITaxon:4751 +[Term] +id: GO:0043565 +name: sequence-specific DNA binding +namespace: molecular_function +def: "Binding to DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding." [GOC:jl] +synonym: "sequence specific DNA binding" EXACT [] +is_a: GO:0003677 ! DNA binding + [Term] id: GO:0043576 name: regulation of respiratory gaseous exchange @@ -78952,21 +80456,25 @@ id: GO:0043603 name: amide metabolic process namespace: biological_process def: "The chemical reactions and pathways involving an amide, any derivative of an oxoacid in which an acidic hydroxy group has been replaced by an amino or substituted amino group, as carried out by individual cells." [GOC:curators] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "amide metabolism" EXACT [] synonym: "cellular amide metabolic process" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:32988 relationship: has_primary_input_or_output CHEBI:32988 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0043604 name: amide biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an amide, any derivative of an oxoacid in which an acidic hydroxy group has been replaced by an amino or substituted amino group." [GOC:curators] +is_a: GO:0009058 ! biosynthetic process is_a: GO:0043603 ! amide metabolic process -is_a: GO:0044271 ! cellular nitrogen compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:32988 relationship: has_primary_output CHEBI:32988 @@ -79214,6 +80722,7 @@ name: glucan metabolic process namespace: biological_process def: "The chemical reactions and pathways involving glucans, polysaccharides consisting only of glucose residues." [GOC:jl] synonym: "glucan metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:37163 @@ -79333,6 +80842,7 @@ id: GO:0044091 name: membrane biogenesis namespace: biological_process def: "A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a membrane." [GOC:jl] +is_a: BFO:0000003 is_a: GO:0044085 ! cellular component biogenesis intersection_of: GO:0044085 ! cellular component biogenesis intersection_of: has_primary_output GO:0016020 ! membrane @@ -79371,6 +80881,7 @@ namespace: cellular_component def: "A ribonucleoprotein complex that contains aminoacylated initiator methionine tRNA, GTP, and initiation factor 2 (either eIF2 in eukaryotes, or IF2 in prokaryotes). In prokaryotes, fMet-tRNA (initiator) is used rather than Met-tRNA (initiator)." [GOC:jl] synonym: "Met-tRNA/eIF2.GTP ternary complex" NARROW [] synonym: "translation initiation (ternary) complex" EXACT [] +is_a: BFO:0000004 is_a: GO:1990904 ! ribonucleoprotein complex relationship: part_of GO:0005737 ! cytoplasm created_by: jl @@ -79394,7 +80905,10 @@ name: primary metabolic process namespace: biological_process def: "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism." [GOC:go_curators, http://www.metacyc.org] subset: gocheck_do_not_annotate +subset: goslim_euk_cellular_processes_ribbon subset: goslim_pir +subset: goslim_plant_ribbon +subset: goslim_prokaryote_ribbon synonym: "primary metabolism" EXACT [] is_a: GO:0008152 ! metabolic process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI @@ -79427,12 +80941,15 @@ id: GO:0044249 name: cellular biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:jl] +comment: This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. +subset: gocheck_do_not_annotate synonym: "cellular anabolism" EXACT [] synonym: "cellular biosynthesis" EXACT [] synonym: "cellular formation" EXACT [] synonym: "cellular synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0044237 ! cellular metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27052" xsd:anyURI [Term] id: GO:0044255 @@ -79457,29 +80974,6 @@ intersection_of: GO:0016042 ! lipid catabolic process intersection_of: occurs_in UBERON:0000160 ! intestine relationship: occurs_in UBERON:0000160 ! intestine -[Term] -id: GO:0044270 -name: cellular nitrogen compound catabolic process -namespace: biological_process -def: "The chemical reactions and pathways resulting in the breakdown of organic and inorganic nitrogenous compounds." [GOC:jl, ISBN:0198506732] -synonym: "nitrogen compound breakdown" BROAD [] -synonym: "nitrogen compound catabolism" BROAD [] -synonym: "nitrogen compound degradation" BROAD [] -is_a: GO:0034641 ! cellular nitrogen compound metabolic process -is_a: GO:0044248 ! cellular catabolic process - -[Term] -id: GO:0044271 -name: cellular nitrogen compound biosynthetic process -namespace: biological_process -def: "The chemical reactions and pathways resulting in the formation of organic and inorganic nitrogenous compounds." [GOC:jl, ISBN:0198506732] -synonym: "nitrogen compound anabolism" BROAD [] -synonym: "nitrogen compound biosynthesis" BROAD [] -synonym: "nitrogen compound formation" BROAD [] -synonym: "nitrogen compound synthesis" BROAD [] -is_a: GO:0034641 ! cellular nitrogen compound metabolic process -is_a: GO:0044249 ! cellular biosynthetic process - [Term] id: GO:0044281 name: small molecule metabolic process @@ -79513,6 +81007,7 @@ namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of small molecules, any low molecular weight, monomeric, non-encoded molecule." [GOC:curators, GOC:pde, GOC:vw] comment: Small molecules in GO include monosaccharides but exclude disaccharides and polysaccharides. subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "small molecule biosynthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0044281 ! small molecule metabolic process @@ -79650,6 +81145,7 @@ id: GO:0044566 name: chondrocyte activation namespace: biological_process def: "A change in the morphology or behavior of a chondrocyte resulting from exposure to an activating factor such as a cellular or soluble ligand. A chondrocyte is a polymorphic cell that forms cartilage." [CL:0000138, GOC:jl] +is_a: BFO:0000003 is_a: GO:0001775 ! cell activation intersection_of: GO:0001775 ! cell activation intersection_of: has_primary_input CL:0000138 ! chondrocyte @@ -79719,6 +81215,7 @@ id: GO:0044872 name: lipoprotein localization namespace: biological_process def: "Any process in which a lipoprotein is transported to, or maintained in, a specific location." [GOC:jl] +is_a: BFO:0000003 is_a: GO:0033036 ! macromolecule localization intersection_of: GO:0051179 ! localization intersection_of: has_primary_input CHEBI:6495 @@ -79759,6 +81256,7 @@ def: "Binding to a macromolecular complex." [GOC:jl] subset: goslim_chembl synonym: "macromolecular complex binding" RELATED [] synonym: "protein complex binding" EXACT [] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input GO:0032991 ! protein-containing complex @@ -79816,6 +81314,7 @@ synonym: "T lymphocyte selection" EXACT [] synonym: "T-cell selection" EXACT [] synonym: "T-lymphocyte selection" EXACT [] xref: Wikipedia:Thymocyte +is_a: BFO:0000003 is_a: GO:0002376 ! immune system process relationship: has_participant CL:0000084 ! T cell relationship: part_of GO:0030217 ! T cell differentiation @@ -80133,6 +81632,7 @@ alt_id: GO:0043340 alt_id: GO:0043343 def: "The specification and formation of the apicobasal polarity of a neuroblast cell, a progenitor of the central nervous system." [GOC:bf, GOC:mtg_sensu] synonym: "establishment of neuroblast cell polarity" EXACT [] +is_a: BFO:0000003 is_a: GO:0030010 ! establishment of cell polarity is_a: GO:0045196 ! establishment or maintenance of neuroblast polarity intersection_of: GO:0030010 ! establishment of cell polarity @@ -80146,6 +81646,7 @@ namespace: cellular_component def: "The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane." [GOC:aruk, ISBN:0198506732, PMID:24619342, PMID:29383328, PMID:31998110] subset: goslim_agr subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir @@ -80360,6 +81861,7 @@ def: "A change in morphology and behavior of a leukocyte resulting from exposure synonym: "immune cell activation" EXACT [] synonym: "leucocyte activation" EXACT [] xref: Wikipedia:Immunologic_activation +is_a: BFO:0000003 is_a: GO:0001775 ! cell activation is_a: GO:0002376 ! immune system process intersection_of: GO:0001775 ! cell activation @@ -80517,7 +82019,6 @@ synonym: "nurse cell programmed cell death by apoptosis" EXACT [] synonym: "programmed cell death of nurse cells by apoptosis" EXACT [] is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0010623 ! programmed cell death involved in cell development -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:1902742 ! apoptotic process involved in development intersection_of: GO:0006915 ! apoptotic process intersection_of: occurs_in CL:0000026 ! invertebrate nurse cell @@ -82278,7 +83779,6 @@ namespace: biological_process def: "Any process that modulates the frequency, rate or extent of spermatid nuclear differentiation." [GOC:go_curators] is_a: GO:0051239 ! regulation of multicellular organismal process is_a: GO:1903353 ! regulation of nucleus organization -is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007289 ! spermatid nucleus differentiation relationship: regulates GO:0007289 ! spermatid nucleus differentiation @@ -82442,7 +83942,6 @@ namespace: biological_process def: "The phase of elevated metabolic activity, during which oxygen consumption increases, that occurs at fertilization. An enhanced uptake of oxygen leads to the production of hydrogen peroxide (H2O2), superoxide anions and hydroxyl radicals. Capacitation, a necessary prerequisite event to successful fertilization, can be induced by reactive oxygen species in vitro; hydrogen peroxide is used as an extracellular oxidant to cross-link the protective surface envelopes." [ISBN:0198506732, PMID:2537493, PMID:9013127] synonym: "metabolic burst at fertilization" EXACT [] synonym: "oxidative burst at fertilization" EXACT [] -is_a: GO:0022414 ! reproductive process is_a: GO:0045730 ! respiratory burst intersection_of: GO:0045730 ! respiratory burst intersection_of: part_of GO:0009566 ! fertilization @@ -83197,6 +84696,60 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0030435 ! sporulation resulting in formation of a cellular spore relationship: positively_regulates GO:0030435 ! sporulation resulting in formation of a cellular spore +[Term] +id: GO:0045892 +name: negative regulation of DNA-templated transcription +namespace: biological_process +alt_id: GO:0016481 +alt_id: GO:0032582 +alt_id: GO:0061021 +def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription." [GOC:go_curators, GOC:txnOH] +synonym: "down regulation of gene-specific transcription" RELATED [] +synonym: "down regulation of transcription, DNA-dependent" EXACT [] +synonym: "down-regulation of gene-specific transcription" RELATED [] +synonym: "down-regulation of transcription, DNA-dependent" EXACT [] +synonym: "downregulation of gene-specific transcription" RELATED [] +synonym: "downregulation of transcription, DNA-dependent" EXACT [] +synonym: "inhibition of gene-specific transcription" RELATED [] +synonym: "inhibition of transcription, DNA-dependent" NARROW [] +synonym: "negative regulation of cellular transcription, DNA-dependent" EXACT [] +synonym: "negative regulation of gene-specific transcription" RELATED [] +synonym: "negative regulation of transcription, DNA-dependent" EXACT [GOC:txnOH] +synonym: "negative regulation of transcription, DNA-templated" EXACT [] +synonym: "transcription repressor activity" RELATED [] +is_a: GO:0006355 ! regulation of DNA-templated transcription +intersection_of: GO:0065007 ! biological regulation +intersection_of: negatively_regulates GO:0006351 ! DNA-templated transcription +relationship: negatively_regulates GO:0006351 ! DNA-templated transcription + +[Term] +id: GO:0045893 +name: positive regulation of DNA-templated transcription +namespace: biological_process +alt_id: GO:0043193 +alt_id: GO:0045941 +alt_id: GO:0061020 +def: "Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription." [GOC:go_curators, GOC:txnOH] +synonym: "activation of gene-specific transcription" RELATED [] +synonym: "activation of transcription, DNA-dependent" NARROW [] +synonym: "positive regulation of cellular transcription, DNA-dependent" EXACT [] +synonym: "positive regulation of gene-specific transcription" RELATED [] +synonym: "positive regulation of transcription, DNA-dependent" EXACT [GOC:txnOH] +synonym: "positive regulation of transcription, DNA-templated" EXACT [] +synonym: "stimulation of gene-specific transcription" NARROW [] +synonym: "stimulation of transcription, DNA-dependent" NARROW [] +synonym: "transcription activator activity" RELATED [] +synonym: "up regulation of gene-specific transcription" RELATED [] +synonym: "up regulation of transcription, DNA-dependent" EXACT [] +synonym: "up-regulation of gene-specific transcription" RELATED [] +synonym: "up-regulation of transcription, DNA-dependent" EXACT [] +synonym: "upregulation of gene-specific transcription" RELATED [] +synonym: "upregulation of transcription, DNA-dependent" EXACT [] +is_a: GO:0006355 ! regulation of DNA-templated transcription +intersection_of: GO:0065007 ! biological regulation +intersection_of: positively_regulates GO:0006351 ! DNA-templated transcription +relationship: positively_regulates GO:0006351 ! DNA-templated transcription + [Term] id: GO:0045900 name: negative regulation of translational elongation @@ -83335,7 +84888,6 @@ synonym: "down-regulation of catecholamine metabolic process" EXACT [] synonym: "downregulation of catecholamine metabolic process" EXACT [] synonym: "inhibition of catecholamine metabolic process" NARROW [] synonym: "negative regulation of catecholamine metabolism" EXACT [] -is_a: GO:0031324 ! negative regulation of cellular metabolic process is_a: GO:0033239 ! negative regulation of amine metabolic process is_a: GO:0042069 ! regulation of catecholamine metabolic process intersection_of: GO:0065007 ! biological regulation @@ -83353,7 +84905,6 @@ synonym: "stimulation of catecholamine metabolic process" NARROW [] synonym: "up regulation of catecholamine metabolic process" EXACT [] synonym: "up-regulation of catecholamine metabolic process" EXACT [] synonym: "upregulation of catecholamine metabolic process" EXACT [] -is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:0033240 ! positive regulation of amine metabolic process is_a: GO:0042069 ! regulation of catecholamine metabolic process intersection_of: GO:0065007 ! biological regulation @@ -83532,9 +85083,8 @@ synonym: "downregulation of nucleobase, nucleoside, nucleotide and nucleic acid synonym: "inhibition of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" NARROW [] synonym: "negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" RELATED [GOC:dph, GOC:tb] synonym: "negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolism" EXACT [] +is_a: GO:0009892 ! negative regulation of metabolic process is_a: GO:0019219 ! regulation of nucleobase-containing compound metabolic process -is_a: GO:0031324 ! negative regulation of cellular metabolic process -is_a: GO:0051172 ! negative regulation of nitrogen compound metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006139 ! nucleobase-containing compound metabolic process relationship: negatively_regulates GO:0006139 ! nucleobase-containing compound metabolic process @@ -83551,9 +85101,8 @@ synonym: "stimulation of nucleobase, nucleoside, nucleotide and nucleic acid met synonym: "up regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" EXACT [] synonym: "up-regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" EXACT [] synonym: "upregulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" EXACT [] +is_a: GO:0009893 ! positive regulation of metabolic process is_a: GO:0019219 ! regulation of nucleobase-containing compound metabolic process -is_a: GO:0031325 ! positive regulation of cellular metabolic process -is_a: GO:0051173 ! positive regulation of nitrogen compound metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006139 ! nucleobase-containing compound metabolic process relationship: positively_regulates GO:0006139 ! nucleobase-containing compound metabolic process @@ -83624,6 +85173,34 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0008202 ! steroid metabolic process relationship: positively_regulates GO:0008202 ! steroid metabolic process +[Term] +id: GO:0045944 +name: positive regulation of transcription by RNA polymerase II +namespace: biological_process +alt_id: GO:0010552 +alt_id: GO:0045817 +def: "Any process that activates or increases the frequency, rate or extent of transcription from an RNA polymerase II promoter." [GOC:go_curators, GOC:txnOH] +synonym: "activation of global transcription from RNA polymerase II promoter" RELATED [] +synonym: "activation of transcription from RNA polymerase II promoter" EXACT [] +synonym: "positive regulation of gene-specific transcription from RNA polymerase II promoter" RELATED [] +synonym: "positive regulation of global transcription from Pol II promoter" RELATED [] +synonym: "positive regulation of transcription from Pol II promoter" EXACT [] +synonym: "positive regulation of transcription from RNA polymerase II promoter" EXACT [] +synonym: "positive regulation of transcription from RNA polymerase II promoter, global" RELATED [] +synonym: "stimulation of global transcription from RNA polymerase II promoter" NARROW [] +synonym: "stimulation of transcription from RNA polymerase II promoter" EXACT [] +synonym: "up regulation of global transcription from RNA polymerase II promoter" RELATED [] +synonym: "up regulation of transcription from RNA polymerase II promoter" EXACT [] +synonym: "up-regulation of global transcription from RNA polymerase II promoter" RELATED [] +synonym: "up-regulation of transcription from RNA polymerase II promoter" EXACT [] +synonym: "upregulation of global transcription from RNA polymerase II promoter" RELATED [] +synonym: "upregulation of transcription from RNA polymerase II promoter" EXACT [] +is_a: GO:0006357 ! regulation of transcription by RNA polymerase II +is_a: GO:0045893 ! positive regulation of DNA-templated transcription +intersection_of: GO:0065007 ! biological regulation +intersection_of: positively_regulates GO:0006366 ! transcription by RNA polymerase II +relationship: positively_regulates GO:0006366 ! transcription by RNA polymerase II + [Term] id: GO:0045947 name: negative regulation of translational initiation @@ -84098,6 +85675,7 @@ name: ADP metabolic process namespace: biological_process def: "The chemical reactions and pathways involving ADP, adenosine 5'-diphosphate." [GOC:go_curators] synonym: "ADP metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:456216 @@ -84123,6 +85701,7 @@ name: ATP metabolic process namespace: biological_process def: "The chemical reactions and pathways involving ATP, adenosine triphosphate, a universally important coenzyme and enzyme regulator." [GOC:go_curators] synonym: "ATP metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:30616 @@ -84231,18 +85810,6 @@ intersection_of: GO:0009056 ! catabolic process intersection_of: has_primary_input CHEBI:24402 relationship: has_primary_input CHEBI:24402 -[Term] -id: GO:0046483 -name: heterocycle metabolic process -namespace: biological_process -def: "The chemical reactions and pathways involving heterocyclic compounds, those with a cyclic molecular structure and at least two different atoms in the ring (or rings)." [ISBN:0198506732] -subset: goslim_pir -synonym: "heterocycle metabolism" EXACT [] -is_a: GO:0044237 ! cellular metabolic process -intersection_of: GO:0008152 ! metabolic process -intersection_of: has_primary_input_or_output CHEBI:5686 -relationship: has_primary_input_or_output CHEBI:5686 - [Term] id: GO:0046530 name: photoreceptor cell differentiation @@ -84948,20 +86515,6 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0030073 ! insulin secretion relationship: negatively_regulates GO:0030073 ! insulin secretion -[Term] -id: GO:0046700 -name: heterocycle catabolic process -namespace: biological_process -def: "The chemical reactions and pathways resulting in the breakdown of heterocyclic compounds, those with a cyclic molecular structure and at least two different atoms in the ring (or rings)." [GOC:ai] -synonym: "heterocycle breakdown" EXACT [] -synonym: "heterocycle catabolism" EXACT [] -synonym: "heterocycle degradation" EXACT [] -is_a: GO:0044248 ! cellular catabolic process -is_a: GO:0046483 ! heterocycle metabolic process -intersection_of: GO:0009056 ! catabolic process -intersection_of: has_primary_input CHEBI:5686 -relationship: has_primary_input CHEBI:5686 - [Term] id: GO:0046716 name: muscle cell cellular homeostasis @@ -85205,6 +86758,7 @@ name: hydroxyapatite binding namespace: molecular_function def: "Binding to hydroxyapatite, the calcium phosphate mineral of formula Ca10(PO4)6(OH)2 found both in rocks of nonorganic origin and as a component of bone and dentin." [PMID:2438276] synonym: "hydroxylapatite binding" EXACT [GOC:vk] +is_a: BFO:0000003 is_a: GO:0036094 ! small molecule binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:52255 @@ -85230,6 +86784,9 @@ is_a: GO:0034103 ! regulation of tissue remodeling intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0046849 ! bone remodeling relationship: regulates GO:0046849 ! bone remodeling +relationship: RO:0002160 NCBITaxon:7742 ! only in taxon Vertebrata +relationship: RO:0002162 NCBITaxon:6072 {all_only="true"} ! in taxon Eumetazoa +relationship: RO:0002162 NCBITaxon:7742 {all_only="true"} ! in taxon Vertebrata [Term] id: GO:0046851 @@ -85482,6 +87039,7 @@ id: GO:0046942 name: carboxylic acid transport namespace: biological_process def: "The directed movement of carboxylic acids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Carboxylic acids are organic acids containing one or more carboxyl (COOH) groups or anions (COO-)." [GOC:ai] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:29067 @@ -85632,7 +87190,7 @@ name: spermatocyte division namespace: biological_process def: "The meiotic divisions undergone by the primary and secondary spermatocytes to produce haploid spermatids." [GOC:jid, GOC:pr, ISBN:0879694238] synonym: "spermatocyte cell division" EXACT [] -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism +is_a: BFO:0000003 is_a: GO:0051301 ! cell division intersection_of: GO:0051301 ! cell division intersection_of: has_primary_input CL:0000017 ! spermatocyte @@ -85655,6 +87213,7 @@ id: GO:0048144 name: fibroblast proliferation namespace: biological_process def: "The multiplication or reproduction of fibroblast cells, resulting in the expansion of the fibroblast population." [GOC:jid] +is_a: BFO:0000003 is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000057 ! fibroblast @@ -85800,10 +87359,11 @@ name: epinephrine transport namespace: biological_process def: "The directed movement of epinephrine into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:jid] synonym: "adrenaline transport" EXACT [] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport -intersection_of: has_primary_input CHEBI:33568 -relationship: has_primary_input CHEBI:33568 +intersection_of: has_primary_input CHEBI:71406 +relationship: has_primary_input CHEBI:71406 [Term] id: GO:0048242 @@ -85814,7 +87374,7 @@ synonym: "adrenaline secretion" EXACT [] is_a: GO:0046903 ! secretion is_a: GO:0048241 ! epinephrine transport intersection_of: GO:0046903 ! secretion -intersection_of: has_primary_input CHEBI:33568 +intersection_of: has_primary_input CHEBI:71406 [Term] id: GO:0048243 @@ -86661,7 +88221,7 @@ name: regulation of response to stimulus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus." [GOC:jid] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0050896 ! response to stimulus @@ -86673,7 +88233,7 @@ name: positive regulation of response to stimulus namespace: biological_process def: "Any process that activates, maintains or increases the rate of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus." [GOC:jid] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "activation of response to stimulus" NARROW [] synonym: "stimulation of response to stimulus" NARROW [] synonym: "up regulation of response to stimulus" EXACT [] @@ -86691,7 +88251,7 @@ name: negative regulation of response to stimulus namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus." [GOC:jid] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "down regulation of response to stimulus" EXACT [] synonym: "down-regulation of response to stimulus" EXACT [] synonym: "downregulation of response to stimulus" EXACT [] @@ -86811,10 +88371,12 @@ id: GO:0048609 name: multicellular organismal reproductive process namespace: biological_process def: "The process, occurring above the cellular level, that is pertinent to the reproductive function of a multicellular organism. This includes the integrated processes at the level of tissues and organs." [GOC:dph, GOC:jid, GOC:tb] +subset: gocheck_do_not_annotate +subset: goslim_drosophila synonym: "organismal reproductive process" BROAD [] synonym: "reproductive process in a multicellular organism" EXACT [] is_a: GO:0022414 ! reproductive process -relationship: part_of GO:0032504 ! multicellular organism reproduction +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27054" xsd:anyURI [Term] id: GO:0048619 @@ -86851,6 +88413,7 @@ id: GO:0048630 name: skeletal muscle tissue growth namespace: biological_process def: "The increase in size or mass of a skeletal muscle. This may be due to a change in the fiber number or size." [GOC:lm, PMID:15726494, PMID:15907921] +is_a: BFO:0000003 is_a: GO:0048589 ! developmental growth intersection_of: GO:0048589 ! developmental growth intersection_of: results_in_growth_of UBERON:0001134 ! skeletal muscle tissue @@ -87045,6 +88608,7 @@ namespace: biological_process def: "The process pertaining to the initial formation of an animal organ from unspecified parts. The process begins with the specific processes that contribute to the appearance of the discrete structure, such as inductive events, and ends when the structural rudiment of the organ is recognizable, such as a condensation of mesenchymal cells into the organ rudiment. Organs are a natural part or structure in an animal or a plant, capable of performing some special action (termed its function), which is essential to the life or well-being of the whole. The heart and lungs are organs of animals, and the petal and leaf are organs of plants. In animals the organs are generally made up of several tissues, one of which usually predominates, and determines the principal function of the organ." [GOC:dph, GOC:jid] synonym: "animal organ primordium initiation" NARROW [] synonym: "initiation of an animal organ primordium" NARROW [] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0003103 ! compound organ @@ -87276,6 +88840,7 @@ id: GO:0048729 name: tissue morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a tissue are generated and organized." [GOC:dph, GOC:jid] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000479 ! tissue @@ -87485,6 +89050,7 @@ id: GO:0048755 name: branching morphogenesis of a nerve namespace: biological_process def: "The process in which the anatomical structures of branches in a nerve are generated and organized. This term refers to an anatomical structure (nerve) not a cell (neuron)." [GOC:dgh, GOC:dph, GOC:jid] +is_a: BFO:0000003 is_a: GO:0001763 ! morphogenesis of a branching structure intersection_of: GO:0001763 ! morphogenesis of a branching structure intersection_of: results_in_morphogenesis_of UBERON:0001021 ! nerve @@ -87898,6 +89464,7 @@ synonym: "anterior pituitary biosynthesis" EXACT [] synonym: "anterior pituitary formation" EXACT [] synonym: "anterior pituitary gland biosynthesis" EXACT [] synonym: "anterior pituitary gland formation" EXACT [] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002196 ! adenohypophysis @@ -87930,6 +89497,7 @@ synonym: "posterior pituitary biosynthesis" EXACT [] synonym: "posterior pituitary formation" EXACT [] synonym: "posterior pituitary gland biosynthesis" EXACT [] synonym: "posterior pituitary gland formation" EXACT [] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002198 ! neurohypophysis @@ -87957,6 +89525,7 @@ def: "The process in which the anatomical structures of the hypophysis are gener synonym: "hypophysis biosynthesis" EXACT [] synonym: "pituitary gland biosynthesis" EXACT [] synonym: "pituitary gland formation" EXACT [] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0000007 ! pituitary gland @@ -87968,6 +89537,7 @@ id: GO:0048852 name: diencephalon morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the diencephalon are generated and organized. The diencephalon is the paired caudal parts of the prosencephalon from which the thalamus, hypothalamus, epithalamus and subthalamus are derived; these regions regulate autonomic, visceral and endocrine function, and process information directed to the cerebral cortex." [GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001894 ! diencephalon @@ -87981,6 +89551,7 @@ name: forebrain morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the forebrain are generated and organized. The forebrain is the anterior of the three primary divisions of the developing chordate brain or the corresponding part of the adult brain (in vertebrates, includes especially the cerebral hemispheres, the thalamus, and the hypothalamus and especially in higher vertebrates is the main control center for sensory and associative information processing, visceral functions, and voluntary motor functions)." [GOC:cvs, GOC:dgh, GOC:dph, GOC:jid] synonym: "prosencephalon morphogenesis" EXACT [] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001890 ! forebrain @@ -88007,6 +89578,7 @@ def: "The process in which the anatomical structures of the adenohypophysis are synonym: "adenophysis morphogenesis" EXACT [] synonym: "anterior pituitary gland morphogenesis" EXACT [] synonym: "anterior pituitary morphogenesis" EXACT [] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002196 ! adenohypophysis @@ -88023,7 +89595,9 @@ subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_generic subset: goslim_plant +subset: goslim_plant_ribbon synonym: "development of an anatomical structure" EXACT [] +is_a: BFO:0000003 is_a: GO:0032502 ! developmental process intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of UBERON:0000061 ! anatomical structure @@ -88045,8 +89619,8 @@ id: GO:0048858 name: cell projection morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a cell projection are generated and organized." [GO_REF:0000021] +is_a: GO:0009653 ! anatomical structure morphogenesis is_a: GO:0030030 ! cell projection organization -is_a: GO:0032989 ! cellular anatomical entity morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of GO:0042995 ! cell projection relationship: part_of GO:0000902 ! cell morphogenesis @@ -88057,6 +89631,7 @@ id: GO:0048859 name: formation of anatomical boundary namespace: biological_process def: "The process in which the limits of an anatomical structure are generated. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome." [GO_REF:0000021] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0007651 ! anatomical junction @@ -88067,6 +89642,7 @@ id: GO:0048860 name: glioblast division namespace: biological_process def: "The process resulting in the physical partitioning and separation of a glioblast into daughter cells." [GOC:devbiol] +is_a: BFO:0000003 is_a: GO:0051301 ! cell division intersection_of: GO:0051301 ! cell division intersection_of: has_primary_input CL:0000030 ! glioblast @@ -88110,12 +89686,14 @@ namespace: biological_process def: "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another." [GOC:dgh, GOC:dph, GOC:isa_complete, GOC:mlg] subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_prokaryote synonym: "cell locomotion" EXACT [] synonym: "cell movement" RELATED [] synonym: "movement of a cell" EXACT [] is_a: GO:0009987 ! cellular process +property_value: RO:0002161 NCBITaxon:4890 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19809" xsd:anyURI [Term] @@ -88694,6 +90272,7 @@ id: GO:0050657 name: nucleic acid transport namespace: biological_process def: "The directed movement of nucleic acids, single or double-stranded polynucleotides involved in the storage, transmission and transfer of genetic information, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai, ISBN:0198506732] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:33696 @@ -88704,6 +90283,7 @@ id: GO:0050658 name: RNA transport namespace: biological_process def: "The directed movement of RNA, ribonucleic acids, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] +is_a: BFO:0000003 is_a: GO:0006810 ! transport is_a: GO:0051236 ! establishment of RNA localization intersection_of: GO:0006810 ! transport @@ -88759,6 +90339,7 @@ id: GO:0050673 name: epithelial cell proliferation namespace: biological_process def: "The multiplication or reproduction of epithelial cells, resulting in the expansion of a cell population. Epithelial cells make up the epithelium, the covering of internal and external surfaces of the body, including the lining of vessels and other small cavities. It consists of cells joined by small amounts of cementing substances." [ISBN:0721662544] +is_a: BFO:0000003 is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000066 ! epithelial cell @@ -89259,6 +90840,7 @@ subset: gocheck_do_not_annotate subset: goslim_candida subset: goslim_pir synonym: "regulation of physiological process" EXACT [] +is_a: BFO:0000003 is_a: GO:0065007 ! biological regulation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0008150 ! biological_process @@ -89505,6 +91087,7 @@ synonym: "antifreeze activity" RELATED [] synonym: "ice crystal binding" EXACT [] synonym: "ice nucleation activity" RELATED [] synonym: "ice nucleation inhibitor activity" RELATED [] +is_a: BFO:0000003 is_a: GO:0036094 ! small molecule binding intersection_of: GO:0036094 ! small molecule binding intersection_of: has_primary_input CHEBI:15377 @@ -89551,6 +91134,7 @@ subset: goslim_chembl subset: goslim_pir synonym: "adhesive extracellular matrix constituent" RELATED [] synonym: "extracellular matrix constituent binding" EXACT [] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input GO:0031012 ! extracellular matrix @@ -89636,6 +91220,7 @@ is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001775 ! cell activation relationship: regulates GO:0001775 ! cell activation +property_value: RO:0002161 NCBITaxon:4890 [Term] id: GO:0050866 @@ -89726,6 +91311,10 @@ is_a: GO:1903039 ! positive regulation of leukocyte cell-cell adhesion intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0042110 ! T cell activation relationship: positively_regulates GO:0042110 ! T cell activation +relationship: RO:0002160 NCBITaxon:6072 ! only in taxon Eumetazoa +relationship: RO:0002162 NCBITaxon:6072 {all_only="true"} ! in taxon Eumetazoa +property_value: RO:0002161 NCBITaxon:4896 +property_value: RO:0002161 NCBITaxon:4932 [Term] id: GO:0050871 @@ -89784,6 +91373,7 @@ subset: goslim_pir synonym: "neurological system process" EXACT [] synonym: "neurophysiological process" EXACT [] synonym: "pan-neural process" RELATED [] +is_a: BFO:0000003 is_a: GO:0003008 ! system process intersection_of: GO:0003008 ! system process intersection_of: has_participant UBERON:0001016 ! nervous system @@ -89814,6 +91404,7 @@ namespace: biological_process def: "The movement of an organism or part of an organism using mechanoreceptors, the nervous system, striated muscle and/or the skeletal system." [GOC:dph] is_a: GO:0050879 ! multicellular organismal movement is_a: GO:0050905 ! neuromuscular process +property_value: RO:0002175 NCBITaxon:7227 [Term] id: GO:0050884 @@ -89874,12 +91465,13 @@ namespace: biological_process alt_id: GO:0051869 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism." [GOC:ai, GOC:bf] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "physiological response to stimulus" EXACT [] is_a: GO:0008150 ! biological_process @@ -89893,6 +91485,7 @@ synonym: "immune cell trafficking" EXACT [] synonym: "leucocyte migration" EXACT [] synonym: "leucocyte trafficking" EXACT [] synonym: "leukocyte trafficking" EXACT [] +is_a: BFO:0000003 is_a: GO:0002376 ! immune system process is_a: GO:0016477 ! cell migration intersection_of: GO:0016477 ! cell migration @@ -90614,6 +92207,7 @@ id: GO:0051027 name: DNA transport namespace: biological_process def: "The directed movement of RNA, deoxyribonucleic acid, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:16991 @@ -90743,7 +92337,7 @@ namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving DNA." [GOC:ai] subset: goslim_yeast synonym: "regulation of DNA metabolism" EXACT [] -is_a: GO:0060255 ! regulation of macromolecule metabolic process +is_a: GO:0019222 ! regulation of metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006259 ! DNA metabolic process relationship: regulates GO:0006259 ! DNA metabolic process @@ -90758,7 +92352,7 @@ synonym: "down-regulation of DNA metabolic process" EXACT [] synonym: "downregulation of DNA metabolic process" EXACT [] synonym: "inhibition of DNA metabolic process" NARROW [] synonym: "negative regulation of DNA metabolism" EXACT [] -is_a: GO:0010605 ! negative regulation of macromolecule metabolic process +is_a: GO:0009892 ! negative regulation of metabolic process is_a: GO:0051052 ! regulation of DNA metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006259 ! DNA metabolic process @@ -90775,7 +92369,7 @@ synonym: "stimulation of DNA metabolic process" NARROW [] synonym: "up regulation of DNA metabolic process" EXACT [] synonym: "up-regulation of DNA metabolic process" EXACT [] synonym: "upregulation of DNA metabolic process" EXACT [] -is_a: GO:0010604 ! positive regulation of macromolecule metabolic process +is_a: GO:0009893 ! positive regulation of metabolic process is_a: GO:0051052 ! regulation of DNA metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006259 ! DNA metabolic process @@ -90855,6 +92449,49 @@ intersection_of: GO:0022411 ! cellular component disassembly intersection_of: results_in_disassembly_of GO:0031965 ! nuclear membrane relationship: results_in_disassembly_of GO:0031965 ! nuclear membrane +[Term] +id: GO:0051090 +name: regulation of DNA-binding transcription factor activity +namespace: biological_process +alt_id: GO:1904167 +alt_id: GO:2000823 +def: "Any process that modulates the frequency, rate or extent of the activity of a transcription factor, any factor involved in the initiation or regulation of transcription." [GOC:ai] +subset: gocheck_do_not_annotate +synonym: "regulation of androgen receptor activity" NARROW [] +synonym: "regulation of DNA binding transcription factor activity" EXACT [] +synonym: "regulation of sequence-specific DNA binding transcription factor activity" EXACT [] +synonym: "regulation of thyroid hormone receptor activity" NARROW [] +synonym: "regulation of transcription factor activity" BROAD [GOC:dph, GOC:tb] +is_a: GO:0006355 ! regulation of DNA-templated transcription +is_a: GO:0065009 ! regulation of molecular function +intersection_of: GO:0065007 ! biological regulation +intersection_of: regulates GO:0003700 ! DNA-binding transcription factor activity +relationship: regulates GO:0003700 ! DNA-binding transcription factor activity + +[Term] +id: GO:0051091 +name: positive regulation of DNA-binding transcription factor activity +namespace: biological_process +alt_id: GO:1904169 +def: "Any process that activates or increases the frequency, rate or extent of activity of a transcription factor, any factor involved in the initiation or regulation of transcription." [GOC:ai] +subset: gocheck_do_not_annotate +synonym: "activation of transcription factor activity" NARROW [] +synonym: "positive regulation of DNA binding transcription factor activity" EXACT [] +synonym: "positive regulation of sequence-specific DNA binding transcription factor activity" EXACT [] +synonym: "positive regulation of thyroid hormone receptor activity" NARROW [] +synonym: "positive regulation of transcription factor activity" BROAD [GOC:dph, GOC:tb] +synonym: "stimulation of transcription factor activity" NARROW [] +synonym: "up regulation of transcription factor activity" EXACT [] +synonym: "up-regulation of transcription factor activity" EXACT [] +synonym: "upregulation of transcription factor activity" EXACT [] +is_a: GO:0044093 ! positive regulation of molecular function +is_a: GO:0051090 ! regulation of DNA-binding transcription factor activity +intersection_of: GO:0065007 ! biological regulation +intersection_of: positively_regulates GO:0003700 ! DNA-binding transcription factor activity +relationship: positively_regulates GO:0003700 ! DNA-binding transcription factor activity +created_by: rph +creation_date: 2015-04-22T12:22:16Z + [Term] id: GO:0051093 name: negative regulation of developmental process @@ -91396,59 +93033,13 @@ relationship: has_target_start_location GO:0005829 ! cytosol created_by: jl creation_date: 2013-12-19T15:26:34Z -[Term] -id: GO:0051171 -name: regulation of nitrogen compound metabolic process -namespace: biological_process -def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving nitrogen or nitrogenous compounds." [GOC:ai, GOC:tb] -synonym: "regulation of nitrogen metabolic process" EXACT [GOC:tb] -synonym: "regulation of nitrogen metabolism" EXACT [] -is_a: GO:0019222 ! regulation of metabolic process -intersection_of: GO:0065007 ! biological regulation -intersection_of: regulates GO:0006807 ! nitrogen compound metabolic process -relationship: regulates GO:0006807 ! nitrogen compound metabolic process - -[Term] -id: GO:0051172 -name: negative regulation of nitrogen compound metabolic process -namespace: biological_process -def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving nitrogen or nitrogenous compounds." [GOC:ai, GOC:tb] -synonym: "down regulation of nitrogen metabolic process" EXACT [] -synonym: "down-regulation of nitrogen metabolic process" EXACT [] -synonym: "downregulation of nitrogen metabolic process" EXACT [] -synonym: "inhibition of nitrogen metabolic process" NARROW [] -synonym: "negative regulation of nitrogen metabolic process" EXACT [GOC:tb] -synonym: "negative regulation of nitrogen metabolism" EXACT [] -is_a: GO:0009892 ! negative regulation of metabolic process -is_a: GO:0051171 ! regulation of nitrogen compound metabolic process -intersection_of: GO:0065007 ! biological regulation -intersection_of: negatively_regulates GO:0006807 ! nitrogen compound metabolic process -relationship: negatively_regulates GO:0006807 ! nitrogen compound metabolic process - -[Term] -id: GO:0051173 -name: positive regulation of nitrogen compound metabolic process -namespace: biological_process -def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving nitrogen or nitrogenous compounds." [GOC:ai, GOC:tb] -synonym: "activation of nitrogen metabolic process" NARROW [] -synonym: "positive regulation of nitrogen metabolic process" EXACT [GOC:tb] -synonym: "positive regulation of nitrogen metabolism" EXACT [] -synonym: "stimulation of nitrogen metabolic process" NARROW [] -synonym: "up regulation of nitrogen metabolic process" EXACT [] -synonym: "up-regulation of nitrogen metabolic process" EXACT [] -synonym: "upregulation of nitrogen metabolic process" EXACT [] -is_a: GO:0009893 ! positive regulation of metabolic process -is_a: GO:0051171 ! regulation of nitrogen compound metabolic process -intersection_of: GO:0065007 ! biological regulation -intersection_of: positively_regulates GO:0006807 ! nitrogen compound metabolic process -relationship: positively_regulates GO:0006807 ! nitrogen compound metabolic process - [Term] id: GO:0051179 name: localization namespace: biological_process alt_id: GO:1902578 def: "Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation." [GOC:ai, GOC:dos] +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "establishment and maintenance of cellular component location" NARROW [] synonym: "establishment and maintenance of localization" EXACT [] @@ -91459,6 +93050,7 @@ synonym: "localisation" EXACT [GOC:mah] synonym: "single organism localization" RELATED [GOC:TermGenie] synonym: "single-organism localization" RELATED [] is_a: GO:0008150 ! biological_process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27052" xsd:anyURI created_by: jl creation_date: 2013-12-18T13:51:04Z @@ -91479,8 +93071,8 @@ synonym: "sequestration of calcium ion (Ca2+)" EXACT [] synonym: "storage of calcium ion (Ca2+)" EXACT [] is_a: GO:0051651 ! maintenance of location in cell intersection_of: GO:0051235 ! maintenance of location -intersection_of: has_primary_input CHEBI:39124 -relationship: has_primary_input CHEBI:39124 +intersection_of: has_primary_input CHEBI:29108 +relationship: has_primary_input CHEBI:29108 relationship: part_of GO:0006874 ! intracellular calcium ion homeostasis [Term] @@ -92030,6 +93622,7 @@ subset: goslim_drosophila subset: goslim_yeast synonym: "meiosis" RELATED [] xref: Wikipedia:Meiosis +is_a: BFO:0000003 is_a: GO:0007049 ! cell cycle is_a: GO:0022414 ! reproductive process intersection_of: GO:0007049 ! cell cycle @@ -92059,7 +93652,6 @@ namespace: biological_process def: "Any process that modulates the frequency, rate or extent of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2." [GOC:ai] comment: This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. subset: gocheck_do_not_annotate -subset: gocheck_do_not_manually_annotate synonym: "transferase regulator" EXACT [] is_a: GO:0050790 ! regulation of catalytic activity intersection_of: GO:0065007 ! biological regulation @@ -92108,7 +93700,6 @@ namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor." [GOC:ai] comment: This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. subset: gocheck_do_not_annotate -subset: gocheck_do_not_manually_annotate synonym: "activation of transferase activity" NARROW [] synonym: "stimulation of transferase activity" NARROW [] synonym: "transferase activator" EXACT [] @@ -92128,7 +93719,6 @@ namespace: biological_process def: "Any process that stops or reduces the rate of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor." [GOC:ai] comment: This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. subset: gocheck_do_not_annotate -subset: gocheck_do_not_manually_annotate synonym: "down regulation of transferase activity" EXACT [] synonym: "down-regulation of transferase activity" EXACT [] synonym: "downregulation of transferase activity" EXACT [] @@ -92183,10 +93773,11 @@ name: epinephrine binding namespace: molecular_function def: "Binding to epinephrine, a hormone produced by the medulla of the adrenal glands that increases heart activity, improves the power and prolongs the action of muscles, and increases the rate and depth of breathing. It is synthesized by the methylation of norepinephrine." [GOC:ai] synonym: "adrenaline binding" EXACT [] +is_a: BFO:0000003 is_a: GO:0042562 ! hormone binding intersection_of: GO:0005488 ! binding -intersection_of: has_primary_input CHEBI:33568 -relationship: has_primary_input CHEBI:33568 +intersection_of: has_primary_input CHEBI:71406 +relationship: has_primary_input CHEBI:71406 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/21211" xsd:anyURI [Term] @@ -92195,6 +93786,7 @@ name: norepinephrine binding namespace: molecular_function def: "Binding to norepinephrine, (3,4-dihydroxyphenyl-2-aminoethanol), a hormone secreted by the adrenal medulla and a neurotransmitter in the sympathetic peripheral nervous system and in some tracts of the CNS. It is also the biosynthetic precursor of epinephrine." [GOC:ai] synonym: "noradrenaline binding" EXACT [] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:72587 @@ -92205,6 +93797,7 @@ id: GO:0051381 name: histamine binding namespace: molecular_function def: "Binding to histamine, a physiologically active amine, found in plant and animal tissue and released from mast cells as part of an allergic reaction in humans." [GOC:ai] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:58432 @@ -92216,6 +93809,7 @@ name: response to glucocorticoid namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a glucocorticoid stimulus. Glucocorticoids are hormonal C21 corticosteroids synthesized from cholesterol with the ability to bind with the cortisol receptor and trigger similar effects. Glucocorticoids act primarily on carbohydrate and protein metabolism, and have anti-inflammatory effects." [GOC:ai, PMID:9884123] synonym: "response to glucocorticoid stimulus" EXACT [GOC:dos] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:24261 @@ -92227,6 +93821,7 @@ name: response to mineralocorticoid namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a mineralocorticoid stimulus. Mineralocorticoids are hormonal C21 corticosteroids synthesized from cholesterol and characterized by their similarity to aldosterone. Mineralocorticoids act primarily on water and electrolyte balance." [GOC:ai, PMID:9884123] synonym: "response to mineralocorticoid stimulus" EXACT [GOC:dos] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:25354 @@ -92259,6 +93854,7 @@ namespace: biological_process def: "Any process that reduces or removes the toxicity of nitrogenous compounds which are dangerous or toxic. This includes the aerobic conversion of toxic compounds to harmless substances." [GOC:ai] synonym: "detoxification of nitrogenous compound" EXACT [] synonym: "nitric oxide (NO) detoxification" NARROW [] +is_a: BFO:0000003 is_a: GO:0098754 ! detoxification intersection_of: GO:0098754 ! detoxification intersection_of: has_primary_input CHEBI:51143 @@ -92324,6 +93920,7 @@ id: GO:0051450 name: myoblast proliferation namespace: biological_process def: "The multiplication or reproduction of myoblasts, resulting in the expansion of a myoblast cell population. A myoblast is a mononucleate cell type that, by fusion with other myoblasts, gives rise to the myotubes that eventually develop into skeletal muscle fibers." [CL:0000056, GOC:ai, GOC:mtg_muscle] +is_a: BFO:0000003 is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000056 ! myoblast @@ -92649,6 +94246,7 @@ name: response to calcium ion namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a calcium ion stimulus." [GOC:ai] synonym: "response to Ca2+ ion" EXACT [] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:29108 @@ -92712,6 +94310,7 @@ id: GO:0051608 name: histamine transport namespace: biological_process def: "The directed movement of histamine into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Histamine is a physiologically active amine, found in plant and animal tissue and released from mast cells as part of an allergic reaction in humans." [GOC:ai] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:58432 @@ -92842,69 +94441,6 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0051620 ! norepinephrine uptake relationship: positively_regulates GO:0051620 ! norepinephrine uptake -[Term] -id: GO:0051625 -name: epinephrine uptake -namespace: biological_process -def: "The directed movement of epinephrine into a cell, typically presynaptic neurons or glial cells. Epinephrine is a hormone produced by the medulla of the adrenal glands that increases heart activity, improves the power and prolongs the action of muscles, and increases the rate and depth of breathing. It is synthesized by the methylation of norepinephrine." [GOC:ai] -synonym: "adrenaline reuptake" EXACT [] -synonym: "adrenaline uptake" EXACT [] -synonym: "epinephrine import" EXACT [GOC:dph, GOC:tb] -synonym: "epinephrine reuptake" EXACT [] -is_a: GO:0048241 ! epinephrine transport -intersection_of: GO:0006810 ! transport -intersection_of: has_primary_input CHEBI:33568 -intersection_of: has_target_end_location GO:0005622 ! intracellular anatomical structure -intersection_of: has_target_start_location GO:0005576 ! extracellular region -relationship: has_target_end_location GO:0005622 ! intracellular anatomical structure -relationship: has_target_start_location GO:0005576 ! extracellular region - -[Term] -id: GO:0051626 -name: regulation of epinephrine uptake -namespace: biological_process -def: "Any process that modulates the frequency, rate or extent of the directed movement of the neurotransmitter epinephrine into a cell." [GOC:ai] -synonym: "regulation of adrenaline uptake" EXACT [] -synonym: "regulation of epinephrine import" EXACT [GOC:dph, GOC:tb] -is_a: GO:0051049 ! regulation of transport -intersection_of: GO:0065007 ! biological regulation -intersection_of: regulates GO:0051625 ! epinephrine uptake -relationship: regulates GO:0051625 ! epinephrine uptake - -[Term] -id: GO:0051627 -name: negative regulation of epinephrine uptake -namespace: biological_process -def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of epinephrine into a cell." [GOC:ai] -synonym: "down regulation of epinephrine uptake" EXACT [] -synonym: "down-regulation of epinephrine uptake" EXACT [] -synonym: "downregulation of epinephrine uptake" EXACT [] -synonym: "negative regulation of adrenaline uptake" EXACT [] -synonym: "negative regulation of epinephrine import" EXACT [GOC:dph, GOC:tb] -is_a: GO:0051051 ! negative regulation of transport -is_a: GO:0051626 ! regulation of epinephrine uptake -intersection_of: GO:0065007 ! biological regulation -intersection_of: negatively_regulates GO:0051625 ! epinephrine uptake -relationship: negatively_regulates GO:0051625 ! epinephrine uptake - -[Term] -id: GO:0051628 -name: positive regulation of epinephrine uptake -namespace: biological_process -def: "Any process that activates or increases the frequency, rate or extent of the directed movement of epinephrine into a cell." [GOC:ai] -synonym: "activation of epinephrine uptake" NARROW [] -synonym: "positive regulation of adrenaline uptake" EXACT [] -synonym: "positive regulation of epinephrine import" EXACT [GOC:dph, GOC:tb] -synonym: "stimulation of epinephrine uptake" NARROW [] -synonym: "up regulation of epinephrine uptake" EXACT [] -synonym: "up-regulation of epinephrine uptake" EXACT [] -synonym: "upregulation of epinephrine uptake" EXACT [] -is_a: GO:0051050 ! positive regulation of transport -is_a: GO:0051626 ! regulation of epinephrine uptake -intersection_of: GO:0065007 ! biological regulation -intersection_of: positively_regulates GO:0051625 ! epinephrine uptake -relationship: positively_regulates GO:0051625 ! epinephrine uptake - [Term] id: GO:0051630 name: acetylcholine uptake @@ -92970,6 +94506,7 @@ def: "Any process in which an organelle is transported to, and/or maintained in, subset: goslim_pir synonym: "establishment and maintenance of organelle localization" EXACT [] synonym: "organelle localisation" EXACT [GOC:mah] +is_a: BFO:0000003 is_a: GO:0051179 ! localization intersection_of: GO:0051179 ! localization intersection_of: has_primary_input GO:0043226 ! organelle @@ -92984,6 +94521,8 @@ name: cellular localization namespace: biological_process alt_id: GO:1902580 def: "A cellular localization process whereby a substance or cellular entity, such as a protein complex or organelle, is transported to, and/or maintained in, a specific location within a cell including the localization of substances or cellular entities to the cell membrane." [GOC:tb, GOC:vw] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "cellular localisation" EXACT [GOC:mah] synonym: "establishment and maintenance of cellular localization" EXACT [] @@ -92994,6 +94533,7 @@ synonym: "single organism cellular localization" EXACT [GOC:TermGenie] synonym: "single-organism cellular localization" RELATED [] is_a: GO:0009987 ! cellular process is_a: GO:0051179 ! localization +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2013-12-18T14:04:32Z @@ -93048,6 +94588,7 @@ synonym: "establishment of intracellular localization" NARROW [] synonym: "establishment of localisation in cell" EXACT [GOC:mah] synonym: "establishment of localization within cell" NARROW [] synonym: "positioning within cell" NARROW [] +is_a: BFO:0000003 is_a: GO:0051234 ! establishment of localization intersection_of: GO:0051234 ! establishment of localization intersection_of: occurs_in CL:0000000 ! cell @@ -93086,6 +94627,7 @@ synonym: "maintenance of localization within cell" NARROW [] synonym: "retention within cell" NARROW [] synonym: "sequestering within cell" NARROW [] synonym: "storage within cell" NARROW [] +is_a: BFO:0000003 is_a: GO:0009987 ! cellular process is_a: GO:0051235 ! maintenance of location intersection_of: GO:0051235 ! maintenance of location @@ -93171,6 +94713,7 @@ synonym: "cell localization" EXACT [] synonym: "establishment and maintenance of cell localization" EXACT [] synonym: "establishment and maintenance of localization of cell" EXACT [] synonym: "localisation of cell" EXACT [GOC:mah] +is_a: BFO:0000003 is_a: GO:0009987 ! cellular process is_a: GO:0051179 ! localization intersection_of: GO:0051179 ! localization @@ -93220,7 +94763,7 @@ name: cellular response to stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus by a cell and ends with a change in state or activity or the cell." [GOC:bf, GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0009987 ! cellular process is_a: GO:0050896 ! response to stimulus @@ -93645,6 +95188,7 @@ id: GO:0051937 name: catecholamine transport namespace: biological_process def: "The directed movement of catecholamines, a group of physiologically important biogenic amines that possess a catechol (3,4-dihydroxyphenyl) nucleus and are derivatives of 3,4-dihydroxyphenylethylamine." [GOC:ai, ISBN:0198506732] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:33567 @@ -93768,6 +95312,8 @@ is_a: GO:2000026 ! regulation of multicellular organismal development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007399 ! nervous system development relationship: regulates GO:0007399 ! nervous system development +relationship: RO:0002160 NCBITaxon:6072 ! only in taxon Eumetazoa +relationship: RO:0002162 NCBITaxon:6072 {all_only="true"} ! in taxon Eumetazoa [Term] id: GO:0051961 @@ -93989,9 +95535,6 @@ name: imidazole-containing compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving imidazoles, five-membered organic heterocycle containing two nitrogen atoms at positions 1 and 3, or any of its derivatives; compounds containing an imidazole skeleton." [GOC:curators] synonym: "imidazole metabolism" EXACT [] -is_a: GO:0006725 ! cellular aromatic compound metabolic process -is_a: GO:0034641 ! cellular nitrogen compound metabolic process -is_a: GO:0046483 ! heterocycle metabolic process is_a: GO:1901360 ! organic cyclic compound metabolic process is_a: GO:1901564 ! organonitrogen compound metabolic process intersection_of: GO:0008152 ! metabolic process @@ -94006,7 +95549,7 @@ def: "The chemical reactions and pathways resulting in the breakdown of imidazol synonym: "imidazole breakdown" EXACT [] synonym: "imidazole catabolism" EXACT [] synonym: "imidazole degradation" EXACT [] -is_a: GO:0044270 ! cellular nitrogen compound catabolic process +is_a: GO:0009056 ! catabolic process is_a: GO:0052803 ! imidazole-containing compound metabolic process intersection_of: GO:0009056 ! catabolic process intersection_of: has_primary_input CHEBI:24780 @@ -94172,6 +95715,7 @@ name: cardiac muscle tissue growth namespace: biological_process def: "The increase in size or mass of a cardiac muscle, where the increase in size or mass has the specific outcome of the progression of the organism over time from one condition to another." [GOC:devbiol] synonym: "heart muscle growth" EXACT [] +is_a: BFO:0000003 is_a: GO:0048589 ! developmental growth intersection_of: GO:0048589 ! developmental growth intersection_of: results_in_growth_of UBERON:0001133 ! cardiac muscle tissue @@ -94322,6 +95866,7 @@ name: neuroblast division namespace: biological_process def: "The process resulting in the physical partitioning and separation of a neuroblast into daughter cells. A neuroblast is any cell that will divide and give rise to a neuron." [PMID:11163136, PMID:11250167] synonym: "neuroblast cell division" EXACT [] +is_a: BFO:0000003 is_a: GO:0051301 ! cell division intersection_of: GO:0051301 ! cell division intersection_of: has_primary_input CL:0000031 ! neuroblast (sensu Vertebrata) @@ -94383,11 +95928,13 @@ def: "The process in which a solute is transported across a lipid bilayer, from comment: Transmembrane transport is the transport of a solute across a lipid bilayer. Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane and is not traversed. For transport through the nuclear pore, consider instead the term 'nucleocytoplasmic transport ; GO:0006913' and its children. Note also that this term is not intended for use in annotating lateral movement within membranes. subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pombe subset: goslim_yeast synonym: "ATP hydrolysis coupled transmembrane transport" NARROW [] synonym: "membrane transport" EXACT [] +is_a: BFO:0000003 is_a: GO:0006810 ! transport is_a: GO:0009987 ! cellular process intersection_of: GO:0006810 ! transport @@ -94412,6 +95959,7 @@ name: response to lipoprotein particle namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a lipoprotein particle stimulus." [GOC:BHF, GOC:rl] synonym: "response to lipoprotein particle stimulus" EXACT [GOC:dos] +is_a: BFO:0000003 is_a: GO:0009719 ! response to endogenous stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:6495 @@ -94550,7 +96098,6 @@ id: GO:0060011 name: Sertoli cell proliferation namespace: biological_process def: "The multiplication or reproduction of Sertoli cells, resulting in the expansion of the Sertoli cell population. A Sertoli cell is a supporting cell projecting inward from the basement membrane of seminiferous tubules." [GOC:dph] -is_a: GO:0022414 ! reproductive process is_a: GO:0050673 ! epithelial cell proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000216 ! Sertoli cell @@ -94710,6 +96257,7 @@ namespace: biological_process def: "The process in which the anatomical structure of the retina is generated and organized." [GOC:bf, GOC:dph, GOC:mtg_sensu] synonym: "retina morphogenesis in camera-style eye" EXACT [] synonym: "retinogenesis" EXACT [] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000966 ! retina @@ -94922,7 +96470,7 @@ id: GO:0060089 name: molecular transducer activity namespace: molecular_function def: "A compound molecular function in which an effector function is controlled by one or more regulatory components." [GOC:dos, GOC:pdt] -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote @@ -94935,9 +96483,12 @@ namespace: molecular_function alt_id: GO:0032947 def: "The binding activity of a molecule that brings together two or more molecules through a selective, non-covalent, often stoichiometric interaction, permitting those molecules to function in a coordinated way." [GOC:mtg_MIT_16mar07, GOC:vw] subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pir +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "binding, bridging" EXACT [] synonym: "protein complex scaffold activity" RELATED [] synonym: "protein-containing complex scaffold activity" RELATED [] @@ -95345,6 +96896,7 @@ namespace: biological_process def: "The process pertaining to the initial formation of a limb bud from unspecified parts. This process begins with the formation of a local condensation of mesenchyme cells within the prospective limb field, and ends when a limb bud is recognizable." [GOC:dgh, GOC:dph] synonym: "limb formation" EXACT [] synonym: "limbbud formation" EXACT [] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002101 ! limb @@ -95356,6 +96908,7 @@ id: GO:0060214 name: endocardium formation namespace: biological_process def: "Formation of the endocardium of the heart. The endocardium is an anatomical structure comprised of an endothelium and an extracellular matrix that forms the innermost layer of tissue of the heart, and lines the heart chambers." [GOC:bf, GOC:dph, PMID:17722983] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002165 ! endocardium @@ -95662,6 +97215,7 @@ comment: Note that we deem eukaryotic cilia and microtubule-based flagella to be synonym: "ciliary cell motility" RELATED [] synonym: "cilium cell motility" EXACT [] synonym: "microtubule-based flagellar cell motility" EXACT [] +is_a: BFO:0000003 is_a: GO:0001539 ! cilium or flagellum-dependent cell motility relationship: has_part GO:0003341 ! cilium movement @@ -95783,6 +97337,7 @@ id: GO:0060323 name: head morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the head are generated and organized. The head is the anterior-most division of the body." [GOC:dph] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000033 ! head @@ -95806,6 +97361,7 @@ id: GO:0060325 name: face morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the face are generated and organized. The face is the ventral division of the head." [GOC:dph] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001456 ! face @@ -95818,6 +97374,7 @@ id: GO:0060326 name: cell chemotaxis namespace: biological_process def: "The directed movement of a motile cell guided by a specific chemical concentration gradient. Movement may be towards a higher concentration (positive chemotaxis) or towards a lower concentration (negative chemotaxis)." [GOC:dph] +is_a: BFO:0000003 is_a: GO:0006935 ! chemotaxis is_a: GO:0016477 ! cell migration intersection_of: GO:0006935 ! chemotaxis @@ -95854,6 +97411,7 @@ namespace: biological_process def: "The process of creating a trabecula in an organ. A trabecula is a small, often microscopic, tissue element in the form of a small beam, strut or rod, which generally has a mechanical function. Trabecula are usually but not necessarily, composed of dense collagenous tissue." [GOC:dph] synonym: "trabecula biogenesis" RELATED [GOC:dph] synonym: "trabeculation" EXACT [GOC:dph] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0000440 ! trabecula @@ -95953,6 +97511,7 @@ namespace: biological_process alt_id: GO:1903717 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an ammonium stimulus." [GO_REF:0000071, GOC:TermGenie, PMID:23509267] synonym: "response to ammonia" EXACT [] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:28938 @@ -96085,6 +97644,7 @@ namespace: biological_process alt_id: GO:0003280 def: "The process in which the anatomical structure of a cardiac septum is generated and organized. A cardiac septum is a partition that separates parts of the heart." [GOC:dph, GOC:mtg_heart] synonym: "heart septum morphogenesis" EXACT [] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002099 ! cardiac septum @@ -96553,6 +98113,7 @@ id: GO:0060463 name: lung lobe morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a lung lobe are generated and organized. A lung lobe is a projection that extends from the lung." [GOC:dph] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000101 ! lobe of lung @@ -96565,6 +98126,7 @@ id: GO:0060464 name: lung lobe formation namespace: biological_process def: "The developmental process pertaining to the initial formation of a lung lobe from unspecified parts. This process begins with the specific processes that contribute to the appearance of the lobe and ends when the structural rudiment is recognizable. A lung lobe is a projection that extends from the lung." [GOC:dph] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0000101 ! lobe of lung @@ -96601,7 +98163,6 @@ namespace: biological_process def: "The negative regulation of fertilization process that takes place as part of egg activation, ensuring that only a single sperm fertilizes the egg." [GOC:dph] synonym: "negative regulation of fertilization involved in egg activation" EXACT [GOC:dph] synonym: "polyspermy block" EXACT [GOC:dph] -is_a: GO:0022414 ! reproductive process is_a: GO:0060467 ! negative regulation of fertilization intersection_of: GO:0060467 ! negative regulation of fertilization intersection_of: part_of GO:0007343 ! egg activation @@ -97265,6 +98826,7 @@ synonym: "mammary bud formation" RELATED [GOC:dph] synonym: "mammary line formation" NARROW [GOC:dph] synonym: "mammary placode formation" NARROW [GOC:dph] synonym: "mammary sprout formation" RELATED [GOC:dph] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0001911 ! mammary gland @@ -97575,6 +99137,7 @@ id: GO:0060658 name: nipple morphogenesis namespace: biological_process def: "The process in which the nipple is generated and organized." [GOC:dph] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002030 ! nipple @@ -97613,6 +99176,7 @@ id: GO:0060669 name: embryonic placenta morphogenesis namespace: biological_process def: "The process in which the embryonic placenta is generated and organized." [GOC:dph] +is_a: BFO:0000003 is_a: GO:0048598 ! embryonic morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0007106 ! chorionic villus @@ -97935,6 +99499,7 @@ id: GO:0060713 name: labyrinthine layer morphogenesis namespace: biological_process def: "The process in which the labyrinthine layer of the placenta is generated and organized." [GOC:dph] +is_a: BFO:0000003 is_a: GO:0048598 ! embryonic morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0003946 ! placenta labyrinth @@ -97949,6 +99514,7 @@ id: GO:0060714 name: labyrinthine layer formation namespace: biological_process def: "The developmental process pertaining to the initial formation of the labyrinthine layer of the placenta." [GOC:dph] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0003946 ! placenta labyrinth @@ -98067,7 +99633,6 @@ name: epithelial-mesenchymal signaling involved in prostate gland development namespace: biological_process def: "Any process that results in the transfer of information from an epithelial cell to a mesenchymal cell where it is interpreted and contributes to the progression of the prostate gland over time." [GOC:dph] synonym: "epithelial-mesenchymal signalling involved in prostate gland development" EXACT [GOC:mah] -is_a: GO:0022414 ! reproductive process is_a: GO:0060684 ! epithelial-mesenchymal cell signaling intersection_of: GO:0060684 ! epithelial-mesenchymal cell signaling intersection_of: part_of GO:0030850 ! prostate gland development @@ -98081,7 +99646,6 @@ name: mesenchymal-epithelial cell signaling involved in prostate gland developme namespace: biological_process def: "Any process that mediates the transfer of information from a mesenchymal cell to an epithelial cell where it is received and interpreted contributing to the progression of the prostate gland over time." [GOC:dph] synonym: "mesenchymal-epithelial cell signalling involved in prostate gland development" EXACT [GOC:mah] -is_a: GO:0022414 ! reproductive process is_a: GO:0060638 ! mesenchymal-epithelial cell signaling intersection_of: GO:0060638 ! mesenchymal-epithelial cell signaling intersection_of: part_of GO:0030850 ! prostate gland development @@ -98108,6 +99672,7 @@ id: GO:0060741 name: prostate gland stromal morphogenesis namespace: biological_process def: "The process in which the prostate gland stroma is generated and organized. The prostate gland stroma is made up of the mesenchymal or fibroblast cells of the prostate gland." [GOC:dph] +is_a: BFO:0000003 is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis @@ -98138,7 +99703,6 @@ namespace: biological_process def: "The developmental process, independent of morphogenetic (shape) change, that is required for an epithelial cell of the prostate gland to attain its fully functional state. An epithelial cell is a cell usually found in a two-dimensional sheet with a free surface." [GOC:dph] synonym: "prostate gland epithelial cell development" EXACT [GOC:dph] is_a: GO:0002070 ! epithelial cell maturation -is_a: GO:0003006 ! developmental process involved in reproduction intersection_of: GO:0002070 ! epithelial cell maturation intersection_of: part_of GO:0030850 ! prostate gland development relationship: part_of GO:0060742 ! epithelial cell differentiation involved in prostate gland development @@ -98266,7 +99830,6 @@ id: GO:0060767 name: epithelial cell proliferation involved in prostate gland development namespace: biological_process def: "The multiplication or reproduction of epithelial cells, resulting in the expansion of a cell population that contributes to the progression of the prostate gland over time." [GOC:dph] -is_a: GO:0022414 ! reproductive process is_a: GO:0050673 ! epithelial cell proliferation intersection_of: GO:0050673 ! epithelial cell proliferation intersection_of: part_of GO:0030850 ! prostate gland development @@ -98280,7 +99843,6 @@ name: regulation of epithelial cell proliferation involved in prostate gland dev namespace: biological_process def: "Any process that modulates the rate, frequency or extent of epithelial cell proliferation that contributes to the progression of the prostate gland over time." [GOC:dph] is_a: GO:0050678 ! regulation of epithelial cell proliferation -is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0060767 ! epithelial cell proliferation involved in prostate gland development relationship: regulates GO:0060767 ! epithelial cell proliferation involved in prostate gland development @@ -98324,7 +99886,6 @@ name: mesenchymal cell proliferation involved in prostate gland development namespace: biological_process def: "The multiplication or reproduction of mesenchymal cells, resulting in the expansion of a cell population that contributes to the progression of the prostate gland over time." [GOC:dph, PMID:12221011] is_a: GO:0010463 ! mesenchymal cell proliferation -is_a: GO:0022414 ! reproductive process intersection_of: GO:0010463 ! mesenchymal cell proliferation intersection_of: part_of GO:0030850 ! prostate gland development relationship: part_of GO:0030850 ! prostate gland development @@ -98337,7 +99898,6 @@ name: regulation of mesenchymal cell proliferation involved in prostate gland de namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mesenchymal cell proliferation that contributes to the progression of the prostate gland over time. A mesenchymal cell is a cell that normally gives rise to other cells that are organized as three-dimensional masses, rather than sheets." [GOC:dph, PMID:12221011] is_a: GO:0010464 ! regulation of mesenchymal cell proliferation -is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0060781 ! mesenchymal cell proliferation involved in prostate gland development relationship: regulates GO:0060781 ! mesenchymal cell proliferation involved in prostate gland development @@ -98385,6 +99945,7 @@ id: GO:0060788 name: ectodermal placode formation namespace: biological_process def: "The developmental process in which an ectodermal placode forms. An ectodermal placode is a thickening of the ectoderm that is the primordium of many structures derived from the ectoderm." [GOC:dph, GOC:sdb_2009, GOC:tb] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0005085 ! ectodermal placode @@ -99685,6 +101246,7 @@ id: GO:0061072 name: iris morphogenesis namespace: biological_process def: "The process in which the iris is generated and organized. The iris is an anatomical structure in the eye whose opening forms the pupil. The iris is responsible for controlling the diameter and size of the pupil and the amount of light reaching the retina." [GOC:dph] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001769 ! iris @@ -99698,6 +101260,7 @@ id: GO:0061073 name: ciliary body morphogenesis namespace: biological_process def: "The process in which the ciliary body generated and organized. The ciliary body is the circumferential tissue inside the eye composed of the ciliary muscle and ciliary processes." [GOC:dph] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001775 ! ciliary body @@ -100353,6 +101916,7 @@ id: GO:0061195 name: taste bud formation namespace: biological_process def: "The developmental process pertaining to the initial formation of the taste bud from unspecified parts. The taste bud is a specialized area of the tongue that contains taste receptors." [GOC:dph] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0001727 ! taste bud @@ -101105,6 +102669,7 @@ name: retina vasculature morphogenesis in camera-type eye namespace: biological_process def: "The process in which the vasculature of the retina is generated and organized." [GOC:BHF, GOC:dph] synonym: "retinal vasculature morphogenesis" EXACT [GOC:dph] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004864 ! vasculature of retina @@ -101130,6 +102695,7 @@ id: GO:0061301 name: cerebellum vasculature morphogenesis namespace: biological_process def: "The process in which the vasculature of the cerebellum is generated and organized." [GOC:BHF, GOC:dph] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0006694 ! cerebellum vasculature @@ -101485,6 +103051,7 @@ id: GO:0061370 name: testosterone biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of testosterone, an androgen having 17beta-hydroxy and 3-oxo groups, together with unsaturation at C-4 C-5." [GOC:dph, GOC:yaf] +is_a: BFO:0000003 is_a: GO:0009058 ! biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:17347 @@ -101523,6 +103090,7 @@ id: GO:0061383 name: trabecula morphogenesis namespace: biological_process def: "The process of shaping a trabecula in an organ. A trabecula is a small, often microscopic, tissue element in the form of a small beam, strut or rod, which generally has a mechanical function. Trabecula are usually but not necessarily, composed of dense collagenous tissue." [GOC:dph] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000440 ! trabecula @@ -101579,6 +103147,7 @@ id: GO:0061439 name: kidney vasculature morphogenesis namespace: biological_process def: "The process in which the kidney vasculature is generated and organized. Morphogenesis pertains to the creation of form." [GOC:dph, GOC:mtg_kidney_jan10] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0006544 ! kidney vasculature @@ -101644,8 +103213,8 @@ id: GO:0061450 name: trophoblast cell migration namespace: biological_process def: "Trophoblast cell migration that is accomplished by extension and retraction of a pseudopodium. Trophoblast cells line the outside of the blastocyst." [GOC:dph] +is_a: BFO:0000003 is_a: GO:0001667 ! ameboidal-type cell migration -is_a: GO:0022414 ! reproductive process intersection_of: GO:0016477 ! cell migration intersection_of: results_in_movement_of CL:0000351 ! trophoblast cell relationship: part_of GO:0007566 ! embryo implantation @@ -101764,6 +103333,7 @@ id: GO:0061484 name: hematopoietic stem cell homeostasis namespace: biological_process def: "Any biological process involved in the maintenance of the steady-state number of hematopoietic stem cells within a population of cells." [GOC:dph, PMID:21508411] +is_a: BFO:0000003 is_a: GO:0048872 ! homeostasis of number of cells intersection_of: GO:0048872 ! homeostasis of number of cells intersection_of: acts_on_population_of CL:0000037 ! hematopoietic stem cell @@ -101918,19 +103488,6 @@ relationship: part_of GO:0001963 ! synaptic transmission, dopaminergic created_by: dph creation_date: 2013-06-21T15:43:15Z -[Term] -id: GO:0061529 -name: epinephrine secretion, neurotransmission -namespace: biological_process -def: "The regulated release of epinephrine by a cell in which the epinephrine acts as a neurotransmitter." [GOC:dph] -synonym: "adrenaline secretion, neurotransmission" EXACT [GOC:dph] -is_a: GO:0007269 ! neurotransmitter secretion -is_a: GO:0048242 ! epinephrine secretion -intersection_of: GO:0007269 ! neurotransmitter secretion -intersection_of: has_primary_input CHEBI:33568 -created_by: dph -creation_date: 2013-06-21T15:47:22Z - [Term] id: GO:0061533 name: norepinephrine secretion, neurotransmission @@ -102109,6 +103666,7 @@ name: ganglion formation namespace: biological_process def: "The process that gives rise to ganglion. This process pertains to the initial formation of a structure from unspecified parts." [GOC:dph] synonym: "ganglia formation" RELATED [GOC:dph] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0000045 ! ganglion @@ -102323,7 +103881,6 @@ id: GO:0061682 name: seminal vesicle morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a seminal vesicle are generated and organized." [GOC:dph] -is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0022612 ! gland morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000998 ! seminal vesicle @@ -102341,7 +103898,6 @@ synonym: "gonecyst branching morphogenesis" EXACT [GOC:dph] synonym: "seminal gland branching morphogenesis" EXACT [GOC:dph] synonym: "seminal vesicle branching" EXACT [GOC:dph] synonym: "seminal vesicle branching morphogenesis" EXACT [GOC:dph] -is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0061138 ! morphogenesis of a branching epithelium intersection_of: GO:0061138 ! morphogenesis of a branching epithelium intersection_of: part_of GO:0061682 ! seminal vesicle morphogenesis @@ -102355,6 +103911,7 @@ id: GO:0061687 name: detoxification of inorganic compound namespace: biological_process def: "Any process that reduces or removes the toxicity of inorganic compounds. These include transport of such compounds away from sensitive areas and to compartments or complexes whose purpose is sequestration of inorganic compounds." [GOC:vw] +is_a: BFO:0000003 is_a: GO:0098754 ! detoxification intersection_of: GO:0098754 ! detoxification intersection_of: has_primary_input CHEBI:24835 @@ -102579,6 +104136,7 @@ id: GO:0061900 name: glial cell activation namespace: biological_process def: "A change in morphology and behavior of a glial cell resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor." [GOC:aruk, GOC:bc, PMID:18723082] +is_a: BFO:0000003 is_a: GO:0001775 ! cell activation intersection_of: GO:0001775 ! cell activation intersection_of: has_primary_input CL:0000125 ! glial cell @@ -102782,6 +104340,7 @@ name: lutein metabolic process namespace: biological_process def: "The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform lutein." [PMID:24397433] synonym: "lutein metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:28838 @@ -102943,6 +104502,7 @@ subset: gocheck_do_not_annotate subset: goslim_pir subset: goslim_plant synonym: "regulation of a molecular function" EXACT [] +is_a: BFO:0000003 is_a: GO:0065007 ! biological regulation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0003674 ! molecular_function @@ -103454,6 +105014,7 @@ name: mucus secretion namespace: biological_process def: "The regulated release of mucus by the mucosa. Mucus is a viscous slimy secretion consisting of mucins and various inorganic salts dissolved in water, with suspended epithelial cells and leukocytes. The mucosa, or mucous membrane, is the membrane covered with epithelium that lines the tubular organs of the body. Mucins are carbohydrate-rich glycoproteins that have a lubricating and protective function." [GOC:add, ISBN:068340007X, ISBN:0721662544] synonym: "mucus production" EXACT [GOC:add] +is_a: BFO:0000003 is_a: GO:0007589 ! body fluid secretion is_a: GO:0032941 ! secretion by tissue intersection_of: GO:0046903 ! secretion @@ -103570,6 +105131,7 @@ namespace: biological_process def: "The multiplication or reproduction of fat cells by cell division, resulting in the expansion of their population. A fat cell is an animal connective tissue cell specialized for the synthesis and storage of fat." [GOC:mah, GOC:sl] synonym: "adipocyte proliferation" EXACT [GOC:sl] synonym: "adipose cell proliferation" EXACT [GOC:sl] +is_a: BFO:0000003 is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000136 ! adipocyte @@ -103817,6 +105379,7 @@ name: ammonium ion binding namespace: molecular_function def: "Binding to ammonium ions (NH4+)." [CHEBI:28938, GOC:ecd] synonym: "ammonium binding" RELATED [] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:28938 @@ -103828,6 +105391,7 @@ name: oligodendrocyte progenitor proliferation namespace: biological_process def: "The multiplication or reproduction of oligodendrocyte progenitor cells by cell division, resulting in the expansion of their population. Oligodendrocyte progenitors give rise to oligodendrocytes, which form the insulating myelin sheath of axons in the central nervous system." [GOC:mah, GOC:sl, PMID:15504915] synonym: "oligodendrocyte precursor proliferation" EXACT [GOC:mah] +is_a: BFO:0000003 is_a: GO:0061351 ! neural precursor cell proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0002453 ! oligodendrocyte precursor cell @@ -103990,6 +105554,7 @@ id: GO:0070633 name: transepithelial transport namespace: biological_process def: "The directed movement of a substance from one side of an epithelium to the other." [GOC:mah, GOC:yaf, ISBN:0716731363] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: results_in_transport_across UBERON:0000483 ! epithelium @@ -104014,6 +105579,7 @@ id: GO:0070661 name: leukocyte proliferation namespace: biological_process def: "The expansion of a leukocyte population by cell division." [GOC:add] +is_a: BFO:0000003 is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000738 ! leukocyte @@ -104318,7 +105884,7 @@ name: cellular response to chemical stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a chemical stimulus." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0042221 ! response to chemical is_a: GO:0051716 ! cellular response to stimulus created_by: mah @@ -104471,7 +106037,7 @@ name: cellular response to abiotic stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an abiotic (non-living) stimulus." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "cellular response to abiotic stress" NARROW [GOC:mah] is_a: GO:0009628 ! response to abiotic stimulus is_a: GO:0104004 ! cellular response to environmental stimulus @@ -104487,7 +106053,7 @@ synonym: "cellular response to amino acid" EXACT [GOC:mah] is_a: GO:0043200 ! response to amino acid is_a: GO:0070887 ! cellular response to chemical stimulus intersection_of: GO:0070887 ! cellular response to chemical stimulus -intersection_of: has_primary_input CHEBI:33709 +intersection_of: has_primary_input CHEBI:35238 created_by: mah creation_date: 2009-12-03T02:08:11Z @@ -104514,8 +106080,7 @@ synonym: "cellular response to Ca2+ ion" EXACT [GOC:mah] is_a: GO:0051592 ! response to calcium ion is_a: GO:0070887 ! cellular response to chemical stimulus intersection_of: GO:0070887 ! cellular response to chemical stimulus -intersection_of: has_primary_input CHEBI:39124 -relationship: has_primary_input CHEBI:39124 +intersection_of: has_primary_input CHEBI:29108 created_by: mah creation_date: 2009-12-10T03:55:01Z @@ -104589,7 +106154,7 @@ is_a: GO:0001678 ! intracellular glucose homeostasis is_a: GO:0009749 ! response to glucose is_a: GO:0070887 ! cellular response to chemical stimulus intersection_of: GO:0070887 ! cellular response to chemical stimulus -intersection_of: has_primary_input CHEBI:17234 +intersection_of: has_primary_input CHEBI:4167 created_by: mah creation_date: 2009-12-10T05:38:03Z @@ -104730,6 +106295,7 @@ id: GO:0071402 name: cellular response to lipoprotein particle stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a lipoprotein particle stimulus." [GOC:mah] +is_a: BFO:0000003 is_a: GO:0051716 ! cellular response to stimulus intersection_of: GO:0051716 ! cellular response to stimulus intersection_of: has_primary_input GO:1990777 ! lipoprotein particle @@ -104834,7 +106400,7 @@ name: cellular response to endogenous stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus arising within the organism." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0009719 ! response to endogenous stimulus created_by: mah creation_date: 2009-12-18T02:25:40Z @@ -105081,6 +106647,7 @@ id: GO:0071695 name: anatomical structure maturation namespace: biological_process def: "A developmental process, independent of morphogenetic (shape) change, that is required for an anatomical structure to attain its fully functional state." [GOC:mah] +is_a: BFO:0000003 is_a: GO:0021700 ! developmental maturation intersection_of: GO:0021700 ! developmental maturation intersection_of: results_in_maturation_of UBERON:0000061 ! anatomical structure @@ -105106,6 +106673,7 @@ id: GO:0071697 name: ectodermal placode morphogenesis namespace: biological_process def: "The process in which the anatomical structures of an ectodermal placode are generated and organized. An ectodermal placode is a thickening of the ectoderm that is the primordium of many structures derived from the ectoderm." [GOC:mah] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0005085 ! ectodermal placode @@ -105158,6 +106726,7 @@ id: GO:0071702 name: organic substance transport namespace: biological_process def: "The directed movement of organic substances into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter or pore. An organic substance is a molecular entity that contains carbon." [GOC:mah] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:50860 @@ -105174,6 +106743,7 @@ subset: gocheck_do_not_annotate synonym: "organic molecular entity metabolic process" EXACT [] synonym: "organic molecular entity metabolism" EXACT [] synonym: "organic substance metabolism" EXACT [] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:50860 @@ -105187,6 +106757,8 @@ id: GO:0071705 name: nitrogen compound transport namespace: biological_process def: "The directed movement of nitrogen-containing compounds into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:mah] +subset: gocheck_do_not_annotate +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:51143 @@ -105511,12 +107083,15 @@ name: cellular component organization or biogenesis namespace: biological_process alt_id: GO:0071841 def: "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_flybase_ribbon subset: goslim_metagenomics synonym: "cellular component organisation or biogenesis" EXACT [GOC:mah] synonym: "cellular component organisation or biogenesis at cellular level" EXACT [GOC:mah] synonym: "cellular component organization or biogenesis at cellular level" EXACT [] is_a: GO:0009987 ! cellular process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: mah creation_date: 2010-09-10T01:39:16Z @@ -105526,6 +107101,7 @@ name: response to catecholamine namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a catecholamine stimulus. A catecholamine is any of a group of biogenic amines that includes 4-(2-aminoethyl)pyrocatechol [4-(2-aminoethyl)benzene-1,2-diol] and derivatives formed by substitution." [GOC:BHF, GOC:mah] synonym: "response to catecholamine stimulus" EXACT [GOC:dos] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:33567 @@ -105545,35 +107121,6 @@ intersection_of: has_primary_input CHEBI:33567 created_by: mah creation_date: 2010-09-13T02:54:50Z -[Term] -id: GO:0071871 -name: response to epinephrine -namespace: biological_process -def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an epinephrine stimulus. Epinephrine is a catecholamine that has the formula C9H13NO3; it is secreted by the adrenal medulla to act as a hormone, and released by certain neurons to act as a neurotransmitter active in the central nervous system." [GOC:BHF, GOC:mah] -comment: Note that epinephrine and norepinephrine are ligands for the same receptors, and there are multiple adrenergic receptors. -synonym: "response to adrenaline stimulus" EXACT [GOC:mah] -synonym: "response to epinephrine stimulus" EXACT [GOC:dos] -is_a: GO:0050896 ! response to stimulus -intersection_of: GO:0050896 ! response to stimulus -intersection_of: has_primary_input CHEBI:33568 -relationship: has_primary_input CHEBI:33568 -created_by: mah -creation_date: 2010-09-13T03:27:48Z - -[Term] -id: GO:0071872 -name: cellular response to epinephrine stimulus -namespace: biological_process -def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an epinephrine stimulus. Epinephrine is a catecholamine that has the formula C9H13NO3; it is secreted by the adrenal medulla to act as a hormone, and released by certain neurons to act as a neurotransmitter active in the central nervous system." [GOC:BHF, GOC:mah] -comment: Note that epinephrine and norepinephrine are ligands for the same receptors, and there are multiple adrenergic receptors. -synonym: "cellular response to adrenaline stimulus" EXACT [GOC:mah] -is_a: GO:0070887 ! cellular response to chemical stimulus -is_a: GO:0071871 ! response to epinephrine -intersection_of: GO:0070887 ! cellular response to chemical stimulus -intersection_of: has_primary_input CHEBI:33568 -created_by: mah -creation_date: 2010-09-13T03:31:40Z - [Term] id: GO:0071873 name: response to norepinephrine @@ -105582,6 +107129,7 @@ def: "Any process that results in a change in state or activity of a cell or an comment: Note that epinephrine and norepinephrine are ligands for the same receptors, and there are multiple adrenergic receptors. synonym: "response to noradrenaline stimulus" EXACT [GOC:mah] synonym: "response to norepinephrine stimulus" EXACT [GOC:dos] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:72587 @@ -105644,6 +107192,7 @@ namespace: molecular_function def: "Binding to bicarbonate ions (CHO3-)." [GOC:curators] synonym: "CHO3- ion binding binding" EXACT [] synonym: "hydrogencarbonate binding" EXACT [CHEBI:17544] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:17544 @@ -105690,7 +107239,7 @@ subset: goslim_generic subset: goslim_pombe subset: goslim_prokaryote xref: Wikipedia:Nitrogen_cycle -is_a: GO:0006807 ! nitrogen compound metabolic process +is_a: GO:0008152 ! metabolic process created_by: mah creation_date: 2010-09-30T05:21:03Z @@ -105767,6 +107316,7 @@ name: kidney rudiment formation namespace: biological_process def: "The developmental process pertaining to the initial formation of a kidney rudiment from unspecified parts. A kidney is an organ that filters the blood and excretes the end products of body metabolism in the form of urine." [GOC:mtg_kidney_jan10] synonym: "kidney anlage formation" RELATED [GOC:mtg_kidney_jan10] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0005095 ! kidney rudiment @@ -106036,6 +107586,7 @@ id: GO:0072028 name: nephron morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the nephron are generated and organized. A nephron is the functional unit of the kidney." [GOC:mtg_kidney_jan10] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001285 ! nephron @@ -106076,6 +107627,7 @@ name: renal vesicle formation namespace: biological_process def: "The developmental process pertaining to the initial formation of the renal vesicle from condensed mesenchymal cells. The renal vesicle is the primordial structure of the nephron epithelium, and is formed by the condensation of mesenchymal cells." [GOC:mtg_kidney_jan10] synonym: "nephron epithelium formation" RELATED [GOC:mtg_kidney_jan10] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0004209 ! renal vesicle @@ -106203,6 +107755,7 @@ id: GO:0072049 name: comma-shaped body morphogenesis namespace: biological_process def: "The process in which the comma-shaped body is generated and organized. The comma-shaped body is the precursor structure to the S-shaped body that contributes to the morphogenesis of the nephron." [GOC:mtg_kidney_jan10] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004198 ! comma-shaped body @@ -106216,6 +107769,7 @@ id: GO:0072050 name: S-shaped body morphogenesis namespace: biological_process def: "The process in which the S-shaped body is generated and organized. The S-shaped body is the successor of the comma-shaped body that contributes to the morphogenesis of the nephron." [GOC:mtg_kidney_jan10] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004199 ! S-shaped body @@ -106589,6 +108143,7 @@ id: GO:0072089 name: stem cell proliferation namespace: biological_process def: "The multiplication or reproduction of stem cells, resulting in the expansion of a stem cell population. A stem cell is a cell that retains the ability to divide and proliferate throughout life to provide progenitor cells that can differentiate into specialized cells." [GOC:mtg_kidney_jan10] +is_a: BFO:0000003 is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000034 ! stem cell @@ -106657,6 +108212,7 @@ id: GO:0072102 name: glomerulus morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the glomerulus are generated and organized. The glomerulus is a capillary tuft surrounded by Bowman's capsule in nephrons of the vertebrate kidney." [GOC:mtg_kidney_jan10] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000074 ! renal glomerulus @@ -106862,6 +108418,7 @@ id: GO:0072129 name: renal capsule formation namespace: biological_process def: "The developmental process pertaining to the initial formation of a renal capsule from unspecified parts. The renal capsule is the tough fibrous layer surrounding the kidney, covered in a thick layer of perinephric adipose tissue. It provides some protection from trauma and damage. During development, it comprises a single layer of flattened cells that lie just above the cortical stroma and the condensed mesenchyme of the nephrogenic zone. It is in this region that the early stages of nephron induction and formation of new generations ureteric bud branches occur, as the kidney expands." [GOC:mtg_kidney_jan10] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002015 ! kidney capsule @@ -108469,7 +110026,9 @@ id: GO:0072337 name: modified amino acid transport namespace: biological_process def: "The directed movement of modified amino acids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:mah] +subset: gocheck_do_not_annotate synonym: "amino acid derivative transport" EXACT [] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:83821 @@ -108483,6 +110042,7 @@ name: modified amino acid binding namespace: molecular_function def: "Binding to a modified amino acid." [GOC:mah] synonym: "amino acid derivative binding" EXACT [] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:83821 @@ -108606,6 +110166,7 @@ id: GO:0072537 name: fibroblast activation namespace: biological_process def: "A change in the morphology or behavior of a fibroblast resulting from exposure to an activating factor such as a cellular or soluble ligand." [CL:0000057, GOC:BHF, GOC:mah] +is_a: BFO:0000003 is_a: GO:0001775 ! cell activation intersection_of: GO:0001775 ! cell activation intersection_of: has_primary_input CL:0000057 ! fibroblast @@ -108619,6 +110180,7 @@ name: T-helper 17 type immune response namespace: biological_process def: "An immune response which is associated with resistance to intracellular bacteria with a key role in inflammation and tissue injury. This immune response is associated with pathological autoimmune conditions such as multiple sclerosis, arthritis and psoriasis which is typically orchestrated by the production of particular cytokines by T-helper 17 cells, most notably interleukin-17, IL-21 and IL-22." [GOC:BHF, GOC:ebc] synonym: "Th17 immune response" EXACT [GOC:mah] +is_a: BFO:0000003 is_a: GO:0002460 ! adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains relationship: has_participant CL:0000899 ! T-helper 17 cell created_by: mah @@ -108722,6 +110284,7 @@ namespace: biological_process def: "The chemical reactions and pathways involving diatomic oxygen (O2)." [GOC:mah] synonym: "diatomic oxygen metabolic process" EXACT [CHEBI:33263] synonym: "oxygen metabolism" EXACT [GOC:mah] +is_a: BFO:0000003 is_a: GO:0044237 ! cellular metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:15379 @@ -109038,7 +110601,7 @@ name: regulation of response to stress namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a response to stress. Response to stress is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation)." [GOC:dhl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0048583 ! regulation of response to stimulus intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006950 ! response to stress @@ -109055,8 +110618,8 @@ synonym: "amino acid homeostasis" BROAD [] synonym: "cellular amino acid homeostasis" EXACT [] is_a: GO:0055082 ! intracellular chemical homeostasis intersection_of: GO:0055082 ! intracellular chemical homeostasis -intersection_of: regulates_levels_of CHEBI:33709 -relationship: regulates_levels_of CHEBI:33709 +intersection_of: regulates_levels_of CHEBI:35238 +relationship: regulates_levels_of CHEBI:35238 created_by: dhl creation_date: 2010-01-27T04:47:27Z @@ -109130,6 +110693,7 @@ id: GO:0086003 name: cardiac muscle cell contraction namespace: biological_process def: "The actin filament-based process in which cytoplasmic actin filaments slide past one another resulting in contraction of a cardiac muscle cell." [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] +is_a: BFO:0000003 is_a: GO:0070252 ! actin-mediated cell contraction relationship: part_of GO:0060048 ! cardiac muscle contraction created_by: tb @@ -109318,6 +110882,7 @@ id: GO:0086065 name: cell communication involved in cardiac conduction namespace: biological_process def: "Any process that mediates interactions between a cell and its surroundings that contributes to the process of cardiac conduction. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] +is_a: BFO:0000003 is_a: GO:0007154 ! cell communication intersection_of: GO:0007154 ! cell communication intersection_of: part_of GO:0061337 ! cardiac conduction @@ -109469,7 +111034,7 @@ synonym: "L-amino acid uptake" NARROW [] is_a: GO:0003333 ! amino acid transmembrane transport is_a: GO:0098739 ! import across plasma membrane intersection_of: GO:0006810 ! transport -intersection_of: has_primary_input CHEBI:33709 +intersection_of: has_primary_input CHEBI:35238 intersection_of: has_target_end_location GO:0005829 ! cytosol intersection_of: has_target_start_location GO:0005576 ! extracellular region intersection_of: results_in_transport_across GO:0005886 ! plasma membrane @@ -109481,6 +111046,7 @@ id: GO:0090009 name: primitive streak formation namespace: biological_process def: "The developmental process pertaining to the initial formation of the primitive streak from unspecified parts. The primitive streak is a ridge of cells running along the midline of the embryo where the mesoderm ingresses. It defines the anterior-posterior axis." [GOC:dph, GOC:sdb_2009, GOC:tb] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0004341 ! primitive streak @@ -109736,6 +111302,7 @@ id: GO:0090103 name: cochlea morphogenesis namespace: biological_process def: "The process in which the cochlea is generated and organized." [GOC:dph, GOC:tb] +is_a: BFO:0000003 is_a: GO:0048598 ! embryonic morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001844 ! cochlea @@ -109848,6 +111415,7 @@ id: GO:0090162 name: establishment of epithelial cell polarity namespace: biological_process def: "The specification and formation of anisotropic intracellular organization of an epithelial cell." [GOC:ascb_2009, GOC:dph, GOC:tb] +is_a: BFO:0000003 is_a: GO:0030010 ! establishment of cell polarity intersection_of: GO:0030010 ! establishment of cell polarity intersection_of: occurs_in CL:0000066 ! epithelial cell @@ -110049,6 +111617,7 @@ id: GO:0090214 name: spongiotrophoblast layer developmental growth namespace: biological_process def: "The increase in size or mass of the spongiotrophoblast layer of the placenta where the increase in size or mass contributes to the progression of that layer over time from its formation to its mature state." [GOC:dph, GOC:tb] +is_a: BFO:0000003 is_a: GO:0048589 ! developmental growth intersection_of: GO:0048589 ! developmental growth intersection_of: results_in_morphogenesis_of UBERON:0004021 ! spongiotrophoblast layer @@ -110284,11 +111853,15 @@ id: GO:0090304 name: nucleic acid metabolic process namespace: biological_process def: "Any cellular metabolic process involving nucleic acids." [GOC:dph, GOC:tb] +comment: This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. +subset: gocheck_do_not_annotate +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:33696 relationship: has_primary_input_or_output CHEBI:33696 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26133" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27052" xsd:anyURI created_by: tb creation_date: 2010-04-07T10:18:47Z @@ -110421,6 +111994,7 @@ def: "Any process that prevents the establishment or decreases the extent of the synonym: "negative regulation of EPSP" RELATED [] synonym: "negative regulation of excitatory post-synaptic membrane potential" EXACT [] synonym: "reduction of excitatory postsynaptic membrane potential" EXACT [GOC:bf] +is_a: BFO:0000003 is_a: GO:0065007 ! biological regulation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0060079 ! excitatory postsynaptic potential @@ -110532,6 +112106,7 @@ id: GO:0090497 name: mesenchymal cell migration namespace: biological_process def: "The orderly movement of a mesenchymal cell from one site to another, often during the development of a multicellular organism." [GOC:dph, GOC:tb] +is_a: BFO:0000003 is_a: GO:0001667 ! ameboidal-type cell migration intersection_of: GO:0016477 ! cell migration intersection_of: results_in_movement_of CL:0008019 ! mesenchymal cell @@ -110615,7 +112190,7 @@ id: GO:0090598 name: male anatomical structure morphogenesis namespace: biological_process def: "The processes by which anatomical structures that are only present in the male organism are generated and organized." [GOC:kmv, GOC:tb] -is_a: GO:0003006 ! developmental process involved in reproduction +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0014403 ! male anatomical structure @@ -110808,9 +112383,9 @@ synonym: "L-glutamate biosynthesis" EXACT [] synonym: "L-glutamate formation" EXACT [] synonym: "L-glutamate synthesis" EXACT [] is_a: GO:0006537 ! glutamate biosynthetic process -intersection_of: GO:0008152 ! metabolic process -intersection_of: has_primary_input_or_output CHEBI:29985 -relationship: has_primary_input_or_output CHEBI:29985 +intersection_of: GO:0009058 ! biosynthetic process +intersection_of: has_primary_output CHEBI:29985 +relationship: has_primary_output CHEBI:29985 created_by: pr creation_date: 2011-05-24T04:30:38Z @@ -110858,6 +112433,7 @@ id: GO:0097094 name: craniofacial suture morphogenesis namespace: biological_process def: "The process in which any suture between cranial and/or facial bones is generated and organized." [GOC:pr, GOC:sl, Wikipedia:Cranial_sutures, Wikipedia:Head_and_neck_anatomy#Musculoskeletal_system] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0009198 ! craniofacial suture @@ -110942,6 +112518,7 @@ id: GO:0097159 name: organic cyclic compound binding namespace: molecular_function def: "Binding to an organic cyclic compound, any molecular entity that contains carbon arranged in a cyclic molecular structure." [GOC:sjw, PMID:7583672] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:33832 @@ -110956,7 +112533,8 @@ namespace: biological_process def: "The chemical reactions and pathways involving the ammonium ion." [GOC:dhl, GOC:tb, PMID:14671018] synonym: "ammonium ion metabolism" EXACT [] synonym: "ammonium metabolic process" RELATED [] -is_a: GO:0006807 ! nitrogen compound metabolic process +is_a: BFO:0000003 +is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:28938 relationship: has_primary_input_or_output CHEBI:28938 @@ -111013,6 +112591,7 @@ namespace: biological_process def: "A stage of the apoptotic process that starts with the controlled breakdown of the cell through the action of effector caspases or other effector molecules (e.g. cathepsins, calpains etc.). Key steps of the execution phase are rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), plasma membrane blebbing and fragmentation of the cell into apoptotic bodies. When the execution phase is completed, the cell has died." [GOC:mtg_apoptosis, PMID:21760595] synonym: "apoptosis" NARROW [] synonym: "execution phase of apoptotic process" EXACT [] +is_a: BFO:0000003 is_a: GO:0009987 ! cellular process relationship: has_part GO:0032060 ! bleb assembly relationship: part_of GO:0006915 ! apoptotic process @@ -111172,6 +112751,7 @@ id: GO:0097360 name: chorionic trophoblast cell proliferation namespace: biological_process def: "The multiplication or reproduction of chorionic trophoblast cells, resulting in the expansion of their population." [CL:0011101, GOC:BHF, PMID:15150278] +is_a: BFO:0000003 is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0011101 ! chorionic trophoblast cell @@ -111186,6 +112766,7 @@ namespace: molecular_function def: "Binding to a carbohydrate derivative." [GOC:pr] subset: goslim_agr subset: goslim_mouse +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:63299 @@ -111212,6 +112793,7 @@ id: GO:0097402 name: neuroblast migration namespace: biological_process def: "The orderly movement of a neuroblast from one site to another, often during the development of a multicellular organism or multicellular structure. A neuroblast is any cell that will divide and give rise to a neuron." [CL:0000031, GOC:jc, PMID:15543145] +is_a: BFO:0000003 is_a: GO:0016477 ! cell migration intersection_of: GO:0016477 ! cell migration intersection_of: results_in_movement_of CL:0000031 ! neuroblast (sensu Vertebrata) @@ -111472,6 +113054,7 @@ name: lymphoid lineage cell migration namespace: biological_process def: "The orderly movement of a lymphoid lineage cell from one site to another. A lymphoid lineage cell, also called a lymphoid lineage restricted progenitor cell, is a progenitor cell restricted to the lymphoid lineage." [GOC:pr, PMID:22342843] synonym: "lymphoid lineage restricted progenitor cell migration" EXACT [] +is_a: BFO:0000003 is_a: GO:0016477 ! cell migration intersection_of: GO:0016477 ! cell migration intersection_of: results_in_movement_of CL:0000838 ! lymphoid lineage restricted progenitor cell @@ -111529,6 +113112,7 @@ id: GO:0097628 name: distal tip cell migration namespace: biological_process def: "The orderly movement of a distal tip cell." [CL:0000661, GOC:mm2, PMID:24968003] +is_a: BFO:0000003 is_a: GO:0016477 ! cell migration intersection_of: GO:0016477 ! cell migration intersection_of: results_in_movement_of CL:0000661 ! distal tip cell (sensu Nematoda) @@ -111620,6 +113204,7 @@ namespace: biological_process def: "Any process involved in the controlled movement of a sperm cell." [GOC:cilia, GOC:krc] subset: gocheck_do_not_annotate synonym: "sperm movement" EXACT [] +is_a: BFO:0000003 is_a: GO:0022414 ! reproductive process is_a: GO:0048870 ! cell motility intersection_of: GO:0048870 ! cell motility @@ -111822,7 +113407,7 @@ name: plasma membrane region namespace: cellular_component def: "A membrane that is a (regional) part of the plasma membrane." [GOC:dos] comment: Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "region of plasma membrane" EXACT [] is_a: GO:0016020 ! membrane intersection_of: GO:0016020 ! membrane @@ -111917,6 +113502,7 @@ id: GO:0098642 name: network-forming collagen trimer namespace: cellular_component def: "A collagen trimer that forms networks." [PMID:21421911] +is_a: BFO:0000004 is_a: GO:0005581 ! collagen trimer intersection_of: GO:0005581 ! collagen trimer intersection_of: part_of GO:0098645 ! collagen network @@ -111938,7 +113524,6 @@ def: "A complex of collagen trimers such as a fibril or collagen network." [GOC: synonym: "Supramolecular aggregate of collagen" EXACT [PMID:19693541] synonym: "Supramolecular collagen assembly" EXACT [PMID:21421911] is_a: GO:0099080 ! supramolecular complex -is_a: PR:000050567 ! protein-containing material entity relationship: has_part GO:0005581 ! collagen trimer relationship: part_of GO:0062023 ! collagen-containing extracellular matrix @@ -111955,6 +113540,7 @@ id: GO:0098651 name: basement membrane collagen trimer namespace: cellular_component def: "Any collagen timer that is part of a basement membrane." [GOC:dos, PMID:21421911] +is_a: BFO:0000004 is_a: GO:0005581 ! collagen trimer intersection_of: GO:0005581 ! collagen trimer intersection_of: part_of GO:0005604 ! basement membrane @@ -111980,6 +113566,7 @@ name: import into cell namespace: biological_process def: "The directed movement of some substance from outside of a cell into a cell. This may occur via transport across the plasma membrane or via endocytosis." [GOC:dos] synonym: "uptake" BROAD [] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:24431 @@ -112121,7 +113708,7 @@ synonym: "high affinity glucose import" NARROW [] is_a: GO:0098739 ! import across plasma membrane is_a: GO:1904659 ! glucose transmembrane transport intersection_of: GO:0006810 ! transport -intersection_of: has_primary_input CHEBI:17234 +intersection_of: has_primary_input CHEBI:4167 intersection_of: has_target_end_location GO:0005829 ! cytosol intersection_of: has_target_start_location GO:0005576 ! extracellular region intersection_of: results_in_transport_across GO:0005886 ! plasma membrane @@ -112265,9 +113852,11 @@ id: GO:0098754 name: detoxification namespace: biological_process def: "Any process that reduces or removes the toxicity of a toxic substance. These may include transport of the toxic substance away from sensitive areas and to compartments or complexes whose purpose is sequestration of the toxic substance." [GOC:dos] +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pombe subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon is_a: GO:0008150 ! biological_process relationship: part_of GO:0009636 ! response to toxic substance @@ -112310,6 +113899,7 @@ name: membrane protein complex namespace: cellular_component def: "Any protein complex that is part of a membrane." [GOC:dos] subset: goslim_metagenomics +is_a: BFO:0000004 is_a: GO:0032991 ! protein-containing complex intersection_of: GO:0032991 ! protein-containing complex intersection_of: part_of GO:0016020 ! membrane @@ -112341,7 +113931,7 @@ name: plasma membrane signaling receptor complex namespace: cellular_component def: "Any protein complex that is part of the plasma membrane and which functions as a signaling receptor." [GOC:dos] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0043235 ! receptor complex is_a: GO:0098797 ! plasma membrane protein complex intersection_of: GO:0032991 ! protein-containing complex @@ -112435,6 +114025,7 @@ id: GO:0098876 name: vesicle-mediated transport to the plasma membrane namespace: biological_process def: "The directed movement of substances to the plasma membrane in transport vesicles that fuse with the plasma membrane by exocytosis." [GOC:dos] +is_a: BFO:0000003 is_a: GO:0016192 ! vesicle-mediated transport is_a: GO:0051668 ! localization within membrane intersection_of: GO:0006810 ! transport @@ -112579,6 +114170,7 @@ id: GO:0098909 name: regulation of cardiac muscle cell action potential involved in regulation of contraction namespace: biological_process def: "Any process that modulates the frequency, rate or extent of action potential creation, propagation or termination in a cardiac muscle cell contributing to the regulation of its contraction." [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] +is_a: BFO:0000003 is_a: GO:0065007 ! biological regulation intersection_of: GO:0065007 ! biological regulation intersection_of: part_of GO:0086004 ! regulation of cardiac muscle cell contraction @@ -112739,6 +114331,7 @@ name: postsynaptic neurotransmitter receptor activity namespace: molecular_function def: "Neurotransmitter receptor activity occuring in the postsynaptic membrane during synaptic transmission." [GOC:dos, GOC:signaling] synonym: "neurotransmitter receptor activity involved in chemical synaptic transmission" EXACT [] +is_a: BFO:0000003 is_a: GO:0030594 ! neurotransmitter receptor activity intersection_of: GO:0030594 ! neurotransmitter receptor activity intersection_of: part_of GO:0007268 ! chemical synaptic transmission @@ -112911,6 +114504,7 @@ name: vesicle-mediated transport in synapse namespace: biological_process def: "Any vesicle-mediated transport that occurs in a synapse." [GOC:dos] subset: goslim_synapse +is_a: BFO:0000003 is_a: GO:0016192 ! vesicle-mediated transport intersection_of: GO:0016192 ! vesicle-mediated transport intersection_of: occurs_in GO:0045202 ! synapse @@ -113004,7 +114598,7 @@ is_a: GO:0099540 ! trans-synaptic signaling by neuropeptide intersection_of: GO:0099537 ! trans-synaptic signaling intersection_of: has_end_location GO:0098793 ! presynapse intersection_of: has_start_location GO:0098794 ! postsynapse -intersection_of: process_has_causal_agent CHEBI:16670 +intersection_of: process_has_causal_agent CHEBI:60466 [Term] id: GO:0099083 @@ -113018,7 +114612,7 @@ is_a: GO:0099551 ! trans-synaptic signaling by neuropeptide, modulating synaptic intersection_of: GO:0099537 ! trans-synaptic signaling intersection_of: has_end_location GO:0098793 ! presynapse intersection_of: has_start_location GO:0098794 ! postsynapse -intersection_of: process_has_causal_agent CHEBI:16670 +intersection_of: process_has_causal_agent CHEBI:60466 intersection_of: regulates GO:0007268 ! chemical synaptic transmission [Term] @@ -113045,6 +114639,7 @@ id: GO:0099098 name: microtubule polymerization based movement namespace: biological_process def: "The movement of a cellular component as a result of microtubule polymerization." [GOC:cjm, ISBN:0815316194] +is_a: BFO:0000003 is_a: GO:0007018 ! microtubule-based movement intersection_of: GO:0007018 ! microtubule-based movement intersection_of: has_part GO:0046785 ! microtubule polymerization @@ -113569,8 +115164,8 @@ def: "Cell-cell signaling to or from a synapse, mediated by a peptide." [GOC:dos subset: goslim_synapse is_a: GO:0099536 ! synaptic signaling intersection_of: GO:0099536 ! synaptic signaling -intersection_of: process_has_causal_agent CHEBI:16670 -relationship: process_has_causal_agent CHEBI:16670 +intersection_of: process_has_causal_agent CHEBI:60466 +relationship: process_has_causal_agent CHEBI:60466 [Term] id: GO:0099540 @@ -113581,7 +115176,7 @@ subset: goslim_synapse is_a: GO:0099537 ! trans-synaptic signaling is_a: GO:0099538 ! synaptic signaling via neuropeptide intersection_of: GO:0099537 ! trans-synaptic signaling -intersection_of: process_has_causal_agent CHEBI:16670 +intersection_of: process_has_causal_agent CHEBI:60466 [Term] id: GO:0099541 @@ -113646,7 +115241,7 @@ subset: goslim_synapse is_a: GO:0099540 ! trans-synaptic signaling by neuropeptide is_a: GO:0099550 ! trans-synaptic signaling, modulating synaptic transmission intersection_of: GO:0099537 ! trans-synaptic signaling -intersection_of: process_has_causal_agent CHEBI:16670 +intersection_of: process_has_causal_agent CHEBI:60466 intersection_of: regulates GO:0007268 ! chemical synaptic transmission [Term] @@ -113834,6 +115429,7 @@ id: GO:0099589 name: serotonin receptor activity namespace: molecular_function def: "Combining with the biogenic amine serotonin and transmitting a signal across a membrane by activating some effector activity. Serotonin (5-hydroxytryptamine) is a neurotransmitter and hormone found in vertebrates and invertebrates." [GOC:dos] +is_a: BFO:0000003 is_a: GO:0004888 ! transmembrane signaling receptor activity intersection_of: GO:0004888 ! transmembrane signaling receptor activity intersection_of: has_small_molecule_activator CHEBI:350546 @@ -113973,7 +115569,7 @@ id: GO:0100001 name: regulation of skeletal muscle contraction by action potential namespace: biological_process def: "Any action potential process that regulates skeletal muscle contraction." [GOC:cjm, GOC:obol] -is_a: BFO:0000015 ! process +is_a: BFO:0000015 is_a: GO:0001508 ! action potential intersection_of: GO:0001508 ! action potential intersection_of: regulates GO:0003009 ! skeletal muscle contraction @@ -113987,6 +115583,7 @@ name: pulmonary blood vessel remodeling namespace: biological_process def: "The reorganization or renovation of existing pulmonary blood vessels." [GOC:mec] synonym: "pulmonary blood vessel remodelling" EXACT [] +is_a: BFO:0000003 is_a: GO:0001974 ! blood vessel remodeling intersection_of: GO:0001974 ! blood vessel remodeling intersection_of: occurs_in UBERON:0008886 ! pulmonary vascular system @@ -114300,6 +115897,7 @@ id: GO:0110077 name: vesicle-mediated intercellular transport namespace: biological_process def: "A cellular transport process in which transported substances are moved in extracellular vesicles between cells; transported substances are enclosed in the vesicle lumen or located in the extracellular vesicle membrane." [GOC:sp, PMID:29328915, PMID:29328916] +synonym: "endosomal trafficking" RELATED [] is_a: GO:0010496 ! intercellular transport is_a: GO:0016192 ! vesicle-mediated transport intersection_of: GO:0010496 ! intercellular transport @@ -114642,6 +116240,7 @@ id: GO:0120023 name: somatostatin binding namespace: molecular_function def: "Binding to somatostatin, a polypeptide hormone involved in regulating pancreatic alpha and pancreatic beta cells and controlling growth hormone secretion as well as many other functions. Somatostatin is produced by several cell types including pancreatic delta cells. There are several different mature forms of somatostatin." [GOC:cvs, PMID:20472043] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:64628 @@ -114663,6 +116262,25 @@ property_value: term_tracker_item "https://github.com/geneontology/go-ontology/i created_by: krc creation_date: 2017-03-21T17:26:07Z +[Term] +id: GO:0120029 +name: proton export across plasma membrane +namespace: biological_process +def: "The directed movement of hydrogen ions (protons) from inside a cell, across the plasma membrane and into the extracellular region." [GOC:mah, PMID:9762918] +synonym: "hydrogen ion export across plasma membrane" EXACT [] +synonym: "hydrogen ion export from cell" BROAD [] +synonym: "proton export from cell" BROAD [] +is_a: GO:0140115 ! export across plasma membrane +is_a: GO:1902600 ! proton transmembrane transport +intersection_of: GO:0006810 ! transport +intersection_of: has_primary_input CHEBI:15378 +intersection_of: has_target_end_location GO:0005576 ! extracellular region +intersection_of: has_target_start_location GO:0005829 ! cytosol +intersection_of: results_in_transport_across GO:0005886 ! plasma membrane +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/13271" xsd:anyURI +created_by: krc +creation_date: 2017-03-31T17:39:03Z + [Term] id: GO:0120031 name: plasma membrane bounded cell projection assembly @@ -114986,6 +116604,7 @@ namespace: biological_process def: "The flow of blood through the network of arteries and veins supplying the cerebrum, enabling the transport of nutrients to the tissues and the removal of waste products." [GOC:krc, PMID:25397684] synonym: "cerebrum blood circulation" EXACT [] synonym: "telencephelon blood circulation" EXACT [] +is_a: BFO:0000003 is_a: GO:0008015 ! blood circulation intersection_of: GO:0008015 ! blood circulation intersection_of: occurs_in UBERON:0001893 ! telencephalon @@ -115068,7 +116687,6 @@ name: sperm flagellum assembly namespace: biological_process def: "The assembly and organization of the sperm flagellum, the microtubule-based axoneme and associated structures that are part of a sperm flagellum (or cilium)." [GOC:krc, PMID:32791035] is_a: GO:0003006 ! developmental process involved in reproduction -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0044458 ! motile cilium assembly intersection_of: GO:0044458 ! motile cilium assembly intersection_of: occurs_in CL:0000019 ! sperm @@ -115147,6 +116765,18 @@ relationship: part_of GO:0006887 ! exocytosis created_by: pg creation_date: 2017-05-15T13:20:45Z +[Term] +id: GO:0140039 +name: cell-cell adhesion in response to extracellular stimulus +namespace: biological_process +def: "The attachment of one cell to another cell via adhesion molecules as a result of an extracellular stimulus." [PMID:14996911] +is_a: GO:0098609 ! cell-cell adhesion +intersection_of: GO:0098609 ! cell-cell adhesion +intersection_of: part_of GO:0051716 ! cellular response to stimulus +relationship: part_of GO:0051716 ! cellular response to stimulus +created_by: pg +creation_date: 2017-05-24T11:37:30Z + [Term] id: GO:0140056 name: organelle localization by membrane tethering @@ -115203,6 +116833,7 @@ namespace: molecular_function def: "Catalytic activity that acts to modify a protein." [GOC:molecular_function_refactoring, GOC:pdt] subset: goslim_generic subset: goslim_prokaryote +is_a: BFO:0000003 is_a: GO:0003824 ! catalytic activity intersection_of: GO:0003824 ! catalytic activity intersection_of: has_primary_input PR:000000001 ! protein @@ -115218,6 +116849,7 @@ namespace: molecular_function def: "Catalytic activity that acts to modify DNA." [GOC:molecular_function_refactoring, GOC:pdt] subset: goslim_generic subset: goslim_prokaryote +is_a: BFO:0000003 is_a: GO:0003824 ! catalytic activity intersection_of: GO:0003824 ! catalytic activity intersection_of: has_primary_input CHEBI:16991 @@ -115233,6 +116865,7 @@ namespace: molecular_function def: "Catalytic activity that acts to modify RNA, driven by ATP hydrolysis." [GOC:molecular_function_refactoring, GOC:pdt] subset: goslim_generic subset: goslim_prokaryote +is_a: BFO:0000003 is_a: GO:0003824 ! catalytic activity intersection_of: GO:0003824 ! catalytic activity intersection_of: has_primary_input CHEBI:33697 @@ -115247,6 +116880,7 @@ id: GO:0140103 name: catalytic activity, acting on a glycoprotein namespace: molecular_function def: "Catalysis of a biochemical reaction at physiological temperatures in which one of the substrates is a glycoprotein." [GOC:molecular_function_refactoring, GOC:pdt] +is_a: BFO:0000003 is_a: GO:0003824 ! catalytic activity intersection_of: GO:0003824 ! catalytic activity intersection_of: has_primary_input CHEBI:17089 @@ -115255,6 +116889,25 @@ property_value: term_tracker_item "https://github.com/geneontology/go-ontology/i created_by: pg creation_date: 2017-09-15T19:27:54Z +[Term] +id: GO:0140110 +name: transcription regulator activity +namespace: molecular_function +def: "A molecular function that controls the rate, timing and/or magnitude of gene transcription. The function of transcriptional regulators is to modulate gene expression at the transcription step so that they are expressed in the right cell at the right time and in the right amount throughout the life of the cell and the organism. Genes are transcriptional units, and include bacterial operons." [GOC:pg, GOC:txnOH-2018, Wikipedia:Transcription_factor] +subset: gocheck_do_not_annotate +subset: goslim_euk_cellular_processes_ribbon +subset: goslim_flybase_ribbon +subset: goslim_generic +subset: goslim_plant +subset: goslim_plant_ribbon +subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon +is_a: GO:0003674 ! molecular_function +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/13588" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23609" xsd:anyURI +created_by: pg +creation_date: 2017-10-18T07:05:44Z + [Term] id: GO:0140112 name: extracellular vesicle biogenesis @@ -115624,6 +117277,7 @@ namespace: biological_process def: "A cellular process in which two or more cells combine together, their plasma membrane fusing, producing a single cell. In some cases, nuclei fuse, producing a polyploid cell, while in other cases, nuclei remain separate, producing a syncytium." [Wikipedia:Cell_fusion] synonym: "cell cell fusion" EXACT [] synonym: "cell fusion" BROAD [] +is_a: BFO:0000003 is_a: GO:0009987 ! cellular process relationship: has_part GO:0045026 ! plasma membrane fusion property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/15939" xsd:anyURI @@ -115669,8 +117323,10 @@ def: "Directly binding to a specific protein and delivering it to a specific cel comment: Examples of protein carriers include the soluble TIM chaperone complexes of S. cerevisiae Tim9-Tim10 and Tim8-Tim13, that provide a shuttle system between TOM and the membrane insertases TIM22 and SAM and, thus, ensure that precursors are kept in a translocation-competent conformation. synonym: "protein carrier activity" RELATED [] synonym: "protein transport chaperone" RELATED [] +xref: Reactome:R-HSA-2248891 "M6PR transports activated ARSA to the lysosome" xref: Reactome:R-HSA-9662747 "iRHOM2 transports ADAM17 from ER to the Golgi-network" xref: Reactome:R-HSA-9662818 "iRHOM2 transports ADAM17:Zn2+ from Golgi to the plasma membrane" +is_a: BFO:0000003 is_a: GO:0005215 ! transporter activity intersection_of: GO:0005215 ! transporter activity intersection_of: has_primary_input PR:000000001 ! protein @@ -115755,6 +117411,7 @@ namespace: cellular_component def: "A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together in the nucleus." [GOC:pg] subset: gocheck_do_not_annotate synonym: "nuclear complex" EXACT [] +is_a: BFO:0000004 is_a: GO:0032991 ! protein-containing complex intersection_of: GO:0032991 ! protein-containing complex intersection_of: part_of GO:0005634 ! nucleus @@ -115790,6 +117447,7 @@ id: GO:0140640 name: catalytic activity, acting on a nucleic acid namespace: molecular_function def: "Catalytic activity that acts to modify a nucleic acid." [GOC:pg] +is_a: BFO:0000003 is_a: GO:0003824 ! catalytic activity intersection_of: GO:0003824 ! catalytic activity intersection_of: has_primary_input CHEBI:33696 @@ -115875,6 +117533,7 @@ name: ammonium excretion namespace: biological_process def: "The elimination of ammonium ions from an excretory cell." [PMID:25740900] synonym: "ammonia excretion" RELATED [] +is_a: BFO:0000003 is_a: GO:0007588 ! excretion intersection_of: GO:0007588 ! excretion intersection_of: has_primary_input CHEBI:28938 @@ -115926,6 +117585,45 @@ property_value: term_tracker_item "https://github.com/geneontology/go-ontology/i created_by: pg creation_date: 2023-12-04T14:13:20Z +[Term] +id: GO:0141187 +name: nucleic acid biosynthetic process +namespace: biological_process +def: "The biosynthetic process resulting in the formation of a nucleic acid." [GOC:dph, GOC:tb] +comment: This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. +subset: gocheck_do_not_annotate +is_a: GO:0090304 ! nucleic acid metabolic process +intersection_of: GO:0008152 ! metabolic process +intersection_of: has_primary_output CHEBI:33696 +relationship: has_primary_output CHEBI:33696 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27408" xsd:anyURI +created_by: pg +creation_date: 2024-03-25T07:33:40Z + +[Term] +id: GO:0141188 +name: nucleic acid catabolic process +namespace: biological_process +def: "The cellular DNA metabolic process resulting in the breakdown of a nucleic acid." [GOC:curators] +comment: This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. +subset: gocheck_do_not_annotate +is_a: GO:0090304 ! nucleic acid metabolic process +intersection_of: GO:0008152 ! metabolic process +intersection_of: has_primary_input CHEBI:33696 +relationship: has_primary_input CHEBI:33696 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27408" xsd:anyURI +created_by: pg +creation_date: 2024-03-25T07:35:06Z + +[Term] +id: GO:0141193 +name: nuclear receptor signaling pathway +namespace: biological_process +def: "The series of molecular signals initiated by a signaling molecule binding to its nuclear receptor inside the cell, and ending with the regulation of a downstream cellular process, e.g. transcription." [PMID:25614732] +is_a: GO:0030522 ! intracellular receptor signaling pathway +created_by: pg +creation_date: 2024-04-12T13:08:13Z + [Term] id: GO:0150031 name: regulation of protein localization to lysosome @@ -116115,6 +117813,7 @@ namespace: biological_process def: "The directed movement of substances (e.g. macromolecules, small molecules, ions) through the blood-brain barrier." [GOC:aruk, GOC:bc, PMID:29377008] synonym: "transport across BBB" EXACT [] synonym: "transport across blood brain barrier" EXACT [] +is_a: BFO:0000003 is_a: GO:0010232 ! vascular transport intersection_of: GO:0010232 ! vascular transport intersection_of: results_in_transport_across UBERON:0000120 ! blood brain barrier @@ -116222,6 +117921,7 @@ synonym: "transport across BCSFB" EXACT [] synonym: "transport across blood-CSF barrier" EXACT [] synonym: "transport across blood/cerebrospinal fluid barrier" EXACT [] synonym: "transport across blood/CSF barrier" EXACT [] +is_a: BFO:0000003 is_a: GO:0010232 ! vascular transport intersection_of: GO:0006810 ! transport intersection_of: results_in_transport_across UBERON:0003210 ! blood-cerebrospinal fluid barrier @@ -116278,6 +117978,7 @@ id: GO:0160024 name: Leydig cell proliferation namespace: biological_process def: "The multiplication or reproduction of Leydig cells, resulting in the expansion of a cell population. Leydig cells are interstitial cells located adjacent to the seminiferous tubules in the testis which produce testosterone." [PMID:29632025] +is_a: BFO:0000003 is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000178 ! Leydig cell @@ -116357,14 +118058,58 @@ id: GO:0160133 name: bicarbonate channel activity namespace: molecular_function def: "Enables the facilitated diffusion of a bicarbonate (by an energy-independent process) involving passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism." [PMID:18400985] +synonym: "hydrogencarbonate channel activity" EXACT [] is_a: GO:0015106 ! bicarbonate transmembrane transporter activity is_a: GO:0015267 ! channel activity intersection_of: GO:0015267 ! channel activity intersection_of: has_primary_input CHEBI:17544 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26601" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26780" xsd:anyURI created_by: rynl creation_date: 2023-12-13T00:09:44Z +[Term] +id: GO:0160165 +name: CD8-positive, alpha-beta T cell homeostasis +namespace: biological_process +def: "The process of regulating the proliferation and elimination of CD8-positive alpha-beta T cells such that the total number of CD8-positive alpha-beta T cells within a whole or part of an organism is stable over time in the absence of an outside stimulus." [PMID:30650357, PMID:33815406] +synonym: "CD8+ T cell homeostasis" BROAD [] +synonym: "CD8-positive T cell homeostasis" BROAD [] +is_a: GO:0043029 ! T cell homeostasis +intersection_of: GO:0048872 ! homeostasis of number of cells +intersection_of: acts_on_population_of CL:0000625 ! CD8-positive, alpha-beta T cell +relationship: acts_on_population_of CL:0000625 ! CD8-positive, alpha-beta T cell +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27184" xsd:anyURI +created_by: rynl +creation_date: 2024-03-04T23:49:25Z + +[Term] +id: GO:0160173 +name: histamine transmembrane transporter activity +namespace: molecular_function +def: "Enables the transfer of histamine from one side of a membrane to the other." [PMID:36288320] +is_a: GO:0022857 ! transmembrane transporter activity +intersection_of: GO:0022857 ! transmembrane transporter activity +intersection_of: has_primary_input CHEBI:58432 +relationship: has_primary_input CHEBI:58432 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27277" xsd:anyURI +created_by: rynl +creation_date: 2024-03-15T16:40:36Z + +[Term] +id: GO:0170055 +name: lipid transmembrane transporter activity +namespace: molecular_function +def: "Enables the transfer of a lipid from one side of a membrane to the other." [GOC:curators] +subset: gocheck_do_not_annotate +is_a: GO:0005319 ! lipid transporter activity +is_a: GO:0022857 ! transmembrane transporter activity +intersection_of: GO:0022857 ! transmembrane transporter activity +intersection_of: has_primary_input CHEBI:18059 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27252" xsd:anyURI +created_by: ew +creation_date: 2024-03-15T18:47:58Z + [Term] id: GO:1900006 name: positive regulation of dendrite development @@ -118109,6 +119854,7 @@ subset: goslim_generic subset: goslim_mouse subset: goslim_prokaryote synonym: "carbohydrate derivative metabolism" EXACT [GOC:TermGenie] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:63299 @@ -118283,7 +120029,6 @@ name: regulation of trophoblast cell migration namespace: biological_process def: "Any process that modulates the frequency, rate or extent of trophoblast cell migration." [GOC:BHF, GOC:TermGenie] is_a: GO:0030334 ! regulation of cell migration -is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0061450 ! trophoblast cell migration relationship: regulates GO:0061450 ! trophoblast cell migration @@ -118698,6 +120443,7 @@ id: GO:1901264 name: carbohydrate derivative transport namespace: biological_process def: "The directed movement of a carbohydrate derivative into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:bf, GOC:jl, GOC:TermGenie] +is_a: BFO:0000003 is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:63299 @@ -118796,6 +120542,7 @@ id: GO:1901338 name: catecholamine binding namespace: molecular_function def: "Binding to catecholamine." [GOC:TermGenie] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:33567 @@ -118885,18 +120632,6 @@ relationship: has_primary_output CHEBI:33832 created_by: bf creation_date: 2012-09-14T09:05:22Z -[Term] -id: GO:1901363 -name: heterocyclic compound binding -namespace: molecular_function -def: "Binding to heterocyclic compound." [GOC:TermGenie] -is_a: GO:0036094 ! small molecule binding -intersection_of: GO:0036094 ! small molecule binding -intersection_of: has_primary_input CHEBI:5686 -relationship: has_primary_input CHEBI:5686 -created_by: bf -creation_date: 2012-09-14T13:53:50Z - [Term] id: GO:1901382 name: regulation of chorionic trophoblast cell proliferation @@ -119172,7 +120907,6 @@ namespace: biological_process def: "The chemical reactions and pathways involving organonitrogen compound." [GOC:pr, GOC:TermGenie] subset: gocheck_do_not_annotate synonym: "organonitrogen compound metabolism" EXACT [GOC:TermGenie] -is_a: GO:0006807 ! nitrogen compound metabolic process is_a: GO:0071704 ! organic substance metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:35352 @@ -119186,6 +120920,7 @@ id: GO:1901565 name: organonitrogen compound catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of organonitrogen compound." [GOC:pr, GOC:TermGenie] +subset: gocheck_do_not_annotate synonym: "organonitrogen compound breakdown" EXACT [GOC:TermGenie] synonym: "organonitrogen compound catabolism" EXACT [GOC:TermGenie] synonym: "organonitrogen compound degradation" EXACT [GOC:TermGenie] @@ -119194,6 +120929,7 @@ is_a: GO:1901564 ! organonitrogen compound metabolic process intersection_of: GO:0009056 ! catabolic process intersection_of: has_primary_input CHEBI:35352 relationship: has_primary_input CHEBI:35352 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI created_by: pr creation_date: 2012-11-04T15:17:56Z @@ -119202,6 +120938,7 @@ id: GO:1901566 name: organonitrogen compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of organonitrogen compound." [GOC:pr, GOC:TermGenie] +subset: gocheck_do_not_annotate synonym: "organonitrogen compound anabolism" EXACT [GOC:TermGenie] synonym: "organonitrogen compound biosynthesis" EXACT [GOC:TermGenie] synonym: "organonitrogen compound formation" EXACT [GOC:TermGenie] @@ -119211,6 +120948,7 @@ is_a: GO:1901576 ! organic substance biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:35352 relationship: has_primary_output CHEBI:35352 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI created_by: pr creation_date: 2012-11-04T15:18:00Z @@ -119219,10 +120957,8 @@ id: GO:1901575 name: organic substance catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of an organic substance, any molecular entity containing carbon." [GOC:pr, GOC:TermGenie] -synonym: "organic molecular entity breakdown" EXACT [GOC:TermGenie] +subset: gocheck_do_not_annotate synonym: "organic molecular entity catabolic process" EXACT [] -synonym: "organic molecular entity catabolism" EXACT [GOC:TermGenie] -synonym: "organic molecular entity degradation" EXACT [GOC:TermGenie] synonym: "organic substance breakdown" EXACT [] synonym: "organic substance catabolism" EXACT [] synonym: "organic substance degradation" EXACT [] @@ -119231,6 +120967,7 @@ is_a: GO:0071704 ! organic substance metabolic process intersection_of: GO:0009056 ! catabolic process intersection_of: has_primary_input CHEBI:50860 relationship: has_primary_input CHEBI:50860 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI created_by: pr creation_date: 2012-11-05T11:04:36Z @@ -119239,6 +120976,7 @@ id: GO:1901576 name: organic substance biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon." [GOC:pr, GOC:TermGenie] +subset: gocheck_do_not_annotate synonym: "organic molecular entity anabolism" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthesis" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthetic process" EXACT [] @@ -119253,6 +120991,7 @@ is_a: GO:0071704 ! organic substance metabolic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:50860 relationship: has_primary_output CHEBI:50860 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI created_by: pr creation_date: 2012-11-05T11:04:40Z @@ -119293,6 +121032,7 @@ name: alpha-amino acid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving an alpha-amino acid." [GOC:TermGenie] synonym: "alpha-amino acid metabolism" EXACT [GOC:TermGenie] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:78608 @@ -119674,10 +121414,11 @@ id: GO:1901652 name: response to peptide namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a peptide stimulus." [GOC:pr, GOC:TermGenie] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus -intersection_of: has_primary_input CHEBI:16670 -relationship: has_primary_input CHEBI:16670 +intersection_of: has_primary_input CHEBI:60466 +relationship: has_primary_input CHEBI:60466 created_by: pr creation_date: 2012-11-20T09:45:15Z @@ -119689,7 +121430,7 @@ def: "Any process that results in a change in state or activity of a cell (in te is_a: GO:0070887 ! cellular response to chemical stimulus is_a: GO:1901652 ! response to peptide intersection_of: GO:0070887 ! cellular response to chemical stimulus -intersection_of: has_primary_input CHEBI:16670 +intersection_of: has_primary_input CHEBI:60466 created_by: pr creation_date: 2012-11-20T09:45:19Z @@ -119737,6 +121478,20 @@ relationship: negatively_regulates GO:0014901 ! satellite cell activation involv created_by: dph creation_date: 2012-11-21T16:21:11Z +[Term] +id: GO:1901691 +name: proton binding +namespace: molecular_function +def: "Binding to proton." [GOC:TermGenie] +synonym: "hydrogen ion binding" EXACT [GOC:bm] +is_a: BFO:0000003 +is_a: GO:0005488 ! binding +intersection_of: GO:0005488 ! binding +intersection_of: has_primary_input CHEBI:15378 +relationship: has_primary_input CHEBI:15378 +created_by: al +creation_date: 2012-12-07T13:50:53Z + [Term] id: GO:1901692 name: regulation of compound eye retinal cell apoptotic process @@ -119791,11 +121546,15 @@ id: GO:1901698 name: response to nitrogen compound namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a nitrogen compound stimulus." [GOC:pr, GOC:TermGenie] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate synonym: "response to nitrogen molecular entity" EXACT [] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:51143 relationship: has_primary_input CHEBI:51143 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27194" xsd:anyURI created_by: pr creation_date: 2012-12-13T15:06:08Z @@ -119804,11 +121563,14 @@ id: GO:1901699 name: cellular response to nitrogen compound namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a nitrogen compound stimulus." [GOC:pr, GOC:TermGenie] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate synonym: "cellular response to nitrogen molecular entity" EXACT [] is_a: GO:0070887 ! cellular response to chemical stimulus is_a: GO:1901698 ! response to nitrogen compound intersection_of: GO:0070887 ! cellular response to chemical stimulus intersection_of: has_primary_input CHEBI:51143 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27194" xsd:anyURI created_by: pr creation_date: 2012-12-13T15:06:13Z @@ -119817,11 +121579,14 @@ id: GO:1901700 name: response to oxygen-containing compound namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an oxygen-containing compound stimulus." [GOC:pr, GOC:TermGenie] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate synonym: "response to oxygen molecular entity" EXACT [] is_a: GO:0042221 ! response to chemical intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:25806 relationship: has_primary_input CHEBI:25806 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27194" xsd:anyURI created_by: pr creation_date: 2012-12-13T15:11:37Z @@ -120054,6 +121819,7 @@ name: zeaxanthin metabolic process namespace: biological_process def: "The chemical reactions and pathways involving zeaxanthin." [GOC:TermGenie, GOC:yaf, MetaCyc:PWY-5944, UniPathway:UPA00843] synonym: "zeaxanthin metabolism" EXACT [GOC:TermGenie] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:27547 @@ -120496,6 +122262,7 @@ is_a: GO:1902115 ! regulation of organelle assembly intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0060271 ! cilium assembly relationship: regulates GO:0060271 ! cilium assembly +property_value: RO:0002161 NCBITaxon:4751 created_by: dph creation_date: 2013-03-26T18:10:51Z @@ -120717,6 +122484,7 @@ id: GO:1902065 name: response to L-glutamate namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an L-glutamate stimulus." [GOC:TermGenie, PMID:23574009] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:29985 @@ -121726,6 +123494,7 @@ namespace: cellular_component def: "A protein complex which is capable of catalytic activity." [GOC:bhm, GOC:TermGenie, PMID:8077207] subset: goslim_metagenomics synonym: "enzyme complex" EXACT [GOC:bhm, GOC:jl] +is_a: BFO:0000004 is_a: GO:0032991 ! protein-containing complex intersection_of: GO:0032991 ! protein-containing complex intersection_of: capable_of GO:0003824 ! catalytic activity @@ -122116,6 +123885,30 @@ relationship: positively_regulates GO:0009414 ! response to water deprivation created_by: tb creation_date: 2013-12-19T00:31:58Z +[Term] +id: GO:1902600 +name: proton transmembrane transport +namespace: biological_process +alt_id: GO:0006818 +alt_id: GO:0015991 +alt_id: GO:0015992 +def: "The directed movement of a proton across a membrane." [GO_REF:0000069, GOC:pr, GOC:TermGenie] +subset: goslim_pir +synonym: "ATP hydrolysis coupled proton transport" NARROW [] +synonym: "hydrogen ion transmembrane transport" EXACT [] +synonym: "hydrogen ion transport" RELATED [] +synonym: "hydrogen transmembrane transport" EXACT [] +synonym: "hydrogen transport" BROAD [] +synonym: "passive proton transport, down the electrochemical gradient" NARROW [] +synonym: "proton transport" BROAD [] +is_a: GO:0055085 ! transmembrane transport +intersection_of: GO:0006810 ! transport +intersection_of: has_primary_input CHEBI:15378 +intersection_of: results_in_transport_across GO:0016020 ! membrane +relationship: has_primary_input CHEBI:15378 +created_by: pr +creation_date: 2013-12-20T11:08:37Z + [Term] id: GO:1902622 name: regulation of neutrophil migration @@ -122690,6 +124483,7 @@ id: GO:1902766 name: skeletal muscle satellite cell migration namespace: biological_process def: "The orderly movement of a skeletal muscle satellite cell from one site to another. Migration of these cells is a key step in the process of growth and repair of skeletal muscle cells." [GO_REF:0000091, GOC:mr, GOC:TermGenie, PMID:17996437, PMID:19609936] +is_a: BFO:0000003 is_a: GO:0016477 ! cell migration intersection_of: GO:0016477 ! cell migration intersection_of: results_in_movement_of CL:0000594 ! skeletal muscle satellite cell @@ -123523,6 +125317,37 @@ relationship: positively_regulates GO:0009100 ! glycoprotein metabolic process created_by: rl creation_date: 2014-05-14T18:44:31Z +[Term] +id: GO:1903025 +name: regulation of RNA polymerase II regulatory region sequence-specific DNA binding +namespace: biological_process +def: "Any process that modulates the frequency, rate or extent of RNA polymerase II regulatory region sequence-specific DNA binding." [GO_REF:0000059, GOC:dph, GOC:krc, GOC:TermGenie, PMID:20026326] +subset: gocheck_do_not_annotate +is_a: GO:2000677 ! regulation of transcription regulatory region DNA binding +intersection_of: GO:0065007 ! biological regulation +intersection_of: regulates GO:0000977 ! RNA polymerase II transcription regulatory region sequence-specific DNA binding +relationship: regulates GO:0000977 ! RNA polymerase II transcription regulatory region sequence-specific DNA binding +created_by: dph +creation_date: 2014-05-15T17:55:54Z + +[Term] +id: GO:1903026 +name: negative regulation of RNA polymerase II regulatory region sequence-specific DNA binding +namespace: biological_process +def: "Any process that stops, prevents or reduces the frequency, rate or extent of RNA polymerase II regulatory region sequence-specific DNA binding." [GO_REF:0000059, GOC:dph, GOC:krc, GOC:TermGenie, PMID:20026326] +subset: gocheck_do_not_annotate +synonym: "down regulation of RNA polymerase II regulatory region sequence-specific DNA binding" EXACT [GOC:TermGenie] +synonym: "down-regulation of RNA polymerase II regulatory region sequence-specific DNA binding" EXACT [GOC:TermGenie] +synonym: "downregulation of RNA polymerase II regulatory region sequence-specific DNA binding" EXACT [GOC:TermGenie] +synonym: "inhibition of RNA polymerase II regulatory region sequence-specific DNA binding" NARROW [GOC:TermGenie] +is_a: GO:1903025 ! regulation of RNA polymerase II regulatory region sequence-specific DNA binding +is_a: GO:2000678 ! negative regulation of transcription regulatory region DNA binding +intersection_of: GO:0065007 ! biological regulation +intersection_of: negatively_regulates GO:0000977 ! RNA polymerase II transcription regulatory region sequence-specific DNA binding +relationship: negatively_regulates GO:0000977 ! RNA polymerase II transcription regulatory region sequence-specific DNA binding +created_by: dph +creation_date: 2014-05-15T17:56:00Z + [Term] id: GO:1903034 name: regulation of response to wounding @@ -124585,7 +126410,7 @@ id: GO:1903314 name: regulation of nitrogen cycle metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of nitrogen cycle metabolic process." [GO_REF:0000058, GOC:TermGenie, GOC:vw] -is_a: GO:0051171 ! regulation of nitrogen compound metabolic process +is_a: GO:0019222 ! regulation of metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0071941 ! nitrogen cycle metabolic process relationship: regulates GO:0071941 ! nitrogen cycle metabolic process @@ -124601,7 +126426,7 @@ synonym: "down regulation of nitrogen cycle metabolic process" EXACT [GOC:TermGe synonym: "down-regulation of nitrogen cycle metabolic process" EXACT [GOC:TermGenie] synonym: "downregulation of nitrogen cycle metabolic process" EXACT [GOC:TermGenie] synonym: "inhibition of nitrogen cycle metabolic process" NARROW [GOC:TermGenie] -is_a: GO:0051172 ! negative regulation of nitrogen compound metabolic process +is_a: GO:0009892 ! negative regulation of metabolic process is_a: GO:1903314 ! regulation of nitrogen cycle metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0071941 ! nitrogen cycle metabolic process @@ -124618,7 +126443,7 @@ synonym: "activation of nitrogen cycle metabolic process" NARROW [GOC:TermGenie] synonym: "up regulation of nitrogen cycle metabolic process" EXACT [GOC:TermGenie] synonym: "up-regulation of nitrogen cycle metabolic process" EXACT [GOC:TermGenie] synonym: "upregulation of nitrogen cycle metabolic process" EXACT [GOC:TermGenie] -is_a: GO:0051173 ! positive regulation of nitrogen compound metabolic process +is_a: GO:0009893 ! positive regulation of metabolic process is_a: GO:1903314 ! regulation of nitrogen cycle metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0071941 ! nitrogen cycle metabolic process @@ -124770,6 +126595,7 @@ id: GO:1903350 name: response to dopamine namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a dopamine stimulus." [GO_REF:0000071, GOC:mr, GOC:TermGenie, PMID:11118945] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:59905 @@ -124919,6 +126745,7 @@ id: GO:1903412 name: response to bile acid namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a bile acid stimulus." [GO_REF:0000071, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:21757002] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:3098 @@ -125109,6 +126936,7 @@ name: mucopolysaccharide metabolic process namespace: biological_process def: "The chemical reactions and pathways involving mucopolysaccharide." [GO_REF:0000068, GOC:dph, GOC:TermGenie, PMID:4236091] synonym: "mucopolysaccharide metabolism" EXACT [GOC:TermGenie] +is_a: BFO:0000003 is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:37395 @@ -125239,7 +127067,6 @@ name: meiotic cell cycle process involved in oocyte maturation namespace: biological_process def: "Any meiotic cell cycle process that is involved in oocyte maturation." [GO_REF:0000060, GOC:jz, GOC:TermGenie, PMID:25212395] synonym: "meiosis involved in oocyte maturation" BROAD [] -is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:1903046 ! meiotic cell cycle process intersection_of: GO:1903046 ! meiotic cell cycle process intersection_of: part_of GO:0001556 ! oocyte maturation @@ -125816,6 +127643,7 @@ synonym: "regulation of DNA catabolism" EXACT [GOC:TermGenie] synonym: "regulation of DNA degradation" EXACT [GOC:TermGenie] is_a: GO:0009894 ! regulation of catabolic process is_a: GO:0051052 ! regulation of DNA metabolic process +is_a: GO:0060255 ! regulation of macromolecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006308 ! DNA catabolic process relationship: regulates GO:0006308 ! DNA catabolic process @@ -125847,6 +127675,7 @@ synonym: "negative regulation of DNA breakdown" EXACT [GOC:TermGenie] synonym: "negative regulation of DNA catabolism" EXACT [GOC:TermGenie] synonym: "negative regulation of DNA degradation" EXACT [GOC:TermGenie] is_a: GO:0009895 ! negative regulation of catabolic process +is_a: GO:0010605 ! negative regulation of macromolecule metabolic process is_a: GO:0051053 ! negative regulation of DNA metabolic process is_a: GO:1903624 ! regulation of DNA catabolic process intersection_of: GO:0065007 ! biological regulation @@ -125880,6 +127709,7 @@ synonym: "upregulation of DNA catabolic process" EXACT [GOC:TermGenie] synonym: "upregulation of DNA catabolism" EXACT [GOC:TermGenie] synonym: "upregulation of DNA degradation" EXACT [GOC:TermGenie] is_a: GO:0009896 ! positive regulation of catabolic process +is_a: GO:0010604 ! positive regulation of macromolecule metabolic process is_a: GO:0051054 ! positive regulation of DNA metabolic process is_a: GO:1903624 ! regulation of DNA catabolic process intersection_of: GO:0065007 ! biological regulation @@ -125909,7 +127739,6 @@ namespace: biological_process def: "Any process that modulates the frequency, rate or extent of border follicle cell migration." [GO_REF:0000058, GOC:als, GOC:TermGenie, PMID:18394891] synonym: "regulation of border cell migration" BROAD [GOC:TermGenie] is_a: GO:0010632 ! regulation of epithelial cell migration -is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007298 ! border follicle cell migration relationship: regulates GO:0007298 ! border follicle cell migration @@ -125924,7 +127753,6 @@ def: "Any process that stops, prevents or reduces the frequency, rate or extent synonym: "inhibition of border follicle cell migration" NARROW [GOC:TermGenie] is_a: GO:0010633 ! negative regulation of epithelial cell migration is_a: GO:1903684 ! regulation of border follicle cell migration -is_a: GO:2000242 ! negative regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007298 ! border follicle cell migration relationship: negatively_regulates GO:0007298 ! border follicle cell migration @@ -125939,7 +127767,6 @@ def: "Any process that activates or increases the frequency, rate or extent of b synonym: "activation of border follicle cell migration" NARROW [GOC:TermGenie] is_a: GO:0010634 ! positive regulation of epithelial cell migration is_a: GO:1903684 ! regulation of border follicle cell migration -is_a: GO:2000243 ! positive regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007298 ! border follicle cell migration relationship: positively_regulates GO:0007298 ! border follicle cell migration @@ -126561,6 +128388,7 @@ id: GO:1903924 name: estradiol binding namespace: molecular_function def: "Binding to estradiol." [GO_REF:0000067, GOC:TermGenie, PMID:9048584] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:23965 @@ -126973,6 +128801,7 @@ id: GO:1904014 name: response to serotonin namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a serotonin stimulus." [GO_REF:0000071, GOC:TermGenie, PMID:1505525] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:350546 @@ -127247,6 +129076,7 @@ id: GO:1904044 name: response to aldosterone namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an aldosterone stimulus." [GO_REF:0000071, GOC:TermGenie, PMID:17644563] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:27584 @@ -127546,6 +129376,7 @@ id: GO:1904116 name: response to vasopressin namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a vasopressin stimulus." [GO_REF:0000071, GOC:TermGenie, PMID:22811487] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:9937 @@ -128930,6 +130761,7 @@ id: GO:1904408 name: melatonin binding namespace: molecular_function def: "Binding to melatonin." [GO_REF:0000067, GOC:mr, GOC:TermGenie, PMID:10379923] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:16796 @@ -129392,6 +131224,7 @@ name: response to glycoprotein namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a glycoprotein stimulus." [GO_REF:0000071, GOC:TermGenie, PMID:14597422] synonym: "response to glycoproteins" EXACT [] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:17089 @@ -129787,9 +131620,9 @@ def: "The process in which glucose is transported across a membrane." [GO_REF:00 synonym: "glucose transport" RELATED [] is_a: GO:0055085 ! transmembrane transport intersection_of: GO:0006810 ! transport -intersection_of: has_primary_input CHEBI:17234 +intersection_of: has_primary_input CHEBI:4167 intersection_of: results_in_transport_across GO:0016020 ! membrane -relationship: has_primary_input CHEBI:17234 +relationship: has_primary_input CHEBI:4167 created_by: vw creation_date: 2015-09-04T17:20:16Z @@ -129929,9 +131762,9 @@ synonym: "peptide uptake permease activity" RELATED [] xref: Reactome:R-HSA-1500817 "Glutathione is taken up by the bacterium" is_a: GO:0022857 ! transmembrane transporter activity intersection_of: GO:0005215 ! transporter activity -intersection_of: has_primary_input CHEBI:16670 +intersection_of: has_primary_input CHEBI:60466 intersection_of: results_in_transport_across GO:0016020 ! membrane -relationship: has_primary_input CHEBI:16670 +relationship: has_primary_input CHEBI:60466 created_by: tb creation_date: 2015-09-22T18:50:41Z @@ -130044,6 +131877,7 @@ namespace: biological_process def: "The developmental process by which a midbrain is generated and organized." [GO_REF:0000083, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:21347250] synonym: "MB morphogenesis" BROAD [GOC:TermGenie] synonym: "mesencephalon morphogenesis" RELATED [GOC:TermGenie] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001891 ! midbrain @@ -131191,7 +133025,6 @@ synonym: "regulation of male germ-line stem cell renewal" EXACT [GOC:TermGenie] is_a: GO:0009786 ! regulation of asymmetric cell division is_a: GO:0051239 ! regulation of multicellular organismal process is_a: GO:2000035 ! regulation of stem cell division -is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048133 ! male germ-line stem cell asymmetric division relationship: regulates GO:0048133 ! male germ-line stem cell asymmetric division @@ -131216,7 +133049,6 @@ is_a: GO:0010721 ! negative regulation of cell development is_a: GO:0045769 ! negative regulation of asymmetric cell division is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1904838 ! regulation of male germ-line stem cell asymmetric division -is_a: GO:2000242 ! negative regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0048133 ! male germ-line stem cell asymmetric division relationship: negatively_regulates GO:0048133 ! male germ-line stem cell asymmetric division @@ -131240,7 +133072,6 @@ synonym: "upregulation of male germ-line stem cell renewal" EXACT [GOC:TermGenie is_a: GO:0045770 ! positive regulation of asymmetric cell division is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:1904838 ! regulation of male germ-line stem cell asymmetric division -is_a: GO:2000243 ! positive regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0048133 ! male germ-line stem cell asymmetric division relationship: positively_regulates GO:0048133 ! male germ-line stem cell asymmetric division @@ -131915,6 +133746,7 @@ id: GO:1905070 name: anterior visceral endoderm cell migration namespace: biological_process def: "The orderly movement of an anterior visceral endoderm cell from one site to another." [GO_REF:0000091, GOC:TermGenie, PMID:17078044] +is_a: BFO:0000003 is_a: GO:0016477 ! cell migration intersection_of: GO:0016477 ! cell migration intersection_of: results_in_movement_of CL:2000075 ! anterior visceral endoderm cell @@ -132163,6 +133995,7 @@ def: "The process that gives rise to the apical ectodermal ridge. This process p synonym: "AER formation" RELATED [GOC:TermGenie] synonym: "apical epidermal ridge formation" EXACT [GOC:TermGenie] synonym: "crista ectodermalis apicalis formation" RELATED [GOC:TermGenie] +is_a: BFO:0000003 is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0004356 ! apical ectodermal ridge @@ -132254,6 +134087,7 @@ id: GO:1905144 name: response to acetylcholine namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an acetylcholine stimulus." [GO_REF:0000071, GOC:TermGenie, PMID:21238497] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:15355 @@ -132758,6 +134592,7 @@ synonym: "heart epicardium morphogenesis" EXACT [GOC:TermGenie] synonym: "pericardium visceral mesothelium morphogenesis" RELATED [GOC:TermGenie] synonym: "visceral serous pericardium of heart morphogenesis" EXACT [GOC:TermGenie] synonym: "visceral serous pericardium proper morphogenesis" EXACT [GOC:TermGenie] +is_a: BFO:0000003 is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002348 ! epicardium @@ -133215,6 +135050,7 @@ id: GO:1905319 name: mesenchymal stem cell migration namespace: biological_process def: "The orderly movement of a mesenchymal stem cell from one site to another." [GO_REF:0000091, GOC:TermGenie, PMID:24924806, PMID:25181476] +is_a: BFO:0000003 is_a: GO:0016477 ! cell migration intersection_of: GO:0016477 ! cell migration intersection_of: results_in_movement_of CL:0000134 ! mesenchymal stem cell @@ -133351,6 +135187,7 @@ id: GO:1905351 name: pericyte cell migration namespace: biological_process def: "The orderly movement of a pericyte cell from one site to another." [GO_REF:0000091, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:26268439] +is_a: BFO:0000003 is_a: GO:0016477 ! cell migration intersection_of: GO:0016477 ! cell migration intersection_of: results_in_movement_of CL:0000669 ! pericyte @@ -133757,6 +135594,7 @@ synonym: "response to aminoacetic acid" EXACT [] synonym: "response to aminoethanoic acid" EXACT [] synonym: "response to Gly" EXACT [] synonym: "response to glycin" EXACT [] +is_a: BFO:0000003 is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_primary_input CHEBI:57305 @@ -134705,8 +136543,6 @@ synonym: "regulation of serotonin biosynthesis" EXACT [GOC:TermGenie] synonym: "regulation of serotonin formation" EXACT [GOC:TermGenie] synonym: "regulation of serotonin synthesis" EXACT [GOC:TermGenie] is_a: GO:0009889 ! regulation of biosynthetic process -is_a: GO:0031323 ! regulation of cellular metabolic process -is_a: GO:0051171 ! regulation of nitrogen compound metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0042427 ! serotonin biosynthetic process relationship: regulates GO:0042427 ! serotonin biosynthetic process @@ -134743,8 +136579,6 @@ synonym: "negative regulation of serotonin biosynthesis" EXACT [GOC:TermGenie] synonym: "negative regulation of serotonin formation" EXACT [GOC:TermGenie] synonym: "negative regulation of serotonin synthesis" EXACT [GOC:TermGenie] is_a: GO:0009890 ! negative regulation of biosynthetic process -is_a: GO:0031324 ! negative regulation of cellular metabolic process -is_a: GO:0051172 ! negative regulation of nitrogen compound metabolic process is_a: GO:1905627 ! regulation of serotonin biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0042427 ! serotonin biosynthetic process @@ -134782,8 +136616,6 @@ synonym: "upregulation of serotonin biosynthetic process" EXACT [GOC:TermGenie] synonym: "upregulation of serotonin formation" EXACT [GOC:TermGenie] synonym: "upregulation of serotonin synthesis" EXACT [GOC:TermGenie] is_a: GO:0009891 ! positive regulation of biosynthetic process -is_a: GO:0031325 ! positive regulation of cellular metabolic process -is_a: GO:0051173 ! positive regulation of nitrogen compound metabolic process is_a: GO:1905627 ! regulation of serotonin biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0042427 ! serotonin biosynthetic process @@ -134834,6 +136666,24 @@ relationship: regulates GO:0071168 ! protein localization to chromatin created_by: pga creation_date: 2016-11-01T16:33:52Z +[Term] +id: GO:1905636 +name: positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding +namespace: biological_process +def: "Any process that activates or increases the frequency, rate or extent of RNA polymerase II regulatory region sequence-specific DNA binding." [GO_REF:0000059, GOC:bc, GOC:PARL, GOC:TermGenie, PMID:23675531] +subset: gocheck_do_not_annotate +synonym: "activation of RNA polymerase II regulatory region sequence-specific DNA binding" NARROW [GOC:TermGenie] +synonym: "up regulation of RNA polymerase II regulatory region sequence-specific DNA binding" EXACT [GOC:TermGenie] +synonym: "up-regulation of RNA polymerase II regulatory region sequence-specific DNA binding" EXACT [GOC:TermGenie] +synonym: "upregulation of RNA polymerase II regulatory region sequence-specific DNA binding" EXACT [GOC:TermGenie] +is_a: GO:1903025 ! regulation of RNA polymerase II regulatory region sequence-specific DNA binding +is_a: GO:2000679 ! positive regulation of transcription regulatory region DNA binding +intersection_of: GO:0065007 ! biological regulation +intersection_of: positively_regulates GO:0000977 ! RNA polymerase II transcription regulatory region sequence-specific DNA binding +relationship: positively_regulates GO:0000977 ! RNA polymerase II transcription regulatory region sequence-specific DNA binding +created_by: bc +creation_date: 2016-11-03T12:03:07Z + [Term] id: GO:1905651 name: regulation of artery morphogenesis @@ -135839,7 +137689,6 @@ namespace: biological_process def: "Any process that modulates the frequency, rate or extent of germ cell proliferation." [GO_REF:0000058, GOC:TermGenie, PMID:15342467] is_a: GO:0042127 ! regulation of cell population proliferation is_a: GO:0051239 ! regulation of multicellular organismal process -is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0036093 ! germ cell proliferation relationship: regulates GO:0036093 ! germ cell proliferation @@ -135858,7 +137707,6 @@ synonym: "inhibition of germ cell proliferation" NARROW [GOC:TermGenie] is_a: GO:0008285 ! negative regulation of cell population proliferation is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1905936 ! regulation of germ cell proliferation -is_a: GO:2000242 ! negative regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0036093 ! germ cell proliferation relationship: negatively_regulates GO:0036093 ! germ cell proliferation @@ -135877,7 +137725,6 @@ synonym: "upregulation of germ cell proliferation" EXACT [GOC:TermGenie] is_a: GO:0008284 ! positive regulation of cell population proliferation is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:1905936 ! regulation of germ cell proliferation -is_a: GO:2000243 ! positive regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0036093 ! germ cell proliferation relationship: positively_regulates GO:0036093 ! germ cell proliferation @@ -136320,6 +138167,7 @@ name: transporter complex namespace: cellular_component def: "A protein complex facilitating transport of molecules (proteins, small molecules, nucleic acids) into, out of or within a cell, or between cells." [GOC:bhm, PMID:15449578] comment: An example of this is GTR1 in human (UniProt symbol P11166) in PMID:15449578 (inferred from direct assay). +is_a: BFO:0000004 is_a: GO:0032991 ! protein-containing complex intersection_of: GO:0032991 ! protein-containing complex intersection_of: capable_of GO:0005215 ! transporter activity @@ -136362,6 +138210,7 @@ id: GO:1990461 name: detoxification of iron ion namespace: biological_process def: "Any process that reduces or removes the toxicity of iron ion. These include transport of iron away from sensitive areas and to compartments or complexes whose purpose is sequestration of iron ion." [GOC:sart, PMID:23064556] +is_a: BFO:0000003 is_a: GO:0098754 ! detoxification intersection_of: GO:0098754 ! detoxification intersection_of: has_primary_input CHEBI:24875 @@ -136402,6 +138251,7 @@ name: sebum secreting cell proliferation namespace: biological_process def: "The multiplication or reproduction of sebocytes by cell division, resulting in the expansion of their population. A sebocyte is an epithelial cell that makes up the sebaceous glands, and secrete sebum." [GOC:hjd, PMID:16901790, PMID:18474083] synonym: "sebocyte proliferation" RELATED [GOC:dph] +is_a: BFO:0000003 is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000317 ! sebum secreting cell @@ -136438,6 +138288,7 @@ id: GO:1990748 name: cellular detoxification namespace: biological_process def: "Any process carried out at the cellular level that reduces or removes the toxicity of a toxic substance. These may include transport of the toxic substance away from sensitive areas and to compartments or complexes whose purpose is sequestration of the toxic substance." [GOC:vw] +is_a: BFO:0000003 is_a: GO:0009987 ! cellular process is_a: GO:0098754 ! detoxification intersection_of: GO:0098754 ! detoxification @@ -136480,6 +138331,7 @@ name: gastric mucosal blood circulation namespace: biological_process def: "The flow of blood through the gastric mucosa of an animal, enabling the transport of nutrients and the removal of waste products." [PMID:10807413] synonym: "stomach mucosal blood circulation" EXACT [] +is_a: BFO:0000003 is_a: GO:0008015 ! blood circulation intersection_of: GO:0008015 ! blood circulation intersection_of: occurs_in UBERON:0004786 ! gastrointestinal system mucosa @@ -136522,6 +138374,31 @@ intersection_of: has_target_end_location GO:0071944 ! cell periphery relationship: has_target_end_location GO:0071944 ! cell periphery creation_date: 2015-06-18T22:37:39Z +[Term] +id: GO:1990784 +name: response to dsDNA +namespace: biological_process +def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a double-stranded DNA stimulus." [PMID:10051633] +synonym: "response to double-stranded DNA" EXACT [] +is_a: GO:0042221 ! response to chemical +intersection_of: GO:0050896 ! response to stimulus +intersection_of: has_primary_input CHEBI:4705 +relationship: has_primary_input CHEBI:4705 +created_by: sl +creation_date: 2015-06-24T17:54:13Z + +[Term] +id: GO:1990786 +name: cellular response to dsDNA +namespace: biological_process +def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a double-stranded DNA stimulus." [PMID:10051633] +is_a: GO:0070887 ! cellular response to chemical stimulus +is_a: GO:1990784 ! response to dsDNA +intersection_of: GO:0070887 ! cellular response to chemical stimulus +intersection_of: has_primary_input CHEBI:4705 +created_by: sl +creation_date: 2015-06-24T22:48:25Z + [Term] id: GO:1990791 name: dorsal root ganglion development @@ -136560,6 +138437,17 @@ intersection_of: results_in_transport_across GO:0016020 ! membrane created_by: vw creation_date: 2015-08-19T07:47:00Z +[Term] +id: GO:1990837 +name: sequence-specific double-stranded DNA binding +namespace: molecular_function +def: "Binding to double-stranded DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA, e.g. promotor binding or rDNA binding." [GOC:dos, GOC:sl] +synonym: "sequence-specific dsDNA binding" EXACT [] +is_a: GO:0003690 ! double-stranded DNA binding +is_a: GO:0043565 ! sequence-specific DNA binding +created_by: sl +creation_date: 2015-08-25T17:30:06Z + [Term] id: GO:1990845 name: adaptive thermogenesis @@ -136836,6 +138724,7 @@ is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0019827 ! stem cell population maintenance relationship: regulates GO:0019827 ! stem cell population maintenance +property_value: RO:0002161 NCBITaxon:4751 created_by: tb creation_date: 2010-08-05T11:35:25Z @@ -137726,6 +139615,7 @@ name: negative regulation of male germ cell proliferation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of male germ cell proliferation." [GOC:obol] is_a: GO:1905937 ! negative regulation of germ cell proliferation +is_a: GO:2000242 ! negative regulation of reproductive process is_a: GO:2000254 ! regulation of male germ cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002176 ! male germ cell proliferation @@ -137739,6 +139629,7 @@ name: positive regulation of male germ cell proliferation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of male germ cell proliferation." [GOC:obol] is_a: GO:1905938 ! positive regulation of germ cell proliferation +is_a: GO:2000243 ! positive regulation of reproductive process is_a: GO:2000254 ! regulation of male germ cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002176 ! male germ cell proliferation @@ -137853,6 +139744,62 @@ relationship: negatively_regulates GO:0071897 ! DNA biosynthetic process created_by: yaf creation_date: 2010-12-08T04:48:20Z +[Term] +id: GO:2000282 +name: regulation of cellular amino acid biosynthetic process +namespace: biological_process +def: "Any process that modulates the frequency, rate or extent of cellular amino acid biosynthetic process." [GOC:obol] +synonym: "regulation of amino acid biosynthetic process" EXACT [GOC:obol] +synonym: "regulation of cellular amino acid anabolism" EXACT [GOC:obol] +synonym: "regulation of cellular amino acid biosynthesis" EXACT [GOC:obol] +synonym: "regulation of cellular amino acid formation" EXACT [GOC:obol] +synonym: "regulation of cellular amino acid synthesis" EXACT [GOC:obol] +is_a: GO:0006521 ! regulation of cellular amino acid metabolic process +is_a: GO:0009889 ! regulation of biosynthetic process +intersection_of: GO:0065007 ! biological regulation +intersection_of: regulates GO:0008652 ! amino acid biosynthetic process +relationship: regulates GO:0008652 ! amino acid biosynthetic process +created_by: vw +creation_date: 2010-12-10T11:54:19Z + +[Term] +id: GO:2000283 +name: negative regulation of amino acid biosynthetic process +namespace: biological_process +def: "Any process that stops, prevents or reduces the frequency, rate or extent of an amino acid biosynthetic process." [GOC:obol] +synonym: "negative regulation of amino acid anabolism" EXACT [GOC:obol] +synonym: "negative regulation of amino acid biosynthesis" EXACT [GOC:obol] +synonym: "negative regulation of amino acid formation" EXACT [GOC:obol] +synonym: "negative regulation of amino acid synthesis" EXACT [GOC:obol] +synonym: "negative regulation of cellular amino acid biosynthetic process" EXACT [GOC:obol] +is_a: GO:0009890 ! negative regulation of biosynthetic process +is_a: GO:0045763 ! negative regulation of cellular amino acid metabolic process +is_a: GO:2000282 ! regulation of cellular amino acid biosynthetic process +intersection_of: GO:0065007 ! biological regulation +intersection_of: negatively_regulates GO:0008652 ! amino acid biosynthetic process +relationship: negatively_regulates GO:0008652 ! amino acid biosynthetic process +created_by: vw +creation_date: 2010-12-10T11:54:23Z + +[Term] +id: GO:2000284 +name: positive regulation of amino acid biosynthetic process +namespace: biological_process +def: "Any process that activates or increases the frequency, rate or extent of cellular amino acid biosynthetic process." [GOC:obol] +synonym: "positive regulation of amino acid anabolism" EXACT [GOC:obol] +synonym: "positive regulation of amino acid biosynthesis" EXACT [GOC:obol] +synonym: "positive regulation of amino acid formation" EXACT [GOC:obol] +synonym: "positive regulation of amino acid synthesis" EXACT [GOC:obol] +synonym: "positive regulation of cellular amino acid biosynthetic process" EXACT [GOC:obol] +is_a: GO:0009891 ! positive regulation of biosynthetic process +is_a: GO:0045764 ! positive regulation of amino acid metabolic process +is_a: GO:2000282 ! regulation of cellular amino acid biosynthetic process +intersection_of: GO:0065007 ! biological regulation +intersection_of: positively_regulates GO:0008652 ! amino acid biosynthetic process +relationship: positively_regulates GO:0008652 ! amino acid biosynthetic process +created_by: vw +creation_date: 2010-12-10T11:54:27Z + [Term] id: GO:2000287 name: positive regulation of myotome development @@ -138078,8 +140025,8 @@ def: "Any process that modulates the frequency, rate or extent of glucocorticoid synonym: "regulation of glucocorticoid receptor signalling pathway" EXACT [GOC:obol] is_a: GO:0033143 ! regulation of intracellular steroid hormone receptor signaling pathway intersection_of: GO:0065007 ! biological regulation -intersection_of: regulates GO:0042921 ! glucocorticoid receptor signaling pathway -relationship: regulates GO:0042921 ! glucocorticoid receptor signaling pathway +intersection_of: regulates GO:0042921 ! intracellular glucocorticoid receptor signaling pathway +relationship: regulates GO:0042921 ! intracellular glucocorticoid receptor signaling pathway created_by: vk creation_date: 2011-01-18T04:38:10Z @@ -138092,8 +140039,8 @@ synonym: "negative regulation of glucocorticoid receptor signalling pathway" EXA is_a: GO:0033144 ! negative regulation of intracellular steroid hormone receptor signaling pathway is_a: GO:2000322 ! regulation of glucocorticoid receptor signaling pathway intersection_of: GO:0065007 ! biological regulation -intersection_of: negatively_regulates GO:0042921 ! glucocorticoid receptor signaling pathway -relationship: negatively_regulates GO:0042921 ! glucocorticoid receptor signaling pathway +intersection_of: negatively_regulates GO:0042921 ! intracellular glucocorticoid receptor signaling pathway +relationship: negatively_regulates GO:0042921 ! intracellular glucocorticoid receptor signaling pathway created_by: vk creation_date: 2011-01-18T04:38:43Z @@ -138106,8 +140053,8 @@ synonym: "positive regulation of glucocorticoid receptor signalling pathway" EXA is_a: GO:0033145 ! positive regulation of intracellular steroid hormone receptor signaling pathway is_a: GO:2000322 ! regulation of glucocorticoid receptor signaling pathway intersection_of: GO:0065007 ! biological regulation -intersection_of: positively_regulates GO:0042921 ! glucocorticoid receptor signaling pathway -relationship: positively_regulates GO:0042921 ! glucocorticoid receptor signaling pathway +intersection_of: positively_regulates GO:0042921 ! intracellular glucocorticoid receptor signaling pathway +relationship: positively_regulates GO:0042921 ! intracellular glucocorticoid receptor signaling pathway created_by: vk creation_date: 2011-01-18T04:39:05Z @@ -138191,7 +140138,6 @@ namespace: biological_process def: "Any process that modulates the frequency, rate or extent of ovarian follicle development." [GOC:obol] synonym: "regulation of follicular phase" RELATED [GOC:obol] is_a: GO:0050793 ! regulation of developmental process -is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001541 ! ovarian follicle development relationship: regulates GO:0001541 ! ovarian follicle development @@ -138205,7 +140151,6 @@ namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of ovarian follicle development." [GOC:obol] synonym: "negative regulation of follicular phase" RELATED [GOC:obol] is_a: GO:0051093 ! negative regulation of developmental process -is_a: GO:2000242 ! negative regulation of reproductive process is_a: GO:2000354 ! regulation of ovarian follicle development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001541 ! ovarian follicle development @@ -138340,7 +140285,6 @@ namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of ovarian follicle development." [GOC:obol] synonym: "positive regulation of follicular phase" RELATED [GOC:obol] is_a: GO:0051094 ! positive regulation of developmental process -is_a: GO:2000243 ! positive regulation of reproductive process is_a: GO:2000354 ! regulation of ovarian follicle development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001541 ! ovarian follicle development @@ -139539,7 +141483,6 @@ namespace: biological_process def: "Any process that modulates the frequency, rate or extent of thyroid hormone generation." [GOC:obol] is_a: GO:0031323 ! regulation of cellular metabolic process is_a: GO:0032350 ! regulation of hormone metabolic process -is_a: GO:0051171 ! regulation of nitrogen compound metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006590 ! thyroid hormone generation relationship: regulates GO:0006590 ! thyroid hormone generation @@ -139553,7 +141496,6 @@ namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of thyroid hormone generation." [GOC:obol] is_a: GO:0031324 ! negative regulation of cellular metabolic process is_a: GO:0032351 ! negative regulation of hormone metabolic process -is_a: GO:0051172 ! negative regulation of nitrogen compound metabolic process is_a: GO:2000609 ! regulation of thyroid hormone generation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006590 ! thyroid hormone generation @@ -139568,7 +141510,6 @@ namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of thyroid hormone generation." [GOC:obol] is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:0032352 ! positive regulation of hormone metabolic process -is_a: GO:0051173 ! positive regulation of nitrogen compound metabolic process is_a: GO:2000609 ! regulation of thyroid hormone generation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006590 ! thyroid hormone generation @@ -139805,6 +141746,47 @@ relationship: positively_regulates GO:0097050 ! type B pancreatic cell apoptotic created_by: pr creation_date: 2011-05-09T11:51:15Z +[Term] +id: GO:2000677 +name: regulation of transcription regulatory region DNA binding +namespace: biological_process +def: "Any process that modulates the frequency, rate or extent of transcription regulatory region DNA binding." [GOC:obol] +subset: gocheck_do_not_annotate +is_a: GO:0051101 ! regulation of DNA binding +intersection_of: GO:0065007 ! biological regulation +intersection_of: regulates GO:0000976 ! transcription cis-regulatory region binding +relationship: regulates GO:0000976 ! transcription cis-regulatory region binding +created_by: yaf +creation_date: 2011-05-09T03:28:11Z + +[Term] +id: GO:2000678 +name: negative regulation of transcription regulatory region DNA binding +namespace: biological_process +def: "Any process that stops, prevents or reduces the frequency, rate or extent of transcription regulatory region DNA binding." [GOC:obol] +subset: gocheck_do_not_annotate +is_a: GO:0043392 ! negative regulation of DNA binding +is_a: GO:2000677 ! regulation of transcription regulatory region DNA binding +intersection_of: GO:0065007 ! biological regulation +intersection_of: negatively_regulates GO:0000976 ! transcription cis-regulatory region binding +relationship: negatively_regulates GO:0000976 ! transcription cis-regulatory region binding +created_by: yaf +creation_date: 2011-05-09T03:28:14Z + +[Term] +id: GO:2000679 +name: positive regulation of transcription regulatory region DNA binding +namespace: biological_process +def: "Any process that activates or increases the frequency, rate or extent of transcription regulatory region DNA binding." [GOC:obol] +subset: gocheck_do_not_annotate +is_a: GO:0043388 ! positive regulation of DNA binding +is_a: GO:2000677 ! regulation of transcription regulatory region DNA binding +intersection_of: GO:0065007 ! biological regulation +intersection_of: positively_regulates GO:0000976 ! transcription cis-regulatory region binding +relationship: positively_regulates GO:0000976 ! transcription cis-regulatory region binding +created_by: yaf +creation_date: 2011-05-09T03:28:17Z + [Term] id: GO:2000690 name: regulation of cardiac muscle cell myoblast differentiation @@ -141045,6 +143027,7 @@ namespace: molecular_function def: "Binding to glycogen." [GOC:mengo_curators] synonym: "animal starch binding" RELATED [GOC:obol] synonym: "liver starch binding" RELATED [GOC:obol] +is_a: BFO:0000003 is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_primary_input CHEBI:28087 @@ -141471,6 +143454,7 @@ is_a: GO:2001233 ! regulation of apoptotic signaling pathway intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0097190 ! apoptotic signaling pathway relationship: positively_regulates GO:0097190 ! apoptotic signaling pathway +property_value: RO:0002161 NCBITaxon:4896 created_by: pr creation_date: 2011-11-24T01:20:58Z @@ -141566,7 +143550,7 @@ is_a: IAO:0000030 ! information content entity [Term] id: IAO:0000030 name: information content entity -is_a: BFO:0000031 ! generically dependent continuant +is_a: BFO:0000031 [Term] id: IAO:0000078 @@ -142446,6 +144430,7 @@ is_a: NCBITaxon:4893 ! Saccharomycetaceae id: NCBITaxon:4932 name: Saccharomyces cerevisiae namespace: ncbi_taxonomy +alt_id: NCBITaxon:2898199 alt_id: NCBITaxon:41870 synonym: "baker's yeast" EXACT OMO:0003003 [] synonym: "brewer's yeast" EXACT genbank_common_name [] @@ -142919,7 +144904,7 @@ name: quality namespace: quality alt_id: PATO:0000072 def: "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities" [PATOC:GVG] -is_a: BFO:0000020 ! specifically dependent continuant +is_a: BFO:0000020 [Term] id: PATO:0000025 @@ -146300,7 +148285,6 @@ name: prominin namespace: protein def: "A protein with core architecture consisting of one Prominin (Pfam:PF05478) domain. The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology. Mouse and human prominin and prominin-like 1 are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain." [InterPro:IPR008795, PMID:11467842] comment: Category=family. -xref: PANTHER:PTHR22730 xref: PIRSF:PIRSF017831 is_a: CHEBI:36080 is_a: PR:000000001 ! protein @@ -149458,6 +151442,8 @@ synonym: "7TM receptor" BROAD [IUPHARfam:694] synonym: "fam:GPCR" EXACT PRO-short-label [PRO:DAN] synonym: "seven-transmembrane receptor" BROAD [IUPHARfam:694] xref: IUPHARfam:694 +is_a: BFO:0000004 +is_a: BFO:0000040 is_a: CHEBI:36080 is_a: PR:000000001 ! protein intersection_of: PR:000000001 ! protein @@ -149603,6 +151589,8 @@ synonym: "fam:chan" EXACT PRO-short-label [PRO:DAN] synonym: "nonselective channel protein" EXACT [PRO:XQ] synonym: "pore class transporter protein" EXACT [PRO:XQ] synonym: "pore protein" EXACT [PRO:XQ] +is_a: BFO:0000004 +is_a: BFO:0000040 is_a: CHEBI:36080 is_a: PR:000000001 ! protein intersection_of: PR:000000001 ! protein @@ -149702,17 +151690,17 @@ union_of: PR:P0DN77 ! medium-wave-sensitive opsin 2 (human) union_of: PR:P0DN78 ! medium-wave-sensitive opsin 3 (human) [Term] -id: PR:000050567 -name: protein-containing material entity +id: PR:000064867 +name: protein-containing molecular entity namespace: protein -def: "A material entity that minimally consists of a protein." [PRO:DAN] -comment: Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566). +def: "A molecular entity that minimally consists of a protein." [PRO:DAN] +comment: Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050565). synonym: "protein" NARROW [PRO:DAN] synonym: "protein aggregate" NARROW [PRO:DAN] synonym: "protein complex" NARROW [PRO:DAN] synonym: "protein-containing complex" NARROW [PRO:DAN] -is_a: BFO:0000040 ! material entity -intersection_of: BFO:0000040 ! material entity +is_a: CHEBI:23367 +intersection_of: CHEBI:23367 intersection_of: has_part PR:000000001 ! protein relationship: has_part PR:000000001 ! protein @@ -149945,7 +151933,7 @@ intersection_of: RO:0002160 NCBITaxon:10090 ! only in taxon Mus musculus id: PR:O54707 name: natural killer cells antigen CD94 (mouse) namespace: protein -def: "A killer cell lectin-like receptor subfamily D member 1 that is encoded in the genome of mouse." [OMA:O54707, PANTHER:PTHR22800\:SF15, PRO:DNx] +def: "A killer cell lectin-like receptor subfamily D member 1 that is encoded in the genome of mouse." [OMA:O54707, PRO:DNx] comment: Category=organism-gene. synonym: "Cd94" RELATED Gene-based [UniProtKB:O54707] synonym: "CD94 (mouse)" EXACT [UniProtKB:O54707] @@ -150041,7 +152029,7 @@ intersection_of: RO:0002160 NCBITaxon:9606 ! only in taxon Homo sapiens id: PR:O88324 name: CD83 antigen (mouse) namespace: protein -def: "A CD83 molecule that is encoded in the genome of mouse." [OMA:O88324, PANTHER:PTHR15193\:SF0, PRO:DNx] +def: "A CD83 molecule that is encoded in the genome of mouse." [OMA:O88324, PRO:DNx] comment: Category=organism-gene. synonym: "Cd83" RELATED Gene-based [UniProtKB:O88324] synonym: "CD83 (mouse)" EXACT [UniProtKB:O88324] @@ -150126,6 +152114,7 @@ synonym: "T-box brain protein 2 (human)" EXACT [UniProtKB:O95936] synonym: "T-brain-2 (human)" EXACT [UniProtKB:O95936] synonym: "TBR-2 (human)" EXACT [UniProtKB:O95936] synonym: "TBR2" RELATED Gene-based [UniProtKB:O95936] +xref: Reactome:R-HSA-452232 "PR:O95936 located_in GO:0005654" xref: UniProtKB:O95936 is_a: PR:000003463 ! eomesodermin is_a: PR:000029067 ! Homo sapiens protein @@ -153636,7 +155625,7 @@ synonym: "2'-phospho-ADP-ribosyl cyclase/2'-phospho-cyclic-ADP-ribose transferas synonym: "2'-phospho-cyclic-ADP-ribose transferase (human)" EXACT [UniProtKB:P28907] synonym: "ADP-ribosyl cyclase 1 (human)" EXACT [] synonym: "ADPRC 1 (human)" EXACT [UniProtKB:P28907] -synonym: "cADPr hydrolase 1 (human)" EXACT [UniProtKB:P28907] +synonym: "cADPR hydrolase 1 (human)" EXACT [UniProtKB:P28907] synonym: "CD38" RELATED Gene-based [UniProtKB:P28907] synonym: "cyclic ADP-ribose hydrolase 1 (human)" EXACT [UniProtKB:P28907] synonym: "hCD38" EXACT PRO-short-label [PRO:DNx] @@ -154987,7 +156976,7 @@ synonym: "2'-phospho-ADP-ribosyl cyclase/2'-phospho-cyclic-ADP-ribose transferas synonym: "2'-phospho-cyclic-ADP-ribose transferase (mouse)" EXACT [UniProtKB:P56528] synonym: "ADP-ribosyl cyclase 1 (mouse)" EXACT [UniProtKB:P56528] synonym: "ADPRC 1 (mouse)" EXACT [UniProtKB:P56528] -synonym: "cADPr hydrolase 1 (mouse)" EXACT [UniProtKB:P56528] +synonym: "cADPR hydrolase 1 (mouse)" EXACT [UniProtKB:P56528] synonym: "Cd38" RELATED Gene-based [UniProtKB:P56528] synonym: "CD38 (mouse)" EXACT [UniProtKB:P56528] synonym: "cyclic ADP-ribose hydrolase 1 (mouse)" EXACT [UniProtKB:P56528] @@ -157555,7 +159544,7 @@ intersection_of: RO:0002160 NCBITaxon:10090 ! only in taxon Mus musculus id: RO:0002577 name: system def: "A material entity consisting of multiple components that are causally integrated." [] -is_a: BFO:0000040 ! material entity +is_a: BFO:0000040 property_value: IAO:0000116 "May be replaced by a BFO class, as discussed in http://www.jbiomedsem.com/content/4/1/43" xsd:string [Term] @@ -157697,6 +159686,7 @@ namespace: uberon subset: functional_classification subset: uberon_slim synonym: "chemosensory sensory organ" EXACT [FBbt:00005157] +xref: FBbt:00005157 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000020 ! sense organ intersection_of: UBERON:0000020 ! sense organ intersection_of: capable_of GO:0007606 ! sensory perception of chemical stimulus @@ -157794,7 +159784,9 @@ xref: Wikipedia:Pituitary_gland xref: XAO:0000017 xref: ZFA:0000118 is_a: UBERON:0002368 {source="BTO", source="EFO", source="VHOG"} ! endocrine gland +is_a: UBERON:0003133 ! reproductive organ is_a: UBERON:0003296 ! gland of diencephalon +is_a: UBERON:0003937 ! reproductive gland is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: capable_of_part_of GO:0007276 ! gamete generation relationship: has_part CL:0000440 {source="ZFA"} ! melanocyte stimulating hormone secreting cell @@ -157859,6 +159851,7 @@ xref: EHDAA2:0001445 xref: EHDAA:2893 xref: EMAPA:16665 xref: EV:0100335 +xref: FBbt:00005098 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9903 xref: GAID:715 xref: MA:0000218 @@ -158005,7 +159998,6 @@ xref: MIAA:0000284 xref: SCTID:20795001 xref: VHOG:0000860 xref: Wikipedia:Skin -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0034944 {source="FMA"} ! zone of organ relationship: has_part UBERON:0001003 ! skin epidermis @@ -158127,6 +160119,7 @@ synonym: "insect eye" RELATED [] synonym: "Komplexauge" RELATED [BTO:0001921] synonym: "zusammengesetztes Auge" RELATED [BTO:0001921] xref: BTO:0001921 +xref: FBbt:00004508 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: HAO:0000217 xref: TGMA:0000024 xref: Wikipedia:Compound_eye @@ -158202,6 +160195,7 @@ xref: CALOHA:TS-2043 xref: EHDAA2:0001824 xref: EHDAA:500 xref: EMAPA:35955 +xref: FBbt:00005155 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: GAID:63 xref: HAO:0000930 xref: MA:0000017 @@ -158268,6 +160262,7 @@ xref: EFO:0000799 xref: EHDAA2:0003193 xref: EMAPA:37283 {source="MA:th"} xref: EV:0100155 +xref: FBbt:00007000 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: HAO:0000144 xref: MAT:0000023 xref: MESH:D005121 @@ -158311,7 +160306,7 @@ xref: UMLS:C0024204 {source="ncithesaurus:Lymph_Node"} xref: VHOG:0001273 xref: Wikipedia:Lymph_node xref: ZFA_RETIRED:0005318 -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0005057 ! immune organ intersection_of: UBERON:0000062 ! organ intersection_of: RO:0002150 UBERON:0001473 ! continuous with lymphatic vessel @@ -158441,7 +160436,6 @@ xref: EMAPA:35631 xref: FMA:18634 xref: MA:0002907 xref: SCTID:258665002 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0001305 ! ovarian follicle intersection_of: UBERON:0001305 ! ovarian follicle intersection_of: has_component UBERON:0005170 {cardinality="1"} ! granulosa cell layer @@ -158468,7 +160462,6 @@ synonym: "secondary follicle of ovary" EXACT [] xref: EMAPA:35632 xref: FMA:18637 xref: MA:0002908 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0001305 ! ovarian follicle intersection_of: UBERON:0001305 ! ovarian follicle intersection_of: has_component UBERON:0005170 {minCardinality="2"} ! granulosa cell layer @@ -158504,7 +160497,6 @@ xref: MA:0002909 xref: NCIT:C32692 xref: SCTID:362261008 xref: UMLS:C0600225 {source="ncithesaurus:Graafian_Follicle"} -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0001305 ! ovarian follicle intersection_of: UBERON:0001305 ! ovarian follicle intersection_of: has_component UBERON:0005170 {minCardinality="2"} ! granulosa cell layer @@ -158537,6 +160529,7 @@ xref: MESH:D015571 xref: NCIT:C52556 xref: UMLS:C1709369 {source="ncithesaurus:Ovarian_Follicle_Fluid"} xref: Wikipedia:Follicular_fluid +is_a: BFO:0000002 is_a: UBERON:0000463 ! organism substance relationship: has_part CHEBI:17089 relationship: has_part UBERON:0000456 ! secretion of exocrine gland @@ -158588,7 +160581,6 @@ xref: TAO:0005425 xref: UMLS:C0036760 {source="ncithesaurus:Serosa"} xref: Wikipedia:Serous_membrane xref: ZFA:0005425 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: has_part UBERON:0001136 ! mesothelium @@ -158734,6 +160726,7 @@ xref: WBbt:0005189 xref: Wikipedia:Ganglion xref: XAO:0000209 xref: ZFA:0000190 +is_a: BFO:0000002 is_a: UBERON:0000061 {source="https://github.com/obophenotype/uberon/issues/2495#issuecomment-1187364719"} ! anatomical structure relationship: part_of UBERON:0001016 ! nervous system relationship: RO:0002473 UBERON:0003714 {source="EHDAA2"} ! composed primarily of neural tissue @@ -158955,6 +160948,7 @@ synonym: "ducts" RELATED OMO:0003004 [XAO:0004000] synonym: "exocrine duct" NARROW [] synonym: "exocrine gland duct" NARROW [] xref: AAO:0011123 +xref: FBbt:00100314 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:30320 xref: galen:Duct xref: NCIT:C12948 @@ -158964,7 +160958,6 @@ xref: UMLS:C0687028 {source="ncithesaurus:Duct"} xref: Wikipedia:Duct_(anatomy) xref: XAO:0004000 xref: ZFA:0005171 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000063 ! organ subunit relationship: has_part UBERON:0034969 ! epithelial layer of duct relationship: RO:0000086 PATO:0002299 ! has quality tubular @@ -159041,6 +161034,7 @@ xref: BILA:0000003 xref: CARO:0000003 xref: EHDAA2:0003003 xref: EMAPA:0 +xref: FBbt:00007001 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:305751 xref: FMA:67135 xref: GAID:781 @@ -159054,6 +161048,7 @@ xref: TGMA:0001823 xref: VHOG:0001759 xref: XAO:0003000 xref: ZFA:0000037 +is_a: BFO:0000004 is_a: UBERON:0000465 ! material anatomical entity relationship: RO:0002496 UBERON:0000106 {gci_filler="NCBITaxon:33208", gci_relation="RO:0002162"} ! existence starts during or after zygote stage relationship: RO:0002497 UBERON:0000071 ! existence ends during or before death stage @@ -159165,7 +161160,7 @@ xref: EFO:0001272 xref: FBdv:00005369 xref: WBls:0000041 xref: XtroDO:0000084 -is_a: BFO:0000003 ! occurrent +is_a: BFO:0000003 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000092 ! post-embryonic stage relationship: preceded_by UBERON:0000111 ! organogenesis stage @@ -159192,7 +161187,7 @@ xref: WBls:0000003 xref: WBls:0000092 xref: WBls:0000102 xref: XAO:1000012 -is_a: BFO:0000003 ! occurrent +is_a: BFO:0000003 is_a: UBERON:0000105 ! life cycle stage disjoint_from: UBERON:0000092 ! post-embryonic stage relationship: precedes UBERON:0000066 ! fully formed stage @@ -159246,7 +161241,7 @@ xref: MIAA:0000400 xref: OGES:000008 xref: Wikipedia:Larva xref: ZFS:0000048 -is_a: BFO:0000003 ! occurrent +is_a: BFO:0000003 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by UBERON:0000068 ! embryo stage relationship: part_of UBERON:0000092 ! post-embryonic stage @@ -159262,7 +161257,7 @@ subset: common_anatomy synonym: "death" RELATED [] xref: XAO:0000437 xref: XtroDO:0000085 -is_a: BFO:0000003 ! occurrent +is_a: BFO:0000003 is_a: UBERON:0000105 ! life cycle stage relationship: RO:0002229 UBERON:0000104 ! ends life cycle property_value: RO:0002175 NCBITaxon:33090 @@ -159443,6 +161438,7 @@ xref: EHDAA2:0001054 xref: EHDAA:8136 xref: EMAPA:17968 xref: EV:0100101 +xref: FBbt:00004927 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45664 xref: GAID:386 xref: HAO:0000505 @@ -159673,6 +161669,7 @@ xref: SCTID:361456007 xref: UMLS:C1283994 {source="ncithesaurus:Inner_Cell_Mass"} xref: VHOG:0000742 xref: Wikipedia:Inner_cell_mass +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: RO:0002202 UBERON:0000358 {source="Wikipedia"} ! develops from blastocyst relationship: RO:0002219 UBERON:0000088 {source="Wikipedia"} ! surrounded by trophoblast @@ -159700,6 +161697,7 @@ xref: NCIT:C93292 xref: SCTID:362839005 xref: UMLS:C0041178 {source="ncithesaurus:Trophoblast"} xref: Wikipedia:Trophoblast +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0000358 ! blastocyst relationship: RO:0002202 UBERON:0004345 {source="MP-def", source="PMID:19829370"} ! develops from trophectoderm @@ -159724,6 +161722,7 @@ xref: FMA:293863 xref: NCIT:C34112 xref: UMLS:C1283997 {source="ncithesaurus:Bilaminar_Embryonic_Disc"} xref: Wikipedia:Bilaminar_disc +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: RO:0002202 UBERON:0000087 {source="Wikipedia"} ! develops from inner cell mass property_value: http://xmlns.com/foaf/0.1/depiction "http://upload.wikimedia.org/wikipedia/commons/e/e3/Gray21.png" xsd:anyURI @@ -159743,7 +161742,7 @@ xref: OGES:000024 xref: WBls:0000022 xref: WBls:0000093 xref: WBls:0000103 -is_a: BFO:0000003 ! occurrent +is_a: BFO:0000003 is_a: UBERON:0000105 ! life cycle stage relationship: preceded_by UBERON:0000068 ! embryo stage relationship: RO:0002082 GO:0009791 ! simultaneous with post-embryonic development @@ -159769,7 +161768,6 @@ def: "Nonparenchymatous organ that primarily consists of dense connective tissue synonym: "membrane" BROAD [] synonym: "membrane of organ" EXACT [] xref: FMA:7145 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000062 ! organ relationship: RO:0002473 UBERON:0011823 {source="FMA-def"} ! composed primarily of dense connective tissue property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6601-2165 @@ -159848,7 +161846,7 @@ xref: HsapDv:0000001 xref: MmusDv:0000001 xref: ncithesaurus:Life xref: OGES:000011 -is_a: BFO:0000003 ! occurrent +is_a: BFO:0000003 is_a: UBERON:0000000 ! processual entity relationship: ends_with UBERON:0000071 ! death stage relationship: has_part UBERON:0000105 ! life cycle stage @@ -159913,7 +161911,7 @@ xref: VHOG:0000745 xref: Wikipedia:Zygote xref: XAO:1000001 xref: ZFS:0000001 -is_a: BFO:0000003 ! occurrent +is_a: BFO:0000003 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: RO:0002223 UBERON:0000104 ! starts life cycle @@ -159937,7 +161935,7 @@ xref: PdumDv:0000200 xref: Wikipedia:Cleavage_(embryo) xref: XAO:1000004 xref: ZFS:0000046 -is_a: BFO:0000003 ! occurrent +is_a: BFO:0000003 is_a: UBERON:0000105 ! life cycle stage intersection_of: UBERON:0000105 ! life cycle stage intersection_of: RO:0002082 GO:0040016 ! simultaneous with embryonic cleavage @@ -159963,7 +161961,7 @@ xref: WBls:0000005 xref: Wikipedia:Blastula xref: XAO:1000003 xref: ZFS:0000045 -is_a: BFO:0000003 ! occurrent +is_a: BFO:0000003 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000107 ! cleavage stage @@ -159993,7 +161991,7 @@ xref: OGES:000019 xref: WBls:0000010 xref: XAO:1000005 xref: ZFS:0000047 -is_a: BFO:0000003 ! occurrent +is_a: BFO:0000003 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000108 {source="BILS"} ! blastula stage @@ -160010,7 +162008,7 @@ xref: BILS:0000110 xref: HsapDv:0000012 xref: MmusDv:0000017 xref: XAO:1000006 -is_a: BFO:0000003 ! occurrent +is_a: BFO:0000003 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000109 ! gastrula stage @@ -160032,7 +162030,7 @@ xref: MmusDv:0000018 xref: OGES:000005 xref: OGES:000032 xref: Wikipedia:Organogenesis -is_a: BFO:0000003 ! occurrent +is_a: BFO:0000003 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000110 {gci_relation="part_of", gci_filler="NCBITaxon:32523"} ! neurula stage @@ -160058,7 +162056,7 @@ xref: OGES:000009 xref: XAO:1000010 xref: XtroDO:0000083 xref: ZFS:0000051 -is_a: BFO:0000003 ! occurrent +is_a: BFO:0000003 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000066 ! fully formed stage property_value: seeAlso "https://github.com/obophenotype/uberon/issues/427" xsd:anyURI @@ -160078,7 +162076,7 @@ xref: OGES:000026 xref: OGES:000027 xref: XAO:1000093 xref: ZFS:0000044 -is_a: BFO:0000003 ! occurrent +is_a: BFO:0000003 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000066 ! fully formed stage relationship: preceded_by UBERON:0000112 ! sexually immature stage @@ -160144,7 +162142,6 @@ synonym: "segment of tracheobronchial tree" NARROW [FMA:12224] synonym: "tracheobronchial tree segment" NARROW [FMA:12224] xref: EMAPA:37946 {source="MA:th"} xref: FMA:12224 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000025 ! tube is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0000025 ! tube @@ -160240,6 +162237,7 @@ synonym: "funiculus" EXACT [] synonym: "nerve fiber bundle" EXACT [FBbt:00005099] synonym: "neural fiber bundle" EXACT [] xref: CARO:0001001 +xref: FBbt:00005099 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: NLX:147821 is_a: UBERON:0005162 ! multi cell part structure relationship: has_part GO:0043005 ! neuron projection @@ -160531,6 +162529,7 @@ xref: EHDAA2:0000256 xref: EHDAA:4895 xref: EMAPA:27573 xref: Wikipedia:Cloaca_(embryology) +is_a: BFO:0000002 is_a: UBERON:0000162 ! cloaca relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0001008 {source="EHDAA2"} ! renal system @@ -160556,6 +162555,7 @@ xref: SCTID:50961009 xref: UMLS:C0231057 {source="ncithesaurus:Urogenital_Sinus"} xref: VHOG:0000414 xref: Wikipedia:Definitive_urogenital_sinus +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0000163 {source="MP-def"} ! embryonic cloaca relationship: RO:0002160 NCBITaxon:7742 ! only in taxon Vertebrata @@ -160595,6 +162595,7 @@ xref: EFO:0000825 xref: EHDAA2:0001326 xref: EHDAA:542 xref: EMAPA:16262 +xref: FBbt:00003126 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:49184 xref: GAID:75 xref: galen:Mouth @@ -160615,6 +162616,7 @@ xref: Wikipedia:Mouth xref: XAO:0003029 xref: ZFA:0000547 xref: ZFA:0000590 +is_a: BFO:0000002 is_a: UBERON:0004921 ! subdivision of digestive tract intersection_of: UBERON:0004921 ! subdivision of digestive tract intersection_of: BSPO:0001106 UBERON:0001555 ! digestive tract @@ -160705,6 +162707,8 @@ synonym: "lungs pair" EXACT [] synonym: "pulmones" EXACT OMO:0003011 [FMA:68877, FMA:TA] synonym: "set of lungs" EXACT [] xref: FMA:68877 +is_a: BFO:0000002 +is_a: BFO:0000004 is_a: UBERON:0034925 ! anatomical collection intersection_of: UBERON:0034925 ! anatomical collection intersection_of: RO:0002351 UBERON:0002167 ! has member right lung @@ -160783,6 +162787,7 @@ xref: EHDAA2_RETIRED:0003184 xref: ENVO:02000022 xref: FMA:9674 xref: galen:Excretion +is_a: BFO:0000002 is_a: UBERON:0000463 ! organism substance intersection_of: UBERON:0000463 ! organism substance intersection_of: output_of GO:0007588 ! excretion @@ -160823,7 +162828,7 @@ xref: VHOG:0000224 xref: Wikipedia:Blood xref: XAO:0000124 xref: ZFA:0000007 -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0000179 ! haemolymphatic fluid relationship: has_part CL:0000232 {source="CL:tm"} ! erythrocyte relationship: has_part UBERON:0001969 ! blood plasma @@ -160896,6 +162901,8 @@ id: UBERON:0000202 name: glial blood brain barrier namespace: uberon def: "A blood brain barrier composed of glial cells." [https://orcid.org/0000-0002-6601-2165] +xref: FBbt:00007091 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} +is_a: BFO:0000002 is_a: UBERON:0000120 ! blood brain barrier intersection_of: UBERON:0000120 ! blood brain barrier intersection_of: RO:0002473 CL:0000125 ! composed primarily of glial cell @@ -161088,7 +163095,7 @@ xref: NCIT:C96299 xref: SCTID:361885006 xref: UMLS:C0224856 {source="ncithesaurus:Tendon_Sheath"} xref: Wikipedia:Tendon_sheath -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: bounding_layer_of UBERON:0000043 ! tendon @@ -161119,7 +163126,6 @@ xref: SCTID:181457005 xref: UMLS:C0002630 {source="ncithesaurus:Amnion"} xref: VHOG:0000721 xref: Wikipedia:Amnion -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005631 ! extraembryonic membrane relationship: has_part UBERON:0003254 ! amniotic ectoderm @@ -161148,6 +163154,7 @@ xref: GAID:1294 xref: MESH:D036703 xref: OGEM:000006 xref: Wikipedia:Blastula +is_a: BFO:0000002 is_a: UBERON:0000922 ! embryo intersection_of: UBERON:0000468 ! multicellular organism intersection_of: RO:0002491 UBERON:0000108 ! existence starts and ends during blastula stage @@ -161364,6 +163371,7 @@ synonym: "fetus" NARROW [BTO:0000449] xref: BTO:0000449 xref: CALOHA:TS-0360 xref: EFO:0001323 +xref: FBbt:00005333 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:63919 xref: GAID:552 xref: MESH:D005333 @@ -161546,7 +163554,6 @@ xref: NCIT:C13166 xref: SCTID:361693009 xref: UMLS:C0026724 {source="ncithesaurus:Mucosa"} xref: Wikipedia:Mucous_membrane -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0004923 ! organ component layer relationship: has_part UBERON:0000483 ! epithelium relationship: has_part UBERON:0002384 ! connective tissue @@ -161732,6 +163739,7 @@ xref: NCIT:C13739 xref: SCTID:308837009 xref: UMLS:C1281743 {source="ncithesaurus:Blastocyst"} xref: Wikipedia:Blastocyst +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: has_part UBERON:0000087 ! inner cell mass relationship: has_part UBERON:0000088 ! trophoblast @@ -162133,6 +164141,7 @@ xref: MAT:0000025 xref: MIAA:0000025 xref: VSAO:0000033 xref: XAO:0004042 +is_a: BFO:0000002 is_a: UBERON:0011216 ! organ system subdivision intersection_of: UBERON:0011216 ! organ system subdivision intersection_of: RO:0002473 UBERON:0001015 ! composed primarily of musculature @@ -162373,7 +164382,7 @@ xref: NCIT:C89807 xref: SCTID:181480002 xref: UMLS:C0036270 {source="ncithesaurus:Scalp"} xref: Wikipedia:Scalp -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0034921 ! multi organ part structure relationship: has_part UBERON:0000014 ! zone of skin relationship: has_part UBERON:0002384 ! connective tissue @@ -162664,7 +164673,6 @@ synonym: "trabecula arachnoideum" RELATED OMO:0003011 [] xref: BTO:0002500 xref: FMA:83979 xref: Wikipedia:Arachnoid_trabeculae -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000440 ! trabecula is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0000440 ! trabecula @@ -162857,7 +164865,6 @@ xref: FMA:86485 xref: NCIT:C12309 xref: SCTID:264460007 xref: UMLS:C0227837 {source="ncithesaurus:Endocervix"} -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000064 ! organ part is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0000064 ! organ part @@ -162904,6 +164911,7 @@ xref: CALOHA:TS-2101 xref: CARO:0000004 xref: EHDAA2:0003004 xref: EMAPA:35178 +xref: FBbt:00007019 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9669 xref: galen:BodySubstance xref: HAO:0000004 @@ -162915,6 +164923,7 @@ xref: TGMA:0001824 xref: VHOG:0001726 xref: XAO:0004001 xref: ZFA:0001487 +is_a: BFO:0000004 is_a: UBERON:0000465 ! material anatomical entity relationship: part_of UBERON:0000468 ! multicellular organism relationship: RO:0000086 PATO:0002198 ! has quality quality of a substance @@ -162938,6 +164947,7 @@ xref: AEO:0000005 xref: BILA:0000005 xref: CARO:0000005 xref: EHDAA2:0003005 +xref: FBbt:00007017 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:5897 xref: HAO:0000005 xref: NCIT:C94478 @@ -162947,6 +164957,7 @@ xref: UMLS:C0524461 {source="ncithesaurus:Lumen_Space"} xref: VHOG:0001728 xref: XAO:0003190 xref: ZFA:0001643 +is_a: BFO:0000004 is_a: UBERON:0000466 ! immaterial anatomical entity relationship: RO:0002219 UBERON:0000061 ! surrounded by anatomical structure property_value: RO:0002175 NCBITaxon:33090 @@ -162965,12 +164976,13 @@ xref: AEO:0000006 xref: BILA:0000006 xref: CARO:0000006 xref: EHDAA2:0003006 +xref: FBbt:00007016 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67165 xref: HAO:0000006 xref: TAO:0001836 xref: TGMA:0001826 xref: VHOG:0001721 -is_a: BFO:0000040 ! material entity +is_a: BFO:0000040 is_a: UBERON:0001062 ! anatomical entity disjoint_from: UBERON:0000466 ! immaterial anatomical entity property_value: RO:0002175 NCBITaxon:33090 @@ -162990,12 +165002,13 @@ xref: AEO:0000007 xref: BILA:0000007 xref: CARO:0000007 xref: EHDAA2:0003007 +xref: FBbt:00007015 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67112 xref: HAO:0000007 xref: TAO:0001835 xref: TGMA:0001827 xref: VHOG:0001727 -is_a: BFO:0000141 ! immaterial entity +is_a: BFO:0000141 is_a: UBERON:0001062 ! anatomical entity property_value: RO:0002175 NCBITaxon:33090 property_value: RO:0002175 NCBITaxon:33208 @@ -163027,6 +165040,7 @@ xref: EHDAA2:0003011 xref: EHDAA:392 xref: EMAPA:16103 xref: EV:0100000 +xref: FBbt:00004856 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7149 xref: galen:AnatomicalSystem xref: HAO:0000011 @@ -163081,6 +165095,7 @@ xref: EHDAA2:0003191 xref: EHDAA:1 xref: EMAPA:25765 xref: EV:0100016 +xref: FBbt:00000001 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:256135 xref: galen:Organism xref: HAO:0000012 @@ -163149,6 +165164,7 @@ xref: EHDAA2:0002007 xref: EHDAA:8146 xref: EMAPA:17972 xref: EV:0100102 +xref: FBbt:00004928 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7210 xref: GAID:396 xref: galen:Testis @@ -163202,6 +165218,7 @@ xref: EHDAA2:0000506 xref: EHDAA:8116 xref: EMAPA:17959 xref: EV:0100110 +xref: FBbt:00004864 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45663 xref: GAID:364 xref: HAO:0000324 @@ -163246,6 +165263,7 @@ xref: CARO:0000032 xref: EFO:0000808 xref: EHDAA2:0003032 xref: EMAPA:36031 +xref: FBbt:00007009 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7153 xref: galen:BodyPart xref: HAO:0000032 @@ -163288,6 +165306,7 @@ xref: AEO:0000040 xref: BILA:0000040 xref: CARO:0000040 xref: EHDAA2:0003040 +xref: FBbt:00007013 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:63863 xref: HAO:0000040 xref: TAO:0000382 @@ -163307,6 +165326,7 @@ namespace: uberon def: "Anatomical group whose component anatomical structures lie in close proximity to each other." [FBbt:00007277] subset: common_anatomy subset: upper_level +xref: FBbt:00007277 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: VHOG:0001737 is_a: UBERON:0034923 ! disconnected anatomical group property_value: RO:0002175 NCBITaxon:33090 @@ -163332,6 +165352,7 @@ xref: CALOHA:TS-2119 xref: CARO:0000042 xref: EHDAA2:0003042 xref: EHDAA:46 +xref: FBbt:00005835 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:85537 xref: HAO:0000042 xref: NCIT:C34055 @@ -163368,6 +165389,7 @@ xref: CALOHA:TS-2090 xref: CARO:0000043 xref: EHDAA2:0003043 xref: EMAPA:35868 +xref: FBbt:00007003 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9637 xref: galen:Tissue xref: HAO:0000043 @@ -163402,6 +165424,7 @@ xref: AEO:0000055 xref: BILA:0000055 xref: CARO:0000055 xref: EHDAA2:0003055 +xref: FBbt:00007010 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: HAO:0000055 xref: TAO:0001488 xref: TGMA:0001847 @@ -163435,6 +165458,7 @@ xref: CALOHA:TS-0288 xref: CARO:0000066 xref: EHDAA2:0003066 xref: EMAPA:32738 +xref: FBbt:00007005 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9639 xref: GAID:402 xref: HAO:0000066 @@ -163448,7 +165472,6 @@ xref: VHOG:0000387 xref: Wikipedia:Epithelium xref: XAO:0003045 xref: ZFA:0001486 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000479 ! tissue intersection_of: UBERON:0000479 ! tissue intersection_of: RO:0002473 CL:0000066 ! composed primarily of epithelial cell @@ -163504,6 +165527,7 @@ xref: AEO:0000068 xref: BILA:0000068 xref: CARO:0000068 xref: EHDAA2_RETIRED:0003068 +xref: FBbt:00007027 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45567 xref: HAO:0000068 xref: NCIT:C33552 @@ -163756,6 +165780,7 @@ xref: EHDAA2:0000002 xref: EHDAA2_RETIRED:0003236 xref: EHDAA:38 xref: EMAPA:16039 +xref: FBbt:00000052 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69068 xref: GAID:963 xref: http://neurolex.org/wiki/Category\:Embryonic_organism @@ -163796,6 +165821,7 @@ xref: AAO:0000480 xref: BILA:0000035 xref: BTO:0000556 xref: EMAPA:36033 +xref: FBbt:00000110 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69069 xref: GAID:1303 xref: MESH:D005855 @@ -163829,6 +165855,7 @@ xref: EFO:0000414 xref: EHDAA2:0000428 xref: EMAPA:16069 xref: EV:0100003 +xref: FBbt:00000111 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69070 xref: GAID:1304 xref: MAT:0000155 @@ -163866,6 +165893,7 @@ xref: EFO:0002545 xref: EHDAA2:0000436 xref: EMAPA:16062 xref: EV:0100005 +xref: FBbt:00000125 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69071 xref: GAID:1305 xref: MAT:0000175 @@ -163909,6 +165937,7 @@ xref: EHDAA:160 xref: EHDAA:183 xref: EMAPA:16083 xref: EV:0100006 +xref: FBbt:00000126 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69072 xref: GAID:522 xref: MAT:0000174 @@ -163948,6 +165977,7 @@ synonym: "stomodeal-hypophyseal primordium" BROAD [XAO:0000269] xref: BTO:0004224 xref: EHDAA2:0001929 xref: EMAPA:16263 +xref: FBbt:00000439 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:295846 xref: NCIT:C34306 xref: TAO:0001290 @@ -163977,6 +166007,7 @@ synonym: "proctodaeum" EXACT [] xref: AAO:0011087 xref: EHDAA2:0000121 xref: EMAPA:25038 +xref: FBbt:00000123 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: NCIT:C34278 xref: TAO:0000066 xref: UMLS:C0231054 {source="ncithesaurus:Proctodeum"} @@ -163984,6 +166015,7 @@ xref: VHOG:0000139 xref: Wikipedia:Proctodeum xref: XAO:0001019 xref: ZFA:0000066 +is_a: BFO:0000002 is_a: UBERON:0016566 {source="EHDAA2"} ! pit relationship: part_of UBERON:0007026 ! presumptive gut relationship: RO:0001025 UBERON:0012469 {source="EHDAA2"} ! located in external anal region @@ -164039,6 +166071,7 @@ comment: Though inaginal discs are sometimes described as “epithelial sacs”, subset: uberon_slim synonym: "imaginal disk" RELATED [] xref: BTO:0004658 +xref: FBbt:00001761 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: MAT:0000064 xref: MIAA:0000064 xref: Wikipedia:Imaginal_disc @@ -164318,6 +166351,7 @@ xref: EFO:0002969 xref: EHDAA2:0002224 xref: EMAPA:35306 xref: EV:0100128 +xref: FBbt:00005068 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9668 xref: GAID:439 xref: MA:0000012 @@ -164330,6 +166364,7 @@ xref: VHOG:0000098 xref: Wikipedia:Endocrine_system xref: XAO:0000158 xref: ZFA:0001158 +is_a: BFO:0000004 is_a: UBERON:0015204 ! glandular system disjoint_from: UBERON:0000990 ! reproductive system disjoint_from: UBERON:0001004 ! respiratory system @@ -164400,6 +166435,7 @@ xref: EHDAA:2641 xref: EHDAA:6485 xref: EMAPA:16894 xref: EV:0100164 +xref: FBbt:00005095 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:50801 xref: GAID:571 xref: galen:Brain @@ -164635,6 +166671,7 @@ property_value: http://xmlns.com/foaf/0.1/depiction "http://upload.wikimedia.org id: UBERON:0000963 name: head sensillum namespace: uberon +xref: FBbt:00004114 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: MAT:0000204 xref: MIAA:0000204 is_a: UBERON:0002536 ! arthropod sensillum @@ -164676,7 +166713,6 @@ xref: VHOG:0000164 xref: Wikipedia:Cornea xref: XAO:0000180 xref: ZFA:0000640 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0010000 ! multicellular anatomical structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: has_part UBERON:0001772 ! corneal epithelium @@ -164812,6 +166848,7 @@ xref: BTO:0000439 xref: CALOHA:TS-0309 xref: EFO:0000827 xref: EV:0100336 +xref: FBbt:00005162 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: GAID:69 xref: MAT:0000140 xref: MESH:D005123 @@ -164833,6 +166870,7 @@ subset: uberon_slim synonym: "omatidia" RELATED OMO:0003004 [] synonym: "omatidium" EXACT [] xref: BTO:0001922 +xref: FBbt:00004510 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: HAO:0000666 xref: MAT:0000143 xref: MIAA:0000143 @@ -165318,6 +167356,7 @@ xref: EHDAA2:0001603 xref: EHDAA:5923 xref: EMAPA:17381 xref: EV:0100100 +xref: FBbt:00004857 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7160 xref: GAID:363 xref: HAO:0000374 @@ -165333,9 +167372,10 @@ xref: WBbt:0005747 xref: Wikipedia:Reproductive_system xref: XAO:0000142 xref: ZFA:0000632 +is_a: BFO:0000002 is_a: UBERON:0000467 ! anatomical system intersection_of: UBERON:0000467 ! anatomical system -intersection_of: capable_of_part_of GO:0000003 ! reproduction +intersection_of: capable_of_part_of GO:0022414 ! reproductive process disjoint_from: UBERON:0001004 ! respiratory system disjoint_from: UBERON:0001007 ! digestive system disjoint_from: UBERON:0001009 ! circulatory system @@ -165351,7 +167391,7 @@ disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0002423 ! hepatobiliary system disjoint_from: UBERON:0004456 ! entire sense organ system disjoint_from: UBERON:8450002 ! excretory system -relationship: capable_of_part_of GO:0000003 ! reproduction +relationship: capable_of_part_of GO:0022414 ! reproductive process relationship: has_part UBERON:0000991 ! gonad relationship: RO:0002492 UBERON:0000066 ! existence ends during fully formed stage property_value: http://purl.org/dc/terms/date "2022-06-10T18:22:34Z" xsd:dateTime @@ -165390,6 +167430,7 @@ xref: WBbt:0005175 xref: Wikipedia:Gonad xref: XAO:0003146 xref: ZFA:0000413 +is_a: BFO:0000002 is_a: UBERON:0003133 ! reproductive organ intersection_of: UBERON:0003133 ! reproductive organ intersection_of: has_part CL:0000586 ! germ cell @@ -165443,6 +167484,7 @@ xref: EHDAA2:0001360 xref: EHDAA:8124 xref: EMAPA:17962 xref: EV:0100111 +xref: FBbt:00004865 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7209 xref: GAID:367 xref: MA:0000384 @@ -165534,6 +167576,7 @@ xref: SCTID:181452004 xref: UMLS:C0042149 {source="ncithesaurus:Uterus"} xref: VHOG:0001137 xref: Wikipedia:Uterus +is_a: BFO:0000002 is_a: UBERON:0013515 {source="cjm"} ! subdivision of oviduct relationship: part_of UBERON:0004175 ! internal genitalia relationship: RO:0002160 NCBITaxon:32525 ! only in taxon Theria @@ -165888,6 +167931,7 @@ xref: BILA:0000082 xref: BTO:0000058 xref: CALOHA:TS-1293 xref: EFO:0000793 +xref: FBbt:00005055 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7152 xref: GAID:278 xref: galen:DigestiveSystem @@ -165951,6 +167995,7 @@ xref: EHDAA2:0001601 xref: EHDAA:5901 xref: EMAPA:17366 xref: EV:0100095 +xref: FBbt:00005056 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7159 xref: GAID:391 xref: galen:UrinaryTract @@ -166051,6 +168096,7 @@ xref: VHOG:0001284 xref: Wikipedia:Adipose_tissue xref: XAO:0003049 xref: ZFA:0005345 +is_a: BFO:0000002 is_a: UBERON:0011822 {source="FMA"} ! dense irregular connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: RO:0002473 CL:0000136 ! composed primarily of adipocyte @@ -166088,6 +168134,7 @@ xref: VSAO:0005038 xref: WBbt:0005737 xref: Wikipedia:Muscular_system xref: ZFA:0000548 +is_a: BFO:0000002 is_a: UBERON:0011216 ! organ system subdivision relationship: part_of UBERON:0000383 ! musculature of body relationship: RO:0002473 UBERON:0001630 ! composed primarily of muscle organ @@ -166117,6 +168164,7 @@ xref: EHDAA2:0001246 xref: EHDAA:826 xref: EMAPA:16469 xref: EV:0100162 +xref: FBbt:00005093 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7157 xref: GAID:466 xref: MA:0000016 @@ -166133,6 +168181,7 @@ xref: WBbt:0005735 xref: Wikipedia:Nervous_system xref: XAO:0000177 xref: ZFA:0000396 +is_a: BFO:0000002 is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0001033 ! gustatory system disjoint_from: UBERON:0001434 ! skeletal system @@ -166183,6 +168232,7 @@ xref: EHDAA:828 xref: EMAPA:16470 xref: EMAPA:16754 xref: EV:0100163 +xref: FBbt:00005094 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:55675 xref: GAID:570 xref: MA:0000167 @@ -166221,6 +168271,7 @@ synonym: "tract" RELATED [] synonym: "tract of neuraxis" EXACT [FMA:83847] xref: BIRNLEX:1649 xref: EV:0100304 +xref: FBbt:00005100 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:83847 xref: NLX:147822 is_a: UBERON:0000122 ! neuron projection bundle @@ -166276,6 +168327,7 @@ xref: EHDAA:4657 xref: EMAPA:32808 xref: EMAPA:32815 xref: EV:0100371 +xref: FBbt:00005105 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:65132 xref: FMA:65239 xref: GAID:747 @@ -166314,6 +168366,7 @@ synonym: "afferent nerve" RELATED [] synonym: "nervus sensorius" EXACT OMO:0003011 [Wikipedia:Sensory_nerve] xref: AEO:0000201 xref: EHDAA2:0003200 +xref: FBbt:00005136 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:5868 xref: Wikipedia:Sensory_nerve is_a: UBERON:0001021 ! nerve @@ -166342,6 +168395,7 @@ xref: BILA:0000099 xref: EFO:0000805 xref: EHDAA2:0003094 xref: EMAPA:16192 +xref: FBbt:00007692 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:75259 xref: MA:0002442 xref: MAT:0000031 @@ -166352,6 +168406,7 @@ xref: VHOG:0001674 xref: Wikipedia:Sensory_system xref: XAO:0003194 xref: ZFA:0000282 +is_a: BFO:0000004 is_a: UBERON:0015203 ! non-connected functional system relationship: capable_of_part_of GO:0007600 ! sensory perception relationship: overlaps UBERON:0001016 ! nervous system @@ -166455,6 +168510,7 @@ subset: uberon_slim synonym: "ch" RELATED [] synonym: "scolopophorous organ" RELATED [] xref: EFO:0000940 +xref: FBbt:00005215 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: MAT:0000209 xref: MIAA:0000209 xref: Wikipedia:Chordotonal_organ @@ -166485,6 +168541,7 @@ xref: SCTID:362845002 xref: UMLS:C0043425 {source="ncithesaurus:Yolk_Sac"} xref: VHOG:0000830 xref: Wikipedia:Yolk_sac +is_a: BFO:0000002 is_a: UBERON:0005292 ! extraembryonic tissue is_a: UBERON:0005631 {seeAlso="https://github.com/obophenotype/uberon/issues/635"} ! extraembryonic membrane is_a: UBERON:0007499 {source="EHDAA2"} ! epithelial sac @@ -166509,6 +168566,7 @@ xref: BTO:0000507 xref: EHDAA2:0000557 xref: EHDAA:520 xref: EMAPA:16548 +xref: FBbt:00005379 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45616 xref: MA:0001526 xref: NCIT:C34180 @@ -166554,6 +168612,7 @@ xref: VHOG:0000462 xref: Wikipedia:Pharynx xref: XAO:0003227 xref: ZFA:0000056 +is_a: BFO:0000002 is_a: UBERON:0006562 ! pharynx relationship: distally_connected_to UBERON:0001043 {gci_relation="part_of", gci_filler="NCBITaxon:7742"} ! esophagus relationship: part_of UBERON:0001004 ! respiratory system @@ -166600,6 +168659,7 @@ xref: VHOG:0000450 xref: Wikipedia:Esophagus xref: XAO:0000127 xref: ZFA:0000204 +is_a: BFO:0000002 is_a: UBERON:0004921 ! subdivision of digestive tract is_a: UBERON:0005178 ! thoracic cavity element is_a: UBERON:0013765 ! digestive system element @@ -166628,6 +168688,7 @@ xref: EHDAA2:0001775 xref: EHDAA:7987 xref: EMAPA:17751 xref: EV:0100059 +xref: FBbt:00005382 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9597 xref: GAID:937 xref: galen:SalivaryGland @@ -166666,6 +168727,7 @@ xref: EFO:0001950 xref: EHDAA2:0001185 xref: EHDAA:983 xref: EMAPA:16255 +xref: FBbt:00005383 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45617 xref: MA:0001564 xref: NCIT:C34210 @@ -166695,6 +168757,7 @@ xref: BTO:0000510 xref: EHDAA2:0000779 xref: EHDAA:975 xref: EMAPA:16715 +xref: FBbt:00005384 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45618 xref: MA:0001527 xref: NCIT:C34188 @@ -166704,6 +168767,7 @@ xref: UMLS:C0231053 {source="ncithesaurus:Hindgut"} xref: VHOG:0000459 xref: Wikipedia:Hindgut xref: XAO:0000104 +is_a: BFO:0000002 is_a: UBERON:0004921 ! subdivision of digestive tract relationship: proximally_connected_to UBERON:0001045 ! midgut relationship: RO:0002202 UBERON:0003104 {source="Wikipedia"} ! develops from mesenchyme @@ -166727,6 +168791,7 @@ xref: AEO:0000171 xref: BTO:0001886 xref: EFO:0001652 xref: EHDAA2:0003171 +xref: FBbt:00005495 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:86589 xref: MAT:0000482 xref: NCIT:C34275 @@ -166834,6 +168899,7 @@ synonym: "Malpighian tube" RELATED [UBERON:cjm] synonym: "tuba Malpighii" RELATED [BTO:0000810] xref: BTO:0000810 xref: EFO:0000243 +xref: FBbt:00005786 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: GAID:1228 xref: MAT:0000123 xref: MESH:D008317 @@ -166856,11 +168922,13 @@ synonym: "corpora pedunculata" RELATED [FBbt:00005801, PMID:21062451] synonym: "mushroom bodies" EXACT OMO:0003004 [] xref: BTO:0002675 xref: EFO:0000925 +xref: FBbt:00005801 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: GAID:1231 xref: MAT:0000336 xref: MESH:D024521 xref: MIAA:0000336 xref: Wikipedia:Mushroom_body +is_a: BFO:0000004 is_a: UBERON:0000477 ! anatomical cluster relationship: capable_of_part_of GO:0007613 {source="Wikipedia"} ! memory relationship: capable_of_part_of GO:0008355 {source="Wikipedia"} ! olfactory learning @@ -166884,6 +168952,7 @@ xref: BILA:0000000 xref: BIRNLEX:6 xref: CARO:0000000 xref: EHDAA2:0002229 +xref: FBbt:10000000 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:62955 xref: HAO:0000000 xref: MA:0000001 @@ -166964,7 +169033,6 @@ xref: NCIT:C49571 xref: SCTID:244570000 xref: UMLS:C0021815 {source="ncithesaurus:Intervertebral_Disc"} xref: Wikipedia:Intervertebral_disk -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0011135 ! intervertebral cartilage intersection_of: UBERON:0011135 ! intervertebral cartilage intersection_of: has_part UBERON:0002242 ! nucleus pulposus @@ -168006,6 +170074,7 @@ xref: VSAO:0000185 xref: Wikipedia:Vertebral_column xref: XAO:0003074 xref: ZFA:0001559 +is_a: BFO:0000002 is_a: UBERON:0000075 ! subdivision of skeletal system intersection_of: UBERON:0000075 ! subdivision of skeletal system intersection_of: RO:0002473 UBERON:0010913 ! composed primarily of vertebral element @@ -168599,6 +170668,7 @@ xref: SCTID:181256004 xref: UMLS:C0007531 {source="ncithesaurus:Cecum"} xref: VHOG:0001559 xref: Wikipedia:Cecum +is_a: BFO:0000002 is_a: UBERON:0009854 ! digestive tract diverticulum relationship: part_of UBERON:0001155 {source="EHDAA2"} ! colon relationship: RO:0002150 UBERON:0001156 {source="Wikipedia"} ! continuous with ascending colon @@ -168647,6 +170717,7 @@ xref: SCTID:181255000 xref: UMLS:C0003617 {source="ncithesaurus:Vermiform_Appendix"} xref: VHOG:0001306 xref: Wikipedia:Vermiform_appendix +is_a: BFO:0000002 is_a: UBERON:0013765 ! digestive system element relationship: part_of UBERON:0000059 ! large intestine relationship: RO:0002150 UBERON:0001153 {xref="http://orcid.org/0000-0002-1572-1316"} ! continuous with caecum @@ -168720,6 +170791,7 @@ xref: NCIT:C12265 xref: SCTID:362162009 xref: UMLS:C0227375 {source="ncithesaurus:Ascending_Colon"} xref: Wikipedia:Ascending_colon +is_a: BFO:0000002 is_a: UBERON:0000168 {source="FMA"} ! proximal-distal subdivision of colon relationship: RO:0002150 UBERON:0001157 ! continuous with transverse colon relationship: RO:0002202 UBERON:0001045 {source="Wikipedia"} ! develops from midgut @@ -168750,6 +170822,7 @@ xref: NCIT:C12385 xref: SCTID:362163004 xref: UMLS:C0227386 {source="ncithesaurus:Transverse_Colon"} xref: Wikipedia:Transverse_colon +is_a: BFO:0000002 is_a: UBERON:0000168 {source="FMA"} ! proximal-distal subdivision of colon relationship: RO:0002150 UBERON:0001158 ! continuous with descending colon relationship: RO:0002202 UBERON:0001045 {source="Wikipedia"} ! develops from midgut @@ -168780,6 +170853,7 @@ xref: NCIT:C12268 xref: SCTID:362165006 xref: UMLS:C0227389 {source="ncithesaurus:Descending_Colon"} xref: Wikipedia:Descending_colon +is_a: BFO:0000002 is_a: UBERON:0000168 {source="FMA"} ! proximal-distal subdivision of colon relationship: RO:0002150 UBERON:0001159 ! continuous with sigmoid colon relationship: RO:0002202 UBERON:0001046 {source="Wikipedia"} ! develops from hindgut @@ -168815,6 +170889,7 @@ xref: SCTID:362166007 xref: UMLS:C0227391 {source="ncithesaurus:Sigmoid_Colon"} xref: UMLS:C0682612 {source="ncithesaurus:Sigmoid_Flexure"} xref: Wikipedia:Sigmoid_colon +is_a: BFO:0000002 is_a: UBERON:0000168 {source="FMA"} ! proximal-distal subdivision of colon relationship: RO:0002150 UBERON:0001052 ! continuous with rectum relationship: RO:0002202 UBERON:0001046 {source="Wikipedia"} ! develops from hindgut @@ -168853,7 +170928,7 @@ xref: SCTID:362139007 xref: UMLS:C0017129 {source="ncithesaurus:Fundus_of_the_Stomach"} xref: VHOG:0000421 xref: Wikipedia:Fundus_(stomach) -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0009870 ! zone of stomach relationship: has_part UBERON:0010038 ! fundic gastric gland relationship: RO:0002433 UBERON:0000945 ! contributes to morphology of stomach @@ -168912,7 +170987,6 @@ xref: NCIT:C12256 xref: SCTID:362138004 xref: UMLS:C0007144 {source="ncithesaurus:Cardia"} xref: Wikipedia:Cardia -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0009870 ! zone of stomach intersection_of: UBERON:0009870 ! zone of stomach intersection_of: has_part UBERON:0008859 ! cardiac gastric gland @@ -168953,6 +171027,7 @@ xref: NCIT:C12259 xref: SCTID:362142001 xref: UMLS:C0034193 {source="ncithesaurus:Antrum_Pylori"} xref: Wikipedia:Pyloric_antrum +is_a: BFO:0000002 is_a: UBERON:0009870 {source="FMA"} ! zone of stomach relationship: has_part CL:0000502 ! type D enteroendocrine cell relationship: has_part CL:0000508 ! type G enteroendocrine cell @@ -168988,7 +171063,7 @@ xref: SCTID:362143006 xref: UMLS:C0034196 {source="ncithesaurus:Pylorus"} xref: VHOG:0000420 xref: Wikipedia:Pylorus -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0009870 ! zone of stomach intersection_of: UBERON:0009870 ! zone of stomach intersection_of: has_part UBERON:0001165 ! pyloric antrum @@ -169137,7 +171212,6 @@ xref: SCTID:181267003 xref: UMLS:C0005423 {source="ncithesaurus:Biliary_Tract"} xref: Wikipedia:Biliary_tract xref: XAO:0000455 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0013765 ! digestive system element intersection_of: UBERON:0000062 ! organ @@ -169296,6 +171370,7 @@ xref: SCTID:181616008 xref: UMLS:C1704247 {source="ncithesaurus:Peritoneal_Cavity"} xref: VHOG:0000852 xref: Wikipedia:Peritoneal_cavity +is_a: BFO:0000002 is_a: UBERON:0035809 ! serous cavity intersection_of: UBERON:0002553 ! anatomical cavity intersection_of: adjacent_to UBERON:0001178 ! visceral peritoneum @@ -170122,7 +172197,7 @@ xref: TAO:0005125 xref: UMLS:C1519988 {source="ncithesaurus:Villus"} xref: Wikipedia:Intestinal_villus xref: ZFA:0005125 -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0004923 {source="FMA"} ! organ component layer relationship: has_part UBERON:0001981 ! blood vessel relationship: has_part UBERON:0012425 ! striated border microvillus layer @@ -170461,6 +172536,7 @@ xref: UMLS:C0524448 {source="ncithesaurus:Bowman_s_Capsule"} xref: Wikipedia:Bowman%27s_capsule xref: ZFA:0005254 xref: ZFA:0005310 +is_a: BFO:0000002 is_a: UBERON:0000064 ! organ part disjoint_from: UBERON:0002015 ! kidney capsule relationship: capable_of_part_of GO:0003094 {source="Wikipedia"} ! glomerular filtration @@ -170499,6 +172575,7 @@ xref: TAO:0001287 xref: UMLS:C0022674 {source="ncithesaurus:Renal_Tubule"} xref: Wikipedia:Renal_tubule xref: ZFA:0001287 +is_a: BFO:0000002 is_a: UBERON:0004211 ! nephron epithelium is_a: UBERON:0009773 {source="GO"} ! renal tubule intersection_of: UBERON:0003914 {source="GO", source="MA", source="ZFA"} ! epithelial tube @@ -170861,6 +172938,7 @@ synonym: "proctodeum" RELATED [] xref: BTO:0001680 xref: CALOHA:TS-2005 xref: EV:0100082 +xref: FBbt:00047153 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:15711 xref: GAID:312 xref: galen:Anus @@ -170984,7 +173062,6 @@ xref: NCIT:C12992 xref: SCTID:27579002 xref: UMLS:C0229687 {source="ncithesaurus:Splenic_Red_Pulp"} xref: Wikipedia:Red_pulp -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:1000023 ! spleen pulp relationship: RO:0002433 UBERON:0002106 ! contributes to morphology of spleen relationship: RO:0002473 CL:0000542 ! composed primarily of lymphocyte @@ -171401,6 +173478,7 @@ xref: VHOG:0000050 xref: Wikipedia:Pancreas xref: XAO:0000136 xref: ZFA:0000140 +is_a: BFO:0000002 is_a: UBERON:0002075 ! viscus relationship: has_part UBERON:0000016 ! endocrine pancreas relationship: has_part UBERON:0000017 {gci_relation="part_of", gci_filler="NCBITaxon:89593"} ! exocrine pancreas @@ -171489,6 +173567,7 @@ xref: NCIT:C33291 xref: SCTID:360010001 xref: UMLS:C0684083 {source="ncithesaurus:Pelvic_Girdle"} xref: VSAO:0000304 +is_a: BFO:0000002 is_a: UBERON:0007823 ! appendage girdle region is_a: UBERON:0015212 ! lateral structure intersection_of: UBERON:0007823 ! appendage girdle region @@ -171708,7 +173787,6 @@ xref: NCIT:C33342 xref: SCTID:362192000 xref: UMLS:C0227514 {source="ncithesaurus:Portal_Triad"} xref: Wikipedia:Portal_triad -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0034921 ! multi organ part structure relationship: has_part UBERON:0001193 ! hepatic artery @@ -171849,6 +173927,7 @@ xref: TAO:0002153 xref: UMLS:C0027713 {source="ncithesaurus:Nephron"} xref: Wikipedia:Nephron xref: ZFA:0005282 +is_a: BFO:0000002 is_a: UBERON:0000064 ! organ part relationship: part_of UBERON:0007684 {source="FMA"} ! uriniferous tubule relationship: RO:0002202 UBERON:0004208 ! develops from nephrogenic mesenchyme @@ -173144,6 +175223,7 @@ xref: SCTID:362680001 xref: UMLS:C0230120 {source="ncithesaurus:Anal_Region"} xref: VHOG:0000395 xref: WBbt:0006919 +is_a: BFO:0000002 is_a: UBERON:0000475 ! organism subdivision relationship: overlaps UBERON:0006866 ! terminal part of digestive tract relationship: RO:0002254 UBERON:0000931 ! has developmental contribution from proctodeum @@ -174136,6 +176216,7 @@ xref: NCIT:C13071 xref: SCTID:302549007 xref: UMLS:C0015450 {source="ncithesaurus:Face"} xref: Wikipedia:Face +is_a: BFO:0000002 is_a: UBERON:0001444 ! subdivision of head relationship: has_part UBERON:0000018 {gci_filler="NCBITaxon:50557", gci_relation="part_of"} ! compound eye relationship: has_part UBERON:0000165 ! mouth @@ -174400,6 +176481,7 @@ xref: SCTID:361103004 xref: UMLS:C0037004 {source="ncithesaurus:Shoulder"} xref: VHOG:0000342 xref: Wikipedia:Shoulder +is_a: BFO:0000002 is_a: UBERON:0000475 ! organism subdivision relationship: has_part UBERON:0016884 ! shoulder joint relationship: overlaps UBERON:0001421 {source="FMA-modified"} ! pectoral girdle region @@ -174557,6 +176639,7 @@ xref: UMLS:C0229889 {source="ncithesaurus:Lymphatic_Vessel"} xref: VHOG:0001249 xref: Wikipedia:Lymphatic_vessel xref: XAO:0000375 +is_a: BFO:0000002 is_a: UBERON:0000055 ! vessel intersection_of: UBERON:0000055 ! vessel intersection_of: part_of UBERON:0004536 ! lymph vasculature @@ -174606,6 +176689,7 @@ xref: VSAO:0000057 xref: Wikipedia:Bone xref: XAO:0000169 xref: ZFA:0001514 +is_a: BFO:0000002 is_a: UBERON:0004765 ! skeletal element intersection_of: UBERON:0004765 ! skeletal element intersection_of: RO:0002473 UBERON:0002481 ! composed primarily of bone tissue @@ -174767,6 +176851,7 @@ xref: NCIT:C84388 xref: SCTID:182238002 xref: UMLS:C0206207 {source="ncithesaurus:Joint_Capsule"} xref: Wikipedia:Articular_capsule +is_a: BFO:0000002 is_a: UBERON:0000094 ! membrane organ intersection_of: UBERON:0000094 ! membrane organ intersection_of: has_part UBERON:0007616 ! layer of synovial tissue @@ -174799,6 +176884,7 @@ xref: SCTID:182204005 xref: UMLS:C0022745 {source="ncithesaurus:Knee_Joint"} xref: VHOG:0001003 xref: Wikipedia:Knee +is_a: BFO:0000002 is_a: UBERON:0003840 ! hindlimb joint is_a: UBERON:0011139 ! synovial limb joint intersection_of: UBERON:0000982 ! skeletal joint @@ -174924,6 +177010,7 @@ xref: SCTID:182169008 xref: UMLS:C0013770 {source="ncithesaurus:Elbow_Joint"} xref: VHOG:0000997 xref: Wikipedia:Elbow +is_a: BFO:0000002 is_a: UBERON:0003839 ! forelimb joint is_a: UBERON:0011139 ! synovial limb joint intersection_of: UBERON:0000982 ! skeletal joint @@ -175812,6 +177899,7 @@ xref: BTO:0000545 xref: EHDAA2:0000726 xref: EHDAA:518 xref: EMAPA:16247 +xref: FBbt:00003125 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45615 xref: galen:AlimentaryTract xref: MA:0000917 @@ -175822,6 +177910,7 @@ xref: UMLS:C0017189 {source="ncithesaurus:Gastrointestinal_Tract"} xref: VHOG:0000309 xref: WBbt:0005743 xref: ZFA:0000112 +is_a: BFO:0000002 is_a: UBERON:0000025 ! tube relationship: part_of UBERON:0001007 ! digestive system relationship: RO:0002160 NCBITaxon:6072 ! only in taxon Eumetazoa @@ -175843,6 +177932,7 @@ xref: FMA:45659 xref: galen:LowerUrinaryTract xref: MA:0002636 xref: SCTID:181420004 +is_a: BFO:0000002 is_a: UBERON:0011216 ! organ system subdivision relationship: has_part UBERON:0000057 ! urethra relationship: has_part UBERON:0001255 ! urinary bladder @@ -177805,6 +179895,7 @@ xref: TAO:0001580 xref: Wikipedia:Neuroranium xref: XAO:0003170 xref: ZFA:0001580 +is_a: BFO:0000002 is_a: UBERON:0011158 {source="FMA"} ! primary subdivision of skull relationship: part_of UBERON:0003128 ! cranium relationship: protects UBERON:0000955 ! brain @@ -177881,6 +179972,7 @@ xref: UMLS:C0027423 {source="ncithesaurus:Nasal_Cavity"} xref: VHOG:0000271 xref: Wikipedia:Nasal_cavity xref: ZFA:0000130 +is_a: BFO:0000002 is_a: UBERON:0002553 ! anatomical cavity relationship: part_of UBERON:0015788 {source="cjm"} ! olfactory apparatus chamber relationship: RO:0002202 UBERON:0005870 ! develops from olfactory pit @@ -178140,6 +180232,7 @@ xref: VHOG:0000419 xref: Wikipedia:Tongue xref: XAO:0000446 xref: ZFA:0005333 +is_a: BFO:0000002 is_a: UBERON:0000020 {source="GO"} ! sense organ is_a: UBERON:0013765 ! digestive system element relationship: adjacent_to UBERON:0000166 ! oral opening @@ -178277,6 +180370,7 @@ xref: EMAPA:18381 xref: FMA:54935 xref: SCTID:180543003 xref: XAO:0000105 +is_a: BFO:0000002 is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: RO:0002572 UBERON:0006562 ! luminal space of pharynx @@ -178412,7 +180506,7 @@ xref: NCIT:C13049 xref: SCTID:181768009 xref: UMLS:C0024296 {source="ncithesaurus:Lymphoid_Tissue"} xref: Wikipedia:Lymphoid_tissue -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0034769 {source="FMA"} ! lymphomyeloid tissue relationship: has_part CL:0000542 ! lymphocyte relationship: part_of UBERON:0002465 ! lymphoid system @@ -178475,7 +180569,6 @@ xref: EMAPA:37769 {source="MA:th"} xref: FMA:55515 xref: MA:0000730 xref: SCTID:371402001 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000353 ! parenchyma is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest @@ -178497,7 +180590,6 @@ xref: FMA:55566 xref: MA:0002676 xref: NCIT:C33265 xref: UMLS:C0927176 {source="ncithesaurus:Parathyroid_Gland_Capsule"} -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0003893 ! capsule intersection_of: UBERON:0003893 ! capsule intersection_of: bounding_layer_of UBERON:0001132 ! parathyroid gland @@ -178516,6 +180608,7 @@ synonym: "parenchyma of parathyroid" EXACT [OBOL:automatic] xref: EMAPA:35664 xref: FMA:55569 xref: MA:0002677 +is_a: BFO:0000002 is_a: UBERON:0000353 ! parenchyma intersection_of: UBERON:0000353 ! parenchyma intersection_of: part_of UBERON:0001132 ! parathyroid gland @@ -178736,6 +180829,7 @@ xref: SCTID:421159007 xref: UMLS:C0928075 {source="ncithesaurus:Auricle"} xref: VHOG:0000460 xref: Wikipedia:Pinna_(anatomy) +is_a: BFO:0000002 is_a: UBERON:0001444 ! subdivision of head relationship: part_of UBERON:0001691 ! external ear relationship: RO:0000086 PATO:0001297 ! has quality reflectivity @@ -178760,6 +180854,7 @@ xref: MESH:D010519 xref: NCIT:C33304 xref: UMLS:C0031093 {source="ncithesaurus:Periodontium"} xref: Wikipedia:Periodontium +is_a: BFO:0000002 is_a: UBERON:0000479 {source="cjm"} ! tissue relationship: adjacent_to UBERON:0001091 ! calcareous tooth relationship: has_part CL:0002166 {source="FMA"} ! epithelial cell of Malassez @@ -179467,6 +181562,7 @@ xref: Wikipedia:Cranial_nerve xref: XAO:0000429 xref: XAO:0003089 xref: ZFA:0000641 +is_a: BFO:0000002 is_a: UBERON:0011779 ! nerve of head region is_a: UBERON:0034713 ! cranial neuron projection bundle intersection_of: UBERON:0001021 ! nerve @@ -180103,7 +182199,6 @@ xref: UMLS:C0229232 {source="ncithesaurus:Lens_Capsule"} xref: VHOG:0000550 xref: Wikipedia:Lens_(anatomy)#Lens_capsule xref: ZFA:0005574 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005764 ! acellular membrane intersection_of: UBERON:0000476 ! acellular anatomical structure @@ -180636,7 +182731,6 @@ xref: MESH:D013666 xref: NCIT:C33739 xref: UMLS:C0039409 {source="ncithesaurus:Tear"} xref: Wikipedia:Tear -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000456 ! secretion of exocrine gland intersection_of: UBERON:0000456 ! secretion of exocrine gland intersection_of: produced_by UBERON:0001817 ! lacrimal gland @@ -180731,6 +182825,7 @@ xref: TAO:0001970 xref: VHOG:0001750 xref: Wikipedia:Upper_lip xref: ZFA:0005226 +is_a: BFO:0000002 is_a: UBERON:0001833 ! lip intersection_of: UBERON:0001833 ! lip intersection_of: part_of UBERON:0001709 ! upper jaw region @@ -180758,6 +182853,7 @@ xref: TAO:0002060 xref: UMLS:C0458583 {source="ncithesaurus:Lower_Lip"} xref: Wikipedia:Lower_lip xref: ZFA:0005225 +is_a: BFO:0000002 is_a: UBERON:0001833 ! lip intersection_of: UBERON:0001833 ! lip intersection_of: part_of UBERON:0001710 ! lower jaw region @@ -182642,7 +184738,7 @@ xref: NCIT:C13401 xref: UMLS:C1511310 {source="ncithesaurus:Breast_Fluid_or_Secretion"} xref: VHOG:0001263 xref: Wikipedia:Breast_milk -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0006314 ! bodily fluid is_a: UBERON:0006539 ! mammary gland fluid/secretion relationship: has_part CHEBI:18059 @@ -183192,7 +185288,6 @@ xref: MA:0001835 xref: NCIT:C49209 xref: SCTID:278980009 xref: UMLS:C0225604 {source="ncithesaurus:Bronchus_Cartilage"} -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0003603 ! lower respiratory tract cartilage intersection_of: UBERON:0007844 ! cartilage element intersection_of: part_of UBERON:0002185 ! bronchus @@ -183275,7 +185370,6 @@ xref: MA:0000762 xref: NCIT:C12993 xref: UMLS:C0229686 {source="ncithesaurus:Splenic_White_Pulp"} xref: Wikipedia:White_pulp -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:1000023 ! spleen pulp relationship: RO:0002433 UBERON:0002106 ! contributes to morphology of spleen relationship: RO:0002473 CL:0000542 ! composed primarily of lymphocyte @@ -183396,6 +185490,7 @@ xref: NCIT:C13713 xref: UMLS:C1518159 {source="ncithesaurus:Male_Genital_System_Fluid_or_Secretion"} xref: UMLS:C2756969 {source="ncithesaurus:Semen"} xref: Wikipedia:Semen +is_a: BFO:0000002 is_a: UBERON:0000463 ! organism substance relationship: has_part CL:0000019 ! sperm relationship: has_part UBERON:0006530 ! seminal fluid @@ -183427,7 +185522,6 @@ xref: MIAA:0000052 xref: NCIT:C13356 xref: UMLS:C0032105 {source="ncithesaurus:Plasma"} xref: Wikipedia:Blood_plasma -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000179 ! haemolymphatic fluid intersection_of: UBERON:0000463 ! organism substance intersection_of: has_part GO:0005577 ! fibrinogen complex @@ -183737,7 +185831,6 @@ xref: VHOG:0001250 xref: Wikipedia:Blood_vessel xref: XAO:0001011 xref: ZFA:0005314 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000055 ! vessel is_a: UBERON:0004120 ! mesoderm-derived structure relationship: capable_of_part_of GO:0008015 ! blood circulation @@ -184034,7 +186127,6 @@ xref: NCIT:C94819 xref: UMLS:C0221930 {source="ncithesaurus:Stratum_Papillare"} xref: UMLS:C0682598 {source="ncithesaurus:Papillary_Dermis"} xref: Wikipedia:Papillary_dermis -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0013754 ! integumentary system layer relationship: part_of UBERON:0002067 ! dermis @@ -184090,7 +186182,6 @@ xref: UMLS:C0225362 {source="ncithesaurus:Hyaline_Cartilage"} xref: VSAO:0000094 xref: Wikipedia:Hyaline_cartilage xref: XAO:0004029 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0002418 {source="FMA"} ! cartilage tissue relationship: RO:0002473 GO:0005585 {source="VSAO-text-def"} ! composed primarily of collagen type II trimer property_value: http://xmlns.com/foaf/0.1/depiction "http://upload.wikimedia.org/wikipedia/commons/2/2a/Gray292.png" xsd:anyURI @@ -184115,7 +186206,6 @@ xref: UMLS:C0684077 {source="ncithesaurus:Fibrocartilage"} xref: VSAO:0000103 xref: Wikipedia:Fibrocartilage xref: XAO:0004028 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0002418 ! cartilage tissue relationship: has_part GO:0005584 ! collagen type I trimer property_value: http://xmlns.com/foaf/0.1/depiction "http://upload.wikimedia.org/wikipedia/commons/2/2e/Gray295.png" xsd:anyURI @@ -184712,7 +186802,6 @@ xref: NCIT:C12850 xref: SCTID:420086000 xref: UMLS:C0221924 {source="ncithesaurus:Stratum_Spinosum"} xref: Wikipedia:Stratum_spinosum -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0013754 ! integumentary system layer intersection_of: UBERON:0013754 ! integumentary system layer @@ -185262,6 +187351,7 @@ xref: BTO:0003718 xref: FMA:69050 xref: TAO:0005249 xref: ZFA:0005249 +is_a: BFO:0000004 is_a: UBERON:0000477 {source="FMA"} ! anatomical cluster relationship: has_part UBERON:0000179 ! haemolymphatic fluid relationship: part_of UBERON:0007798 ! vascular system @@ -185288,6 +187378,7 @@ xref: BILA:0000034 xref: BTO:0000174 xref: CALOHA:TS-2110 xref: EFO:0000461 +xref: FBbt:00004208 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69067 xref: GAID:407 xref: MESH:D004628 @@ -185347,7 +187438,6 @@ xref: FMA:69087 xref: MA:0000117 xref: NCIT:C32050 xref: UMLS:C1181304 {source="ncithesaurus:Adrenal_Gland_Capsule"} -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0003893 ! capsule is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure @@ -185600,7 +187690,6 @@ xref: VHOG:0000108 xref: Wikipedia:Dermis xref: XAO:0000217 xref: ZFA:0001119 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0013754 ! integumentary system layer @@ -185669,7 +187758,6 @@ xref: TAO:0001136 xref: UMLS:C0278403 {source="ncithesaurus:Subcutis"} xref: Wikipedia:Hypodermis xref: ZFA:0001136 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0013754 ! integumentary system layer relationship: BSPO:0000107 UBERON:0002067 ! dermis @@ -186104,6 +188192,7 @@ xref: VHOG:0000317 xref: VSAO:0000093 xref: XAO:0003073 xref: ZFA:0000317 +is_a: BFO:0000002 is_a: UBERON:0010912 ! subdivision of skeleton relationship: part_of UBERON:0005944 ! axial skeleton plus cranial skeleton relationship: part_of UBERON:0011138 ! postcranial axial skeletal system @@ -186289,7 +188378,6 @@ xref: SCTID:181469002 xref: UMLS:C1123023 {source="ncithesaurus:Skin"} xref: Wikipedia:Skin xref: XAO:0000023 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000062 ! organ is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0002199 ! integument @@ -186730,6 +188818,7 @@ synonym: "pair of nostrils" EXACT [] synonym: "set of nares" RELATED [FMA:72005] xref: FMA:72005 xref: Wikipedia:Nares +is_a: BFO:0000004 is_a: UBERON:0034925 ! anatomical collection intersection_of: UBERON:0034925 ! anatomical collection intersection_of: RO:0002351 UBERON:0000003 {cardinality="2"} ! has member naris @@ -186875,6 +188964,7 @@ xref: MIAA:0000119 xref: UMLS:C0022646 {source="ncithesaurus:Kidney"} xref: Wikipedia:Kidney xref: XAO:0003267 +is_a: BFO:0000002 is_a: UBERON:0000489 ! cavitated compound organ is_a: UBERON:0005172 ! abdomen element is_a: UBERON:0015212 ! lateral structure @@ -186959,6 +189049,7 @@ xref: SCTID:181248002 xref: UMLS:C0022378 {source="ncithesaurus:Jejunum"} xref: VHOG:0000053 xref: Wikipedia:Jejunum +is_a: BFO:0000002 is_a: UBERON:0004921 ! subdivision of digestive tract relationship: part_of UBERON:0002108 ! small intestine relationship: RO:0002202 UBERON:0001045 {source="Wikipedia"} ! develops from midgut @@ -187121,7 +189212,6 @@ xref: NCIT:C33774 xref: SCTID:188262003 xref: UMLS:C0229948 {source="ncithesaurus:Thymus_Cortex"} xref: Wikipedia:Thymus#Cortex -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0001851 ! cortex intersection_of: UBERON:0001851 ! cortex @@ -187176,7 +189266,6 @@ xref: MA:0000770 xref: NCIT:C33772 xref: SCTID:187882006 xref: UMLS:C1522462 {source="ncithesaurus:Thymic_Lobule"} -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0009911 ! lobule intersection_of: UBERON:0009911 ! lobule @@ -187294,7 +189383,6 @@ xref: TAO:0000683 xref: UMLS:C0038533 {source="BIRNLEX:1028"} xref: Wikipedia:Subcommissural_organ xref: ZFA:0000683 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0010134 {source="MA"} ! secretory circumventricular organ relationship: has_part CL:0000065 ! ependymal cell relationship: part_of UBERON:0002314 {source="MA"} ! midbrain tectum @@ -187963,6 +190051,7 @@ xref: Wikipedia:Adenohypophysis xref: ZFA:0001282 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure +is_a: UBERON:0005156 ! reproductive structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest disjoint_from: UBERON:0002198 {source="lexical"} ! neurohypophysis relationship: has_part CL:0000438 ! luteinizing hormone secreting cell @@ -188029,6 +190118,7 @@ xref: VHOG:0000142 xref: Wikipedia:Neurohypophysis xref: ZFA:0001271 is_a: UBERON:0003296 ! gland of diencephalon +is_a: UBERON:0003937 ! reproductive gland is_a: UBERON:0010134 {source="MA"} ! secretory circumventricular organ relationship: capable_of GO:0001992 {source="Wikipedia"} ! regulation of systemic arterial blood pressure by vasopressin relationship: capable_of GO:0030103 {source="Wikipedia"} ! vasopressin secretion @@ -188067,7 +190157,7 @@ xref: TAO:0000368 xref: VSAO:0000029 xref: Wikipedia:Integument xref: ZFA:0000368 -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0011216 {source="FMA"} ! organ system subdivision relationship: bounding_layer_of UBERON:0000468 ! multicellular organism relationship: has_part UBERON:0002072 ! hypodermis @@ -188166,6 +190256,7 @@ xref: FMA:74743 xref: SCTID:123846009 xref: TAO:0007057 xref: ZFA:0007057 +is_a: BFO:0000002 is_a: UBERON:0002200 ! vasculature of head is_a: UBERON:0006876 ! vasculature of organ intersection_of: UBERON:0002049 ! vasculature @@ -188198,6 +190289,7 @@ xref: VHOG:0001275 xref: VSAO:0000031 xref: Wikipedia:Musculoskeletal_system xref: XAO:0000168 +is_a: BFO:0000002 is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0002294 ! biliary system disjoint_from: UBERON:0002330 ! exocrine system @@ -188368,6 +190460,7 @@ xref: SCTID:58442004 xref: TAO:0005155 xref: Wikipedia:Cartilaginous_joint xref: ZFA:0005155 +is_a: BFO:0000002 is_a: UBERON:0011134 {source="FMA"} ! nonsynovial joint intersection_of: UBERON:0011134 ! nonsynovial joint intersection_of: RO:0002473 UBERON:0002418 ! composed primarily of cartilage tissue @@ -188426,7 +190519,6 @@ xref: FMA:7497 xref: MA:0001501 xref: SCTID:42903008 xref: Wikipedia:Synchondrosis -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0002209 ! fibrous joint is_a: UBERON:0002213 ! cartilaginous joint intersection_of: UBERON:0002209 ! fibrous joint @@ -188766,7 +190858,6 @@ xref: FMA:76703 xref: MA:0000112 xref: SCTID:316586000 xref: Wikipedia:Nucleus_pulposus -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000062 ! organ is_a: UBERON:0002384 ! connective tissue is_a: UBERON:0004120 ! mesoderm-derived structure @@ -189067,6 +191158,7 @@ synonym: "organum olfactorium" RELATED [BTO:0001772] synonym: "primary olfactory organ" NARROW [] xref: AAO:0010180 xref: BTO:0001772 +xref: FBbt:00005158 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:77659 xref: VHOG:0000287 xref: XAO:0000273 @@ -189362,7 +191454,7 @@ xref: MESH:D001659 xref: NCIT:C12678 xref: SCTID:361354009 xref: Wikipedia:Biliary_system -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0011216 ! organ system subdivision intersection_of: UBERON:0011216 ! organ system subdivision intersection_of: capable_of GO:0006699 ! bile acid biosynthetic process @@ -189575,7 +191667,7 @@ xref: NCIT:C32891 xref: SCTID:362219002 xref: UMLS:C0022445 {source="ncithesaurus:Juxtaglomerular_Apparatus"} xref: Wikipedia:Juxtaglomerular_apparatus -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0000061 ! anatomical structure relationship: capable_of GO:0003093 {source="GO"} ! regulation of glomerular filtration relationship: has_part CL:0000648 ! kidney granular cell @@ -190004,6 +192096,7 @@ synonym: "ventral body cavity" NARROW [NCBITaxon:7742] xref: AEO:0000186 xref: BTO:0001707 xref: EHDAA2:0000267 +xref: FBbt:00005060 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:85006 xref: galen:BodyCavity xref: NCIT:C25444 @@ -190012,6 +192105,7 @@ xref: SCTID:361348008 xref: TAO:0001438 xref: UMLS:C0333343 {source="ncithesaurus:Cavity"} xref: ZFA:0001438 +is_a: BFO:0000002 is_a: UBERON:0002553 ! anatomical cavity relationship: RO:0002494 UBERON:0003886 ! transformation of future coelemic cavity lumen relationship: RO:0002572 UBERON:0011997 ! luminal space of coelom @@ -190178,6 +192272,7 @@ xref: VHOG:0000191 xref: Wikipedia:Somite xref: XAO:0000058 xref: ZFA:0000155 +is_a: BFO:0000002 is_a: UBERON:0005423 ! developing anatomical structure is_a: UBERON:0007503 {source="EHDAA2"} ! epithelial vesicle relationship: RO:0002160 NCBITaxon:7711 {source="GOTAX:0000352"} ! only in taxon Chordata @@ -190202,7 +192297,6 @@ xref: NCIT:C12957 xref: UMLS:C1516995 {source="ncithesaurus:Exocrine_System"} xref: Wikipedia:Exocrine_gland xref: WikipediaCategory:Exocrine_system -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system @@ -190246,6 +192340,7 @@ xref: NCIT:C34320 xref: SCTID:280644003 xref: UMLS:C0041633 {source="ncithesaurus:Umbilical_Cord"} xref: Wikipedia:Umbilical_cord +is_a: BFO:0000002 is_a: UBERON:0000478 ! extraembryonic structure relationship: RO:0002176 UBERON:0000922 ! connects embryo relationship: RO:0002176 UBERON:0001987 ! connects placenta @@ -190528,6 +192623,7 @@ xref: EHDAA:1498 xref: EHDAA:255 xref: EMAPA:16073 xref: EV:0100004 +xref: FBbt:00001057 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:87657 xref: MAT:0000176 xref: MIAA:0000176 @@ -190877,6 +192973,7 @@ xref: NCIT:C12767 xref: SCTID:229765004 xref: UMLS:C0030797 {source="ncithesaurus:Pelvis"} xref: Wikipedia:Pelvis +is_a: BFO:0000002 is_a: UBERON:0000475 ! organism subdivision relationship: has_part UBERON:0007832 ! pelvic girdle skeleton relationship: part_of UBERON:0002417 ! abdominal segment of trunk @@ -190947,6 +193044,7 @@ xref: FMA:9586 xref: MA:0002738 xref: SCTID:243953008 xref: Wikipedia:Fibrous_pericardium +is_a: BFO:0000002 is_a: UBERON:0000094 {source="FMA"} ! membrane organ is_a: UBERON:0005181 ! thoracic segment organ relationship: part_of UBERON:0002407 {source="FMA"} ! pericardium @@ -191117,6 +193215,7 @@ xref: UMLS:C0041445 {source="ncithesaurus:Tympanic_Membrane"} xref: VHOG:0001146 xref: Wikipedia:Tympanic_membrane xref: XAO:0000212 +is_a: BFO:0000002 is_a: UBERON:0000094 {source="FMA"} ! membrane organ relationship: adjacent_to UBERON:0004114 {source="cjm"} ! tympanic cavity relationship: has_part UBERON:0005042 ! inner epithelial layer of tympanic membrane @@ -191152,7 +193251,6 @@ xref: NCIT:C12712 xref: SCTID:115976003 xref: UMLS:C0015282 {source="ncithesaurus:Exocrine_Gland"} xref: Wikipedia:Exocrine_gland -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0002530 ! gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0002330 ! exocrine system @@ -191314,7 +193412,6 @@ xref: VHOG:0000253 xref: Wikipedia:Thymus xref: XAO:0000163 xref: ZFA:0001078 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0002368 {source="EHDAA2"} ! endocrine gland is_a: UBERON:0004177 ! hemopoietic organ @@ -191892,6 +193989,7 @@ xref: UMLS:C0024202 {source="ncithesaurus:Lymph"} xref: VHOG:0001590 xref: Wikipedia:Lymph xref: ZFA:0005658 +is_a: BFO:0000002 is_a: UBERON:0000179 ! haemolymphatic fluid relationship: part_of UBERON:0006558 ! lymphatic part of lymphoid system relationship: RO:0002494 UBERON:0000913 ! transformation of interstitial fluid @@ -192132,6 +194230,7 @@ xref: SCTID:361999006 xref: UMLS:C0178802 {source="ncithesaurus:Pleural_Cavity"} xref: VHOG:0000581 xref: Wikipedia:Pleural_cavity +is_a: BFO:0000002 is_a: UBERON:0035809 ! serous cavity intersection_of: UBERON:0002553 ! anatomical cavity intersection_of: RO:0002572 UBERON:0009778 ! luminal space of pleural sac @@ -192165,6 +194264,7 @@ xref: VHOG:0001247 xref: Wikipedia:Immune_system xref: XAO:0003152 xref: ZFA:0001159 +is_a: BFO:0000004 is_a: UBERON:0015203 ! non-connected functional system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0002423 ! hepatobiliary system @@ -192228,7 +194328,7 @@ xref: VHOG:0001280 xref: Wikipedia:Pericardium xref: XAO:0004182 xref: ZFA:0000054 -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0000481 ! multi-tissue structure relationship: has_part UBERON:0002359 ! fibrous pericardium relationship: has_part UBERON:0002406 ! pericardial sac @@ -192477,6 +194577,7 @@ xref: EHDAA2_RETIRED:0003154 xref: EHDAA:6520 xref: EMAPA:17524 xref: EV:0100151 +xref: FBbt:00004969 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:72979 xref: galen:Surface xref: HAO:0000421 @@ -192491,7 +194592,7 @@ xref: UMLS:C0037267 {source="ncithesaurus:Integumentary_System"} xref: VHOG:0000403 xref: Wikipedia:Integumentary_system xref: XAO:0000176 -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0002423 ! hepatobiliary system disjoint_from: UBERON:0004456 ! entire sense organ system @@ -192738,7 +194839,7 @@ xref: VHOG:0000294 xref: Wikipedia:Hepatobiliary_system xref: XAO:0000132 xref: ZFA:0000036 -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0011216 ! organ system subdivision disjoint_from: UBERON:0004456 ! entire sense organ system disjoint_from: UBERON:8450002 ! excretory system @@ -193115,6 +195216,7 @@ xref: NCIT:C32425 xref: SCTID:362842004 xref: UMLS:C0011106 {source="ncithesaurus:Decidua"} xref: Wikipedia:Decidua +is_a: BFO:0000002 is_a: UBERON:0000478 {source="FMA"} ! extraembryonic structure relationship: part_of UBERON:0001987 ! placenta relationship: RO:0002202 UBERON:0000459 ! develops from uterine wall @@ -193867,6 +195969,7 @@ xref: SCTID:257943001 xref: UMLS:C0010092 {source="ncithesaurus:Corpus_Luteum"} xref: Wikipedia:Corpus_luteum is_a: UBERON:0002368 {source="PMID:20959416"} ! endocrine gland +is_a: UBERON:0003134 ! female reproductive organ is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005398 ! female reproductive gland relationship: capable_of GO:0042701 ! progesterone secretion @@ -193940,7 +196043,6 @@ xref: NCIT:C13184 xref: SCTID:33840008 xref: UMLS:C0031110 {source="ncithesaurus:Periosteum"} xref: Wikipedia:Periosteum -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000158 ! membranous layer relationship: part_of UBERON:0001474 ! bone element relationship: RO:0002473 UBERON:0011822 ! composed primarily of dense irregular connective tissue @@ -194068,7 +196170,7 @@ xref: SCTID:8361002 xref: SCTID:87483006 xref: UMLS:C0162864 {source="ncithesaurus:Tunica_Intima"} xref: Wikipedia:Tunica_intima -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0004923 {source="FMA"} ! organ component layer relationship: adjacent_to UBERON:0010161 {source="ISBN:0073040584"} ! lumen of blood vessel relationship: has_part UBERON:0001986 ! endothelium @@ -194112,6 +196214,7 @@ xref: FMA:241863 xref: MA:0002889 xref: NCIT:C38630 xref: UMLS:C1268195 {source="ncithesaurus:Extremity_Part"} +is_a: BFO:0000002 is_a: UBERON:0010538 ! paired limb/fin segment intersection_of: UBERON:0010758 ! subdivision of organism along appendicular axis intersection_of: part_of UBERON:0002101 ! limb @@ -194140,6 +196243,7 @@ xref: EFO:0000797 xref: EHDAA2:0003096 xref: EHDAA:2161 xref: EMAPA:18425 +xref: FBbt:00100317 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7146 xref: FMA:86294 xref: galen:Gland @@ -194222,6 +196326,7 @@ subset: uberon_slim synonym: "sensillum" EXACT [FBbt:00007152, HAO:0000933] xref: BTO:0001237 xref: EFO:0000939 +xref: FBbt:00007152 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: HAO:0000933 xref: MAT:0000163 xref: MIAA:0000163 @@ -194317,6 +196422,7 @@ xref: VHOG:0001243 xref: Wikipedia:Lateral_line_system xref: XAO:0000095 xref: ZFA:0000034 +is_a: BFO:0000002 is_a: UBERON:0001032 ! sensory system relationship: has_part UBERON:0010202 ! lateral line relationship: overlaps UBERON:0000010 ! peripheral nervous system @@ -194348,6 +196454,7 @@ xref: UMLS:C0582802 {source="ncithesaurus:Digit"} xref: VHOG:0000944 xref: Wikipedia:Digit_(anatomy) xref: XAO:0003032 +is_a: BFO:0000002 is_a: UBERON:0005881 ! autopodial extension intersection_of: UBERON:0005881 ! autopodial extension intersection_of: part_of UBERON:0012354 ! acropodium region @@ -194401,6 +196508,7 @@ synonym: "wriggler" NARROW [Wikipedia:Larva] synonym: "zoea" NARROW [Wikipedia:Larva] xref: AEO:0000126 xref: BTO:0000707 +xref: FBbt:00001727 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: HAO:0000459 xref: TAO:0002048 xref: Wikipedia:Larva @@ -195846,6 +197954,7 @@ xref: TAO:0000279 xref: VHOG:0000559 xref: XAO:0000057 xref: ZFA:0000279 +is_a: BFO:0000002 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0005423 ! developing anatomical structure intersection_of: RO:0002387 UBERON:0002329 ! has potential to develop into somite @@ -195905,6 +198014,7 @@ xref: VHOG:0000085 xref: Wikipedia:Blood_island_of_umbilical_vesicle xref: XAO:0000067 xref: ZFA:0000094 +is_a: BFO:0000002 is_a: UBERON:0006598 ! presumptive structure relationship: RO:0002202 UBERON:0003081 ! develops from lateral plate mesoderm relationship: RO:0002387 UBERON:0002390 ! has potential to develop into hematopoietic system @@ -195929,6 +198039,7 @@ xref: VHOG:0000086 xref: Wikipedia:Prechordal_plate xref: XAO:0000079 xref: ZFA:0000060 +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0003068 {source="ZFA"} ! axial mesoderm relationship: RO:0002494 UBERON:0034878 ! transformation of prechordal mesoderm @@ -195959,6 +198070,7 @@ xref: VHOG:0000087 xref: Wikipedia:Intermediate_mesoderm xref: XAO:0000085 xref: ZFA:0001206 +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: adjacent_to UBERON:0003077 ! paraxial mesoderm relationship: adjacent_to UBERON:0003081 ! lateral plate mesoderm @@ -196032,6 +198144,7 @@ xref: VHOG:0000107 xref: Wikipedia:Chordamesoderm xref: XAO:0000205 xref: ZFA:0001204 +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0000926 ! mesoderm relationship: RO:0002160 NCBITaxon:7711 ! only in taxon Chordata @@ -196263,6 +198376,7 @@ xref: TAO:0007037 xref: VHOG:0001383 xref: XAO:0000250 xref: ZFA:0007037 +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure disjoint_from: UBERON:0003080 {source="lexical"} ! anterior neural tube relationship: part_of UBERON:0001049 ! neural tube @@ -196329,6 +198443,7 @@ xref: TAO:0007038 xref: VHOG:0001384 xref: XAO:0000307 xref: ZFA:0007038 +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0001049 ! neural tube relationship: RO:0002202 UBERON:0003056 ! develops from pre-chordal neural plate @@ -196401,6 +198516,7 @@ xref: VHOG:0001244 xref: Wikipedia:Myotome xref: XAO:0000315 xref: ZFA:0001056 +is_a: BFO:0000002 is_a: UBERON:0017650 {source="AEO"} ! developing mesenchymal structure relationship: RO:0002202 UBERON:0004290 {source="EHDAA2-abduced"} ! develops from dermomyotome relationship: RO:0002433 UBERON:0001630 ! contributes to morphology of muscle organ @@ -196445,6 +198561,7 @@ xref: TAO:0000028 xref: UMLS:C1514450 {source="ncithesaurus:Primordium_of_the_Heart"} xref: XAO:0000336 xref: ZFA:0000028 +is_a: BFO:0000002 is_a: UBERON:0001048 {source="Obol"} ! primordium relationship: part_of UBERON:0004535 {source="ZFA"} ! cardiovascular system relationship: RO:0002202 UBERON:0003081 {source="ZFA"} ! develops from lateral plate mesoderm @@ -196597,6 +198714,7 @@ synonym: "female human body" NARROW SENSU [FMA:67812] xref: AAO:0010030 xref: BILA:0000028 xref: CARO:0000028 +xref: FBbt:00007011 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67812 xref: HAO:0000028 xref: SCTID:362608006 @@ -196619,6 +198737,7 @@ synonym: "male human body" NARROW SENSU [FMA:67811] xref: AAO:0010033 xref: BILA:0000027 xref: CARO:0000027 +xref: FBbt:00007004 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67811 xref: HAO:0000027 xref: SCTID:362609003 @@ -197171,7 +199290,6 @@ synonym: "trachea" BROAD SENSU [FBbt:00005043] xref: SPD:0000434 xref: TADS:0000315 xref: Wikipedia:Invertebrate_trachea -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0001005 ! respiratory airway relationship: has_part UBERON:0003914 ! epithelial tube relationship: part_of UBERON:0005155 ! open tracheal system @@ -197260,8 +199378,8 @@ xref: WBbt:0008422 is_a: UBERON:0000062 ! organ is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0000062 ! organ -intersection_of: capable_of_part_of GO:0000003 ! reproduction -relationship: capable_of_part_of GO:0000003 ! reproduction +intersection_of: capable_of_part_of GO:0022414 ! reproductive process +relationship: capable_of_part_of GO:0022414 ! reproductive process [Term] id: UBERON:0003134 @@ -197353,6 +199471,7 @@ synonym: "organ of gustatory system" EXACT [OBOL:automatic] synonym: "organ of taste system" EXACT [OBOL:automatic] synonym: "taste organ" EXACT [] synonym: "taste system organ" EXACT [OBOL:automatic] +xref: FBbt:00005159 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:77853 is_a: UBERON:0000005 ! chemosensory organ intersection_of: UBERON:0000062 ! organ @@ -197474,6 +199593,7 @@ namespace: uberon def: "An extraembryonic structure that develops_from a syncytiotrophoblast and is part of a chorion." [OBOL:automatic] xref: EHDAA2:0001973 xref: EHDAA:156 +is_a: BFO:0000002 is_a: UBERON:0000478 ! extraembryonic structure intersection_of: UBERON:0000478 ! extraembryonic structure intersection_of: part_of UBERON:0003124 ! chorion membrane @@ -198609,6 +200729,7 @@ xref: EHDAA2:0002124 xref: EHDAA:8031 xref: EMAPA:17929 xref: VHOG:0001099 +is_a: BFO:0000002 is_a: UBERON:0009891 ! facial mesenchyme is_a: UBERON:0034995 ! jaw mesenchyme intersection_of: UBERON:0003104 ! mesenchyme @@ -198628,6 +200749,7 @@ xref: EHDAA2:0001024 xref: EHDAA:8003 xref: EMAPA:17916 xref: VHOG:0001069 +is_a: BFO:0000002 is_a: UBERON:0034995 ! jaw mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001710 ! lower jaw region @@ -199300,6 +201422,7 @@ synonym: "chorion epithelium" RELATED [] synonym: "chorionic epithelium" RELATED [BTO:0005145] xref: BTO:0005145 xref: EMAPA:16113 +is_a: BFO:0000002 is_a: UBERON:0000478 ! extraembryonic structure intersection_of: UBERON:0000478 ! extraembryonic structure intersection_of: part_of UBERON:0003124 ! chorion membrane @@ -201556,8 +203679,8 @@ name: hindlimb skin namespace: uberon def: "A zone of skin that is part of a hindlimb [Automatically generated definition]." [OBOL:automatic] synonym: "hind limb skin" EXACT [OBOL:automatic] -synonym: "lower limb skin" EXACT [FMA:23102] synonym: "lower limb skin" EXACT [https://orcid.org/0000-0002-0819-0473] +synonym: "lower limb skin" EXACT [FMA:23102] synonym: "skin of hind limb" EXACT [OBOL:automatic] synonym: "skin of hindlimb" EXACT [OBOL:automatic] synonym: "skin of lower extremity" EXACT [OBOL:automatic] @@ -202202,6 +204325,7 @@ synonym: "portion of connective tissue of head" EXACT [OBOL:automatic] synonym: "textus connectivus of adult head" EXACT [OBOL:automatic] synonym: "textus connectivus of head" EXACT [OBOL:automatic] xref: MA:0000577 +is_a: BFO:0000002 is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0000033 ! head @@ -202394,6 +204518,7 @@ synonym: "connective tissue of hip region" EXACT [OBOL:automatic] synonym: "connective tissue of regio coxae" EXACT [OBOL:automatic] xref: EMAPA:37323 {source="MA:th"} xref: MA:0000656 +is_a: BFO:0000002 is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0001464 ! hip @@ -202449,6 +204574,7 @@ synonym: "shoulder textus connectivus" EXACT [OBOL:automatic] synonym: "textus connectivus of shoulder" EXACT [OBOL:automatic] xref: EMAPA:37315 {source="MA:th"} xref: MA:0000632 +is_a: BFO:0000002 is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0001467 ! shoulder @@ -202626,6 +204752,7 @@ synonym: "portion of connective tissue of limb" EXACT [OBOL:automatic] synonym: "textus connectivus of limb" EXACT [OBOL:automatic] xref: EMAPA:37313 {source="MA:th"} xref: MA:0000689 +is_a: BFO:0000002 is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002101 ! limb @@ -203546,6 +205673,8 @@ xref: MESH:D003817 xref: NCIT:C13072 xref: SCTID:245543004 xref: UMLS:C0011443 {source="ncithesaurus:Dentition"} +is_a: BFO:0000002 +is_a: BFO:0000004 is_a: UBERON:0034925 ! anatomical collection intersection_of: UBERON:0034925 ! anatomical collection intersection_of: RO:0002351 UBERON:0001091 ! has member calcareous tooth @@ -204007,6 +206136,7 @@ xref: MESH:D009417 xref: NCIT:C13052 xref: SCTID:91728009 xref: UMLS:C0027757 {source="ncithesaurus:Nervous_Tissue"} +is_a: BFO:0000002 is_a: UBERON:0000479 ! tissue intersection_of: UBERON:0000479 ! tissue intersection_of: has_part CL:0000125 ! glial cell @@ -204055,6 +206185,7 @@ xref: MESH:D012009 xref: SCTID:24227007 xref: VHOG:0001347 xref: Wikipedia:Recurrent_laryngeal_nerve +is_a: BFO:0000002 is_a: UBERON:0011779 ! nerve of head region is_a: UBERON:0035642 ! laryngeal nerve relationship: RO:0002160 NCBITaxon:32523 ! only in taxon Tetrapoda @@ -205213,6 +207344,7 @@ xref: NCIT:C34195 xref: UMLS:C1512940 {source="ncithesaurus:Intraembryonic_Coelom"} xref: VHOG:0000316 xref: Wikipedia:Intraembryonic_coelom +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0011997 ! coelom relationship: RO:0002202 UBERON:0003081 {source="Wikipedia"} ! develops from lateral plate mesoderm @@ -205518,6 +207650,7 @@ def: "Epithelial tubes transport gases, liquids and cells from one site to anoth synonym: "epithelial or endothelial tube" EXACT [] xref: AEO:0000114 xref: EHDAA2:0003114 +xref: FBbt:00007474 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000025 ! tube is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium @@ -205584,6 +207717,7 @@ xref: FMA:79792 xref: TAO:0000254 xref: XAO:0001101 xref: ZFA:0000254 +is_a: BFO:0000002 is_a: UBERON:0001048 ! primordium is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0001048 ! primordium @@ -205713,6 +207847,7 @@ synonym: "gut epithelium" EXACT [EHDAA2:0004567, MA:0003201, ZFA:0005123] xref: BTO:0000956 xref: EHDAA2:0004567 xref: EMAPA:32928 +xref: FBbt:00047166 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: MA:0003201 xref: NCIT:C12963 xref: TAO:0005123 @@ -206079,7 +208214,6 @@ synonym: "thymus cortico-medullary boundary" EXACT [MP:0009543] synonym: "thymus corticomedullary junction" EXACT [MP:0009543] synonym: "thymus corticomedullary zone" EXACT [MP:0009543] xref: EMAPA:37974 {source="MA:th"} -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0007651 ! anatomical junction intersection_of: UBERON:0007651 ! anatomical junction @@ -206128,6 +208262,7 @@ name: embryonic-extraembryonic boundary namespace: uberon def: "The connection between the embryo proper and extraembryonic tissues." [MP:0003890] subset: pheno_slim +is_a: BFO:0000004 is_a: UBERON:0000015 ! non-material anatomical boundary intersection_of: UBERON:0000015 ! non-material anatomical boundary intersection_of: adjacent_to UBERON:0000478 ! extraembryonic structure @@ -206158,6 +208293,7 @@ xref: NCIT:C61572 xref: UMLS:C0180383 {source="ncithesaurus:Dermatome"} xref: Wikipedia:Dermatome_(embryology) xref: XAO:0000220 +is_a: BFO:0000002 is_a: UBERON:0017650 {source="AEO"} ! developing mesenchymal structure relationship: RO:0002202 UBERON:0004290 {source="EHDAA2-abduced"} ! develops from dermomyotome property_value: http://xmlns.com/foaf/0.1/depiction "http://upload.wikimedia.org/wikipedia/commons/f/f3/Gray64.png" xsd:anyURI @@ -206302,6 +208438,7 @@ xref: https://upload.wikimedia.org/wikipedia/commons/thumb/a/ac/Corticogenesis_i xref: neuronames:3233 xref: PBA:294021932 xref: Wikipedia:Subplate +is_a: BFO:0000002 is_a: UBERON:0014950 ! layer of developing cerebral cortex intersection_of: UBERON:0014950 ! layer of developing cerebral cortex intersection_of: adjacent_to UBERON:0004040 ! cortical intermediate zone @@ -206322,6 +208459,7 @@ synonym: "cortical mantle layer" RELATED [] synonym: "IZ" BROAD OMO:0003000 [BRAINSPAN:BRAINSPAN] xref: EMAPA:17545 xref: EMAPA:32712 +is_a: BFO:0000002 is_a: UBERON:0014950 ! layer of developing cerebral cortex relationship: RO:0002160 NCBITaxon:40674 {source="Wikipedia"} ! only in taxon Mammalia relationship: RO:0002202 UBERON:0004061 ! develops from neural tube mantle layer @@ -206612,6 +208750,7 @@ xref: EMAPA:16805 xref: FMA:295864 xref: SCTID:308880000 xref: Wikipedia:Lateral_nasal_prominence +is_a: BFO:0000002 is_a: UBERON:0009292 ! embryonic nasal process disjoint_from: UBERON:0004068 {source="lexical"} ! medial nasal prominence relationship: part_of UBERON:0004066 {source="EHDAA2"} ! frontonasal prominence @@ -206636,6 +208775,7 @@ xref: FMA:295858 xref: SCTID:308877001 xref: VHOG:0000804 xref: Wikipedia:Medial_nasal_prominence +is_a: BFO:0000002 is_a: UBERON:0009292 ! embryonic nasal process relationship: BSPO:0000126 UBERON:0008816 ! embryonic head relationship: part_of UBERON:0004066 {source="EHDAA2"} ! frontonasal prominence @@ -206879,6 +209019,7 @@ xref: EMAPA:37778 {source="MA:th"} xref: FMA:56461 xref: SCTID:362551002 xref: Wikipedia:Tympanic_cavity +is_a: BFO:0000002 is_a: UBERON:0002553 ! anatomical cavity is_a: UBERON:0005082 ! tube lumen is_a: UBERON:0010064 {source="EHDAA2"} ! open anatomical space @@ -206996,6 +209137,7 @@ name: endoderm-derived structure namespace: uberon def: "An anatomical structure that develops (entirely or partially) from the endoderm." [https://orcid.org/0000-0002-6601-2165] subset: grouping_class +is_a: BFO:0000002 is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: RO:0002202 UBERON:0000925 ! develops from endoderm @@ -207008,6 +209150,7 @@ namespace: uberon def: "An anatomical structure that develops (entirely or partially) from the mesoderm." [https://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "mesodermal derivative" EXACT [FBbt:00025998] +is_a: BFO:0000002 is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: RO:0002202 UBERON:0000926 ! develops from mesoderm @@ -207020,6 +209163,7 @@ namespace: uberon def: "An anatomical structure that develops (entirely or partially) from the ectoderm." [https://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "ectodermal deriviative" EXACT [FBbt:00025990] +is_a: BFO:0000002 is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: RO:0002202 UBERON:0000924 ! develops from ectoderm @@ -207055,6 +209199,7 @@ xref: SCTID:278861008 xref: UMLS:C0042066 {source="ncithesaurus:Genitourinary_System"} xref: VHOG:0000286 xref: XAO:0000140 +is_a: BFO:0000002 is_a: UBERON:0000467 ! anatomical system intersection_of: UBERON:0000467 ! anatomical system intersection_of: has_part UBERON:0000990 ! reproductive system @@ -207262,6 +209407,7 @@ synonym: "myocardial plate" EXACT [EHDAA2:0000215] xref: EHDAA2:0000215 xref: EMAPA:16106 xref: VHOG:0000975 +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: RO:0002202 UBERON:0003084 ! develops from heart primordium property_value: IAO:0000116 "TODO - check plate vs rudiment vs primordium vs endocardial tube. See XAO" xsd:string @@ -207785,6 +209931,7 @@ subset: pheno_slim synonym: "CSB" EXACT OMO:0003000 [] xref: EMAPA:27681 xref: ZFA:0005588 +is_a: BFO:0000002 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0010532 {source="cjm"} ! primitive nephron relationship: RO:0002202 UBERON:0004209 {source="ZFA"} ! develops from renal vesicle @@ -207799,6 +209946,7 @@ synonym: "SSB" EXACT OMO:0003000 [] synonym: "stage II nephron" EXACT [http://www.gudmap.org/Organ_Summaries/Metanephros/Renal_vesicle.html] xref: EMAPA:27756 xref: ZFA:0005589 +is_a: BFO:0000002 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0010532 {source="cjm"} ! primitive nephron relationship: RO:0002202 UBERON:0004198 {source="GO"} ! develops from comma-shaped body @@ -207960,6 +210108,7 @@ name: renal vesicle namespace: uberon def: "The renal vesicle is the primordial structure of the nephron epithelium, and is formed by the condensation of mesenchymal cells." [GO:0072077] synonym: "stage I nephron" EXACT [http://www.gudmap.org/Organ_Summaries/Metanephros/Renal_vesicle.html, ZFA:0005586] +is_a: BFO:0000002 is_a: UBERON:0007503 {source="EHDAA2"} ! epithelial vesicle relationship: part_of UBERON:0010536 ! nephron progenitor relationship: RO:0002202 UBERON:0004208 ! develops from nephrogenic mesenchyme @@ -209416,6 +211565,7 @@ xref: SCTID:361378004 xref: VSAO:0000026 xref: Wikipedia:Skeleton xref: XAO:0004053 +is_a: BFO:0000004 is_a: UBERON:0034925 ! anatomical collection disjoint_from: UBERON:0004770 ! articular system relationship: part_of UBERON:0001434 ! skeletal system @@ -209440,6 +211590,7 @@ xref: TAO:0001513 xref: UMLS:C1511786 {source="ncithesaurus:Dermomyotome"} xref: VHOG:0000676 xref: ZFA:0001513 +is_a: BFO:0000002 is_a: UBERON:0000486 {source="AEO"} ! multilaminar epithelium is_a: UBERON:0016888 {source="AEO"} ! transitional anatomical structure relationship: has_part CL:0000075 ! columnar/cuboidal epithelial cell @@ -209492,6 +211643,7 @@ xref: EMAPA:17271 xref: MA:0000224 xref: SCTID:276146002 xref: VHOG:0000641 +is_a: BFO:0000002 is_a: UBERON:0001021 ! nerve intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0000011 ! parasympathetic nervous system @@ -209646,6 +211798,7 @@ xref: SCTID:308825007 xref: UMLS:C0002084 {source="ncithesaurus:Allantois"} xref: VHOG:0000738 xref: Wikipedia:Allantois +is_a: BFO:0000002 is_a: UBERON:0005631 ! extraembryonic membrane relationship: overlaps UBERON:0001008 {source="EHDAA2-modified"} ! renal system relationship: RO:0002160 NCBITaxon:32524 {source="Hymans"} ! only in taxon Amniota @@ -209690,6 +211843,7 @@ xref: EHDAA2:0002091 xref: EHDAA:56 xref: EMAPA:16046 xref: VHOG:0000979 +is_a: BFO:0000002 is_a: UBERON:0000490 {source="EHDAA2"} ! unilaminar epithelium is_a: UBERON:0005292 ! extraembryonic tissue relationship: has_part CL:1000274 ! trophectodermal cell @@ -209753,6 +211907,7 @@ xref: UMLS:C1516037 {source="ncithesaurus:Apical_Ectodermal_Ridge"} xref: Wikipedia:Apical_ectodermal_ridge xref: XAO:0004121 xref: ZFA:0001702 +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: capable_of GO:0010464 ! regulation of mesenchymal cell proliferation relationship: capable_of GO:0061037 ! negative regulation of cartilage development @@ -209773,6 +211928,7 @@ synonym: "limb - fin bud" EXACT [VHOG:0001258] synonym: "paired appendage bud" EXACT [] synonym: "paired limb/fin bud" EXACT [VHOG:0001258] xref: VHOG:0001258 +is_a: BFO:0000002 is_a: UBERON:0003102 ! surface structure is_a: UBERON:0006598 ! presumptive structure relationship: has_part UBERON:0004356 ! apical ectodermal ridge @@ -210450,6 +212606,7 @@ xref: BILA:0000061 xref: BTO:0001766 xref: NCIT:C34229 xref: UMLS:C1518306 {source="ncithesaurus:Neurula"} +is_a: BFO:0000002 is_a: UBERON:0000922 ! embryo intersection_of: UBERON:0000468 ! multicellular organism intersection_of: RO:0002491 UBERON:0000110 ! existence starts and ends during neurula stage @@ -211155,6 +213312,7 @@ synonym: "bony projections" RELATED OMO:0003004 [ZFA:0001637] synonym: "projection of bone" EXACT [] xref: FMA:75433 xref: ZFA:0001637 +is_a: BFO:0000002 is_a: UBERON:4100000 ! skeletal element projection intersection_of: UBERON:4100000 ! skeletal element projection intersection_of: RO:0002473 UBERON:0002481 ! composed primarily of bone tissue @@ -211232,7 +213390,7 @@ xref: WikipediaCategory:Cardiovascular_system xref: XAO:0000100 xref: XAO:0001010 xref: ZFA:0000010 -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0000467 ! anatomical system intersection_of: UBERON:0000467 ! anatomical system intersection_of: has_part UBERON:0000948 ! heart @@ -211259,6 +213417,7 @@ synonym: "set of lymphatic vessels" EXACT [] synonym: "trunci et ductus lymphatici" EXACT OMO:0003011 [FMA:63815, FMA:TA] xref: FMA:63815 xref: ZFA:0005105 +is_a: BFO:0000002 is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: has_part UBERON:0002391 ! lymph @@ -211282,7 +213441,7 @@ synonym: "blood vessels" RELATED [TAO:0001079] synonym: "set of blood vessels" EXACT [] xref: TAO:0001079 xref: ZFA:0001079 -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: RO:0002473 UBERON:0001981 ! composed primarily of blood vessel @@ -211507,7 +213666,7 @@ xref: EMAPA:16371 xref: MA:0002719 xref: SCTID:362030008 xref: VHOG:0000273 -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0007798 {source="MA"} ! vascular system relationship: RO:0002351 UBERON:0001637 ! has member artery property_value: RO:0002175 NCBITaxon:9606 @@ -211556,7 +213715,7 @@ xref: NCIT:C33858 xref: SCTID:362060003 xref: UMLS:C1267406 {source="ncithesaurus:Venous_System"} xref: VHOG:0000277 -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0007798 {source="MA"} ! vascular system relationship: RO:0002473 UBERON:0001638 ! composed primarily of vein property_value: RO:0002175 NCBITaxon:9606 @@ -212416,7 +214575,7 @@ xref: EFO:0001310 xref: OGES:000006 xref: Wikipedia:Pharyngula xref: ZFS:0000050 -is_a: BFO:0000003 ! occurrent +is_a: BFO:0000003 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000111 ! organogenesis stage relationship: preceded_by UBERON:0000110 ! neurula stage @@ -212437,7 +214596,7 @@ synonym: "paired appendage" NARROW [VSAO:0000067] synonym: "pectoral or pelvic appendage" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "pelvic/pectoral appendage" EXACT [https://orcid.org/0000-0002-6601-2165] xref: VSAO:0000067 -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0000026 {source="VSAO"} ! appendage intersection_of: UBERON:0000026 ! appendage intersection_of: part_of UBERON:0010707 ! appendage girdle complex @@ -212555,6 +214714,7 @@ xref: EMAPA:36040 xref: NCIT:C34131 xref: UMLS:C1516779 {source="ncithesaurus:Conceptus"} xref: Wikipedia:Conceptus +is_a: BFO:0000002 is_a: UBERON:0000061 ! anatomical structure relationship: has_part UBERON:0002050 ! embryonic structure relationship: has_part UBERON:0016887 ! entire extraembryonic component @@ -212821,6 +214981,7 @@ synonym: "trilaminar disk" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar germ" RELATED [https://orcid.org/0000-0002-6601-2165] xref: BILA:0000060 xref: BTO:0001403 +xref: FBbt:00005317 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:293108 xref: GAID:1302 xref: MESH:D005775 @@ -212831,6 +214992,7 @@ xref: UMLS:C0017199 {source="ncithesaurus:Gastrula"} xref: UMLS:C1284022 {source="ncithesaurus:Trilaminar_Embryonic_Disc"} xref: Wikipedia:Gastrula xref: Wikipedia:Trilaminar_blastocyst +is_a: BFO:0000002 is_a: UBERON:0000922 ! embryo intersection_of: UBERON:0000468 ! multicellular organism intersection_of: RO:0002491 UBERON:0000109 ! existence starts and ends during gastrula stage @@ -212957,6 +215119,7 @@ xref: SCTID:309311006 xref: VSAO:0000015 xref: XAO:0004038 xref: ZFA:0005619 +is_a: BFO:0000002 is_a: UBERON:0002384 {source="VSAO"} ! connective tissue relationship: part_of UBERON:0004765 ! skeletal element relationship: RO:0002202 CL:0007001 ! develops from skeletogenic cell @@ -213022,6 +215185,7 @@ xref: SCTID:155540009 xref: UMLS:C1516496 {source="ncithesaurus:Chondrocranium"} xref: Wikipedia:Chondrocranium xref: XAO:0003059 +is_a: BFO:0000002 is_a: UBERON:0000075 {source="FMA"} ! subdivision of skeletal system relationship: has_part UBERON:0002418 ! cartilage tissue relationship: RO:0002160 NCBITaxon:7742 ! only in taxon Vertebrata @@ -213147,6 +215311,7 @@ xref: FMA:23878 xref: MA:0003007 xref: SCTID:361827000 xref: VSAO:0000181 +is_a: BFO:0000004 is_a: UBERON:0034925 ! anatomical collection intersection_of: UBERON:0034925 ! anatomical collection intersection_of: RO:0002351 UBERON:0000982 ! has member skeletal joint @@ -214678,6 +216843,7 @@ xref: NCIT:C34219 xref: SCTID:361405003 xref: UMLS:C1283944 {source="ncithesaurus:Nephrogenic_Cord"} xref: Wikipedia:Nephrogenic_cord +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: RO:0002202 UBERON:0004876 ! develops from urogenital fold @@ -214694,6 +216860,7 @@ xref: EHDAA2:0004022 xref: EMAPA:30888 xref: FMA:321919 xref: Wikipedia:Urogenital_folds +is_a: BFO:0000002 is_a: UBERON:0006598 ! presumptive structure relationship: part_of UBERON:0009196 {source="EHDAA2"} ! indifferent external genitalia relationship: RO:0002202 UBERON:0003064 {source="Wikipedia"} ! develops from intermediate mesoderm @@ -214875,6 +217042,7 @@ synonym: "optic nerve" BROAD [BTO:0000966] synonym: "optic nerve (generic)" EXACT [] xref: BTO:0000966 xref: EV:0100351 +xref: FBbt:00001956 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: TADS:0000232 is_a: UBERON:0000122 ! neuron projection bundle intersection_of: UBERON:0000122 ! neuron projection bundle @@ -214892,6 +217060,7 @@ namespace: uberon def: "Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "joint" NARROW [] +xref: FBbt:00005811 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0034921 ! multi organ part structure relationship: part_of UBERON:0004770 ! articular system @@ -214923,6 +217092,7 @@ xref: NCIT:C33010 xref: SCTID:279973004 xref: UMLS:C0226875 {source="ncithesaurus:Lower_Gastrointestinal_Tract"} xref: Wikipedia:Alimentary_canal#Upper_gastrointestinal_tract +is_a: BFO:0000002 is_a: UBERON:0004921 ! subdivision of digestive tract relationship: part_of UBERON:0005409 ! alimentary part of gastrointestinal system relationship: RO:0002202 UBERON:0001046 ! develops from hindgut @@ -214941,6 +217111,7 @@ xref: NCIT:C33837 xref: SCTID:181244000 xref: UMLS:C0226874 {source="ncithesaurus:Upper_Gastrointestinal_Tract"} xref: Wikipedia:Alimentary_canal#Upper_gastrointestinal_tract +is_a: BFO:0000002 is_a: UBERON:0004921 ! subdivision of digestive tract relationship: RO:0002202 UBERON:0001041 ! develops from foregut @@ -215136,6 +217307,7 @@ synonym: "gut section" RELATED [FBbt:00100315] synonym: "intestinal tract" RELATED [] synonym: "segment of intestinal tract" RELATED [] synonym: "subdivision of alimentary system" RELATED [FMA:71131] +xref: FBbt:00100315 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:71131 is_a: UBERON:0013522 ! subdivision of tube intersection_of: UBERON:0013522 ! subdivision of tube @@ -217174,6 +219346,7 @@ synonym: "tooth primordium" EXACT [MP:0000117] xref: BTO:0001511 xref: TAO:0001153 xref: ZFA:0001153 +is_a: BFO:0000002 is_a: UBERON:0006598 ! presumptive structure is_a: UBERON:0011814 {source="NCBIBook:NBK53175"} ! non-neurogenic ectodermal placode intersection_of: UBERON:0005085 ! ectodermal placode @@ -217187,6 +219360,7 @@ id: UBERON:0005088 name: sebaceous gland placode namespace: uberon def: "A sebaceous gland placode is a thickening of the ectoderm that will give rise to the sebaceous gland bud[GO]." [GO:0060791] +is_a: BFO:0000002 is_a: UBERON:0006598 ! presumptive structure is_a: UBERON:0011814 {source="NCBIBook:NBK53175"} ! non-neurogenic ectodermal placode intersection_of: UBERON:0005085 ! ectodermal placode @@ -217200,6 +219374,7 @@ id: UBERON:0005089 name: sweat gland placode namespace: uberon def: "An sweat gland placode is a thickening of the ectoderm that will give rise to the sweat gland bud[GO]." [GO:0060793] +is_a: BFO:0000002 is_a: UBERON:0006598 ! presumptive structure is_a: UBERON:0011814 {source="NCBIBook:NBK53175"} ! non-neurogenic ectodermal placode intersection_of: UBERON:0005085 ! ectodermal placode @@ -217217,6 +219392,7 @@ synonym: "muscle" RELATED [] synonym: "muscle element" RELATED [] synonym: "musculus" EXACT [FMA:30316] xref: FMA:30316 +is_a: BFO:0000002 is_a: UBERON:0000061 ! anatomical structure relationship: has_part CL:0000187 ! muscle cell relationship: RO:0002160 NCBITaxon:6072 ! only in taxon Eumetazoa @@ -217240,6 +219416,7 @@ name: kidney rudiment namespace: uberon def: "Missing definition for term UBERON:0005095. Please replace it using linked reference." [GO:0072003] synonym: "kidney anlage" RELATED [GOC:mtg_kidney_jan10] +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: RO:0002202 UBERON:0007687 {source="GO"} ! develops from kidney field property_value: IAO:0000116 "class added for consistency with GO - consider merging with kidney mesenchyme." xsd:string @@ -217760,6 +219937,7 @@ synonym: "invertebrate tracheal system" EXACT [] synonym: "open tracheal system" EXACT [] synonym: "tracheal system" BROAD SENSU [FBbt:00005024] xref: BTO:0003870 +xref: FBbt:00005024 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: SPD:0000427 xref: TADS:0000043 is_a: UBERON:0001004 ! respiratory system @@ -217822,6 +220000,7 @@ synonym: "multi-cell-component structure" EXACT [CARO:0001000] synonym: "multi-cell-part structure" EXACT [CARO:0001000] xref: AAO:0011000 xref: CARO:0001000 +xref: FBbt:00007060 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:83115 is_a: UBERON:0000061 ! anatomical structure relationship: RO:0002473 GO:0005575 ! composed primarily of cellular_component @@ -218325,7 +220504,6 @@ def: "Stromal matrix surrounding blood vessels within the choroid plexus." [PMCI synonym: "choroid plexus stromal matrix" EXACT [PMCID:PMC3496674] xref: EMAPA:36609 xref: MA:0000825 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0003891 ! stroma is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0003891 ! stroma @@ -218400,6 +220578,7 @@ synonym: "testis interstitium" EXACT [https://orcid.org/0000-0002-6601-2165] xref: EMAPA:18687 xref: MA:0002713 xref: SCTID:362280005 +is_a: BFO:0000002 is_a: UBERON:0005156 ! reproductive structure is_a: UBERON:0005169 ! interstitial tissue intersection_of: UBERON:0005169 ! interstitial tissue @@ -218459,6 +220638,7 @@ xref: FMA:70983 xref: MA:0002616 xref: NCIT:C33459 xref: SCTID:362210003 +is_a: BFO:0000002 is_a: UBERON:0005169 ! interstitial tissue intersection_of: UBERON:0005169 ! interstitial tissue intersection_of: part_of UBERON:0002113 ! kidney @@ -218911,7 +221091,6 @@ xref: EMAPA:28136 xref: MA:0002608 xref: SCTID:243707006 xref: Wikipedia:Medullary_interstitium -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0005215 ! kidney interstitium intersection_of: UBERON:0005169 ! interstitial tissue intersection_of: part_of UBERON:0001225 ! cortex of kidney @@ -219180,6 +221359,7 @@ xref: UMLS:C0231047 {source="ncithesaurus:Urogenital_Ridge"} xref: UMLS:C1512243 {source="ncithesaurus:Gonadal_Ridge"} xref: Wikipedia:Gonadal_ridge xref: XAO:0000018 +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0004122 ! genitourinary system relationship: RO:0002202 UBERON:0004876 ! develops from urogenital fold @@ -219327,6 +221507,7 @@ namespace: uberon def: "The mammary placode is a transient lens shaped structure that will give rise to the mammary bud proper[GO]." [GO:0060596] synonym: "mammary anlage" RELATED [] xref: EMAPA:35541 +is_a: BFO:0000002 is_a: UBERON:0011814 {source="NCBIBook:NBK53175"} ! non-neurogenic ectodermal placode relationship: part_of UBERON:0000076 {source="PMID:20484386"} ! external ectoderm relationship: RO:0002202 UBERON:0008425 {source="Stedmans"} ! develops from mammary ridge @@ -219635,7 +221816,6 @@ xref: NCIT:C12329 xref: SCTID:181433005 xref: UMLS:C0037855 {source="ncithesaurus:Spermatic_Cord"} xref: Wikipedia:Spermatic_cord -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0005156 ! reproductive structure is_a: UBERON:0034921 ! multi organ part structure relationship: has_part UBERON:0001000 ! vas deferens @@ -220094,6 +222274,7 @@ name: photoreceptor array namespace: uberon def: "An array of photoreceptors and any supporting cells found in an eye." [https://orcid.org/0000-0002-6601-2165] synonym: "light-sensitive tissue" EXACT [] +xref: FBbt:00004200 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: part_of UBERON:0000970 ! eye @@ -220738,8 +222919,10 @@ synonym: "developmental tissue" RELATED [MIAA:0000019] xref: AEO:0000125 xref: CALOHA:TS-2122 xref: EHDAA2:0003125 +xref: FBbt:00007006 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:292313 xref: MIAA:0000019 +is_a: BFO:0000004 is_a: UBERON:0000465 ! material anatomical entity relationship: capable_of GO:0032502 ! developmental process property_value: RO:0002175 NCBITaxon:33090 @@ -221234,6 +223417,7 @@ synonym: "sulcus limitans" BROAD [] xref: BAMS:slim xref: BAMS:slm xref: neuronames:629 +is_a: BFO:0000004 is_a: UBERON:0006846 ! surface groove relationship: part_of UBERON:0005496 {source="EHDAA2"} ! neural tube lateral wall @@ -221559,6 +223743,7 @@ xref: AAO:0011059 xref: EFO:0002578 xref: EMAPA:36007 xref: XAO:0001002 +is_a: BFO:0000002 is_a: UBERON:0001048 {source="XAO"} ! primordium relationship: part_of UBERON:0008947 ! respiratory primordium relationship: RO:0002202 UBERON:0001041 {source="XAO"} ! develops from foregut @@ -221791,6 +223976,7 @@ synonym: "tubotympanic recess" RELATED [EHDAA2:0002095] synonym: "tubotympanic recess cavity" EXACT [] synonym: "tubotympanic recess space" EXACT [] xref: EHDAA2:0002095 +is_a: BFO:0000002 is_a: UBERON:0002553 ! anatomical cavity is_a: UBERON:0007473 ! lumen of epithelial sac intersection_of: UBERON:0002553 ! anatomical cavity @@ -221831,7 +224017,7 @@ xref: EHDAA2:0004112 xref: EMAPA:35904 xref: FMA:5900 xref: XAO:0004143 -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0002049 ! vasculature relationship: has_part UBERON:0001981 ! blood vessel @@ -222409,7 +224595,6 @@ xref: NCIT:C33818 xref: SCTID:61066005 xref: UMLS:C0225342 {source="ncithesaurus:Tunica_Adventitia"} xref: Wikipedia:Tunica_externa_(vessels) -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0004797 {source="cjm"} ! blood vessel layer is_a: UBERON:0005742 ! adventitia relationship: RO:0000086 PATO:0002462 ! has quality collagenous @@ -222666,7 +224851,6 @@ xref: NCIT:C13191 xref: SCTID:68989006 xref: UMLS:C0004799 {source="ncithesaurus:Basement_Membrane"} xref: Wikipedia:Basement_membrane -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0005764 {source="FMA"} ! acellular membrane relationship: adjacent_to CL:0000066 ! epithelial cell relationship: has_part GO:0005587 ! collagen type IV trimer @@ -223049,6 +225233,7 @@ xref: FMA:293051 xref: NCIT:C34204 xref: UMLS:C1512982 {source="ncithesaurus:Mandibular_Prominence"} xref: Wikipedia:Mandibular_prominence +is_a: BFO:0000002 is_a: UBERON:0012314 ! embryonic facial prominence relationship: part_of UBERON:0000166 ! oral opening relationship: RO:0002202 UBERON:0007237 ! develops from 1st arch mandibular component @@ -223072,6 +225257,7 @@ xref: NCIT:C34206 xref: SCTID:346355001 xref: UMLS:C1513037 {source="ncithesaurus:Maxillary_Prominence"} xref: Wikipedia:Maxillary_prominence +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: RO:0002202 UBERON:0007238 ! develops from 1st arch maxillary component property_value: http://xmlns.com/foaf/0.1/depiction "http://upload.wikimedia.org/wikipedia/commons/2/2d/Gray48.png" xsd:anyURI @@ -223094,6 +225280,7 @@ xref: SCTID:361485001 xref: Wikipedia:Nasal_pit xref: XAO:0000275 xref: XAO:0004073 +is_a: BFO:0000002 is_a: UBERON:0016566 {source="EHDAA2"} ! pit relationship: part_of UBERON:0000004 {source="EMAPA"} ! nose relationship: part_of UBERON:0000922 ! embryo @@ -223220,6 +225407,7 @@ xref: FMA:302888 xref: SCTID:308798005 xref: VHOG:0000583 xref: Wikipedia:Genital_tubercle +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0009196 {source="EHDAA2"} ! indifferent external genitalia relationship: RO:0002160 NCBITaxon:32524 {source="https://github.com/obophenotype/uberon/issues/1230"} ! only in taxon Amniota @@ -223248,6 +225436,7 @@ xref: FMA:295672 xref: NCIT:C34250 xref: UMLS:C1280559 {source="ncithesaurus:Pharyngeal_Groove"} xref: Wikipedia:Pharyngeal_groove +is_a: BFO:0000004 is_a: UBERON:0006846 {source="EHDAA2"} ! surface groove relationship: adjacent_to UBERON:0004117 ! pharyngeal pouch relationship: overlaps UBERON:0002539 ! pharyngeal arch @@ -223302,6 +225491,7 @@ xref: AAO:0010370 xref: TAO:0001276 xref: XAO:0003177 xref: ZFA:0001276 +is_a: BFO:0000002 is_a: UBERON:0010912 ! subdivision of skeleton relationship: part_of UBERON:0008895 {source="ZFA"} ! splanchnocranium relationship: RO:0002202 UBERON:0003066 {source="cjm"} ! develops from pharyngeal arch 2 @@ -223315,6 +225505,7 @@ synonym: "celomic epithelium" EXACT [] synonym: "germinal epithelium of Waldeyer" EXACT [Wikipedia:Coelomic_epithelium] xref: Wikipedia:Coelomic_epithelium xref: XAO:0000329 +is_a: BFO:0000002 is_a: UBERON:0000483 ! epithelium relationship: part_of UBERON:0011997 ! coelom relationship: RO:0001025 UBERON:0002323 ! located in coelemic cavity lumen @@ -223451,7 +225642,7 @@ def: "Organ with organ cavity, which has as parts a serous membrane and a serous comment: See notes for serous membrane xref: FMA:9689 xref: SCTID:362890006 -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0000062 ! organ relationship: has_part UBERON:0000042 ! serous membrane relationship: has_part UBERON:0002553 ! anatomical cavity @@ -223491,6 +225682,7 @@ name: zone of bone organ namespace: uberon synonym: "bone organ zone" EXACT [FMA:10483] xref: FMA:10483 +is_a: BFO:0000002 is_a: UBERON:0034944 {source="FMA"} ! zone of organ relationship: part_of UBERON:0001474 ! bone element relationship: RO:0002473 UBERON:0002481 ! composed primarily of bone tissue @@ -223625,6 +225817,7 @@ xref: UMLS:C0222645 {source="ncithesaurus:Axial_Skeleton"} xref: VSAO:0000056 xref: Wikipedia:Axial_skeleton xref: XAO:0004011 +is_a: BFO:0000002 is_a: UBERON:0010912 ! subdivision of skeleton relationship: part_of UBERON:0011137 ! axial skeletal system relationship: RO:0002170 UBERON:0002091 {gci_relation="part_of", gci_filler="NCBITaxon:7776"} ! connected to appendicular skeleton @@ -223800,6 +225993,7 @@ def: "A sheet of somatopleure that grows upward over the embryo and eventually m subset: pheno_slim synonym: "amnionic fold" EXACT [http://placentation.ucsd.edu/glossfs.html] xref: EMAPA:16076 +is_a: BFO:0000002 is_a: UBERON:0000478 ! extraembryonic structure relationship: RO:0002160 NCBITaxon:32524 ! only in taxon Amniota relationship: RO:0002202 UBERON:0004874 {source="ISBN:0073040584"} ! develops from somatopleure @@ -224039,6 +226233,7 @@ name: multi-limb segment region namespace: uberon def: "A collection of two or more connected limb segments. Examples: arm (comprising stylopod and zeugopod regions)." [https://orcid.org/0000-0002-6601-2165] subset: non_informative +is_a: BFO:0000002 is_a: UBERON:0010758 ! subdivision of organism along appendicular axis relationship: has_part UBERON:0002529 ! limb segment property_value: seeAlso "https://github.com/obophenotype/uberon/issues/514" xsd:anyURI @@ -224064,6 +226259,7 @@ namespace: uberon def: "One of the cartilaginous structures surrounding the embryonic spinal cord, formed by the dorsal growth of the dorsolateral arcualia; it is the primordium of the vertebral arch." [BTO:0001763] synonym: "neural arch primordium" RELATED [] xref: BTO:0001763 +is_a: BFO:0000002 is_a: UBERON:0010358 ! arch of centrum of vertebra relationship: has_part UBERON:0002418 ! cartilage tissue relationship: part_of UBERON:0000922 ! embryo @@ -224465,6 +226661,7 @@ subset: pheno_slim synonym: "anterior chamber angle" EXACT [FMA:58577] xref: FMA:58577 xref: SCTID:244498000 +is_a: BFO:0000004 is_a: UBERON:0000015 ! non-material anatomical boundary relationship: part_of UBERON:0003956 ! aqueous drainage system @@ -224512,6 +226709,7 @@ xref: EHDAA:4685 xref: EMAPA:17280 xref: NCIT:C34110 xref: VHOG:0001364 +is_a: BFO:0000004 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0001691 ! external ear @@ -224545,6 +226743,7 @@ xref: FMA:313607 xref: SCTID:361412007 xref: VHOG:0000380 xref: Wikipedia:Buccopharyngeal_membrane +is_a: BFO:0000002 is_a: UBERON:0003037 ! septum relationship: overlaps UBERON:0000930 ! stomodeum relationship: overlaps UBERON:0001042 ! chordate pharynx @@ -224643,6 +226842,7 @@ xref: SCTID:308826008 xref: UMLS:C0231056 {source="ncithesaurus:Cloacal_Membrane"} xref: VHOG:0001198 xref: Wikipedia:Cloacal_membrane +is_a: BFO:0000002 is_a: UBERON:0000158 ! membranous layer relationship: part_of UBERON:0000163 ! embryonic cloaca relationship: RO:0002202 UBERON:0004341 {source="Wikipedia"} ! develops from primitive streak @@ -224718,6 +226918,7 @@ xref: EHDAA2:0000456 xref: EHDAA:8363 xref: EMAPA:18023 xref: FMA:312597 +is_a: BFO:0000002 is_a: UBERON:0001048 ! primordium intersection_of: UBERON:0001048 ! primordium intersection_of: RO:0002387 UBERON:0001679 ! has potential to develop into ethmoid bone @@ -224736,6 +226937,7 @@ synonym: "facio-acoustic preganglion complex" RELATED [EMAPA:16660] xref: EHDAA:1477 xref: EMAPA:16660 xref: RETIRED_EHDAA2:0000496 +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0001714 {source="EHDAA2"} ! cranial ganglion relationship: RO:0002202 UBERON:0005565 ! develops from facio-acoustic neural crest @@ -224914,6 +227116,7 @@ xref: EHDAA2:0000700 xref: EHDAA:3047 xref: EMAPA:16713 xref: XAO:0004205 +is_a: BFO:0000002 is_a: UBERON:0001048 ! primordium is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0001048 ! primordium @@ -225040,6 +227243,7 @@ synonym: "lingual swelling" RELATED [EHDAA2:0000996] xref: EHDAA2:0000996 xref: EMAPA:17186 xref: VHOG:0000449 +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0010188 {source="EHDAA2"} ! protuberance relationship: part_of UBERON:0010056 {source="EHDAA2"} ! future tongue @@ -225141,6 +227345,7 @@ xref: FMA:293135 xref: NCIT:C34232 xref: UMLS:C1518430 {source="ncithesaurus:Notochordal_Process"} xref: VHOG:0001213 +is_a: BFO:0000002 is_a: UBERON:0005423 ! developing anatomical structure relationship: RO:0002160 NCBITaxon:7711 ! only in taxon Chordata relationship: RO:0002202 UBERON:0000924 {source="EHDAA2"} ! develops from ectoderm @@ -225317,6 +227522,7 @@ xref: EHDAA2:0001778 xref: EHDAA:6041 xref: EMAPA:18027 xref: VHOG:0000960 +is_a: BFO:0000002 is_a: UBERON:0015057 ! scapula endochondral element intersection_of: UBERON:0015057 ! scapula endochondral element intersection_of: RO:0002473 UBERON:0005866 ! composed primarily of pre-cartilage condensation @@ -225372,6 +227578,7 @@ synonym: "trigeminal V preganglion" EXACT [EMAPA:16663] xref: EHDAA:924 xref: EMAPA:16663 xref: RETIRED_EHDAA2:0002089 +is_a: BFO:0000002 is_a: UBERON:0003869 ! presumptive ganglion relationship: RO:0002202 UBERON:0005563 ! develops from trigeminal neural crest relationship: RO:0002387 UBERON:0001675 ! has potential to develop into trigeminal ganglion @@ -226132,6 +228339,7 @@ xref: AAO:0000472 xref: EFO:0003462 xref: TAO:0001334 xref: ZFA:0001334 +is_a: BFO:0000002 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: RO:0002387 UBERON:0002005 ! has potential to develop into enteric nervous system @@ -226218,6 +228426,7 @@ xref: SCTID:331712004 xref: UMLS:C0225205 {source="ncithesaurus:Aponeurosis"} xref: Wikipedia:Aponeurosis xref: ZFA:0005652 +is_a: BFO:0000002 is_a: UBERON:0000158 {source="FMA"} ! membranous layer relationship: has_part CL:0000327 {source="AEO"} ! extracellular matrix secreting cell relationship: part_of UBERON:0001630 {source="FMA"} ! muscle organ @@ -226760,6 +228969,7 @@ xref: FMA:312476 xref: SCTID:308821003 xref: VHOG:0000730 xref: Wikipedia:Tuberculum_impar +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0006260 {source="EHDAA2"} ! lingual swellings relationship: RO:0002202 UBERON:0004362 ! develops from pharyngeal arch 1 @@ -226779,6 +228989,7 @@ xref: EMAPA:17189 xref: FMA:313628 xref: VHOG:0000731 xref: Wikipedia:Lateral_lingual_swelling +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0006260 ! lingual swellings relationship: RO:0002202 UBERON:0004362 ! develops from pharyngeal arch 1 @@ -226887,6 +229098,7 @@ synonym: "loose connective tissue" RELATED [AAO:0000027] xref: AAO:0000027 xref: FMA:63897 xref: SCTID:68477002 +is_a: BFO:0000002 is_a: UBERON:0011825 {source="FMA"} ! loose connective tissue relationship: has_part CL:1000303 {source="FMA"} ! fibroblast of areolar connective tissue relationship: part_of UBERON:0000030 ! lamina propria @@ -226909,6 +229121,7 @@ name: lumen of open tracheal system trachea namespace: uberon def: "An anatomical space that surrounded_by a open tracheal system trachea." [OBOL:automatic] synonym: "tracheal lumen" BROAD SENSU [FBbt:00007410] +xref: FBbt:00007410 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: RO:0002572 UBERON:0003127 ! luminal space of open tracheal system trachea @@ -226937,6 +229150,7 @@ namespace: uberon def: "A subdivision of a the reproductive tract in a female organism that is the site of embryo development." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "uterus" BROAD SENSU [FBbt:00004924] +xref: FBbt:00004924 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: TADS:0000421 xref: WBbt:0006760 is_a: UBERON:0005156 ! reproductive structure @@ -227208,7 +229422,9 @@ def: "The distalmost portion of the digestive tract, derived from the hindgut, a synonym: "rectal part of digestive tract" RELATED [] synonym: "rectum" NARROW [FBbt:00005756] synonym: "terminal section of digestive tract" RELATED [] +xref: FBbt:00005756 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: WBbt:0005773 +is_a: BFO:0000002 is_a: UBERON:0004921 ! subdivision of digestive tract relationship: RO:0002150 UBERON:0001245 ! continuous with anus relationship: RO:0002202 UBERON:0001046 ! develops from hindgut @@ -227220,6 +229436,7 @@ namespace: uberon def: "A gland that secretes a seminal fluid." [OBOL:automatic] subset: grouping_class subset: organ_slim +xref: FBbt:00004958 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: WBbt:0006870 is_a: UBERON:0005399 ! male reproductive gland intersection_of: UBERON:0002530 ! gland @@ -227848,6 +230065,7 @@ xref: NCIT:C33638 xref: SCTID:259306002 xref: UMLS:C0737271 {source="ncithesaurus:Stroma_of_the_Ovarian_Cortex"} xref: Wikipedia:Stroma_of_ovary +is_a: BFO:0000002 is_a: UBERON:0003891 ! stroma is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0003891 ! stroma @@ -227892,6 +230110,7 @@ xref: UMLS:C0175322 {source="BIRNLEX:1022"} xref: VHOG:0000244 xref: Wikipedia:Pars_distalis xref: ZFA:0001195 +is_a: UBERON:0005156 ! reproductive structure is_a: UBERON:0010371 ! ecto-epithelium relationship: part_of UBERON:0002196 {source="MA"} ! adenohypophysis @@ -227904,7 +230123,7 @@ subset: efo_slim xref: EFO:0003709 xref: TAO:0005077 xref: ZFA:0005077 -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0005423 ! developing anatomical structure relationship: has_part CL:0000115 ! endothelial cell relationship: has_part CL:0000566 ! angioblastic mesenchymal cell @@ -228008,6 +230227,7 @@ def: "A multicellular organism that existence_ends_with a post-juvenile adult st synonym: "adult" BROAD [] synonym: "adults" EXACT OMO:0003004 [TAO:0002046] xref: BILA:0000078 +xref: FBbt:00003004 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: galen:Adult xref: HAO:0000087 xref: http://neurolex.org/wiki/Category\:Adult_organism @@ -228036,6 +230256,7 @@ xref: BILA:0000084 xref: NCIT:C34268 xref: SCTID:360394002 xref: UMLS:C1514442 {source="ncithesaurus:Primordial_Gut"} +is_a: BFO:0000002 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: RO:0002387 UBERON:0001555 ! has potential to develop into digestive tract @@ -228119,6 +230340,7 @@ xref: NCIT:C34125 xref: SCTID:360403003 xref: UMLS:C0008508 {source="ncithesaurus:Chorionic_Villus"} xref: Wikipedia:Chorionic_villi +is_a: BFO:0000002 is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0003124 {source="BTO"} ! chorion membrane @@ -228324,6 +230546,7 @@ def: "Portion of tissue that consists of the precursors of the pronephric glomus synonym: "corpuscle" RELATED [XAO:0000110] synonym: "glomerulus" RELATED [XAO:0000110] xref: XAO:0000110 +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: RO:0002202 UBERON:0003064 ! develops from intermediate mesoderm @@ -228398,6 +230621,7 @@ synonym: "embryonic tail" RELATED [FMA:85540] synonym: "tail of embryo" EXACT [FMA:85540] xref: EMAPA:16748 xref: FMA:85540 +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: RO:0002494 UBERON:0002533 ! transformation of post-anal tail bud @@ -228533,6 +230757,7 @@ xref: EMAPA:25127 xref: FMA:23242 xref: SCTID:368187009 xref: Wikipedia:Medial_border_of_scapula +is_a: BFO:0000002 is_a: UBERON:0007171 {source="EMAPA-modified"} ! border of scapula relationship: RO:0002254 UBERON:0002329 {source="PMID:20136669"} ! has developmental contribution from somite property_value: IAO:0000116 "consider merging with UBERON:1500000 scapular blade, depending on https://github.com/obophenotype/uberon/issues/339. See also http://www.ncbi.nlm.nih.gov/pubmed/20136669" xsd:string @@ -228632,7 +230857,6 @@ synonym: "bone marrow stroma" EXACT [FMA:21426] xref: CALOHA:TS-0085 xref: FMA:21426 xref: Wikipedia:Bone_marrow#Stroma -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0003891 ! stroma is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0003891 ! stroma @@ -228657,7 +230881,6 @@ xref: FMA:7393 xref: NCIT:C117875 xref: SCTID:361384001 xref: Wikipedia:Tracheobronchial_tree -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000062 ! organ is_a: UBERON:0004119 ! endoderm-derived structure relationship: has_part UBERON:0002185 ! bronchus @@ -228762,7 +230985,7 @@ xref: MIAA:0000399 xref: MmusDv:0000031 xref: OGES:000023 xref: SCTID:367619004 -is_a: BFO:0000003 ! occurrent +is_a: BFO:0000003 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000111 ! organogenesis stage @@ -228794,7 +231017,7 @@ xref: MmusDv:0000096 xref: NIF_Organism:birnlex_695 xref: OGES:000025 xref: Wikipedia:Infant -is_a: BFO:0000003 ! occurrent +is_a: BFO:0000003 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000112 ! sexually immature stage relationship: part_of UBERON:0018685 {gci_relation="part_of", gci_filler="NCBITaxon:40674"} ! nursing stage @@ -229126,6 +231349,7 @@ xref: FMA:295640 xref: TAO:0000569 xref: Wikipedia:Rhombencephalon xref: ZFA:0000569 +is_a: BFO:0000002 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: RO:0002387 UBERON:0002028 ! has potential to develop into hindbrain @@ -229155,6 +231379,7 @@ namespace: uberon def: "A presumptive structure that has the potential to develop into a endocardium." [OBOL:automatic] xref: TAO:0002233 xref: ZFA:0001724 +is_a: BFO:0000002 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: RO:0002387 UBERON:0002165 ! has potential to develop into endocardium @@ -229190,6 +231415,7 @@ synonym: "presumptive segmental plates" RELATED OMO:0003004 [ZFA:0000053] xref: EFO:0003421 xref: TAO:0000053 xref: ZFA:0000053 +is_a: BFO:0000002 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: RO:0002387 UBERON:0003059 ! has potential to develop into presomitic mesoderm @@ -229407,7 +231633,6 @@ synonym: "pancreatic lobule" EXACT [FMA:16012] xref: EMAPA:37710 {source="MA:th"} xref: FMA:16012 xref: MA:0000721 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure relationship: has_part UBERON:0001263 ! pancreatic acinus @@ -229518,6 +231743,7 @@ synonym: "outer epidermal layer" EXACT [] synonym: "outer epithelial layer" EXACT [] xref: BSA:0000073 xref: BTO:0000313 +xref: FBbt:00004993 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: HAO:0000298 xref: TADS:0000109 xref: WBbt:0005733 @@ -229789,6 +232015,7 @@ namespace: uberon def: "Mesenchyme with little extracellular matrix." [AEO:JB] xref: AEO:0000146 xref: EHDAA2:0003146 +is_a: BFO:0000002 is_a: UBERON:0003104 {source="AEO"} ! mesenchyme relationship: has_part CL:0000057 {source="AEO"} ! fibroblast @@ -229799,6 +232026,7 @@ namespace: uberon def: "Mesenchyme whose cells are embedded in obvious amounts of extracellular matrix." [AEO:JB] xref: AEO:0000151 xref: EHDAA2:0003151 +is_a: BFO:0000002 is_a: UBERON:0003104 {source="AEO"} ! mesenchyme relationship: has_part CL:0000057 {source="AEO"} ! fibroblast relationship: has_part CL:0000327 {source="AEO"} ! extracellular matrix secreting cell @@ -229810,6 +232038,7 @@ namespace: uberon def: "Mesenchymal cells that are migrating." [AEO:JB] xref: AEO:0000152 xref: EHDAA2:0003152 +is_a: BFO:0000002 is_a: UBERON:0003104 ! mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: participates_in GO:0016477 ! cell migration @@ -229829,6 +232058,7 @@ xref: EHDAA2:0003233 xref: TAO:0005147 xref: XAO:0004059 xref: ZFA:0005147 +is_a: BFO:0000002 is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: participates_in GO:0031099 ! regeneration @@ -230084,6 +232314,7 @@ synonym: "primary meninx" EXACT [EHDAA2:0004453] synonym: "primitive meninx" RELATED [] synonym: "primordial meninx" RELATED [] xref: EHDAA2:0004453 +is_a: BFO:0000002 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: RO:0002387 UBERON:0002360 ! has potential to develop into meninx @@ -230154,6 +232385,7 @@ name: uriniferous tubule namespace: uberon def: "Functional unit of the kidney that forms urine, consisting of two parts, the nephron and the collecting tubule." [ISBN:0073040584] xref: FMA:17691 +is_a: BFO:0000002 is_a: UBERON:0003914 ! epithelial tube is_a: UBERON:0004819 ! kidney epithelium is_a: UBERON:0006555 ! excretory tube @@ -230196,6 +232428,7 @@ synonym: "organ field" RELATED [] xref: AEO:0000170 xref: EFO:0001649 xref: EHDAA2:0003170 +xref: FBbt:00005426 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: Wikipedia:Anlage_(biology) is_a: UBERON:0000479 {source="FBbt"} ! tissue is_a: UBERON:0005423 {source="AEO", source="FBbt"} ! developing anatomical structure @@ -230208,6 +232441,7 @@ def: "Endodermal bud derived from the endodermal epithelium of the embryonic pha synonym: "diverticulum thyroideum" RELATED OMO:0003011 [Wikipedia:Thyroid_diverticulum] synonym: "saccus thyroideus" RELATED OMO:0003011 [Wikipedia:Thyroid_diverticulum] xref: Wikipedia:Thyroid_diverticulum +is_a: BFO:0000002 is_a: UBERON:0001048 ! primordium relationship: part_of UBERON:0001042 {source="VHOG"} ! chordate pharynx relationship: RO:0002494 UBERON:0003091 ! transformation of thyroid primordium @@ -230417,6 +232651,7 @@ xref: FMA:12276 xref: GAID:1195 xref: MESH:D005122 xref: ncithesaurus:Transudate +is_a: BFO:0000002 is_a: UBERON:0006314 ! bodily fluid intersection_of: UBERON:0000463 ! organism substance intersection_of: filtered_through UBERON:0001982 ! capillary @@ -230468,6 +232703,7 @@ def: "A bridge of mesoderm connecting the caudal end of the young embryo with th xref: BTO:0004705 xref: NCIT:C34132 xref: UMLS:C1516792 {source="ncithesaurus:Connecting_Stalk"} +is_a: BFO:0000002 is_a: UBERON:0000478 {source="EHDAA2"} ! extraembryonic structure relationship: RO:0002202 UBERON:0005728 {source="EHDAA2"} ! develops from extraembryonic mesoderm property_value: IAO:0000116 "TODO - this is currently defined as a bridge of mesoderm, but in EHDAA2 is extraembryonic structure split into mesoderm and blood vessels" xsd:string @@ -230481,6 +232717,7 @@ synonym: "connecting stalk blood vessel" RELATED [] synonym: "connecting stalk blood vessels" EXACT [EHDAA2:0000313] synonym: "vasculature of connecting stalk" RELATED [] xref: EHDAA2:0000313 +is_a: BFO:0000002 is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0007806 ! connecting stalk @@ -230548,6 +232785,7 @@ xref: TAO:0001117 xref: UMLS:C0039259 {source="ncithesaurus:Tail"} xref: XAO:0003026 xref: ZFA:0001117 +is_a: BFO:0000002 is_a: UBERON:0002415 ! tail intersection_of: UBERON:0002415 ! tail intersection_of: part_of UBERON:0006071 ! caudal region @@ -230779,6 +233017,7 @@ xref: FMA:55107 xref: VSAO:0000000 xref: XAO:0004013 xref: ZFA:0001501 +is_a: BFO:0000002 is_a: UBERON:0004765 {source="VSAO"} ! skeletal element intersection_of: UBERON:0004765 ! skeletal element intersection_of: RO:0002473 UBERON:0002418 ! composed primarily of cartilage tissue @@ -230792,7 +233031,7 @@ name: regular connective tissue namespace: uberon def: "Connective tissue, which consists of fibroblasts, the intercellular matrix of which contains a regular network of collagen and elastic fiber bundles. Examples: bone (tissue), cartilage (tissue), dense regular connective tissue." [FMA:20103] xref: FMA:20103 -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0002384 {source="FMA"} ! connective tissue disjoint_from: UBERON:0011821 ! irregular connective tissue relationship: has_part CL:0000057 ! fibroblast @@ -231120,6 +233359,7 @@ xref: MESH:D014083 xref: NCIT:C34313 xref: SCTID:53301001 xref: UMLS:C0040442 {source="ncithesaurus:Tooth_Bud"} +is_a: BFO:0000002 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0011595 {gci_relation="part_of", gci_filler="NCBITaxon:40674"} ! jaw region relationship: RO:0002202 UBERON:0005087 ! develops from tooth placode @@ -231372,6 +233612,7 @@ synonym: "mammary line" RELATED [Wikipedia:Milk_line] synonym: "milk line" RELATED [Wikipedia:Milk_line] xref: EMAPA:18541 xref: Wikipedia:Milk_line +is_a: BFO:0000002 is_a: UBERON:0006598 ! presumptive structure relationship: part_of UBERON:0000915 {gci_relation="part_of", gci_filler="NCBITaxon:9443"} ! thoracic segment of trunk relationship: part_of UBERON:0002100 ! trunk @@ -231568,6 +233809,7 @@ xref: EHDAA:75 xref: EMAPA:16050 xref: NCIT:C34164 xref: UMLS:C1516906 {source="ncithesaurus:Epiblast"} +is_a: BFO:0000002 is_a: UBERON:0002532 ! epiblast (generic) intersection_of: UBERON:0002532 ! epiblast (generic) intersection_of: RO:0002202 UBERON:0000087 ! develops from inner cell mass @@ -231671,6 +233913,7 @@ synonym: "aedeagus" NARROW SENSU [FBbt:00004850] synonym: "copulatory organ" RELATED [] synonym: "penis" NARROW [] xref: AAO:0010255 +xref: FBbt:00004850 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: HAO:0000091 xref: TAO:0002036 xref: TGMA:0000585 @@ -231708,6 +233951,7 @@ namespace: uberon def: "A head that is part of a embryo." [OBOL:automatic] subset: non_informative xref: CALOHA:TS-0246 +xref: FBbt:00000155 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:293011 is_a: UBERON:0000033 ! head intersection_of: UBERON:0000033 ! head @@ -231857,7 +234101,7 @@ xref: MA:0003005 xref: SCTID:410744003 xref: VSAO:0000072 xref: Wikipedia:Ligament#Articular_ligaments -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0000211 ! ligament intersection_of: UBERON:0000211 ! ligament intersection_of: part_of UBERON:0001434 ! skeletal system @@ -232011,7 +234255,7 @@ xref: NCIT:C33426 xref: SCTID:361365004 xref: UMLS:C0225696 {source="ncithesaurus:Pulmonary_Acinus"} xref: Wikipedia:Acinus#The_Lungs -is_a: BFO:0000004 ! independent continuant +is_a: BFO:0000004 is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0010369 ! secondary pulmonary lobule relationship: RO:0002170 UBERON:0002187 ! connected to terminal bronchiole @@ -232124,7 +234368,7 @@ synonym: "pulmonary circulatory system" EXACT [FMA:45621] synonym: "pulmonary system" EXACT [ISBN:0073040584] xref: FMA:45621 xref: Wikipedia:Pulmonary_circulation -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0007798 {source="Obol"} ! vascular system relationship: has_part UBERON:0002012 ! pulmonary artery relationship: has_part UBERON:0002016 ! pulmonary vein @@ -232173,6 +234417,7 @@ xref: VSAO:0000149 xref: Wikipedia:Facial_skeleton xref: XAO:0003176 xref: ZFA:0001216 +is_a: BFO:0000002 is_a: UBERON:0011159 ! primary subdivision of cranial skeletal system disjoint_from: UBERON:0011156 ! facial skeleton relationship: overlaps UBERON:0011156 {gci_relation="part_of", gci_filler="NCBITaxon:89593"} ! facial skeleton @@ -232792,6 +235037,7 @@ synonym: "pregnant adult stage" RELATED [BTO:0004733] synonym: "pregnant organism" RELATED [] synonym: "pregnant stage" RELATED [BTO:0004733] xref: BTO:0004733 +is_a: BFO:0000002 is_a: UBERON:0007023 ! adult organism intersection_of: UBERON:0007023 ! adult organism intersection_of: has_part UBERON:0000922 ! embryo @@ -232865,6 +235111,7 @@ xref: EFO:0000229 xref: TAO:0001198 xref: XAO:0004208 xref: ZFA:0001198 +is_a: BFO:0000002 is_a: UBERON:0002546 ! cranial placode is_a: UBERON:0011814 {source="NCBIBook:NBK53175"} ! non-neurogenic ectodermal placode relationship: RO:0002202 UBERON:0005497 {source="ZFA"} ! develops from non-neural ectoderm @@ -233002,6 +235249,8 @@ def: "Sum total of mesenchyme in the embryo." [https://github.com/obophenotype/h xref: EHDAA2:0001113 xref: EHDAA:177 xref: EMAPA:16097 +is_a: BFO:0000002 +is_a: BFO:0000004 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0000922 ! embryo relationship: RO:0002254 UBERON:0000926 {source="EHDAA2"} ! has developmental contribution from mesoderm @@ -233180,6 +235429,7 @@ xref: EMAPA:32749 xref: FMA:295758 xref: NCIT:C34251 xref: UMLS:C1519040 {source="ncithesaurus:Pharyngeal_Membrane"} +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: has_part UBERON:0000924 ! ectoderm relationship: has_part UBERON:0000925 ! endoderm @@ -233826,6 +236076,7 @@ synonym: "spinal cord lumen" EXACT [EMAPA:25042] xref: EMAPA:25042 xref: FMA:242845 xref: Wikipedia:Central_canal +is_a: BFO:0000002 is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: RO:0002572 UBERON:0002291 ! luminal space of central canal of spinal cord @@ -233841,6 +236092,7 @@ namespace: uberon def: "A sulcus limitans of neural tube that is part of a future medulla oblongata." [OBOL:automatic] xref: EHDAA2:0001100 xref: EMAPA:17561 +is_a: BFO:0000002 is_a: UBERON:0005478 ! sulcus limitans of neural tube intersection_of: UBERON:0005478 ! sulcus limitans of neural tube intersection_of: part_of UBERON:0001896 ! medulla oblongata @@ -234003,6 +236255,7 @@ synonym: "MHB neural plate" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "midbrain-hindbrain boundary neural plate" EXACT [ZFA:0007044] xref: TAO:0007044 xref: ZFA:0007044 +is_a: BFO:0000002 is_a: UBERON:0006598 ! presumptive structure relationship: part_of UBERON:0003075 {source="ZFA"} ! neural plate relationship: RO:0002495 UBERON:0007281 ! immediate transformation of presumptive midbrain hindbrain boundary @@ -234025,6 +236278,7 @@ xref: EMAPA:16140 xref: TAO:0000148 xref: Wikipedia:Mesencephalon xref: ZFA:0000148 +is_a: BFO:0000002 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: RO:0002387 UBERON:0001891 ! has potential to develop into midbrain @@ -234367,6 +236621,7 @@ xref: EHDAA2:0004587 xref: EMAPA:18388 xref: FMA:14598 xref: SCTID:259740004 +is_a: BFO:0000002 is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: RO:0002572 UBERON:0001052 ! luminal space of rectum @@ -234387,6 +236642,7 @@ xref: EHDAA2:0001981 xref: EHDAA:1993 xref: EHDAA:2671 xref: EMAPA:16914 +is_a: BFO:0000002 is_a: UBERON:0013150 ! future brain vesicle relationship: part_of UBERON:0001893 {source="EHDAA2"} ! telencephalon relationship: RO:0002202 UBERON:0006284 {source="EHDAA2"} ! develops from early prosencephalic vesicle @@ -234453,6 +236709,7 @@ synonym: "epithelium of vermiform appendix" EXACT [FMA:63581] xref: CALOHA:TS-2062 xref: EHDAA2:0004561 xref: FMA:63581 +is_a: BFO:0000002 is_a: UBERON:0001278 ! epithelium of large intestine intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001154 ! vermiform appendix @@ -234546,6 +236803,7 @@ xref: EHDAA2:0000868 xref: EHDAA:7856 xref: FMA:295872 xref: Wikipedia:Intermaxillary_segment +is_a: BFO:0000002 is_a: UBERON:0009292 {source="EHDAA2-modified"} ! embryonic nasal process relationship: RO:0002202 UBERON:0004067 ! develops from lateral nasal prominence relationship: RO:0002202 UBERON:0004068 {source="EHDAA2"} ! develops from medial nasal prominence @@ -234917,6 +237175,7 @@ name: urogenital sinus lumen namespace: uberon def: "An anatomical space that surrounded_by a primitive urogenital sinus." [OBOL:automatic] xref: EHDAA2:0002142 +is_a: BFO:0000002 is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: RO:0002572 UBERON:0000164 ! luminal space of primitive urogenital sinus @@ -235002,6 +237261,7 @@ namespace: uberon def: "Branch or outpocketing of the digestive tract." [https://orcid.org/0000-0002-6601-2165] synonym: "diverticulum of gut" RELATED [FBbt:00100316] synonym: "intestinal pouch" RELATED [] +xref: FBbt:00100316 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0004921 ! subdivision of digestive tract is_a: UBERON:0009856 ! sac intersection_of: UBERON:0009856 ! sac @@ -235400,6 +237660,7 @@ synonym: "renunculus" RELATED [http://www.mondofacto.com/facts/dictionary?lobus+ xref: FMA:17670 xref: SCTID:361330004 xref: Wikipedia:Cortical_lobule +is_a: BFO:0000002 is_a: UBERON:0009911 ! lobule intersection_of: UBERON:0009911 ! lobule intersection_of: part_of UBERON:0002113 ! kidney @@ -235528,6 +237789,7 @@ xref: TAO:0001309 xref: Wikipedia:Neurogenic_placodes xref: XAO:0004620 xref: ZFA:0001309 +is_a: BFO:0000002 is_a: UBERON:0002546 {source="cjm"} ! cranial placode intersection_of: UBERON:0005085 ! ectodermal placode intersection_of: RO:0002385 CL:0000540 ! has potential to developmentally contribute to neuron @@ -235552,6 +237814,7 @@ xref: EHDAA2:0004058 xref: FMA:15924 xref: galen:UrinaryBladderCavity xref: SCTID:279405003 +is_a: BFO:0000002 is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 {source="FMA"} ! anatomical space intersection_of: RO:0002572 UBERON:0001255 {source="FMA"} ! luminal space of urinary bladder @@ -235725,6 +237988,7 @@ subset: common_anatomy subset: upper_level synonym: "multicellular structure" EXACT [FBbt:00100313] xref: CARO:0010000 +xref: FBbt:00100313 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: RO:0000086 PATO:0001993 ! has quality multicellular @@ -235742,6 +238006,7 @@ def: "A small cluster of cells of various types which form a discrete structure, comment: Examples include arthropod sensilla. subset: upper_level xref: CARO:0010001 +xref: FBbt:00007229 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000062 {source="CARO"} ! organ is_a: UBERON:0034922 {source="CARO"} ! cell cluster disjoint_from: UBERON:0011216 {source="FBbt"} ! organ system subdivision @@ -235766,6 +238031,8 @@ def: "A regional part of brain consisting of multiple brain regions that are not subset: non_informative synonym: "set of nuclei of neuraxis" RELATED [FMA:256381] xref: NLXANAT:20090509 +is_a: BFO:0000002 +is_a: BFO:0000004 is_a: UBERON:0034923 ! disconnected anatomical group intersection_of: UBERON:0034923 ! disconnected anatomical group intersection_of: part_of UBERON:0000955 ! brain @@ -235925,6 +238192,7 @@ xref: FMA:229084 xref: NCIT:C32130 xref: UMLS:C0226946 {source="ncithesaurus:Apex_of_the_Tongue"} xref: Wikipedia:Anterior_tongue +is_a: BFO:0000002 is_a: UBERON:0000064 ! organ part intersection_of: UBERON:0000064 {source="ISBN:1607950324"} ! organ part intersection_of: part_of UBERON:0001723 {source="ISBN:1607950324"} ! tongue @@ -235949,6 +238217,7 @@ xref: NCIT:C32643 xref: SCTID:268338004 xref: UMLS:C0017130 {source="ncithesaurus:Fundic_Gland"} xref: Wikipedia:Fundic_glands +is_a: BFO:0000002 is_a: UBERON:0000325 ! gastric gland is_a: UBERON:0000414 ! mucous gland intersection_of: UBERON:0000325 ! gastric gland @@ -236213,6 +238482,7 @@ name: future dermis namespace: uberon def: "Mesenchyme that has the potential to develop into a dermis." [OBOL:automatic] xref: EHDAA2:0000598 +is_a: BFO:0000002 is_a: UBERON:0003104 ! mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: RO:0002387 UBERON:0002067 ! has potential to develop into dermis @@ -236228,6 +238498,7 @@ name: future diaphragm namespace: uberon def: "A structure that will develop into a diaphragm." [http://orcid.org/0000-0002-6601-2165] xref: EHDAA2:0000599 +is_a: BFO:0000002 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: RO:0002387 UBERON:0001103 ! has potential to develop into diaphragm @@ -236323,6 +238594,7 @@ namespace: uberon def: "The distal elements of the developing limb of vertebrates that will give rise to the autopod (e.g. manus, pes, paw)." [https://github.com/obophenotype/mammalian-phenotype-ontology/issues/1151, MP:0004576, UBERON:cjm] synonym: "autopod plate" EXACT [] synonym: "limb plate" EXACT [] +is_a: BFO:0000002 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0002050 ! embryonic structure intersection_of: RO:0002387 UBERON:0002470 ! has potential to develop into autopod region @@ -236348,6 +238620,7 @@ def: "Any of the organized aggregations of cells that function as secretory or e subset: pheno_slim synonym: "neuroendocrine system gland" EXACT [] xref: MA:0000720 +is_a: BFO:0000002 is_a: UBERON:0002368 ! endocrine gland intersection_of: UBERON:0002368 ! endocrine gland intersection_of: part_of UBERON:8600018 ! neuroendocrine system @@ -236534,6 +238807,8 @@ synonym: "hairs set" EXACT [FMA:70752] synonym: "pili" EXACT OMO:0003011 [FMA:TA] synonym: "set of hairs" EXACT [FMA:70752] xref: FMA:70752 +is_a: BFO:0000002 +is_a: BFO:0000004 is_a: UBERON:0034925 ! anatomical collection intersection_of: UBERON:0034925 ! anatomical collection intersection_of: RO:0002351 UBERON:0001037 ! has member strand of hair @@ -236737,7 +239012,7 @@ synonym: "thrombus" EXACT [BTO:0000102] xref: BTO:0000102 xref: galen:BloodClot xref: Wikipedia:Thrombus -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0000463 ! organism substance intersection_of: UBERON:0000463 ! organism substance intersection_of: output_of GO:0007596 ! blood coagulation @@ -237170,6 +239445,7 @@ subset: efo_slim synonym: "amnion-serosa" RELATED [BTO:0004800] xref: BTO:0004800 xref: EFO:0000250 +xref: FBbt:00000095 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0010303 {source="DOI:10.1073/pnas.0709145105"} ! extraembryonic epithelium relationship: RO:0002160 NCBITaxon:6656 ! only in taxon Arthropoda property_value: IAO:0000116 "May be obsoleted once added to insect ontology. Coordinate with cell type in CL" xsd:string @@ -237226,6 +239502,7 @@ def: "Developing anatomical structure that develops into the eyeball and associa synonym: "future eye" EXACT [] xref: TAO:0002201 xref: ZFA:0001678 +is_a: BFO:0000002 is_a: UBERON:0005423 ! developing anatomical structure intersection_of: UBERON:0005423 ! developing anatomical structure intersection_of: RO:0002254 UBERON:0003071 ! has developmental contribution from eye primordium @@ -237250,6 +239527,7 @@ name: structure with developmental contribution from neural crest namespace: uberon def: "An anatomical structure that has some part that develops from the neural crest." [https://orcid.org/0000-0002-6601-2165] subset: grouping_class +is_a: BFO:0000002 is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: RO:0002254 UBERON:0002342 ! has developmental contribution from neural crest @@ -237259,6 +239537,7 @@ relationship: RO:0002254 UBERON:0002342 ! has developmental contribution from ne id: UBERON:0010316 name: germ layer / neural crest namespace: uberon +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0005291 ! embryonic tissue relationship: RO:0002202 UBERON:0002532 ! develops from epiblast (generic) @@ -237919,7 +240198,7 @@ property_value: IAO:0000116 "TODO - check" xsd:string id: UBERON:0010394 name: lymphocyte domain namespace: uberon -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0005057 ! immune organ is_a: UBERON:0010001 ! cell cluster organ intersection_of: UBERON:0010001 ! cell cluster organ @@ -238033,6 +240312,7 @@ synonym: "brain marginal zone" BROAD [MA:0000812] xref: DHBA:10508 xref: EMAPA:32680 xref: MA:0000812 +is_a: BFO:0000002 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0000955 ! brain relationship: RO:0002202 UBERON:0004062 ! develops from neural tube marginal layer @@ -238338,6 +240618,7 @@ xref: EHDAA:8105 xref: EMAPA:17953 xref: MA:0002998 xref: VHOG:0001241 +is_a: BFO:0000002 is_a: UBERON:0005423 ! developing anatomical structure relationship: has_part CL:0000354 ! blastemal cell relationship: part_of UBERON:0009871 ! nephrogenic zone @@ -238353,6 +240634,7 @@ synonym: "developing nephron" BROAD [] synonym: "future nephron" EXACT [] synonym: "presumptive nephron" EXACT [] synonym: "primitive nephron" BROAD [] +is_a: BFO:0000002 is_a: UBERON:0003914 {source="EHDAA2-inferred"} ! epithelial tube is_a: UBERON:0004819 ! kidney epithelium is_a: UBERON:0006555 ! excretory tube @@ -238909,6 +241191,7 @@ xref: EMAPA:37863 {source="MA:th"} xref: FMA:7184 xref: SCTID:416631005 xref: VSAO:0000215 +is_a: BFO:0000002 is_a: UBERON:0010707 ! appendage girdle complex intersection_of: UBERON:0010707 ! appendage girdle complex intersection_of: has_part UBERON:0001271 ! pelvic girdle region @@ -239065,7 +241348,8 @@ xref: neuronames:1465 xref: SCTID:362879001 xref: UMLS:C0228116 xref: Wikipedia:Meninges -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 +is_a: BFO:0000004 is_a: UBERON:0034925 ! anatomical collection intersection_of: UBERON:0034925 ! anatomical collection intersection_of: bounding_layer_of UBERON:0001017 ! central nervous system @@ -239158,6 +241442,7 @@ def: "A major subdivision of an organism that divides an organism along an axis subset: upper_level synonym: "appendage segment" EXACT [FBbt:00007018] synonym: "appendicular segment" EXACT [] +xref: FBbt:00007018 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000475 ! organism subdivision relationship: part_of UBERON:0000026 ! appendage @@ -239405,6 +241690,7 @@ xref: BILA:0000046 xref: CARO:0000046 xref: HAO:0000046 xref: TADS:0000609 +is_a: BFO:0000002 is_a: UBERON:0007197 {source="CARO"} ! hermaphroditic organism intersection_of: UBERON:0000468 ! multicellular organism intersection_of: has_part UBERON:0000473 ! testis @@ -239420,6 +241706,7 @@ def: "A primordium that develops into a clavicle bone." [https://github.com/obop comment: lateral part derives from a fish dermal bone while the medial part comes from a spur off the manubrium endochondral bone[JB] synonym: "clavicle primordium" EXACT [] xref: EHDAA2:0000254 +is_a: BFO:0000002 is_a: UBERON:0001048 ! primordium intersection_of: UBERON:0001048 ! primordium intersection_of: RO:0002387 UBERON:0001105 ! has potential to develop into clavicle bone @@ -239467,6 +241754,7 @@ synonym: "vertebra skeletal element" BROAD [https://github.com/obophenotype/uber synonym: "vertebral endochondral element" NARROW [https://github.com/obophenotype/uberon/issues/82] xref: VHOG:0001143 xref: VSAO:0000184 +is_a: BFO:0000002 is_a: UBERON:0004765 {source="VSAO", source="https://github.com/obophenotype/uberon/issues/82"} ! skeletal element relationship: RO:0002202 UBERON:0003089 {source="cjm"} ! develops from sclerotome @@ -240005,6 +242293,7 @@ def: "Subdivision of the skeletal system which consists of the postcranial axial synonym: "axial skeletal system" BROAD [https://github.com/obophenotype/uberon/wiki/The-axial-skeleton] synonym: "post-cranial axial skeletal system" EXACT [] xref: FMA:302077 +is_a: BFO:0000002 is_a: UBERON:0000075 {source="FMA"} ! subdivision of skeletal system relationship: RO:0002202 UBERON:0003089 {source="cjm"} ! develops from sclerotome property_value: seeAlso "http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton" xsd:anyURI @@ -240062,6 +242351,7 @@ xref: FMA:45658 xref: galen:UpperUrinaryTract xref: NCIT:C61107 xref: SCTID:181413006 +is_a: BFO:0000002 is_a: UBERON:0011216 ! organ system subdivision is_a: UBERON:0015212 ! lateral structure relationship: BSPO:0000126 UBERON:0001008 {source="FMA-abduced-lr"} ! renal system @@ -240347,6 +242637,7 @@ def: "A subdivision of an anatomical system." [http://orcid.org/0000-0002-6601-2 subset: common_anatomy subset: human_reference_atlas subset: upper_level +xref: FBbt:00007330 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67509 xref: SCTID:91690000 is_a: UBERON:0010000 {source="FBbt"} ! multicellular anatomical structure @@ -240389,7 +242680,6 @@ id: UBERON:0011234 name: fibrous membrane of synovial tendon sheath namespace: uberon xref: FMA:40877 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: bounding_layer_of UBERON:0000304 ! tendon sheath @@ -240403,6 +242693,7 @@ name: ethmoid region namespace: uberon def: "The most anterior region of the braincase. Provides structural support for peripheral olfactory organ." [http://palaeos.com/vertebrates/bones/braincase/ethmoid.html, UBERONREF:0000007] xref: AAO:0000986 +is_a: BFO:0000002 is_a: UBERON:0034921 ! multi organ part structure relationship: part_of UBERON:0003112 ! olfactory region relationship: RO:0002254 UBERON:0005945 ! has developmental contribution from neurocranial trabecula @@ -240546,7 +242837,6 @@ def: "An acellular strand that runs from subcommissural organ caudally through t synonym: "Reissner's fibre" EXACT [] xref: NLX:151878 xref: Wikipedia:Reissner's_fiber -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000476 ! acellular anatomical structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001017 ! central nervous system @@ -240806,6 +243096,7 @@ name: future upper lip namespace: uberon synonym: "upper jaw future lip" EXACT [EHDAA2:0002120] xref: EHDAA2:0002120 +is_a: BFO:0000002 is_a: UBERON:0000490 {source="EHDAA2"} ! unilaminar epithelium is_a: UBERON:0003235 ! epithelium of upper jaw relationship: RO:0002202 UBERON:0004068 ! develops from medial nasal prominence @@ -240851,6 +243142,7 @@ name: future lower lip namespace: uberon synonym: "lower jaw future lip" EXACT [EHDAA2:0001020] xref: EHDAA2:0001020 +is_a: BFO:0000002 is_a: UBERON:0000490 {source="EHDAA2"} ! unilaminar epithelium is_a: UBERON:0003236 ! epithelium of lower jaw relationship: RO:0002202 UBERON:0005867 {source="Wikipedia:Mandibular_prominence"} ! develops from mandibular prominence @@ -241052,6 +243344,7 @@ synonym: "primordial phallus" RELATED [Wikipedia:Primordial_phallus] xref: NCIT:C34274 xref: UMLS:C1514448 {source="ncithesaurus:Primordial_Phallus"} xref: Wikipedia:Primordial_phallus +is_a: BFO:0000002 is_a: UBERON:0005423 ! developing anatomical structure union_of: UBERON:0006233 ! female genital tubercle union_of: UBERON:0006261 ! male genital tubercle @@ -241101,6 +243394,7 @@ def: "Anatomical projection that is composed of cartilage tissue." [VSAO:wd] synonym: "cartilage process" EXACT [] synonym: "cartilaginous process" EXACT [] xref: FMA:284626 +is_a: BFO:0000002 is_a: UBERON:0004529 ! anatomical projection intersection_of: UBERON:0004529 ! anatomical projection intersection_of: RO:0002473 UBERON:0002418 ! composed primarily of cartilage tissue @@ -241192,6 +243486,7 @@ namespace: uberon def: "An ectodermal placode that gives rise to any of the cutaneous appendages that protrude from the skin epidermis (heair, feathers, epidermal scales)." [https://github.com/obophenotype/uberon/issues/1266] synonym: "cutaneous appendage follicle placode" EXACT [] synonym: "skin follicle placode" EXACT [] +is_a: BFO:0000002 is_a: UBERON:0006598 ! presumptive structure is_a: UBERON:0011814 {source="NCBIBook:NBK53175"} ! non-neurogenic ectodermal placode intersection_of: UBERON:0005085 ! ectodermal placode @@ -241259,7 +243554,6 @@ xref: AAO:0000121 xref: NCIT:C32450 xref: UMLS:C1511770 {source="ncithesaurus:Dense_Connective_Tissue"} xref: Wikipedia:Dense_connective_tissue -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: RO:0002473 UBERON:0011860 ! composed primarily of collection of collagen fibrils @@ -241372,7 +243666,6 @@ xref: FMA:63212 xref: MESH:D024022 xref: NCIT:C32339 xref: NIF_Subcellular:sao7547390221 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000476 {source="ZFA"} ! acellular anatomical structure relationship: RO:0002473 GO:0005581 ! composed primarily of collagen trimer relationship: RO:0002473 GO:0098643 ! composed primarily of banded collagen fibril @@ -241649,7 +243942,7 @@ synonym: "pilosebaceous gland" RELATED [FMA:70661] xref: EMAPA:36582 xref: FMA:70661 xref: Wikipedia:Pilosebaceous_unit -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0000063 ! organ subunit relationship: has_part UBERON:0001821 ! sebaceous gland relationship: has_part UBERON:0002033 ! arrector muscle of hair @@ -241731,7 +244024,6 @@ xref: MA:0001613 xref: NCIT:C77661 xref: SCTID:27633001 xref: UMLS:C0227197 {source="ncithesaurus:Glandular_Stomach"} -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0009870 ! zone of stomach intersection_of: UBERON:0009870 ! zone of stomach intersection_of: has_part UBERON:0006924 ! stomach glandular epithelium @@ -242417,7 +244709,6 @@ xref: NCIT:C12310 xref: SCTID:264459002 xref: UMLS:C0227829 {source="ncithesaurus:Ectocervix"} xref: Wikipedia:Vaginal_portion_of_cervix -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000064 ! organ part is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0000064 ! organ part @@ -242999,6 +245290,7 @@ xref: NCIT:C94494 xref: SCTID:2255006 xref: UMLS:C0225334 {source="ncithesaurus:Subserosa"} xref: Wikipedia:Subserosa +is_a: BFO:0000002 is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: adjacent_to UBERON:0000042 ! serous membrane @@ -243238,7 +245530,6 @@ synonym: "tunica fibrosa" BROAD [] xref: FMA:58102 xref: SCTID:361318005 xref: Wikipedia:Fibrous_tunic_of_eyeball -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004923 {source="FMA"} ! organ component layer is_a: UBERON:0010314 ! structure with developmental contribution from neural crest @@ -244098,6 +246389,7 @@ synonym: "urethral groove" EXACT [] synonym: "urethral sulcus" EXACT [] xref: SCTID:361531004 xref: Wikipedia:Urethral_groove +is_a: BFO:0000002 is_a: UBERON:0002050 ! embryonic structure relationship: RO:0002202 UBERON:0004876 {source="Wikipedia"} ! develops from urogenital fold @@ -244476,6 +246768,7 @@ def: "An anatomical cavity that is part of a ear vesicle." [OBOL:automatic] synonym: "lumen of otocyst" EXACT [EMAPA:25363] xref: EHDAA2:0004121 xref: EMAPA:25363 +is_a: BFO:0000002 is_a: UBERON:0002553 ! anatomical cavity is_a: UBERON:0007473 {source="EHDAA2"} ! lumen of epithelial sac intersection_of: UBERON:0002553 ! anatomical cavity @@ -244559,6 +246852,7 @@ def: "Ossicle that develops within bands of dense, regular connective tissue (e. comment: Sesamoids are often endochondral replacement elements and in addition to bone tissue, may also be composed of articular cartilage, fibrocartilage, hyaline cartilage, and calcified cartilage. synonym: "sesamoid" EXACT [VSAO:0000137] xref: VSAO:0000137 +is_a: BFO:0000002 is_a: UBERON:0010911 {source="VSAO"} ! ossicle relationship: RO:0002160 NCBITaxon:7742 ! only in taxon Vertebrata relationship: RO:0002226 UBERON:0007846 {source="VSAO"} ! develops in dense regular connective tissue @@ -245175,6 +247469,7 @@ xref: EHDAA2:0004424 xref: EMAPA:36024 xref: TAO:0000571 xref: ZFA:0000571 +is_a: BFO:0000002 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: RO:0002387 UBERON:0001893 ! has potential to develop into telencephalon @@ -245233,6 +247528,7 @@ synonym: "gustatory papilla" EXACT [] synonym: "gustatory papillae" RELATED OMO:0003004 [] synonym: "taste papilla" EXACT [] synonym: "taste papillae" RELATED OMO:0003004 [] +is_a: BFO:0000002 is_a: UBERON:0001726 ! papilla of tongue intersection_of: UBERON:0001726 ! papilla of tongue intersection_of: has_part UBERON:0001727 ! taste bud @@ -245370,6 +247666,7 @@ synonym: "gender-specific anatomical structure" EXACT [AEO:0000174] synonym: "sex-specific" EXACT [] xref: AEO:0000174 xref: WBbt:0005752 +is_a: BFO:0000002 is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: output_of GO:0007548 ! sex differentiation @@ -245978,6 +248275,7 @@ def: "An anatomical space that is enclosed by a pleuroperitoneal canal." [OBOL:a synonym: "pleuro-peritoneal canal cavity" EXACT [EMAPA:25034] xref: EHDAA2:0004736 xref: EMAPA:25034 +is_a: BFO:0000002 is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: RO:0002572 UBERON:0006279 ! luminal space of pleuroperitoneal canal @@ -246377,6 +248675,7 @@ synonym: "MZ" BROAD OMO:0003000 [BRAINSPAN:BRAINSPAN, MP:0000792] xref: EMAPA:17546 xref: EMAPA:32713 xref: PBA:294021774 +is_a: BFO:0000002 is_a: UBERON:0014950 ! layer of developing cerebral cortex relationship: part_of UBERON:0010403 ! brain marginal zone relationship: RO:0002202 UBERON:0004062 ! develops from neural tube marginal layer @@ -247053,6 +249352,7 @@ name: non-connected functional system namespace: uberon def: "An anatomical group whose component structures share a common function." [AEO:0000093, AEO:JB, FBbt:00007278, FBC:DOS] xref: AEO:0000093 +xref: FBbt:00007278 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0034923 ! disconnected anatomical group [Term] @@ -247126,6 +249426,7 @@ namespace: uberon def: "A cluster in the epithalamus that consists of the pineal body and any associated structures, such as the parapineal gland or the parietal organ. The complex is poorly developed in mammals." [http://orcid.org/0000-0002-6601-2165] xref: TAO:0001359 xref: ZFA:0001359 +is_a: BFO:0000004 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0001899 {source="ZFA"} ! epithalamus @@ -247852,7 +250153,6 @@ synonym: "tunica fibrosa hepatis" EXACT OMO:0003011 [FMA:15813, FMA:TA] xref: FMA:15813 xref: SCTID:362185005 xref: Wikipedia:Fibrous_capsule_of_Glisson -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0003893 ! capsule is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0003893 ! capsule @@ -248294,6 +250594,7 @@ synonym: "gray matter layer of neuraxis" EXACT [FMA:83142] synonym: "grey matter layer" BROAD [] synonym: "grey matter layer of neuraxis" EXACT [] xref: FMA:83142 +is_a: BFO:0000002 is_a: UBERON:0022303 ! nervous system cell part layer intersection_of: UBERON:0022303 ! nervous system cell part layer intersection_of: RO:0002473 UBERON:0002020 ! composed primarily of gray matter @@ -248308,6 +250609,7 @@ synonym: "CNS white matter layer" EXACT [] synonym: "white matter layer" BROAD [] synonym: "white matter layer of neuraxis" EXACT [FMA:83898] xref: FMA:83898 +is_a: BFO:0000002 is_a: UBERON:0022303 ! nervous system cell part layer intersection_of: UBERON:0022303 ! nervous system cell part layer intersection_of: RO:0002473 UBERON:0002316 ! composed primarily of white matter @@ -248396,6 +250698,8 @@ id: UBERON:0016611 name: auditory hillocks, pharyngeal arch 1 derived namespace: uberon def: "A collection of protruberances derived from pharyngeal arch 1 that develop into the tragus, crus of the helix, and helix." [http://php.med.unsw.edu.au/embryology/index.php?title=Hearing_-_Outer_Ear_Development#Pinna-_Auricle] +is_a: BFO:0000002 +is_a: BFO:0000004 is_a: UBERON:0000477 ! anatomical cluster intersection_of: UBERON:0000477 ! anatomical cluster intersection_of: part_of UBERON:0006208 ! auditory hillocks @@ -248408,6 +250712,8 @@ id: UBERON:0016612 name: auditory hillocks, pharyngeal arch 2 derived namespace: uberon def: "A collection of protruberances derived from pharyngeal arch 2 that develop into the concha, antihelix and antitragus." [http://php.med.unsw.edu.au/embryology/index.php?title=Hearing_-_Outer_Ear_Development#Pinna-_Auricle] +is_a: BFO:0000002 +is_a: BFO:0000004 is_a: UBERON:0000477 ! anatomical cluster intersection_of: UBERON:0000477 ! anatomical cluster intersection_of: part_of UBERON:0006208 ! auditory hillocks @@ -248437,6 +250743,7 @@ alt_id: UBERON:3000469 def: "Primordium that develops into the central nervous system." [http://orcid.org/0000-0002-6601-2165] synonym: "future CNS" EXACT [] synonym: "presumptive central nervous system" EXACT [] +is_a: BFO:0000002 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: RO:0002387 UBERON:0001017 ! has potential to develop into central nervous system @@ -248466,6 +250773,7 @@ namespace: uberon def: "The joint that is formed by the union of the humerus, the scapula (or shoulder blade), and the clavicle (or collarbone). Commonly thought of as a single joint, the shoulder is actually made up of two separate joints - the glenohumeral and acromioclavicular joints." [http://www.innerbody.com/image/skel17.html] synonym: "joint of shoulder region" EXACT [] xref: SCTID:361835002 +is_a: BFO:0000002 is_a: UBERON:0000982 ! skeletal joint intersection_of: UBERON:0000982 ! skeletal joint intersection_of: part_of UBERON:0001467 ! shoulder @@ -248553,6 +250861,7 @@ namespace: uberon def: "A bony structure embedded in skin, roughly equivalent to osteoderms." [PHENOSCAPE:Nizar] synonym: "bony tubercle" BROAD [] synonym: "bony tubercles" RELATED OMO:0003004 [] +is_a: BFO:0000002 is_a: UBERON:0005813 ! tubercle is_a: UBERON:0013703 ! integumentary projection intersection_of: UBERON:0005813 ! tubercle @@ -248904,7 +251213,6 @@ subset: pheno_slim synonym: "pulmonary lymphatic chain" EXACT [FMA:67999] synonym: "pulmonary lymphatic vasculature" RELATED [] xref: FMA:67999 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0011216 ! organ system subdivision intersection_of: UBERON:0011216 ! organ system subdivision @@ -248923,7 +251231,6 @@ subset: human_reference_atlas synonym: "lymphatic vessel of lung" EXACT [] xref: FMA:234006 xref: SCTID:321862009 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0003456 ! respiratory system lymphatic vessel is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0001473 ! lymphatic vessel @@ -249061,6 +251368,7 @@ subset: grouping_class subset: human_reference_atlas xref: EHDAA2:0001842 xref: EMAPA:35578 +is_a: BFO:0000002 is_a: UBERON:0000061 ! anatomical structure relationship: part_of UBERON:0000383 {source="MA"} ! musculature of body relationship: RO:0002473 UBERON:0014892 ! composed primarily of skeletal muscle organ, vertebrate @@ -249118,6 +251426,7 @@ def: "Any organ component layer that consists of muscle tissue." [http://orcid.o xref: FMA:45634 xref: NCIT:C75444 xref: UMLS:C0225358 +is_a: BFO:0000002 is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: RO:0002473 UBERON:0002385 ! composed primarily of muscle tissue @@ -249333,7 +251642,7 @@ name: nursing stage namespace: uberon def: "A mammalian developmental stage that covers the period from birth until weaning." [Bgee:AN] synonym: "suckling stage" EXACT [] -is_a: BFO:0000003 ! occurrent +is_a: BFO:0000003 is_a: UBERON:0000105 ! life cycle stage relationship: has_part UBERON:0007221 ! neonate stage relationship: part_of UBERON:0000092 ! post-embryonic stage @@ -250445,6 +252754,7 @@ namespace: uberon synonym: "pituitary primordium" EXACT [EHDAA2:0001472] xref: EHDAA2:0001472 xref: EMAPA:32796 +is_a: BFO:0000002 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: RO:0002387 UBERON:0000007 ! has potential to develop into pituitary gland @@ -250580,6 +252890,7 @@ namespace: uberon def: "Material anatomical entity consisting of multiple anatomical structures that are not connected to each other." [CARO:0020000] subset: common_anatomy xref: CARO:0020000 +xref: FBbt:00007276 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000465 {source="CARO"} ! material anatomical entity relationship: has_component UBERON:0000061 {minCardinality="2"} ! anatomical structure relationship: RO:0000086 PATO:0010001 ! has quality disconnected @@ -250607,6 +252918,7 @@ name: anatomical row namespace: uberon def: "An anatomical collection that is arranged in a line." [http://orcid.org/0000-0002-6601-2165] subset: common_anatomy +xref: FBbt:00100152 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0034925 ! anatomical collection property_value: IAO:0000116 "resolve if this should be a subclass of or merged with aligned anatomical group." xsd:string property_value: RO:0002175 NCBITaxon:33090 @@ -250631,7 +252943,7 @@ id: UBERON:0034929 name: external soft tissue zone namespace: uberon def: "A region or zone on the surface of an organism that encompasses skin and any adnexa, down through muscles and bounded by underlying skeletal support structures." [http://orcid.org/0000-0002-6601-2165] -is_a: PR:000050567 ! protein-containing material entity +is_a: BFO:0000002 is_a: UBERON:0010000 ! multicellular anatomical structure relationship: has_part UBERON:0000014 ! zone of skin relationship: has_part UBERON:0001015 ! musculature @@ -251135,6 +253447,7 @@ xref: FMA:61695 xref: NCIT:C29667 xref: SCTID:261060002 xref: UMLS:C0489451 +is_a: BFO:0000004 is_a: UBERON:0006984 ! anatomical surface intersection_of: UBERON:0006984 ! anatomical surface intersection_of: RO:0002221 UBERON:0000468 ! surrounds multicellular organism @@ -251840,6 +254153,7 @@ def: "The primordial mouth region of the developing head." [MP:0003119] synonym: "primitive mouth" EXACT [FMA:293105] synonym: "primordial mouth" EXACT [] xref: FMA:293105 +is_a: BFO:0000002 is_a: UBERON:0013522 ! subdivision of tube relationship: has_part UBERON:0000925 ! endoderm relationship: has_part UBERON:0000930 ! stomodeum @@ -252127,6 +254441,7 @@ def: "Material anatomical entity that forms the outermost boundary of an anatomi subset: common_anatomy xref: AAO:0010270 xref: ZFA:0005594 +is_a: BFO:0000004 is_a: UBERON:0000465 ! material anatomical entity relationship: bounding_layer_of UBERON:0000061 ! anatomical structure property_value: RO:0002175 NCBITaxon:33090 @@ -252396,6 +254711,7 @@ subset: human_reference_atlas synonym: "renal pelvis and ureter" EXACT [] synonym: "renal pelvis plus ureter" EXACT [] xref: NCIT:C54419 +is_a: BFO:0000004 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0011143 {source="NCIT"} ! upper urinary tract property_value: RO:0002175 NCBITaxon:9606 @@ -253218,6 +255534,7 @@ synonym: "immature neuromast" RELATED [TAO:0005227] synonym: "proto neuromast" RELATED [TAO:0005227] synonym: "proto-neuromast" RELATED [TAO:0005227] xref: ZFA:0005227 +is_a: BFO:0000004 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0002540 ! lateral line system @@ -253396,6 +255713,7 @@ name: surface of bone namespace: uberon def: "An anatomical surface that is part of a bone." [PHENOSCAPE] synonym: "bone surface" EXACT [] +is_a: BFO:0000004 is_a: UBERON:0006984 ! anatomical surface intersection_of: UBERON:0006984 ! anatomical surface intersection_of: part_of UBERON:0001474 ! bone element @@ -253466,6 +255784,7 @@ synonym: "digit" BROAD [http://orcid.org/0000-0002-6601-2165] synonym: "digit ( phalanges plus metapodial) plus soft tissue" BROAD COMPARATIVE_PREFERRED [http://orcid.org/0000-0002-6601-2165] synonym: "digit digitopodial subdivision" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "digit ray" EXACT [http://orcid.org/0000-0002-6601-2165] +is_a: BFO:0000002 is_a: UBERON:0000475 ! organism subdivision intersection_of: UBERON:0000475 ! organism subdivision intersection_of: RO:0002551 UBERON:5102544 ! has skeleton individual digit of digitopodial skeleton @@ -253520,6 +255839,7 @@ name: arthropod tagma namespace: uberon def: "One of the main divisions of the whole organism of arthropods formed from groups of segments." [doi:10.1016/B978-0-12-385026-3.00024-3] comment: Strictly speaking the term "tagma" cam be used for any metameric organism, however we follow the common usage which is to restrict the term to arthropods. +xref: FBbt:00000002 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0011676 ! subdivision of organism along main body axis relationship: RO:0002160 NCBITaxon:6656 ! only in taxon Arthropoda property_value: RO:0002161 NCBITaxon:7742 @@ -253528,6 +255848,7 @@ property_value: RO:0002161 NCBITaxon:7742 id: UBERON:6000004 name: panarthropod head namespace: uberon +xref: FBbt:00000004 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000033 ! head intersection_of: UBERON:0000033 ! head intersection_of: part_of NCBITaxon:88770 ! Panarthropoda @@ -253538,6 +255859,7 @@ id: UBERON:6000137 name: embryonic tagma namespace: uberon def: "Any tagma (UBERON:6000002) that is part of some embryo (UBERON:6000052)." [FBC:auto_generated_definition] +xref: FBbt:00000137 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:6000002 ! arthropod tagma intersection_of: UBERON:6000002 ! arthropod tagma intersection_of: part_of UBERON:0000922 ! embryo @@ -253548,6 +255870,7 @@ id: UBERON:6001728 name: insect larval tagma namespace: uberon def: "Any tagma (UBERON:6000002) that is part of some larva (UBERON:6001727)." [FBC:auto_generated_definition] +xref: FBbt:00001728 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:6000002 ! arthropod tagma intersection_of: UBERON:6000002 ! arthropod tagma intersection_of: part_of UBERON:0002548 ! larva @@ -253558,6 +255881,7 @@ id: UBERON:6001730 name: insect larval head namespace: uberon def: "Any head that is part of some larva." [FBC:auto_generated_definition] +xref: FBbt:00001730 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000033 ! head intersection_of: UBERON:0000033 ! head intersection_of: part_of UBERON:0002548 ! larva @@ -253571,6 +255895,7 @@ name: insect larval sense organ namespace: uberon def: "Any sense organ that is part of some larva." [FBC:auto_generated_definition] synonym: "larval sense organ" EXACT [] +xref: FBbt:00002639 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000020 ! sense organ intersection_of: UBERON:0000020 ! sense organ intersection_of: part_of UBERON:0002548 ! larva @@ -253583,6 +255908,7 @@ id: UBERON:6003005 name: insect adult tagma namespace: uberon def: "Any tagma (UBERON:6000002) that is part of some adult (UBERON:6003004)." [FBC:auto_generated_definition] +xref: FBbt:00003005 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:6000002 ! arthropod tagma intersection_of: UBERON:6000002 ! arthropod tagma intersection_of: part_of UBERON:0007023 ! adult organism @@ -253593,6 +255919,7 @@ id: UBERON:6003007 name: insect adult head namespace: uberon def: "Head of the adult organism." [FBC:SPR] +xref: FBbt:00003007 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:6000004 ! panarthropod head is_a: UBERON:6003005 ! insect adult tagma intersection_of: UBERON:0000033 ! head @@ -253606,6 +255933,7 @@ name: insect embryonic/larval sensillum namespace: uberon def: "Any sensillum (UBERON:6007152) that is part of some larva (UBERON:6001727)." [FBC:auto_generated_definition] synonym: "larval sensillum" EXACT [] +xref: FBbt:00007240 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0002536 ! arthropod sensillum is_a: UBERON:6002639 ! insect larval sense organ intersection_of: UBERON:0002536 ! arthropod sensillum @@ -253617,6 +255945,7 @@ name: insect embryonic/larval head sensillum namespace: uberon def: "Any sensillum (UBERON:6007152) that is part of some larval head (UBERON:6001730)." [FBC:auto_generated_definition] synonym: "larval head sensillum" NARROW [] +xref: FBbt:00007242 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000963 ! head sensillum is_a: UBERON:6007240 ! insect embryonic/larval sensillum is_a: UBERON:6007280 ! insect embryonic/larval head sense organ @@ -253629,6 +255958,7 @@ name: insect embryonic/larval head sense organ namespace: uberon def: "Any sense organ (UBERON:6005155) that is part of some larval head (UBERON:6001730)." [FBC:auto_generated_definition] synonym: "larval head sense organ" EXACT [] +xref: FBbt:00007280 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:6002639 ! insect larval sense organ intersection_of: UBERON:0000020 ! sense organ intersection_of: part_of UBERON:6001730 ! insect larval head @@ -253967,7 +256297,6 @@ name: ductal plate namespace: uberon def: "In human, ductal plate is a double-layered cylindrical structure of bile duct epithelium that surrounds the portal ramifications by the eighth gestational week. After approximately the 12th gestational week, remodelling of ductal plate begins, and maturity is attained by the end of gestation or early postnatal period." [http://orcid.org/0000-0002-7073-9172, PMID:28515578] subset: added_for_HCA -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0010000 ! multicellular anatomical structure relationship: has_part UBERON:0004820 ! bile duct epithelium @@ -254407,6 +256736,7 @@ name: anorectum namespace: uberon def: "A subdivision of the digestive tract in humans that includes the rectum, the anal canal and the anus." [DOI:10.1007/978-3-319-26938-2_8, DOI:10.1148/rg.2015150037, http://orcid.org/0000-0002-6826-8770, http://orcid.org/0000-0003-3440-1876, PMID:29742860] synonym: "anorectal canal" NARROW [] +is_a: BFO:0000002 is_a: UBERON:0004921 ! subdivision of digestive tract intersection_of: UBERON:0004921 ! subdivision of digestive tract intersection_of: has_part UBERON:0000159 ! anal canal @@ -255272,16 +257602,6 @@ is_functional: true is_a: RO:0002314 ! characteristic of part of inverse_of: bearer_of ! bearer of -[Typedef] -id: RO:0000079 -name: function of -def: "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -property_value: IAO:0000116 "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." xsd:string -domain: BFO:0000034 ! function -is_a: RO:0000052 ! characteristic of -inverse_of: RO:0000085 ! has function - [Typedef] id: RO:0000080 name: quality of @@ -255291,57 +257611,13 @@ property_value: IAO:0000116 "A quality inheres in its bearer at all times for wh is_a: RO:0000052 ! characteristic of inverse_of: RO:0000086 ! has quality -[Typedef] -id: RO:0000081 -name: role of -def: "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -property_value: IAO:0000116 "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." xsd:string -is_a: RO:0000052 ! characteristic of -inverse_of: RO:0000087 ! has role - -[Typedef] -id: RO:0000085 -name: has function -def: "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" [] -property_value: IAO:0000116 "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." xsd:string -domain: BFO:0000004 ! independent continuant -range: BFO:0000034 ! function -is_a: bearer_of ! bearer of - [Typedef] id: RO:0000086 name: has quality def: "a relation between an independent continuant (the bearer) and a quality, in which the quality specifically depends on the bearer for its existence" [] property_value: IAO:0000116 "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." xsd:string -range: BFO:0000019 ! quality -is_a: bearer_of ! bearer of - -[Typedef] -id: RO:0000087 -name: has role -def: "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" [] -property_value: IAO:0000116 "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." xsd:string -domain: BFO:0000004 ! independent continuant -range: BFO:0000023 ! role -is_a: bearer_of ! bearer of - -[Typedef] -id: RO:0000091 -name: has disposition -def: "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" [] -domain: BFO:0000004 ! independent continuant -range: BFO:0000016 ! disposition +range: BFO:0000019 is_a: bearer_of ! bearer of -inverse_of: RO:0000092 ! disposition of - -[Typedef] -id: RO:0000092 -name: disposition of -def: "inverse of has disposition" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -subset: RO:0002259 -is_a: RO:0000052 ! characteristic of [Typedef] id: RO:0001000 @@ -255374,8 +257650,8 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: IAO:0000116 "Location as a relation between instances: The primitive instance-level relation c located_in r at t reflects the fact that each continuant is at any given time associated with exactly one spatial region, namely its exact location. Following we can use this relation to define a further instance-level location relation - not between a continuant and the region which it exactly occupies, but rather between one continuant and another. c is located in c1, in this sense, whenever the spatial region occupied by c is part_of the spatial region occupied by c1. Note that this relation comprehends both the relation of exact location between one continuant and another which obtains when r and r1 are identical (for example, when a portion of fluid exactly fills a cavity), as well as those sorts of inexact location relations which obtain, for example, between brain and head or between ovum and uterus" xsd:string property_value: IAO:0000116 "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" xsd:string property_value: seeAlso "https://wiki.geneontology.org/Located_in" xsd:anyURI -domain: BFO:0000004 {IAO:0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant -range: BFO:0000004 {IAO:0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant +domain: BFO:0000004 {IAO:0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} +range: BFO:0000004 {IAO:0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} is_transitive: true transitive_over: part_of ! part of @@ -255394,8 +257670,8 @@ name: has 2D boundary def: "a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity" [] property_value: IAO:0000116 "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." xsd:string property_value: IAO:0000116 "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." xsd:string -domain: BFO:0000040 ! material entity -range: BFO:0000141 ! immaterial entity +domain: BFO:0000040 +range: BFO:0000141 is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -255411,34 +257687,6 @@ name: has synaptic terminal of is_a: overlaps ! overlaps inverse_of: RO:0002130 ! has synaptic terminal in -[Typedef] -id: RO:0002015 -name: has positive regulatory component activity -def: "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." [] -comment: By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'. -is_a: has_regulatory_component_activity ! has regulatory component activity -is_a: positively_regulated_by ! positively regulated by -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:31:17Z - -[Typedef] -id: RO:0002017 -name: has component activity -comment: A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B. -is_a: RO:0002018 ! has component process -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:44:33Z - -[Typedef] -id: RO:0002018 -name: has component process -def: "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." [] -domain: BFO:0000015 ! process -range: BFO:0000015 ! process -is_a: has_component ! has component -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:49:21Z - [Typedef] id: RO:0002021 name: occurs across @@ -255447,43 +257695,6 @@ is_a: RO:0002479 ! has part that occurs in created_by: https://orcid.org/0000-0002-7073-9172 creation_date: 2017-07-20T17:19:37Z -[Typedef] -id: RO:0002022 -name: directly regulated by -comment: Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. {xref="https://orcid.org/0000-0002-7073-9172"} -is_a: regulated_by ! regulated by -inverse_of: directly_regulates ! directly regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:24Z - -[Typedef] -id: RO:0002023 -name: directly negatively regulated by -def: "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1." [https://orcid.org/0000-0002-7073-9172] -is_a: RO:0002022 ! directly regulated by -inverse_of: directly_negatively_regulates ! directly negatively regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:38Z - -[Typedef] -id: RO:0002024 -name: directly positively regulated by -def: "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1." [https://orcid.org/0000-0002-7073-9172] -is_a: RO:0002022 ! directly regulated by -inverse_of: directly_positively_regulates ! directly positively regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:47Z - -[Typedef] -id: RO:0002025 -name: has effector activity -def: "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity." [https://orcid.org/0000-0002-7073-9172] -comment: This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations. -is_functional: true -is_a: RO:0002017 ! has component activity -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-22T14:14:36Z - [Typedef] id: RO:0002081 name: before or simultaneous with @@ -255610,8 +257821,8 @@ id: RO:0002150 name: continuous with def: "X continuous_with Y if and only if X and Y share a fiat boundary." [] property_value: seeAlso "FMA:85972" xsd:string -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant +domain: BFO:0000004 +range: BFO:0000004 is_symmetric: true is_a: RO:0002323 ! mereotopologically related to @@ -255674,7 +257885,7 @@ name: connects def: "c connects a if and only if there exist some b such that a and b are similar parts of the same system, and c connects b, specifically, c connects a with b. When one structure connects two others it unites some aspect of the function or role they play within the system." [] property_value: seeAlso "https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern" xsd:anyURI property_value: seeAlso "https://github.com/obophenotype/uberon/wiki/Modeling-articulations-Design-Pattern" xsd:anyURI -domain: BFO:0000004 ! independent continuant +domain: BFO:0000004 is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -255705,8 +257916,8 @@ id: RO:0002202 name: develops from def: "x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y" [] comment: This is the transitive form of the develops from relation -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant +domain: BFO:0000004 +range: BFO:0000004 is_transitive: true is_a: RO:0002254 ! has developmental contribution from is_a: RO:0002258 ! developmentally preceded by @@ -255726,7 +257937,7 @@ is_a: RO:0002388 ! has potential to directly develop into id: RO:0002206 name: expressed in def: "x expressed in y if and only if there is a gene expression process (GO:0010467) that occurs in y, and one of the following holds: (i) x is a gene, and x is transcribed into a transcript as part of the gene expression process (ii) x is a transcript, and the transcription of x is part of the gene expression process (iii) x is a mature gene product such as a protein, and x was translated or otherwise processes from a transcript that was transcribed as part of this gene expression process" [] -domain: BFO:0000002 ! continuant +domain: BFO:0000002 range: UBERON:0000465 ! material anatomical entity is_a: RO:0002330 ! genomically related to inverse_of: RO:0002292 ! expresses @@ -255767,8 +257978,8 @@ id: RO:0002222 name: temporally related to comment: A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. subset: ro-eco -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent +domain: BFO:0000003 +range: BFO:0000003 [Typedef] id: RO:0002223 @@ -255860,8 +258071,8 @@ name: developmentally preceded by def: "Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p" [] comment: This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from property_value: IAO:0000116 "false" xsd:boolean -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant +domain: BFO:0000002 +range: BFO:0000002 is_a: RO:0002324 ! developmentally related to inverse_of: RO:0002286 ! developmentally succeeded by @@ -255871,7 +258082,6 @@ name: acts upstream of def: "c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes." [] subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of -holds_over_chain: RO:0002327 causally_upstream_of is_a: RO:0002264 ! acts upstream of or within [Typedef] @@ -255881,7 +258091,6 @@ def: "c acts upstream of or within p if c is enables f, and f is causally upstre subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term synonym: "affects" RELATED [] property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of_or_within is_a: RO:0002500 ! causal agent in process [Typedef] @@ -255933,17 +258142,6 @@ id: RO:0002324 name: developmentally related to def: "A relationship that holds between entities participating in some developmental process (GO:0032502)" [] -[Typedef] -id: RO:0002327 -name: enables -def: "c enables p iff c is capable of p and c acts to execute p." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Enables" xsd:anyURI -is_a: capable_of ! capable of -inverse_of: RO:0002333 ! enabled by -transitive_over: has_part ! has part -transitive_over: RO:0002017 ! has component activity - [Typedef] id: RO:0002328 name: functionally related to @@ -255959,34 +258157,15 @@ is_a: RO:0002328 ! functionally related to id: RO:0002330 name: genomically related to def: "holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts." [] -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant - -[Typedef] -id: RO:0002331 -name: involved in -def: "c involved_in p if and only if c enables some process p', and p' is part of p" [] -property_value: seeAlso "https://wiki.geneontology.org/Involved_in" xsd:anyURI -holds_over_chain: RO:0002327 part_of -is_a: participates_in ! participates in -is_a: RO:0002431 ! involved in or involved in regulation of -transitive_over: part_of ! part of - -[Typedef] -id: RO:0002333 -name: enabled by -def: "inverse of enables" [] -subset: http://purl.obolibrary.org/obo/valid_for_gocam -property_value: seeAlso "https://wiki.geneontology.org/Enabled_by" xsd:anyURI -is_a: has_participant ! has participant -is_a: RO:0002328 ! functionally related to +domain: BFO:0000002 +range: BFO:0000002 [Typedef] id: RO:0002337 name: related via localization to def: "A relationship that holds via some process of localization" [] -domain: BFO:0000015 ! process -range: BFO:0000002 ! continuant +domain: BFO:0000015 +range: BFO:0000002 [Typedef] id: RO:0002350 @@ -256053,8 +258232,8 @@ name: in branching relationship with def: "A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network." [] property_value: seeAlso http://purl.obolibrary.org/obo/ro/docs/branching_part_of.png property_value: seeAlso "https://github.com/obophenotype/uberon/issues/170" xsd:anyURI -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity +domain: BFO:0000040 +range: BFO:0000040 is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -256116,31 +258295,6 @@ name: has potential to directly develop into def: "x has potential to directly develop into y iff x directly develops into y or x is capable of directly developing into y" [] is_a: RO:0002387 ! has potential to develop into -[Typedef] -id: RO:0002407 -name: indirectly positively regulates -def: "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." [] -property_value: seeAlso "https://wiki.geneontology.org/Indirectly_positively_regulates" xsd:anyURI -holds_over_chain: directly_positively_regulates directly_positively_regulates -holds_over_chain: directly_positively_regulates RO:0002407 -holds_over_chain: RO:0002409 RO:0002409 -is_transitive: true -is_a: positively_regulates ! positively regulates -is_a: RO:0012012 ! indirectly regulates -transitive_over: directly_positively_regulates ! directly positively regulates - -[Typedef] -id: RO:0002409 -name: indirectly negatively regulates -def: "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." [] -property_value: seeAlso "https://wiki.geneontology.org/Indirectly_negatively_regulates" xsd:anyURI -holds_over_chain: directly_negatively_regulates directly_negatively_regulates -holds_over_chain: directly_negatively_regulates RO:0002409 -is_transitive: true -is_a: negatively_regulates ! negatively regulates -is_a: RO:0012012 ! indirectly regulates -transitive_over: directly_negatively_regulates ! directly negatively regulates - [Typedef] id: RO:0002410 name: causally related to @@ -256151,28 +258305,9 @@ property_value: IAO:0000116 "This branch of the ontology deals with causal relat id: RO:0002428 name: involved in regulation of def: "c involved in regulation of p if c is involved in some p' and p' regulates some p" [] -holds_over_chain: RO:0002327 regulates -holds_over_chain: RO:0002331 regulates is_a: RO:0002263 ! acts upstream of is_a: RO:0002431 ! involved in or involved in regulation of -[Typedef] -id: RO:0002429 -name: involved in positive regulation of -def: "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" [] -holds_over_chain: RO:0002327 positively_regulates -holds_over_chain: RO:0002331 positively_regulates -is_a: RO:0002428 ! involved in regulation of - -[Typedef] -id: RO:0002430 -name: involved in negative regulation of -def: "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" [] -property_value: RO:0004050 RO:0002428 -holds_over_chain: RO:0002327 negatively_regulates -holds_over_chain: RO:0002331 negatively_regulates -is_a: RO:0002428 ! involved in regulation of - [Typedef] id: RO:0002431 name: involved in or involved in regulation of @@ -256182,87 +258317,19 @@ is_a: RO:0002264 ! acts upstream of or within is_a: RO:0002328 ! functionally related to is_a: RO:0002500 ! causal agent in process -[Typedef] -id: RO:0002432 -name: is active in -def: "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure." [https://orcid.org/0000-0002-6601-2165, https://orcid.org/0000-0002-7073-9172] -synonym: "enables activity in" EXACT [] -property_value: seeAlso "https://wiki.geneontology.org/Is_active_in" xsd:anyURI -is_a: overlaps ! overlaps -is_a: RO:0002328 ! functionally related to - [Typedef] id: RO:0002433 name: contributes to morphology of def: "p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm." [] is_a: overlaps ! overlaps -[Typedef] -id: RO:0002434 -name: interacts with -def: "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." [] -subset: ro-eco -synonym: "in pairwise interaction with" EXACT [] -property_value: IAO:0000116 "Considering relabeling as 'pairwise interacts with'" xsd:anyURI -property_value: IAO:0000116 "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." xsd:string -property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_symmetric: true - -[Typedef] -id: RO:0002436 -name: molecularly interacts with -def: "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." [] -property_value: seeAlso ECO:0000353 -is_symmetric: true -is_a: RO:0002434 ! interacts with - -[Typedef] -id: RO:0002447 -name: phosphorylates -property_value: IAO:0000116 "Axiomatization to GO to be added later" xsd:string -is_a: RO:0002436 ! molecularly interacts with - -[Typedef] -id: RO:0002448 -name: directly regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." [] -synonym: "molecularly controls" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002436 ! molecularly interacts with -is_a: RO:0011002 ! regulates activity of - -[Typedef] -id: RO:0002449 -name: directly negatively regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." [] -synonym: "molecularly decreases activity of" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002448 ! directly regulates activity of - -[Typedef] -id: RO:0002450 -name: directly positively regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." [] -synonym: "molecularly increases activity of" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002448 ! directly regulates activity of - -[Typedef] -id: RO:0002464 -name: helper property (not for use in curation) - [Typedef] id: RO:0002473 name: composed primarily of def: "x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y." [] subset: ro-eco -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity +domain: BFO:0000040 +range: BFO:0000040 is_a: has_part ! has part [Typedef] @@ -256270,13 +258337,8 @@ id: RO:0002479 name: has part that occurs in def: "p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c." [] subset: ro-eco -domain: BFO:0000003 ! occurrent -range: BFO:0000004 ! independent continuant - -[Typedef] -id: RO:0002481 -name: is kinase activity -is_a: RO:0002564 ! molecular interaction relation helper property +domain: BFO:0000003 +range: BFO:0000004 [Typedef] id: RO:0002485 @@ -256294,8 +258356,8 @@ is_a: RO:0002170 ! connected to [Typedef] id: RO:0002487 name: relation between physical entity and a process or stage -domain: BFO:0000004 ! independent continuant -range: BFO:0000003 ! occurrent +domain: BFO:0000004 +range: BFO:0000003 [Typedef] id: RO:0002488 @@ -256392,8 +258454,8 @@ inverse_of: process_has_causal_agent ! process has causal agent id: RO:0002501 name: causal relation between processes def: "p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q." [] -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent +domain: BFO:0000003 +range: BFO:0000003 is_a: RO:0002410 ! causally related to [Typedef] @@ -256401,14 +258463,6 @@ id: RO:0002502 name: depends on property_value: seeAlso BFO:0000169 -[Typedef] -id: RO:0002506 -name: causal relation between entities -property_value: IAO:0000116 "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" xsd:string -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant -is_a: RO:0002410 ! causally related to - [Typedef] id: RO:0002551 name: has skeleton @@ -256419,32 +258473,6 @@ is_a: has_part ! has part inverse_of: RO:0002576 ! skeleton of is_asymmetric: true -[Typedef] -id: RO:0002559 -name: causally influenced by -is_a: RO:0002506 ! causal relation between entities -inverse_of: RO:0002566 ! causally influences - -[Typedef] -id: RO:0002563 -name: interaction relation helper property -property_value: seeAlso http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29 -property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI -is_a: RO:0002464 ! helper property (not for use in curation) - -[Typedef] -id: RO:0002564 -name: molecular interaction relation helper property -is_a: RO:0002563 ! interaction relation helper property - -[Typedef] -id: RO:0002566 -name: causally influences -def: "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." [] -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant -is_a: RO:0002506 ! causal relation between entities - [Typedef] id: RO:0002567 name: biomechanically related to @@ -256474,8 +258502,8 @@ id: RO:0002570 name: conduit for def: "x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x." [] subset: ro-eco -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity +domain: BFO:0000040 +range: BFO:0000040 is_a: overlaps ! overlaps [Typedef] @@ -256483,7 +258511,7 @@ id: RO:0002571 name: lumen of def: "x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull." [] subset: ro-eco -range: BFO:0000040 ! material entity +range: BFO:0000040 is_a: part_of ! part of [Typedef] @@ -256491,7 +258519,7 @@ id: RO:0002572 name: luminal space of def: "s is luminal space of x iff s is lumen_of x and s is an immaterial entity" [] subset: ro-eco -domain: BFO:0000141 ! immaterial entity +domain: BFO:0000141 is_a: RO:0002571 ! lumen of [Typedef] @@ -256522,8 +258550,8 @@ id: RO:0002595 name: causal relation between material entity and a process def: "A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity." [] property_value: IAO:0000116 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string -domain: BFO:0000040 ! material entity -range: BFO:0000015 ! process +domain: BFO:0000040 +range: BFO:0000015 is_a: RO:0002410 ! causally related to [Typedef] @@ -256547,61 +258575,6 @@ def: "Holds between c and p if and only if c is capable of some activity a, and holds_over_chain: capable_of positively_regulates is_a: RO:0002596 ! capable of regulating -[Typedef] -id: RO:0004031 -name: enables subfunction -def: "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." [] -holds_over_chain: RO:0002327 has_part -is_a: RO:0002328 ! functionally related to -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-25T23:20:13Z - -[Typedef] -id: RO:0004032 -name: acts upstream of or within, positive effect -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect" xsd:anyURI -holds_over_chain: RO:0002327 RO:0004047 -is_a: RO:0002264 ! acts upstream of or within -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:49:30Z - -[Typedef] -id: RO:0004033 -name: acts upstream of or within, negative effect -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: RO:0004050 RO:0002264 -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect" xsd:anyURI -holds_over_chain: RO:0002327 RO:0004046 -is_a: RO:0002264 ! acts upstream of or within -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:49:51Z - -[Typedef] -id: RO:0004034 -name: acts upstream of, positive effect -def: "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of,_positive_effect -is_a: RO:0002263 ! acts upstream of -is_a: RO:0004032 ! acts upstream of or within, positive effect -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:53:14Z - -[Typedef] -id: RO:0004035 -name: acts upstream of, negative effect -def: "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: RO:0004050 RO:0002263 -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of,_negative_effect -is_a: RO:0002263 ! acts upstream of -is_a: RO:0004033 ! acts upstream of or within, negative effect -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:53:22Z - [Typedef] id: RO:0004046 name: causally upstream of or within, negative effect @@ -256619,14 +258592,6 @@ is_a: causally_upstream_of_or_within ! causally upstream of or within created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-03-13T23:55:19Z -[Typedef] -id: RO:0011002 -name: regulates activity of -def: "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002566 ! causally influences - [Typedef] id: RO:0012000 name: has small molecule regulator @@ -256654,23 +258619,6 @@ is_a: RO:0012004 ! is small molecule regulator of created_by: https://orcid.org/0000-0003-1813-6857 creation_date: 2020-06-24T13:15:26Z -[Typedef] -id: RO:0012011 -name: indirectly causally upstream of -def: "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." [] -is_a: causally_upstream_of ! causally upstream of -created_by: https://orcid.org/0000-0003-1813-6857 -creation_date: 2022-09-26T06:07:17Z - -[Typedef] -id: RO:0012012 -name: indirectly regulates -def: "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." [] -is_a: regulates ! regulates -is_a: RO:0012011 ! indirectly causally upstream of -created_by: https://orcid.org/0000-0003-1813-6857 -creation_date: 2022-09-26T06:08:01Z - [Typedef] id: RO:0013001 name: has synaptic IO in region @@ -256752,6 +258700,8 @@ id: RO:0017001 name: device utilizes material def: "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y." [] synonym: "utilizes" BROAD [] +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-9625-1899 +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-2620-0345 holds_over_chain: capable_of has_input creation_date: 2021-11-08T12:00:00Z @@ -256778,8 +258728,8 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002220 property_value: IAO:0000116 "This relation acts as a join point with BSPO" xsd:string -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant +domain: BFO:0000004 +range: BFO:0000004 is_a: RO:0002163 ! spatially disjoint from [Typedef] @@ -256799,7 +258749,7 @@ namespace: external def: "Inverse of characteristic_of" [] xref: RO:0000053 property_value: IAO:0000116 "A bearer can have many dependents, and its dependents can exist for different periods of time, but none of its dependents can exist when the bearer does not exist." xsd:string -range: BFO:0000020 ! specifically dependent continuant +range: BFO:0000020 is_inverse_functional: true [Typedef] @@ -256810,7 +258760,7 @@ def: "X outer_layer_of Y iff:\n. X :continuant that bearer_of some PATO:laminar\ comment: A relationship that applies between a continuant and its outer, bounding layer. Examples include the relationship between a multicellular organism and its integument, between an animal cell and its plasma membrane, and between a membrane bound organelle and its outer/bounding membrane. subset: ro-eco xref: RO:0002007 -range: BFO:0000040 ! material entity +range: BFO:0000040 is_a: part_of ! part of [Typedef] @@ -256820,8 +258770,8 @@ namespace: external def: "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. " [] subset: ro-eco xref: RO:0002215 -domain: BFO:0000004 ! independent continuant -range: BFO:0000015 ! process +domain: BFO:0000004 +range: BFO:0000015 is_a: capable_of_part_of ! capable of part of [Typedef] @@ -256920,45 +258870,6 @@ id: channels_into name: channels_into namespace: uberon -[Typedef] -id: directly_negatively_regulates -name: directly negatively regulates -namespace: external -def: "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002630 -property_value: RO:0004050 RO:0002578 -property_value: seeAlso "https://wiki.geneontology.org/Directly_negatively_regulates" xsd:anyURI -is_a: directly_regulates ! directly regulates -is_a: negatively_regulates ! negatively regulates - -[Typedef] -id: directly_positively_regulates -name: directly positively regulates -namespace: external -def: "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002629 -property_value: seeAlso "https://wiki.geneontology.org/Directly_positively_regulates" xsd:anyURI -is_a: directly_regulates ! directly regulates -is_a: positively_regulates ! positively regulates - -[Typedef] -id: directly_regulates -name: directly regulates -namespace: external -def: "p directly regulates q iff p is immediately causally upstream of q and p regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002578 -is_a: immediately_causally_upstream_of ! immediately causally upstream of -is_a: regulates ! regulates - [Typedef] id: distally_connected_to name: distally connected to @@ -257011,8 +258922,8 @@ namespace: external def: "x 'has end location' y if and only if there exists some process z such that x 'ends with' z and z 'occurs in' y" [] subset: ro-eco xref: RO:0002232 -domain: BFO:0000015 ! process -range: BFO:0000004 ! independent continuant +domain: BFO:0000015 +range: BFO:0000004 holds_over_chain: ends_with occurs_in is_a: RO:0002479 ! has part that occurs in @@ -257035,7 +258946,7 @@ subset: http://purl.obolibrary.org/obo/valid_for_gocam subset: ro-eco xref: RO:0002233 property_value: seeAlso "https://wiki.geneontology.org/Has_input" xsd:anyURI -domain: BFO:0000015 ! process +domain: BFO:0000015 holds_over_chain: starts_with has_input is_a: has_participant ! has participant inverse_of: RO:0002352 ! input of @@ -257048,18 +258959,6 @@ property_value: term_tracker_item https://github.com/obophenotype/cell-ontology/ is_obsolete: true replaced_by: RO:0015016 -[Typedef] -id: has_negative_regulatory_component_activity -name: has negative regulatory component activity -namespace: external -def: "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." [] -comment: By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'. -xref: RO:0002014 -is_a: has_regulatory_component_activity ! has regulatory component activity -is_a: negatively_regulated_by ! negatively regulated by -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:31:01Z - [Typedef] id: has_ontology_root_term name: has ontology root term @@ -257108,8 +259007,8 @@ namespace: external def: "a relation between a process and a continuant, in which the continuant is somehow involved in the process" [] xref: RO:0000057 property_value: IAO:0000116 "Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time." xsd:string -domain: BFO:0000003 ! occurrent -range: BFO:0000002 ! continuant +domain: BFO:0000003 +range: BFO:0000002 holds_over_chain: has_part has_participant [Typedef] @@ -257147,17 +259046,6 @@ is_a: has_primary_input_or_output ! has primary input or output created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-12-13T11:26:32Z -[Typedef] -id: has_regulatory_component_activity -name: has regulatory component activity -namespace: external -def: "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." [] -xref: RO:0002013 -is_a: regulated_by ! regulated by -is_a: RO:0002017 ! has component activity -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:30:46Z - [Typedef] id: has_small_molecule_activator name: has small molecule activator @@ -257176,8 +259064,8 @@ namespace: external def: "x 'has starts location' y if and only if there exists some process z such that x 'starts with' z and z 'occurs in' y" [] subset: ro-eco xref: RO:0002231 -domain: BFO:0000015 ! process -range: BFO:0000004 ! independent continuant +domain: BFO:0000015 +range: BFO:0000004 holds_over_chain: starts_with occurs_in is_a: RO:0002479 ! has part that occurs in @@ -257205,24 +259093,6 @@ xref: RO:0002338 is_a: results_in_transport_to_from_or_in ! results in transport to from or in transitive_over: part_of ! part of -[Typedef] -id: immediately_causally_downstream_of -name: immediately causally downstream of -namespace: external -xref: RO:0002405 -is_a: causally_downstream_of ! causally downstream of -is_a: immediately_preceded_by ! immediately preceded by -inverse_of: immediately_causally_upstream_of ! immediately causally upstream of - -[Typedef] -id: immediately_causally_upstream_of -name: immediately causally upstream of -namespace: external -def: "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." [] -xref: RO:0002412 -is_a: causally_upstream_of ! causally upstream of -is_a: immediately_precedes ! immediately precedes - [Typedef] id: immediately_preceded_by name: immediately preceded by @@ -257281,17 +259151,6 @@ is_a: causally_upstream_of,_negative_effect ! causally upstream of, negative eff is_a: regulates ! regulates inverse_of: negatively_regulated_by ! negatively regulated by -[Typedef] -id: negatively_regulates_characteristic -name: negatively regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." [] -xref: RO:0019002 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -holds_over_chain: negatively_regulates positively_regulates_characteristic -holds_over_chain: positively_regulates negatively_regulates_characteristic -is_a: regulates_characteristic ! regulates characteristic - [Typedef] id: occurs_in name: occurs in @@ -257303,8 +259162,8 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: BFO:0000066 property_value: seeAlso "https://wiki.geneontology.org/Occurs_in" xsd:anyURI -domain: BFO:0000003 ! occurrent -range: BFO:0000004 ! independent continuant +domain: BFO:0000003 +range: BFO:0000004 holds_over_chain: part_of occurs_in inverse_of: BFO:0000067 ! contains process transitive_over: part_of ! part of @@ -257365,8 +259224,8 @@ name: participates in namespace: external def: "a relation between a continuant and a process, in which the continuant is somehow involved in the process" [] xref: RO:0000056 -domain: BFO:0000002 ! continuant -range: BFO:0000003 ! occurrent +domain: BFO:0000002 +range: BFO:0000003 inverse_of: has_participant ! has participant [Typedef] @@ -257394,16 +259253,6 @@ is_a: causally_upstream_of,_positive_effect ! causally upstream of, positive eff is_a: regulates ! regulates inverse_of: positively_regulated_by ! positively regulated by -[Typedef] -id: positively_regulates_characteristic -name: positively regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." [] -xref: RO:0019001 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -holds_over_chain: positively_regulates positively_regulates_characteristic -is_a: regulates_characteristic ! regulates characteristic - [Typedef] id: posteriorly_connected_to name: posteriorly connected to @@ -257420,8 +259269,8 @@ def: "x is preceded by y if and only if the time point at which y ends is before subset: ro-eco xref: BFO:0000062 property_value: IAO:0000116 "An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other." xsd:string -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent +domain: BFO:0000003 +range: BFO:0000003 holds_over_chain: part_of preceded_by is_transitive: true is_a: RO:0002086 ! ends after @@ -257434,8 +259283,8 @@ namespace: external def: "x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." [] subset: ro-eco xref: BFO:0000063 -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent +domain: BFO:0000003 +range: BFO:0000003 holds_over_chain: part_of precedes is_transitive: true is_a: RO:0002222 ! temporally related to @@ -257455,8 +259304,8 @@ namespace: external def: "a produced_by b iff some process that occurs_in b has_output a." [] subset: ro-eco xref: RO:0003001 -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity +domain: BFO:0000040 +range: BFO:0000040 [Typedef] id: produces @@ -257466,8 +259315,8 @@ def: "a produces b if some process that occurs_in a has_output b, where a and b comment: Note that this definition doesn't quite distinguish the output of a transformation process from a production process, which is related to the identity/granularity issue. subset: ro-eco xref: RO:0003000 -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity +domain: BFO:0000040 +range: BFO:0000040 inverse_of: produced_by ! produced by [Typedef] @@ -257491,8 +259340,8 @@ namespace: external def: "inverse of regulates" [] subset: RO:0002259 xref: RO:0002334 -domain: BFO:0000015 ! process -range: BFO:0000015 ! process +domain: BFO:0000015 +range: BFO:0000015 is_transitive: true is_a: causally_downstream_of_or_within ! causally downstream of or within @@ -257505,26 +259354,12 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002211 -domain: BFO:0000015 ! process -range: BFO:0000015 ! process -holds_over_chain: directly_regulates directly_regulates +domain: BFO:0000015 +range: BFO:0000015 holds_over_chain: ends_with regulates is_transitive: true is_a: causally_upstream_of ! causally upstream of inverse_of: regulated_by ! regulated by -transitive_over: RO:0002025 ! has effector activity - -[Typedef] -id: regulates_characteristic -name: regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." [] -xref: RO:0019000 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -domain: BFO:0000015 ! process -range: PATO:0000001 ! quality -holds_over_chain: regulates regulates_characteristic -is_a: RO:0002410 ! causally related to [Typedef] id: regulates_levels_of @@ -257532,8 +259367,8 @@ name: regulates levels of namespace: external def: "p regulates levels of c if p regulates some amount (PATO:0000070) of c" [] xref: RO:0002332 -domain: BFO:0000015 ! process -range: BFO:0000040 ! material entity +domain: BFO:0000015 +range: BFO:0000040 is_a: RO:0002328 ! functionally related to [Typedef] diff --git a/src/ontology/components/cellxgene_subset.owl b/src/ontology/components/cellxgene_subset.owl index dc33e3927..0eab455e3 100644 --- a/src/ontology/components/cellxgene_subset.owl +++ b/src/ontology/components/cellxgene_subset.owl @@ -7,8 +7,8 @@ Prefix(rdfs:=) Ontology( - -Annotation(owl:versionInfo "2024-05-14") + +Annotation(owl:versionInfo "2024-05-15") Declaration(Class()) Declaration(Class()) diff --git a/src/ontology/diffs/cl-diff.md b/src/ontology/diffs/cl-diff.md index 73af8cbd1..e8dff5ba5 100644 --- a/src/ontology/diffs/cl-diff.md +++ b/src/ontology/diffs/cl-diff.md @@ -2,12 +2,12 @@ ## Left - Ontology IRI: `http://purl.obolibrary.org/obo/cl.owl` -- Version IRI: `http://purl.obolibrary.org/obo/cl/releases/2024-02-13/cl.owl` +- Version IRI: `http://purl.obolibrary.org/obo/cl/releases/2024-04-05/cl.owl` - Loaded from: `http://purl.obolibrary.org/obo/cl.owl` ## Right - Ontology IRI: `http://purl.obolibrary.org/obo/cl.owl` -- Version IRI: `http://purl.obolibrary.org/obo/cl/releases/2024-04-05/cl.owl` +- Version IRI: `http://purl.obolibrary.org/obo/cl/releases/2024-05-15/cl.owl` - Loaded from: `file:/work/src/ontology/../../cl.owl` ### Ontology imports @@ -16,39054 +16,19835 @@ ### Ontology annotations #### Removed -- [versionInfo](http://www.w3.org/2002/07/owl#versionInfo) "2024-02-13" - -#### Added - [versionInfo](http://www.w3.org/2002/07/owl#versionInfo) "2024-04-05" +#### Added +- [versionInfo](http://www.w3.org/2002/07/owl#versionInfo) "2024-05-15" -### 1st arch mandibular component `http://purl.obolibrary.org/obo/UBERON_0007237` -#### Removed -- [1st arch mandibular component](http://purl.obolibrary.org/obo/UBERON_0007237) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Subsequent vertebrate evolution has also involved major alterations to the pharynx; perhaps the most notable occurred with the evolution of the gnathostomes. This involved substantial modifications to the most anterior pharyngeal segments, with the jaw forming from the first, anterior, pharyngeal segment, while the second formed its supporting apparatus, the hyoid.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000510" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### ADP binding `http://purl.obolibrary.org/obo/GO_0043531` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)" +#### Added +- [ADP binding](http://purl.obolibrary.org/obo/GO_0043531) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### ADP metabolic process `http://purl.obolibrary.org/obo/GO_0046031` -### 1st arch maxillary component `http://purl.obolibrary.org/obo/UBERON_0007238` -#### Removed -- [1st arch maxillary component](http://purl.obolibrary.org/obo/UBERON_0007238) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VHOG:0000511" +#### Added +- [ADP metabolic process](http://purl.obolibrary.org/obo/GO_0046031) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [1st arch maxillary component](http://purl.obolibrary.org/obo/UBERON_0007238) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Subsequent vertebrate evolution has also involved major alterations to the pharynx; perhaps the most notable occurred with the evolution of the gnathostomes. This involved substantial modifications to the most anterior pharyngeal segments, with the jaw forming from the first, anterior, pharyngeal segment, while the second formed its supporting apparatus, the hyoid.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### ADP transport `http://purl.obolibrary.org/obo/GO_0015866` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [ADP transport](http://purl.obolibrary.org/obo/GO_0015866) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000511" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)" +### ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 (human) `http://purl.obolibrary.org/obo/PR_P28907` +#### Removed +- [ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 (human)](http://purl.obolibrary.org/obo/PR_P28907) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "cADPr hydrolase 1 (human)" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "UniProtKB:P28907" +#### Added +- [ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 (human)](http://purl.obolibrary.org/obo/PR_P28907) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "cADPR hydrolase 1 (human)" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "UniProtKB:P28907" -### 1st arch maxillary ectoderm `http://purl.obolibrary.org/obo/UBERON_0012313` +### ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 (mouse) `http://purl.obolibrary.org/obo/PR_P56528` +#### Removed +- [ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 (mouse)](http://purl.obolibrary.org/obo/PR_P56528) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "cADPr hydrolase 1 (mouse)" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "UniProtKB:P56528" #### Added -- [1st arch maxillary ectoderm](http://purl.obolibrary.org/obo/UBERON_0012313) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) +- [ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 (mouse)](http://purl.obolibrary.org/obo/PR_P56528) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "cADPR hydrolase 1 (mouse)" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "UniProtKB:P56528" -### 1st arch pharyngeal cleft `http://purl.obolibrary.org/obo/UBERON_0005872` -#### Removed -- [1st arch pharyngeal cleft](http://purl.obolibrary.org/obo/UBERON_0005872) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In all jawed vertebrates the first arch forms the jaw, while the second arch forms the hyoid apparatus. These two arches are separated by the first pharyngeal pouch and cleft.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### ATP binding `http://purl.obolibrary.org/obo/GO_0005524` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [ATP binding](http://purl.obolibrary.org/obo/GO_0005524) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/j.semcdb.2010.01.022 Grevellec A, Tucker AS, The pharyngeal pouches and clefts: development, evolution, structure and derivatives. Seminars in Cell and Developmental Biology (2010)" +### ATP metabolic process `http://purl.obolibrary.org/obo/GO_0046034` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000969" +#### Added +- [ATP metabolic process](http://purl.obolibrary.org/obo/GO_0046034) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### ATP transport `http://purl.obolibrary.org/obo/GO_0015867` -### 2D boundary of `http://purl.obolibrary.org/obo/RO_0002000` -#### Removed -- [2D boundary of](http://purl.obolibrary.org/obo/RO_0002000) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "2D_boundary_of"@en +#### Added +- [ATP transport](http://purl.obolibrary.org/obo/GO_0015867) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [2D boundary of](http://purl.obolibrary.org/obo/RO_0002000) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) -- [2D boundary of](http://purl.obolibrary.org/obo/RO_0002000) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "surface of"@en +### B cell `http://purl.obolibrary.org/obo/CL_0000236` -- [2D boundary of](http://purl.obolibrary.org/obo/RO_0002000) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "is boundary of"@en +#### Added +- [B cell](http://purl.obolibrary.org/obo/CL_0000236) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009142" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [2D boundary of](http://purl.obolibrary.org/obo/RO_0002000) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "the surface of my skin is a 2D boundary of my body"@en -- [2D boundary of](http://purl.obolibrary.org/obo/RO_0002000) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "is 2D boundary of"@en +### B cell antigen processing and presentation `http://purl.obolibrary.org/obo/GO_0002450` -- [2D boundary of](http://purl.obolibrary.org/obo/RO_0002000) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "boundary of"@en +#### Added +- [B cell antigen processing and presentation](http://purl.obolibrary.org/obo/GO_0002450) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### B cell selection `http://purl.obolibrary.org/obo/GO_0002339` -### 2nd arch ectoderm `http://purl.obolibrary.org/obo/UBERON_0005660` -#### Removed -- [2nd arch ectoderm](http://purl.obolibrary.org/obo/UBERON_0005660) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In all vertebrates, the pharyngeal apparatus develops from a series of bulges found on the lateral surface of the head, the pharyngeal arches, which consist of a number of different embryonic cell types. Each arch has an external covering of ectoderm and inner covering of endoderm, and between these a mesenchymal filling of neural crest with a central core of mesoderm.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001062" +#### Added +- [B cell selection](http://purl.obolibrary.org/obo/GO_0002339) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### B cell tolerance induction `http://purl.obolibrary.org/obo/GO_0002514` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [B cell tolerance induction](http://purl.obolibrary.org/obo/GO_0002514) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)" +### BEST4+ intestinal epithelial cell, human `http://purl.obolibrary.org/obo/CL_4030026` +#### Added +- [BEST4+ intestinal epithelial cell, human](http://purl.obolibrary.org/obo/CL_4030026) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### 2nd arch endoderm `http://purl.obolibrary.org/obo/UBERON_0005664` -#### Removed -- [2nd arch endoderm](http://purl.obolibrary.org/obo/UBERON_0005664) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In all vertebrates, the pharyngeal apparatus develops from a series of bulges found on the lateral surface of the head, the pharyngeal arches, which consist of a number of different embryonic cell types. Each arch has an external covering of ectoderm and inner covering of endoderm, and between these a mesenchymal filling of neural crest with a central core of mesoderm.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001108" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### Bergmann glial cell `http://purl.obolibrary.org/obo/CL_0000644` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [Bergmann glial cell](http://purl.obolibrary.org/obo/CL_0000644) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009282" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)" +### CAP motoneuron `http://purl.obolibrary.org/obo/CL_0000532` +#### Added +- [CAP motoneuron](http://purl.obolibrary.org/obo/CL_0000532) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009243" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### 2nd arch mesenchyme `http://purl.obolibrary.org/obo/UBERON_0005689` +### CD115-positive monocyte `http://purl.obolibrary.org/obo/CL_0001022` #### Removed -- [2nd arch mesenchyme](http://purl.obolibrary.org/obo/UBERON_0005689) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In all vertebrates, the pharyngeal apparatus develops from a series of bulges found on the lateral surface of the head, the pharyngeal arches, which consist of a number of different embryonic cell types. Each arch has an external covering of ectoderm and inner covering of endoderm, and between these a mesenchymal filling of neural crest with a central core of mesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [CD115-positive monocyte](http://purl.obolibrary.org/obo/CL_0001022) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001102" +### CD14-positive monocyte `http://purl.obolibrary.org/obo/CL_0001054` +#### Removed +- [CD14-positive monocyte](http://purl.obolibrary.org/obo/CL_0001054) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### 2nd arch mesenchyme from neural crest `http://purl.obolibrary.org/obo/UBERON_0010254` +### CD25+ mast cell `http://purl.obolibrary.org/obo/CL_0011023` #### Removed -- [2nd arch mesenchyme from neural crest](http://purl.obolibrary.org/obo/UBERON_0010254) SubClassOf [mesenchyme derived from head neural crest](http://purl.obolibrary.org/obo/UBERON_0007213) +- [CD25+ mast cell](http://purl.obolibrary.org/obo/CL_0011023) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -#### Added -- [2nd arch mesenchyme from neural crest](http://purl.obolibrary.org/obo/UBERON_0010254) SubClassOf [mesenchyme from rhombencephalic neural crest](http://purl.obolibrary.org/obo/UBERON_0010258) -### 3rd arch ectoderm `http://purl.obolibrary.org/obo/UBERON_0005661` +### CD34-negative, CD41-positive, CD42-positive megakaryocyte cell `http://purl.obolibrary.org/obo/CL_0002026` #### Removed -- [3rd arch ectoderm](http://purl.obolibrary.org/obo/UBERON_0005661) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In all vertebrates, the pharyngeal apparatus develops from a series of bulges found on the lateral surface of the head, the pharyngeal arches, which consist of a number of different embryonic cell types. Each arch has an external covering of ectoderm and inner covering of endoderm, and between these a mesenchymal filling of neural crest with a central core of mesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [CD34-negative, CD41-positive, CD42-positive megakaryocyte cell](http://purl.obolibrary.org/obo/CL_0002026) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000946" +### CD34-positive, CD38-negative hematopoietic stem cell `http://purl.obolibrary.org/obo/CL_0001024` +#### Removed +- [CD34-positive, CD38-negative hematopoietic stem cell](http://purl.obolibrary.org/obo/CL_0001024) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### 3rd arch endoderm `http://purl.obolibrary.org/obo/UBERON_0005665` +### CD34-positive, CD38-positive common lymphoid progenitor `http://purl.obolibrary.org/obo/CL_0001021` #### Removed -- [3rd arch endoderm](http://purl.obolibrary.org/obo/UBERON_0005665) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In all vertebrates, the pharyngeal apparatus develops from a series of bulges found on the lateral surface of the head, the pharyngeal arches, which consist of a number of different embryonic cell types. Each arch has an external covering of ectoderm and inner covering of endoderm, and between these a mesenchymal filling of neural crest with a central core of mesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [CD34-positive, CD38-positive common lymphoid progenitor](http://purl.obolibrary.org/obo/CL_0001021) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001081" +### CD34-positive, CD38-positive megakaryocyte erythroid progenitor cell `http://purl.obolibrary.org/obo/CL_0002005` +#### Removed +- [CD34-positive, CD38-positive megakaryocyte erythroid progenitor cell](http://purl.obolibrary.org/obo/CL_0002005) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### 3rd arch mesenchyme `http://purl.obolibrary.org/obo/UBERON_0005690` +### CD34-positive, CD41-positive, CD42-negative megakaryocyte progenitor cell `http://purl.obolibrary.org/obo/CL_0002025` #### Removed -- [3rd arch mesenchyme](http://purl.obolibrary.org/obo/UBERON_0005690) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In all vertebrates, the pharyngeal apparatus develops from a series of bulges found on the lateral surface of the head, the pharyngeal arches, which consist of a number of different embryonic cell types. Each arch has an external covering of ectoderm and inner covering of endoderm, and between these a mesenchymal filling of neural crest with a central core of mesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [CD34-positive, CD41-positive, CD42-negative megakaryocyte progenitor cell](http://purl.obolibrary.org/obo/CL_0002025) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001083" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)" +### CD34-positive, CD41-positive, CD42-positive megakaryocyte progenitor cell `http://purl.obolibrary.org/obo/CL_0002023` +#### Removed +- [CD34-positive, CD41-positive, CD42-positive megakaryocyte progenitor cell](http://purl.obolibrary.org/obo/CL_0002023) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### 3rd arch mesenchyme from neural crest `http://purl.obolibrary.org/obo/UBERON_0010255` +### CD7-negative lymphoid progenitor cell `http://purl.obolibrary.org/obo/CL_0001027` #### Removed -- [3rd arch mesenchyme from neural crest](http://purl.obolibrary.org/obo/UBERON_0010255) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In all vertebrates, the pharyngeal apparatus develops from a series of bulges found on the lateral surface of the head, the pharyngeal arches, which consist of a number of different embryonic cell types. Each arch has an external covering of ectoderm and inner covering of endoderm, and between these a mesenchymal filling of neural crest with a central core of mesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [CD7-negative lymphoid progenitor cell](http://purl.obolibrary.org/obo/CL_0001027) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000571" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)" +### CD7-positive lymphoid progenitor cell `http://purl.obolibrary.org/obo/CL_0001028` +#### Removed +- [CD7-positive lymphoid progenitor cell](http://purl.obolibrary.org/obo/CL_0001028) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### 4th arch ectoderm `http://purl.obolibrary.org/obo/UBERON_0005662` +### CD71-negative, GlyA-positive orthochromatic erythroblast `http://purl.obolibrary.org/obo/CL_0002018` #### Removed -- [4th arch ectoderm](http://purl.obolibrary.org/obo/UBERON_0005662) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In all vertebrates, the pharyngeal apparatus develops from a series of bulges found on the lateral surface of the head, the pharyngeal arches, which consist of a number of different embryonic cell types. Each arch has an external covering of ectoderm and inner covering of endoderm, and between these a mesenchymal filling of neural crest with a central core of mesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [CD71-negative, GlyA-positive orthochromatic erythroblast](http://purl.obolibrary.org/obo/CL_0002018) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001095" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)" +### CD8-positive, alpha-beta T cell homeostasis `http://purl.obolibrary.org/obo/GO_0160165` +#### Added +- [CD8-positive, alpha-beta T cell homeostasis](http://purl.obolibrary.org/obo/GO_0160165) [label](http://www.w3.org/2000/01/rdf-schema#label) "CD8-positive, alpha-beta T cell homeostasis" -### 4th arch endoderm `http://purl.obolibrary.org/obo/UBERON_0005666` -#### Removed -- [4th arch endoderm](http://purl.obolibrary.org/obo/UBERON_0005666) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In all vertebrates, the pharyngeal apparatus develops from a series of bulges found on the lateral surface of the head, the pharyngeal arches, which consist of a number of different embryonic cell types. Each arch has an external covering of ectoderm and inner covering of endoderm, and between these a mesenchymal filling of neural crest with a central core of mesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [CD8-positive, alpha-beta T cell homeostasis](http://purl.obolibrary.org/obo/GO_0160165) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "CD8-positive T cell homeostasis" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [CD8-positive, alpha-beta T cell homeostasis](http://purl.obolibrary.org/obo/GO_0160165) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "rynl" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [CD8-positive, alpha-beta T cell homeostasis](http://purl.obolibrary.org/obo/GO_0160165) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0160165" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)" +- [CD8-positive, alpha-beta T cell homeostasis](http://purl.obolibrary.org/obo/GO_0160165) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The process of regulating the proliferation and elimination of CD8-positive alpha-beta T cells such that the total number of CD8-positive alpha-beta T cells within a whole or part of an organism is stable over time in the absence of an outside stimulus." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:33815406" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001092" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:30650357" +- [CD8-positive, alpha-beta T cell homeostasis](http://purl.obolibrary.org/obo/GO_0160165) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "CD8+ T cell homeostasis" +- [CD8-positive, alpha-beta T cell homeostasis](http://purl.obolibrary.org/obo/GO_0160165) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -### 4th arch mesenchyme `http://purl.obolibrary.org/obo/UBERON_0005691` -#### Removed -- [4th arch mesenchyme](http://purl.obolibrary.org/obo/UBERON_0005691) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In all vertebrates, the pharyngeal apparatus develops from a series of bulges found on the lateral surface of the head, the pharyngeal arches, which consist of a number of different embryonic cell types. Each arch has an external covering of ectoderm and inner covering of endoderm, and between these a mesenchymal filling of neural crest with a central core of mesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [CD8-positive, alpha-beta T cell homeostasis](http://purl.obolibrary.org/obo/GO_0160165) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2024-03-04T23:49:25Z" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [CD8-positive, alpha-beta T cell homeostasis](http://purl.obolibrary.org/obo/GO_0160165) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27184"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- Class: [CD8-positive, alpha-beta T cell homeostasis](http://purl.obolibrary.org/obo/GO_0160165) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001052" +- [CD8-positive, alpha-beta T cell homeostasis](http://purl.obolibrary.org/obo/GO_0160165) EquivalentTo [homeostasis of number of cells](http://purl.obolibrary.org/obo/GO_0048872) and ([acts on population of](http://purl.obolibrary.org/obo/RO_0012003) some [CD8-positive, alpha-beta T cell](http://purl.obolibrary.org/obo/CL_0000625)) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)" +- [CD8-positive, alpha-beta T cell homeostasis](http://purl.obolibrary.org/obo/GO_0160165) SubClassOf [T cell homeostasis](http://purl.obolibrary.org/obo/GO_0043029) +- [CD8-positive, alpha-beta T cell homeostasis](http://purl.obolibrary.org/obo/GO_0160165) SubClassOf [acts on population of](http://purl.obolibrary.org/obo/RO_0012003) some [CD8-positive, alpha-beta T cell](http://purl.obolibrary.org/obo/CL_0000625) -### 4th arch mesenchyme from neural crest `http://purl.obolibrary.org/obo/UBERON_0010256` +### CD83 antigen (mouse) `http://purl.obolibrary.org/obo/PR_O88324` #### Removed -- [4th arch mesenchyme from neural crest](http://purl.obolibrary.org/obo/UBERON_0010256) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In all vertebrates, the pharyngeal apparatus develops from a series of bulges found on the lateral surface of the head, the pharyngeal arches, which consist of a number of different embryonic cell types. Each arch has an external covering of ectoderm and inner covering of endoderm, and between these a mesenchymal filling of neural crest with a central core of mesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [CD83 antigen (mouse)](http://purl.obolibrary.org/obo/PR_O88324) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A CD83 molecule that is encoded in the genome of mouse." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PRO:DNx" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000580" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "OMA:O88324" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PANTHER:PTHR15193:SF0" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)" +#### Added +- [CD83 antigen (mouse)](http://purl.obolibrary.org/obo/PR_O88324) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A CD83 molecule that is encoded in the genome of mouse." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PRO:DNx" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "OMA:O88324" -### ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 `http://purl.obolibrary.org/obo/PR_000001408` +### CD9-positive, CD41-positive megakaryocyte cell `http://purl.obolibrary.org/obo/CL_0002027` #### Removed -- [ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1](http://purl.obolibrary.org/obo/PR_000001408) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 (human)](http://purl.obolibrary.org/obo/PR_P28907) +- [CD9-positive, CD41-positive megakaryocyte cell](http://purl.obolibrary.org/obo/CL_0002027) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### Acrogymnospermae `http://purl.obolibrary.org/obo/NCBITaxon_1437180` +### CHEBI_16541 `http://purl.obolibrary.org/obo/CHEBI_16541` #### Removed -- [Acrogymnospermae](http://purl.obolibrary.org/obo/NCBITaxon_1437180) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +- Class: [CHEBI_16541](http://purl.obolibrary.org/obo/CHEBI_16541) -### Actinopteri `http://purl.obolibrary.org/obo/NCBITaxon_186623` +### CHEBI_16670 `http://purl.obolibrary.org/obo/CHEBI_16670` #### Removed -- [Actinopteri](http://purl.obolibrary.org/obo/NCBITaxon_186623) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_class](http://purl.obolibrary.org/obo/NCBITaxon_class) +- Class: [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670) -### Actinopterygii `http://purl.obolibrary.org/obo/NCBITaxon_7898` +### CHEBI_17234 `http://purl.obolibrary.org/obo/CHEBI_17234` #### Removed -- [Actinopterygii](http://purl.obolibrary.org/obo/NCBITaxon_7898) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_superclass](http://purl.obolibrary.org/obo/NCBITaxon_superclass) +- Class: [CHEBI_17234](http://purl.obolibrary.org/obo/CHEBI_17234) -### Alveolata `http://purl.obolibrary.org/obo/NCBITaxon_33630` -#### Removed -- [Alveolata](http://purl.obolibrary.org/obo/NCBITaxon_33630) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +### CHEBI_23367 `http://purl.obolibrary.org/obo/CHEBI_23367` +#### Added +- Class: [CHEBI_23367](http://purl.obolibrary.org/obo/CHEBI_23367) -### Ammon's horn `http://purl.obolibrary.org/obo/UBERON_0001954` +### CHEBI_33568 `http://purl.obolibrary.org/obo/CHEBI_33568` #### Removed -- [Ammon's horn](http://purl.obolibrary.org/obo/UBERON_0001954) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002601](http://purl.obolibrary.org/obo/UBERON_0002601) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [Ammon's horn](http://purl.obolibrary.org/obo/UBERON_0001954) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "hippocampal" - -- [Ammon's horn](http://purl.obolibrary.org/obo/UBERON_0001954) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [dentate gyrus of hippocampal formation](http://purl.obolibrary.org/obo/UBERON_0001885) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [Ammon's horn](http://purl.obolibrary.org/obo/UBERON_0001954) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Non-mammalian species do not have a brain structure that looks like the mammalian hippocampus, but they have one that is considered homologous to it. The hippocampus, as pointed out above, is essentially the medial edge of the cortex. Only mammals have a fully developed cortex, but the structure it evolved from, called the pallium, is present in all vertebrates, even the most primitive ones such as the lamprey or hagfish. The pallium is usually divided into three zones: medial, lateral, and dorsal. The medial pallium forms the precursor of the hippocampus. It does not resemble the hippocampus visually, because the layers are not warped into an S shape or enwrapped by the dentate gyrus, but the homology is indicated by strong chemical and functional affinities. There is now evidence that these hippocampal-like structures are involved in spatial cognition in birds, reptiles, and fish. In birds, the correspondence is sufficiently well established that most anatomists refer to the medial pallial zone as the 'avian hippocampus'. The story for fish is more complex. In teleost fish (which make up the great majority of existing species), the forebrain is distorted in comparison to other types of vertebrates: most neuroanatomists believe that the teleost forebrain is essentially everted, like a sock turned inside-out, so that structures that lie in the interior, next to the ventricles, for most vertebrates, are found on the outside in teleost fish, and vice versa. One of the consequences of this is that the medial pallium ('hippocampal' zone) of a typical vertebrate is thought to correspond to the lateral pallium of a typical fish. Several types of fish (particularly goldfish) have been shown experimentally to have strong spatial memory abilities, even forming 'cognitive maps' of the areas they inhabit.[WP]" +- Class: [CHEBI_33568](http://purl.obolibrary.org/obo/CHEBI_33568) -- [Ammon's horn](http://purl.obolibrary.org/obo/UBERON_0001954) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:32772" - -### Amniota `http://purl.obolibrary.org/obo/NCBITaxon_32524` +### CHEBI_33655 `http://purl.obolibrary.org/obo/CHEBI_33655` #### Removed -- [Amniota](http://purl.obolibrary.org/obo/NCBITaxon_32524) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +- Class: [CHEBI_33655](http://purl.obolibrary.org/obo/CHEBI_33655) -### Amoebozoa `http://purl.obolibrary.org/obo/NCBITaxon_554915` +### CHEBI_33709 `http://purl.obolibrary.org/obo/CHEBI_33709` #### Removed -- [Amoebozoa](http://purl.obolibrary.org/obo/NCBITaxon_554915) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +- Class: [CHEBI_33709](http://purl.obolibrary.org/obo/CHEBI_33709) -### Archaea `http://purl.obolibrary.org/obo/NCBITaxon_2157` +### CHEBI_39124 `http://purl.obolibrary.org/obo/CHEBI_39124` #### Removed -- [Archaea](http://purl.obolibrary.org/obo/NCBITaxon_2157) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_superkingdom](http://purl.obolibrary.org/obo/NCBITaxon_superkingdom) +- Class: [CHEBI_39124](http://purl.obolibrary.org/obo/CHEBI_39124) -### Archelosauria `http://purl.obolibrary.org/obo/NCBITaxon_1329799` -#### Removed -- [Archelosauria](http://purl.obolibrary.org/obo/NCBITaxon_1329799) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +### CHEBI_4167 `http://purl.obolibrary.org/obo/CHEBI_4167` +#### Added +- Class: [CHEBI_4167](http://purl.obolibrary.org/obo/CHEBI_4167) -### Archosauria `http://purl.obolibrary.org/obo/NCBITaxon_8492` -#### Removed -- [Archosauria](http://purl.obolibrary.org/obo/NCBITaxon_8492) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +### CHEBI_4705 `http://purl.obolibrary.org/obo/CHEBI_4705` +#### Added +- Class: [CHEBI_4705](http://purl.obolibrary.org/obo/CHEBI_4705) -### Arthropoda `http://purl.obolibrary.org/obo/NCBITaxon_6656` +### CHEBI_5686 `http://purl.obolibrary.org/obo/CHEBI_5686` #### Removed -- [Arthropoda](http://purl.obolibrary.org/obo/NCBITaxon_6656) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_phylum](http://purl.obolibrary.org/obo/NCBITaxon_phylum) +- Class: [CHEBI_5686](http://purl.obolibrary.org/obo/CHEBI_5686) -### Ascomycota `http://purl.obolibrary.org/obo/NCBITaxon_4890` -#### Removed -- [Ascomycota](http://purl.obolibrary.org/obo/NCBITaxon_4890) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_phylum](http://purl.obolibrary.org/obo/NCBITaxon_phylum) +### CHEBI_60466 `http://purl.obolibrary.org/obo/CHEBI_60466` +#### Added +- Class: [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466) -### Aves `http://purl.obolibrary.org/obo/NCBITaxon_8782` -#### Removed -- [Aves](http://purl.obolibrary.org/obo/NCBITaxon_8782) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_class](http://purl.obolibrary.org/obo/NCBITaxon_class) +### CHEBI_71406 `http://purl.obolibrary.org/obo/CHEBI_71406` +#### Added +- Class: [CHEBI_71406](http://purl.obolibrary.org/obo/CHEBI_71406) -### B-cell lymphoma 6 protein `http://purl.obolibrary.org/obo/PR_000003450` -#### Removed -- [B-cell lymphoma 6 protein](http://purl.obolibrary.org/obo/PR_000003450) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [B-cell lymphoma 6 protein (human)](http://purl.obolibrary.org/obo/PR_P41182) +### CNS interneuron `http://purl.obolibrary.org/obo/CL_0000402` +#### Added +- [CNS interneuron](http://purl.obolibrary.org/obo/CL_0000402) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009191" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### B-cell receptor CD22 `http://purl.obolibrary.org/obo/PR_000001288` -#### Removed -- [B-cell receptor CD22](http://purl.obolibrary.org/obo/PR_000001288) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [B-cell receptor CD22 (human)](http://purl.obolibrary.org/obo/PR_P20273) +### CNS long range interneuron `http://purl.obolibrary.org/obo/CL_0000410` +#### Added +- [CNS long range interneuron](http://purl.obolibrary.org/obo/CL_0000410) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009195" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### Bacteria `http://purl.obolibrary.org/obo/NCBITaxon_2` -#### Removed -- [Bacteria](http://purl.obolibrary.org/obo/NCBITaxon_2) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_superkingdom](http://purl.obolibrary.org/obo/NCBITaxon_superkingdom) +### CNS neuron (sensu Nematoda and Protostomia) `http://purl.obolibrary.org/obo/CL_0000028` +#### Added +- [CNS neuron (sensu Nematoda and Protostomia)](http://purl.obolibrary.org/obo/CL_0000028) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### Bilateria `http://purl.obolibrary.org/obo/NCBITaxon_33213` -#### Removed -- [Bilateria](http://purl.obolibrary.org/obo/NCBITaxon_33213) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +### CNS neuron (sensu Vertebrata) `http://purl.obolibrary.org/obo/CL_0000117` +#### Added +- [CNS neuron (sensu Vertebrata)](http://purl.obolibrary.org/obo/CL_0000117) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009067" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [CNS neuron (sensu Vertebrata)](http://purl.obolibrary.org/obo/CL_0000117) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### Boreoeutheria `http://purl.obolibrary.org/obo/NCBITaxon_1437010` -#### Removed -- [Boreoeutheria](http://purl.obolibrary.org/obo/NCBITaxon_1437010) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +### CNS short range interneuron `http://purl.obolibrary.org/obo/CL_0000406` +#### Added +- [CNS short range interneuron](http://purl.obolibrary.org/obo/CL_0000406) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009194" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### Bowman's space `http://purl.obolibrary.org/obo/UBERON_0001286` -#### Removed -- [Bowman's space](http://purl.obolibrary.org/obo/UBERON_0001286) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Space between the renal glomerulus and the glomerular capsule. Renal filtrate collects here then passes into the renal tubule.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005312" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +### Caenorhabditis hypodermal cell `http://purl.obolibrary.org/obo/CL_0000411` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005283" +#### Added +- [Caenorhabditis hypodermal cell](http://purl.obolibrary.org/obo/CL_0000411) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009196" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### Cajal-Retzius cell `http://purl.obolibrary.org/obo/CL_0000695` +#### Added +- [Cajal-Retzius cell](http://purl.obolibrary.org/obo/CL_0000695) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009300" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### C-C chemokine receptor type 1 `http://purl.obolibrary.org/obo/PR_000001254` -#### Removed -- [C-C chemokine receptor type 1](http://purl.obolibrary.org/obo/PR_000001254) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [C-C chemokine receptor type 1 (human)](http://purl.obolibrary.org/obo/PR_P32246) +### D1/D2-hybrid medium spiny neuron `http://purl.obolibrary.org/obo/CL_4030050` +#### Added +- [D1/D2-hybrid medium spiny neuron](http://purl.obolibrary.org/obo/CL_4030050) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### C-C chemokine receptor type 2 `http://purl.obolibrary.org/obo/PR_000001199` +### DN1 thymic pro-T cell `http://purl.obolibrary.org/obo/CL_0000894` #### Removed -- [C-C chemokine receptor type 2](http://purl.obolibrary.org/obo/PR_000001199) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [C-C chemokine receptor type 2 (human)](http://purl.obolibrary.org/obo/PR_P41597) +- [DN1 thymic pro-T cell](http://purl.obolibrary.org/obo/CL_0000894) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### C-C chemokine receptor type 3 `http://purl.obolibrary.org/obo/PR_000001255` -#### Removed -- [C-C chemokine receptor type 3](http://purl.obolibrary.org/obo/PR_000001255) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [C-C chemokine receptor type 3 (human)](http://purl.obolibrary.org/obo/PR_P51677) +### DNA binding `http://purl.obolibrary.org/obo/GO_0003677` +#### Added +- [DNA binding](http://purl.obolibrary.org/obo/GO_0003677) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) +- [DNA binding](http://purl.obolibrary.org/obo/GO_0003677) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -### C-C chemokine receptor type 4 `http://purl.obolibrary.org/obo/PR_000001200` -#### Removed -- [C-C chemokine receptor type 4](http://purl.obolibrary.org/obo/PR_000001200) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [C-C chemokine receptor type 4 (human)](http://purl.obolibrary.org/obo/PR_P51679) +- [DNA binding](http://purl.obolibrary.org/obo/GO_0003677) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) +- [DNA binding](http://purl.obolibrary.org/obo/GO_0003677) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### C-C chemokine receptor type 5 `http://purl.obolibrary.org/obo/PR_000001201` +### DNA metabolic process `http://purl.obolibrary.org/obo/GO_0006259` #### Removed -- [C-C chemokine receptor type 5](http://purl.obolibrary.org/obo/PR_000001201) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [C-C chemokine receptor type 5 (human)](http://purl.obolibrary.org/obo/PR_P51681) - +- [DNA metabolic process](http://purl.obolibrary.org/obo/GO_0006259) SubClassOf [macromolecule metabolic process](http://purl.obolibrary.org/obo/GO_0043170) +#### Added +- [DNA metabolic process](http://purl.obolibrary.org/obo/GO_0006259) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) -### C-C chemokine receptor type 6 `http://purl.obolibrary.org/obo/PR_000001202` -#### Removed -- [C-C chemokine receptor type 6](http://purl.obolibrary.org/obo/PR_000001202) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [C-C chemokine receptor type 6 (human)](http://purl.obolibrary.org/obo/PR_P51684) +- [DNA metabolic process](http://purl.obolibrary.org/obo/GO_0006259) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) +- [DNA metabolic process](http://purl.obolibrary.org/obo/GO_0006259) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +- [DNA metabolic process](http://purl.obolibrary.org/obo/GO_0006259) SubClassOf [metabolic process](http://purl.obolibrary.org/obo/GO_0008152) -### C-C chemokine receptor type 7 `http://purl.obolibrary.org/obo/PR_000001203` -#### Removed -- [C-C chemokine receptor type 7](http://purl.obolibrary.org/obo/PR_000001203) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [C-C chemokine receptor type 7 (human)](http://purl.obolibrary.org/obo/PR_P32248) +### DNA recombination `http://purl.obolibrary.org/obo/GO_0006310` +#### Added +- [DNA recombination](http://purl.obolibrary.org/obo/GO_0006310) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -### C-C motif chemokine 3 `http://purl.obolibrary.org/obo/PR_000002123` -#### Removed -- [C-C motif chemokine 3](http://purl.obolibrary.org/obo/PR_000002123) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [C-C motif chemokine 3 (human)](http://purl.obolibrary.org/obo/PR_P10147) +### DNA transport `http://purl.obolibrary.org/obo/GO_0051027` +#### Added +- [DNA transport](http://purl.obolibrary.org/obo/GO_0051027) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### C-X-C chemokine receptor type 1 `http://purl.obolibrary.org/obo/PR_000001256` -#### Removed -- [C-X-C chemokine receptor type 1](http://purl.obolibrary.org/obo/PR_000001256) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [C-X-C chemokine receptor type 1 (human)](http://purl.obolibrary.org/obo/PR_P25024) +### DNA-binding transcription activator activity `http://purl.obolibrary.org/obo/GO_0001216` +#### Added +- [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "transcriptional activator activity, bacterial-type RNA polymerase core promoter proximal region sequence-specific binding" -### C-X-C chemokine receptor type 2 `http://purl.obolibrary.org/obo/PR_000001257` -#### Removed -- [C-X-C chemokine receptor type 2](http://purl.obolibrary.org/obo/PR_000001257) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [C-X-C chemokine receptor type 2 (human)](http://purl.obolibrary.org/obo/PR_P25025) +- [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity involved in positive regulation of transcription" +- [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001215" +- [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A DNA-binding transcription factor activity that activates or increases transcription of specific gene sets." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH-2018" -### C-X-C chemokine receptor type 3 `http://purl.obolibrary.org/obo/PR_000001207` -#### Removed -- [C-X-C chemokine receptor type 3](http://purl.obolibrary.org/obo/PR_000001207) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [C-X-C chemokine receptor type 3 (human)](http://purl.obolibrary.org/obo/PR_P49682) +- [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "bacterial-type RNA polymerase core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription" +- [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2011-01-26T03:09:27Z" +- [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "molecular_function" -### C-X-C chemokine receptor type 4 `http://purl.obolibrary.org/obo/PR_000001208` -#### Removed -- [C-X-C chemokine receptor type 4](http://purl.obolibrary.org/obo/PR_000001208) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [C-X-C chemokine receptor type 4 (human)](http://purl.obolibrary.org/obo/PR_P61073) +- [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001140" +- [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "transcriptional activator activity, bacterial-type RNA polymerase proximal promoter sequence-specific DNA binding" +- [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "For usage guidance, see comment in GO:0003700 ; DNA-binding transcription factor activity." -### C-X-C chemokine receptor type 5 `http://purl.obolibrary.org/obo/PR_000001209` -#### Removed -- [C-X-C chemokine receptor type 5](http://purl.obolibrary.org/obo/PR_000001209) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [C-X-C chemokine receptor type 5 (human)](http://purl.obolibrary.org/obo/PR_P32302) +- [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "krc" +- [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "metal ion regulated sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity involved in positive regulation of transcription" +- [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "bacterial-type RNA polymerase transcriptional activator activity, metal ion regulated sequence-specific DNA binding" -### C-type lectin domain family 4 member C `http://purl.obolibrary.org/obo/PR_000001292` -#### Removed -- [C-type lectin domain family 4 member C](http://purl.obolibrary.org/obo/PR_000001292) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [C-type lectin domain family 4 member C (human)](http://purl.obolibrary.org/obo/PR_Q8WTT0) +- [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/16736"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/16534"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "bacterial-type RNA polymerase transcriptional activator activity, sequence-specific DNA binding" -### C-type lectin domain family 4 member K `http://purl.obolibrary.org/obo/PR_000001293` -#### Removed -- [C-type lectin domain family 4 member K](http://purl.obolibrary.org/obo/PR_000001293) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [C-type lectin domain family 4 member K (human)](http://purl.obolibrary.org/obo/PR_Q9UJ71) +- [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) [label](http://www.w3.org/2000/01/rdf-schema#label) "DNA-binding transcription activator activity" +- [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0001216" +- Class: [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) -### C-type lectin domain family 6 member A `http://purl.obolibrary.org/obo/PR_000001806` -#### Removed -- [C-type lectin domain family 6 member A](http://purl.obolibrary.org/obo/PR_000001806) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [C-type lectin domain family 6 member A (human)](http://purl.obolibrary.org/obo/PR_Q6EIG7) +- [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) EquivalentTo [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893)) and ([has part](http://purl.obolibrary.org/obo/BFO_0000051) some [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976)) +- [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) SubClassOf [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) +- [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) -### C-type lectin domain family 7 member A `http://purl.obolibrary.org/obo/PR_000001807` -#### Removed -- [C-type lectin domain family 7 member A](http://purl.obolibrary.org/obo/PR_000001807) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [C-type lectin domain family 7 member A (human)](http://purl.obolibrary.org/obo/PR_Q9BXN2) +### DNA-binding transcription activator activity, RNA polymerase II-specific `http://purl.obolibrary.org/obo/GO_0001228` +#### Added +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0001228" -### CCAAT/enhancer-binding protein alpha `http://purl.obolibrary.org/obo/PR_000005307` -#### Removed -- [CCAAT/enhancer-binding protein alpha](http://purl.obolibrary.org/obo/PR_000005307) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [CCAAT/enhancer-binding protein alpha (human)](http://purl.obolibrary.org/obo/PR_P49715) +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "zinc ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity involved in positive regulation of transcription" +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription" +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001212" -### CCAAT/enhancer-binding protein epsilon `http://purl.obolibrary.org/obo/PR_000005310` -#### Removed -- [CCAAT/enhancer-binding protein epsilon](http://purl.obolibrary.org/obo/PR_000005310) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [CCAAT/enhancer-binding protein epsilon (human)](http://purl.obolibrary.org/obo/PR_Q15744) +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001211" +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding" +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "molecular_function" -### CX3C chemokine receptor 1 `http://purl.obolibrary.org/obo/PR_000001206` -#### Removed -- [CX3C chemokine receptor 1](http://purl.obolibrary.org/obo/PR_000001206) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [CX3C chemokine receptor 1 (human)](http://purl.obolibrary.org/obo/PR_P49238) +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "proximal promoter DNA-binding transcription activator activity, RNA polymerase II-specific" +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2012-01-26T03:10:20Z" +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "metal ion regulated sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription" -### Caenorhabditis `http://purl.obolibrary.org/obo/NCBITaxon_6237` -#### Removed -- [Caenorhabditis](http://purl.obolibrary.org/obo/NCBITaxon_6237) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_genus](http://purl.obolibrary.org/obo/NCBITaxon_genus) +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "transcriptional activator activity, RNA polymerase II proximal promoter sequence-specific DNA binding" +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001077" +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/20253"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -### Callithrix `http://purl.obolibrary.org/obo/NCBITaxon_9481` -#### Removed -- [Callithrix ](http://purl.obolibrary.org/obo/NCBITaxon_9481) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_genus](http://purl.obolibrary.org/obo/NCBITaxon_genus) +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "RNA polymerase II transcriptional activator activity, zinc ion regulated proximal promoter sequence-specific DNA binding" +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001205" +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "sequence-specific distal enhancer binding RNA polymerase II transcription factor activity involved in positive regulation of transcription" -### Callithrix `http://purl.obolibrary.org/obo/NCBITaxon_1965096` -#### Removed -- [Callithrix ](http://purl.obolibrary.org/obo/NCBITaxon_1965096) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_subgenus](http://purl.obolibrary.org/obo/NCBITaxon_subgenus) +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "RNA polymerase II transcriptional activator activity, metal ion regulated core promoter proximal region sequence-specific binding" +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific DNA binding" +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/16131"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -### Callithrix jacchus `http://purl.obolibrary.org/obo/NCBITaxon_9483` -#### Removed -- [Callithrix jacchus](http://purl.obolibrary.org/obo/NCBITaxon_9483) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_species](http://purl.obolibrary.org/obo/NCBITaxon_species) +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription" +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/16534"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001213" -### Callitrichinae `http://purl.obolibrary.org/obo/NCBITaxon_9480` -#### Removed -- [Callitrichinae](http://purl.obolibrary.org/obo/NCBITaxon_9480) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_subfamily](http://purl.obolibrary.org/obo/NCBITaxon_subfamily) +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [label](http://www.w3.org/2000/01/rdf-schema#label) "DNA-binding transcription activator activity, RNA polymerase II-specific" +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "copper ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity involved in positive regulation of transcription" +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "RNA polymerase II transcriptional activator activity, metal ion regulated proximal promoter sequence-specific DNA binding" -### Carnivora `http://purl.obolibrary.org/obo/NCBITaxon_33554` -#### Removed -- [Carnivora](http://purl.obolibrary.org/obo/NCBITaxon_33554) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_order](http://purl.obolibrary.org/obo/NCBITaxon_order) +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "metal ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity involved in positive regulation of transcription" +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "RNA polymerase II distal enhancer sequence-specific DNA-binding transcription factor activity involved in positive regulation of transcription" +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "distal enhancer DNA-binding transcription activator activity, RNA polymerase II-specific" -### Catarrhini `http://purl.obolibrary.org/obo/NCBITaxon_9526` -#### Removed -- [Catarrhini](http://purl.obolibrary.org/obo/NCBITaxon_9526) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_parvorder](http://purl.obolibrary.org/obo/NCBITaxon_parvorder) +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "krc" +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "For usage guidance, see comment in GO:0003700 ; DNA-binding transcription factor activity." +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "transcriptional activator activity, metal ion regulated sequence-specific DNA binding" -### Cebidae `http://purl.obolibrary.org/obo/NCBITaxon_9498` -#### Removed -- [Cebidae](http://purl.obolibrary.org/obo/NCBITaxon_9498) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_family](http://purl.obolibrary.org/obo/NCBITaxon_family) +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/16152"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "transcriptional activator activity, RNA polymerase II distal enhancer sequence-specific DNA binding" +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "RNA polymerase II transcriptional activator activity, zinc ion regulated core promoter proximal region sequence-specific binding" -### Chordata `http://purl.obolibrary.org/obo/NCBITaxon_7711` -#### Removed -- [Chordata](http://purl.obolibrary.org/obo/NCBITaxon_7711) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_phylum](http://purl.obolibrary.org/obo/NCBITaxon_phylum) +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "RNA polymerase II transcriptional activator activity, copper ion regulated proximal promoter sequence-specific DNA binding" +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001209" +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A DNA-binding transcription factor activity that activates or increases transcription of specific gene sets transcribed by RNA polymerase II." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH-2018" -### Chromadorea `http://purl.obolibrary.org/obo/NCBITaxon_119089` -#### Removed -- [Chromadorea](http://purl.obolibrary.org/obo/NCBITaxon_119089) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_class](http://purl.obolibrary.org/obo/NCBITaxon_class) + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:20737563" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:27145859" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:aruk" -### Cnidaria `http://purl.obolibrary.org/obo/NCBITaxon_6073` -#### Removed -- [Cnidaria](http://purl.obolibrary.org/obo/NCBITaxon_6073) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_phylum](http://purl.obolibrary.org/obo/NCBITaxon_phylum) +- Class: [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) EquivalentTo [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944)) and ([has part](http://purl.obolibrary.org/obo/BFO_0000051) some [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977)) +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) SubClassOf [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) -### Coelurosauria `http://purl.obolibrary.org/obo/NCBITaxon_436492` -#### Removed -- [Coelurosauria](http://purl.obolibrary.org/obo/NCBITaxon_436492) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) SubClassOf [DNA-binding transcription activator activity](http://purl.obolibrary.org/obo/GO_0001216) +- [DNA-binding transcription activator activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001228) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) -### Coniferophyta `http://purl.obolibrary.org/obo/NCBITaxon_3312` -#### Removed -- [Coniferophyta](http://purl.obolibrary.org/obo/NCBITaxon_3312) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +### DNA-binding transcription factor activity `http://purl.obolibrary.org/obo/GO_0003700` +#### Added +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "transcription factor activity, bacterial-type RNA polymerase transcription enhancer sequence-specific binding" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "bacterial-type RNA polymerase transcription enhancer sequence-specific DNA binding transcription factor activity" -### Craniata `http://purl.obolibrary.org/obo/NCBITaxon_89593` -#### Removed -- [Craniata ](http://purl.obolibrary.org/obo/NCBITaxon_89593) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_subphylum](http://purl.obolibrary.org/obo/NCBITaxon_subphylum) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "DNA binding transcription factor activity" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "molecular_function" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2010-10-21T04:37:54Z" -### D(1A) dopamine receptor `http://purl.obolibrary.org/obo/PR_000001175` -#### Removed -- [D(1A) dopamine receptor](http://purl.obolibrary.org/obo/PR_000001175) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [D(1A) dopamine receptor (human)](http://purl.obolibrary.org/obo/PR_P21728) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_chembl](http://purl.obolibrary.org/obo/go#goslim_chembl) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "bacterial-type RNA polymerase transcription factor activity, sequence-specific DNA binding" -### D(2) dopamine receptor `http://purl.obolibrary.org/obo/PR_000001177` -#### Removed -- [D(2) dopamine receptor](http://purl.obolibrary.org/obo/PR_000001177) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [D(2) dopamine receptor (human)](http://purl.obolibrary.org/obo/PR_P14416) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001151" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/16534"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001204" -### DNA nucleotidylexotransferase `http://purl.obolibrary.org/obo/PR_000006611` -#### Removed -- [DNA nucleotidylexotransferase](http://purl.obolibrary.org/obo/PR_000006611) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [DNA nucleotidylexotransferase (human)](http://purl.obolibrary.org/obo/PR_P04053) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "nucleic acid binding transcription factor activity" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0000130" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_metagenomics](http://purl.obolibrary.org/obo/go#goslim_metagenomics) -### Descemet's membrane `http://purl.obolibrary.org/obo/UBERON_0004367` -#### Removed -- [Descemet's membrane](http://purl.obolibrary.org/obo/UBERON_0004367) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Acellular anatomical structure composed of collagen, Descemet's membrane is secreted as a basement membrane of the corneal endothelium. Located between the stroma and the corneal endothelium, it is approximately 0.15 micrometer thick at 6 months post-fertilization.[ZFIN]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002157" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_mouse](http://purl.obolibrary.org/obo/go#goslim_mouse) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2016-05-01" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "transcription factor activity" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:ZDB-PUB-061010-3" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_agr](http://purl.obolibrary.org/obo/go#goslim_agr) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://orcid.org/0000-0001-9114-8737" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [label](http://www.w3.org/2000/01/rdf-schema#label) "DNA-binding transcription factor activity" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "ZFIN" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "transcription factor activity, metal ion regulated sequence-specific DNA binding" -#### Added -- [Descemet's membrane](http://purl.obolibrary.org/obo/UBERON_0004367) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Usage guidance: Most DNA-binding transcription factors do not have enzymatic activity. The presence of specific DNA-binding domains known to be present in DNA-binding transcription factors (HOX, GATA etc) should be used to help decide whether a protein is a DNA binding transcription factor or a coregulator. If a protein has an enzymatic activity (for example, ubiquitin ligase, histone acetyl transferase) and no known DNA binding domain, consider annotating to GO:0003712 transcription coregulator activity. Special care should be taken with proteins containing zinc fingers, Myb/SANT and ARID domains, since only a subset of proteins containing these domains directly and selectively bind to regulatory DNA motifs in cis-regulatory regions." +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001071" -### Deuterostomia `http://purl.obolibrary.org/obo/NCBITaxon_33511` -#### Removed -- [Deuterostomia](http://purl.obolibrary.org/obo/NCBITaxon_33511) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "bacterial-type RNA polymerase core promoter proximal region sequence-specific DNA binding transcription factor activity" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "bacterial-type DNA binding transcription factor activity" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_drosophila](http://purl.obolibrary.org/obo/go#goslim_drosophila) -### Dictyostelia `http://purl.obolibrary.org/obo/NCBITaxon_33083` -#### Removed -- [Dictyostelia](http://purl.obolibrary.org/obo/NCBITaxon_33083) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_yeast](http://purl.obolibrary.org/obo/go#goslim_yeast) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "krc" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "transcription factor activity, bacterial-type RNA polymerase core promoter proximal region sequence-specific binding" -### Dictyosteliaceae `http://purl.obolibrary.org/obo/NCBITaxon_2058185` -#### Removed -- [Dictyosteliaceae](http://purl.obolibrary.org/obo/NCBITaxon_2058185) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_family](http://purl.obolibrary.org/obo/NCBITaxon_family) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/15704"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0003700" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "metal ion regulated sequence-specific DNA binding transcription factor activity" -### Dictyosteliales `http://purl.obolibrary.org/obo/NCBITaxon_2058949` -#### Removed -- [Dictyosteliales](http://purl.obolibrary.org/obo/NCBITaxon_2058949) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_order](http://purl.obolibrary.org/obo/NCBITaxon_order) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_candida](http://purl.obolibrary.org/obo/go#goslim_candida) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001130" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant](http://purl.obolibrary.org/obo/go#goslim_plant) -### Dictyostelium `http://purl.obolibrary.org/obo/NCBITaxon_5782` -#### Removed -- [Dictyostelium](http://purl.obolibrary.org/obo/NCBITaxon_5782) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_genus](http://purl.obolibrary.org/obo/NCBITaxon_genus) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/20253"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001199" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A transcription regulator activity that modulates transcription of gene sets via selective and non-covalent binding to a specific double-stranded genomic DNA sequence (sometimes referred to as a motif) within a cis-regulatory region. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units, and include bacterial operons." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH-2018" -### Dikarya `http://purl.obolibrary.org/obo/NCBITaxon_451864` -#### Removed -- [Dikarya](http://purl.obolibrary.org/obo/NCBITaxon_451864) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_subkingdom](http://purl.obolibrary.org/obo/NCBITaxon_subkingdom) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "transcription factor activity, bacterial-type RNA polymerase proximal promoter sequence-specific DNA binding" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "metal ion regulated sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001131" -### Dinosauria `http://purl.obolibrary.org/obo/NCBITaxon_436486` -#### Removed -- [Dinosauria](http://purl.obolibrary.org/obo/NCBITaxon_436486) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "gene-specific transcription factor activity" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "bacterial-type RNA polymerase transcription factor activity, metal ion regulated sequence-specific DNA binding" +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "sequence-specific DNA binding transcription factor activity" -### Dipnotetrapodomorpha `http://purl.obolibrary.org/obo/NCBITaxon_1338369` -#### Removed -- [Dipnotetrapodomorpha](http://purl.obolibrary.org/obo/NCBITaxon_1338369) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +- Class: [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) EquivalentTo [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355)) and ([has part](http://purl.obolibrary.org/obo/BFO_0000051) some [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976)) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### Discoba `http://purl.obolibrary.org/obo/NCBITaxon_2611352` -#### Removed -- [Discoba](http://purl.obolibrary.org/obo/NCBITaxon_2611352) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) SubClassOf [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) +- [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) SubClassOf [has part](http://purl.obolibrary.org/obo/BFO_0000051) some [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) -### Ecdysozoa `http://purl.obolibrary.org/obo/NCBITaxon_1206794` -#### Removed -- [Ecdysozoa](http://purl.obolibrary.org/obo/NCBITaxon_1206794) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +### DNA-binding transcription factor activity, RNA polymerase II-specific `http://purl.obolibrary.org/obo/GO_0000981` +#### Added +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001200" -### Echinodermata `http://purl.obolibrary.org/obo/NCBITaxon_7586` -#### Removed -- [Echinodermata](http://purl.obolibrary.org/obo/NCBITaxon_7586) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_phylum](http://purl.obolibrary.org/obo/NCBITaxon_phylum) +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A DNA-binding transcription factor activity that modulates the transcription of specific gene sets transcribed by RNA polymerase II." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH-2018" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "RNA polymerase II transcription factor activity, sequence-specific DNA binding" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001203" -### Embryophyta `http://purl.obolibrary.org/obo/NCBITaxon_3193` -#### Removed -- [Embryophyta](http://purl.obolibrary.org/obo/NCBITaxon_3193) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001201" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "metal ion regulated sequence-specific DNA binding RNA polymerase II transcription factor activity" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [label](http://www.w3.org/2000/01/rdf-schema#label) "DNA-binding transcription factor activity, RNA polymerase II-specific" -### Equidae `http://purl.obolibrary.org/obo/NCBITaxon_9788` -#### Removed -- [Equidae](http://purl.obolibrary.org/obo/NCBITaxon_9788) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_family](http://purl.obolibrary.org/obo/NCBITaxon_family) +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "zinc ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "RNA polymerase II transcription factor activity, metal ion regulated core promoter proximal region sequence-specific binding" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "RNA polymerase II transcription factor activity, zinc ion regulated core promoter proximal region sequence-specific DNA binding" -### Equus `http://purl.obolibrary.org/obo/NCBITaxon_9789` -#### Removed -- [Equus](http://purl.obolibrary.org/obo/NCBITaxon_9789) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_genus](http://purl.obolibrary.org/obo/NCBITaxon_genus) +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "RNA polymerase II transcription factor activity, copper ion regulated core promoter proximal region sequence-specific binding" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001202" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "sequence-specific DNA binding RNA polymerase II transcription factor activity" -### Euarchontoglires `http://purl.obolibrary.org/obo/NCBITaxon_314146` -#### Removed -- [Euarchontoglires](http://purl.obolibrary.org/obo/NCBITaxon_314146) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_superorder](http://purl.obolibrary.org/obo/NCBITaxon_superorder) +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "RNA polymerase II transcription factor activity, zinc ion regulated proximal promoter sequence-specific DNA binding" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "transcription factor activity, RNA polymerase II proximal promoter sequence-specific DNA binding" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "transcription factor activity, RNA polymerase II core promoter proximal region sequence-specific binding" -### Euglenozoa `http://purl.obolibrary.org/obo/NCBITaxon_33682` -#### Removed -- [Euglenozoa](http://purl.obolibrary.org/obo/NCBITaxon_33682) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_phylum](http://purl.obolibrary.org/obo/NCBITaxon_phylum) +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "sequence-specific distal enhancer binding RNA polymerase II transcription factor activity" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/16131"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "RNA polymerase II transcription factor activity, metal ion regulated sequence-specific DNA binding" -### Eukaryota `http://purl.obolibrary.org/obo/NCBITaxon_2759` -#### Removed -- [Eukaryota](http://purl.obolibrary.org/obo/NCBITaxon_2759) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_superkingdom](http://purl.obolibrary.org/obo/NCBITaxon_superkingdom) +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "RNA polymerase II transcription factor activity, copper ion regulated proximal promoter sequence-specific DNA binding" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0000981" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity" -### Eumetazoa `http://purl.obolibrary.org/obo/NCBITaxon_6072` -#### Removed -- [Eumetazoa](http://purl.obolibrary.org/obo/NCBITaxon_6072) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/15530"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/16152"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -### Eumycetozoa `http://purl.obolibrary.org/obo/NCBITaxon_142796` -#### Removed -- [Eumycetozoa](http://purl.obolibrary.org/obo/NCBITaxon_142796) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_class](http://purl.obolibrary.org/obo/NCBITaxon_class) +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "RNA polymerase II transcription factor activity, sequence-specific transcription regulatory region DNA binding" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "molecular_function" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "copper ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity" -### Euphyllophyta `http://purl.obolibrary.org/obo/NCBITaxon_78536` -#### Removed -- [Euphyllophyta](http://purl.obolibrary.org/obo/NCBITaxon_78536) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "RNA polymerase II transcription factor activity, metal ion regulated proximal promoter sequence-specific DNA binding" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0000982" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "transcription factor activity, RNA polymerase II distal enhancer sequence-specific binding" -### Euteleostomi `http://purl.obolibrary.org/obo/NCBITaxon_117571` -#### Removed -- [Euteleostomi](http://purl.obolibrary.org/obo/NCBITaxon_117571) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "For usage guidance, see comment in GO:0003700 ; DNA-binding transcription factor activity." +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2010-08-10T02:37:21Z" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "sequence-specific transcription regulatory region DNA binding RNA polymerase II transcription factor recruiting transcription factor activity" -### Eutheria `http://purl.obolibrary.org/obo/NCBITaxon_9347` -#### Removed -- [Eutheria](http://purl.obolibrary.org/obo/NCBITaxon_9347) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "krc" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0003705" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001133" -### Evosea `http://purl.obolibrary.org/obo/NCBITaxon_2605435` -#### Removed -- [Evosea](http://purl.obolibrary.org/obo/NCBITaxon_2605435) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_phylum](http://purl.obolibrary.org/obo/NCBITaxon_phylum) +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "transcription factor" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:vw" +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "metal ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity" +- Class: [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) -### Felidae `http://purl.obolibrary.org/obo/NCBITaxon_9681` -#### Removed -- [Felidae](http://purl.obolibrary.org/obo/NCBITaxon_9681) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_family](http://purl.obolibrary.org/obo/NCBITaxon_family) +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) EquivalentTo [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006357)) and ([has part](http://purl.obolibrary.org/obo/BFO_0000051) some [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977)) +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) SubClassOf [occurs in](http://purl.obolibrary.org/obo/BFO_0000066) some [chromatin](http://purl.obolibrary.org/obo/GO_0000785) +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) SubClassOf [has part](http://purl.obolibrary.org/obo/BFO_0000051) some [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977) -### Feliformia `http://purl.obolibrary.org/obo/NCBITaxon_379583` -#### Removed -- [Feliformia](http://purl.obolibrary.org/obo/NCBITaxon_379583) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_suborder](http://purl.obolibrary.org/obo/NCBITaxon_suborder) +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006357) +- [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) SubClassOf [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) -### Felinae `http://purl.obolibrary.org/obo/NCBITaxon_338152` -#### Removed -- [Felinae](http://purl.obolibrary.org/obo/NCBITaxon_338152) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_subfamily](http://purl.obolibrary.org/obo/NCBITaxon_subfamily) +### DNA-binding transcription repressor activity `http://purl.obolibrary.org/obo/GO_0001217` +#### Added +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "For usage guidance, see comment in GO:0003700 ; DNA-binding transcription factor activity." +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "transcriptional repressor activity, bacterial-type RNA polymerase core promoter proximal region sequence-specific binding" -### Felis `http://purl.obolibrary.org/obo/NCBITaxon_9682` -#### Removed -- [Felis](http://purl.obolibrary.org/obo/NCBITaxon_9682) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_genus](http://purl.obolibrary.org/obo/NCBITaxon_genus) +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001218" +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "bacterial-type RNA polymerase core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription" +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "copper ion regulated sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity involved in negative regulation of transcription" -### Felis catus `http://purl.obolibrary.org/obo/NCBITaxon_9685` -#### Removed -- [Felis catus](http://purl.obolibrary.org/obo/NCBITaxon_9685) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_species](http://purl.obolibrary.org/obo/NCBITaxon_species) +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/16736"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "bacterial-type DNA binding transcription repressor activity" +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "krc" -### Fungi `http://purl.obolibrary.org/obo/NCBITaxon_4751` -#### Removed -- [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_kingdom](http://purl.obolibrary.org/obo/NCBITaxon_kingdom) +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity involved in negative regulation of transcription" +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "cadmium ion regulated sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity involved in negative regulation of transcription" +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "bacterial-type RNA polymerase transcriptional repressor activity, metal ion regulated sequence-specific DNA binding" -### GCIs -#### Removed -- DisjointClasses: [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [central tendon of diaphragm](http://purl.obolibrary.org/obo/UBERON_0006670), [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765), [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [costal diaphragm](http://purl.obolibrary.org/obo/UBERON_0035831) +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "bacterial-type RNA polymerase transcriptional repressor activity, cadmium ion regulated sequence-specific DNA binding" -- ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [parietal pleura](http://purl.obolibrary.org/obo/UBERON_0002400)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [visceral pleura](http://purl.obolibrary.org/obo/UBERON_0002401)) EquivalentTo [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [pleura](http://purl.obolibrary.org/obo/UBERON_0000977) +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "molecular_function" -- ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [peritoneal cavity](http://purl.obolibrary.org/obo/UBERON_0001179)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [peritoneum](http://purl.obolibrary.org/obo/UBERON_0002358)) EquivalentTo [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [peritoneal sac](http://purl.obolibrary.org/obo/UBERON_0035820) +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2011-01-26T03:15:45Z" -- ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [pleura](http://purl.obolibrary.org/obo/UBERON_0000977)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [pleural cavity](http://purl.obolibrary.org/obo/UBERON_0002402)) EquivalentTo [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [pleural sac](http://purl.obolibrary.org/obo/UBERON_0009778) +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/20253"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [eyeball of camera-type eye](http://purl.obolibrary.org/obo/UBERON_0010230)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [ocular adnexa](http://purl.obolibrary.org/obo/UBERON_0035639)) EquivalentTo [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [orbital region](http://purl.obolibrary.org/obo/UBERON_0004088) +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [label](http://www.w3.org/2000/01/rdf-schema#label) "DNA-binding transcription repressor activity" -- ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [right lung](http://purl.obolibrary.org/obo/UBERON_0002167)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [left lung](http://purl.obolibrary.org/obo/UBERON_0002168)) EquivalentTo [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [pair of lungs](http://purl.obolibrary.org/obo/UBERON_0000170) +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0001217" -- ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [central tendon of diaphragm](http://purl.obolibrary.org/obo/UBERON_0006670)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [costal diaphragm](http://purl.obolibrary.org/obo/UBERON_0035831)) EquivalentTo [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [diaphragm](http://purl.obolibrary.org/obo/UBERON_0001103) +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "bacterial-type RNA polymerase transcriptional repressor activity, sequence-specific DNA binding" -- ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [submucosa](http://purl.obolibrary.org/obo/UBERON_0000009)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [mucosa](http://purl.obolibrary.org/obo/UBERON_0000344)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [hypodermis](http://purl.obolibrary.org/obo/UBERON_0002072)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [skin of body](http://purl.obolibrary.org/obo/UBERON_0002097)) EquivalentTo [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [dermatological-muscosal system](http://purl.obolibrary.org/obo/UBERON_0012125) +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001219" -- ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [dentate gyrus of hippocampal formation](http://purl.obolibrary.org/obo/UBERON_0001885)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Ammon's horn](http://purl.obolibrary.org/obo/UBERON_0001954)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [subiculum](http://purl.obolibrary.org/obo/UBERON_0002191)) EquivalentTo [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [hippocampal formation](http://purl.obolibrary.org/obo/UBERON_0002421) +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "transcriptional repressor activity, bacterial-type RNA polymerase proximal promoter sequence-specific DNA binding" -- ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [abdominal cavity](http://purl.obolibrary.org/obo/UBERON_0003684)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [pelvic cavity](http://purl.obolibrary.org/obo/UBERON_0008203)) EquivalentTo [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [abdominopelvic cavity](http://purl.obolibrary.org/obo/UBERON_0035819) +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A DNA-binding transcription factor activity that represses or decreases the transcription of specific gene sets." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH-2018" -- ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [sebaceous gland](http://purl.obolibrary.org/obo/UBERON_0001821)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [arrector muscle of hair](http://purl.obolibrary.org/obo/UBERON_0002033)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [hair follicle](http://purl.obolibrary.org/obo/UBERON_0002073)) EquivalentTo [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [pilosebaceous unit](http://purl.obolibrary.org/obo/UBERON_0011932) +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "metal ion regulated sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity involved in negative regulation of transcription" -- ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [left dorsal aorta](http://purl.obolibrary.org/obo/UBERON_0005613)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [right dorsal aorta](http://purl.obolibrary.org/obo/UBERON_0005622)) EquivalentTo [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [pair of dorsal aortae](http://purl.obolibrary.org/obo/UBERON_0010190) +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "bacterial-type RNA polymerase transcriptional repressor activity, copper ion regulated sequence-specific DNA binding" -- ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [cortex of hair](http://purl.obolibrary.org/obo/UBERON_0002077)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [hair medulla](http://purl.obolibrary.org/obo/UBERON_0005184)) EquivalentTo [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [hair shaft](http://purl.obolibrary.org/obo/UBERON_0002074) +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001220" -- ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [parietal serous pericardium](http://purl.obolibrary.org/obo/UBERON_0002408)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [visceral serous pericardium](http://purl.obolibrary.org/obo/UBERON_0002425)) EquivalentTo [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [serous pericardium](http://purl.obolibrary.org/obo/UBERON_0002357) +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001141" -- ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [respiratory primordium epithelium](http://purl.obolibrary.org/obo/UBERON_0036072)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [respiratory primordium mesenchyme](http://purl.obolibrary.org/obo/UBERON_0036073)) EquivalentTo [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [respiratory primordium](http://purl.obolibrary.org/obo/UBERON_0008947) +- Class: [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) -- ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [hypodermis](http://purl.obolibrary.org/obo/UBERON_0002072)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [skin of body](http://purl.obolibrary.org/obo/UBERON_0002097)) EquivalentTo [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [integument](http://purl.obolibrary.org/obo/UBERON_0002199) +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) EquivalentTo [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892)) and ([has part](http://purl.obolibrary.org/obo/BFO_0000051) some [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976)) -- ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [embryo stage](http://purl.obolibrary.org/obo/UBERON_0000068)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [post-embryonic stage](http://purl.obolibrary.org/obo/UBERON_0000092)) EquivalentTo [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [life cycle](http://purl.obolibrary.org/obo/UBERON_0000104) +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) -- ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [peripheral nervous system](http://purl.obolibrary.org/obo/UBERON_0000010)) or ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [central nervous system](http://purl.obolibrary.org/obo/UBERON_0001017)) EquivalentTo [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [nervous system](http://purl.obolibrary.org/obo/UBERON_0001016) +- [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) SubClassOf [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) -- [common iliac artery](http://purl.obolibrary.org/obo/UBERON_0001191) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Homo sapiens](http://purl.obolibrary.org/obo/NCBITaxon_9606)) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [right umbilical artery](http://purl.obolibrary.org/obo/UBERON_0005470) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "requires review" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2" +### DNA-binding transcription repressor activity, RNA polymerase II-specific `http://purl.obolibrary.org/obo/GO_0001227` -- [thymus primordium](http://purl.obolibrary.org/obo/UBERON_0005562) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Aves](http://purl.obolibrary.org/obo/NCBITaxon_8782)) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [dorsal part of pharyngeal pouch 3](http://purl.obolibrary.org/obo/UBERON_0010025) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "Aves" +#### Added +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/16131"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0073040584-table13.1" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription" -- [telencephalic ventricle](http://purl.obolibrary.org/obo/UBERON_0002285) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Tetrapoda](http://purl.obolibrary.org/obo/NCBITaxon_32523)) SubClassOf [in lateral side of](http://purl.obolibrary.org/obo/BSPO_0000126) some [telencephalon](http://purl.obolibrary.org/obo/UBERON_0001893) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "evaginated" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "RNA polymerase II transcriptional repressor activity, metal ion regulated core promoter proximal region sequence-specific binding" -- [thymus primordium](http://purl.obolibrary.org/obo/UBERON_0005562) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Mammalia](http://purl.obolibrary.org/obo/NCBITaxon_40674)) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [ventral part of pharyngeal pouch 4](http://purl.obolibrary.org/obo/UBERON_0010028) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "Mammals" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "metal ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity involved in negative regulation of transcription" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0073040584-table13.1" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "distal enhancer DNA-binding transcription repressor activity, RNA polymerase II-specific" -- [naris](http://purl.obolibrary.org/obo/UBERON_0000003) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Gnathostomata ](http://purl.obolibrary.org/obo/NCBITaxon_7776)) SubClassOf [in lateral side of](http://purl.obolibrary.org/obo/BSPO_0000126) some [head](http://purl.obolibrary.org/obo/UBERON_0000033) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "hagfish have median nostril" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "molecular_function" -- [nose](http://purl.obolibrary.org/obo/UBERON_0000004) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Gnathostomata ](http://purl.obolibrary.org/obo/NCBITaxon_7776)) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [midface](http://purl.obolibrary.org/obo/UBERON_0004089) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "midface division only makes sense for gnathostomes" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [label](http://www.w3.org/2000/01/rdf-schema#label) "DNA-binding transcription repressor activity, RNA polymerase II-specific" -- [thymus primordium](http://purl.obolibrary.org/obo/UBERON_0005562) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Aves](http://purl.obolibrary.org/obo/NCBITaxon_8782)) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [dorsal part of pharyngeal pouch 4](http://purl.obolibrary.org/obo/UBERON_0010027) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "Aves" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2010-10-26T03:56:48Z" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0073040584-table13.1" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription" -- [lens vesicle](http://purl.obolibrary.org/obo/UBERON_0005426) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Mammalia](http://purl.obolibrary.org/obo/NCBITaxon_40674)) SubClassOf [has quality](http://purl.obolibrary.org/obo/RO_0000086) some [hollow](http://purl.obolibrary.org/obo/PATO_0002078) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "Mammals" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001214" -- [adenohypophysis](http://purl.obolibrary.org/obo/UBERON_0002196) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Tetrapoda](http://purl.obolibrary.org/obo/NCBITaxon_32523)) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [Rathke's pouch](http://purl.obolibrary.org/obo/UBERON_0005356) - - [exception](http://www.geneontology.org/formats/oboInOwl#exception) "teleost" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "transcriptional repressor activity, metal ion regulated sequence-specific DNA binding" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "NCBIBook:NBK53175" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "krc" -- [intestinal villus](http://purl.obolibrary.org/obo/UBERON_0001213) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Homo sapiens](http://purl.obolibrary.org/obo/NCBITaxon_9606)) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [mucosa of small intestine](http://purl.obolibrary.org/obo/UBERON_0001204) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/16534"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "may be present in other parts in other species" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001078" -- [parathyroid gland](http://purl.obolibrary.org/obo/UBERON_0001132) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Aves](http://purl.obolibrary.org/obo/NCBITaxon_8782)) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [ventral part of pharyngeal pouch 4](http://purl.obolibrary.org/obo/UBERON_0010028) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "Aves" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "sequence-specific distal enhancer binding RNA polymerase II transcription factor activity involved in negative regulation of transcription" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0073040584-table13.1" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/16152"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [parathyroid gland](http://purl.obolibrary.org/obo/UBERON_0001132) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Mammalia](http://purl.obolibrary.org/obo/NCBITaxon_40674)) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [dorsal part of pharyngeal pouch 4](http://purl.obolibrary.org/obo/UBERON_0010027) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "Mammals" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001210" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0073040584-table13.1" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific DNA binding" -- [testis](http://purl.obolibrary.org/obo/UBERON_0000473) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Vertebrata ](http://purl.obolibrary.org/obo/NCBITaxon_7742)) SubClassOf [in lateral side of](http://purl.obolibrary.org/obo/BSPO_0000126) some [multicellular organism](http://purl.obolibrary.org/obo/UBERON_0000468) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "vertebrates" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "transcriptional repressor activity, RNA polymerase II proximal promoter sequence-specific DNA binding" -- [parathyroid gland](http://purl.obolibrary.org/obo/UBERON_0001132) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Mammalia](http://purl.obolibrary.org/obo/NCBITaxon_40674)) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [dorsal part of pharyngeal pouch 3](http://purl.obolibrary.org/obo/UBERON_0010025) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "Mammals" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "metal ion regulated sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0073040584-table13.1" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "RNA polymerase II transcriptional repressor activity, metal ion regulated proximal promoter sequence-specific DNA binding" -- [thymus primordium](http://purl.obolibrary.org/obo/UBERON_0005562) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Mammalia](http://purl.obolibrary.org/obo/NCBITaxon_40674)) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [ventral part of pharyngeal pouch 3](http://purl.obolibrary.org/obo/UBERON_0010026) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0001227" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "Mammals" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/20253"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0073040584-table13.1" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A DNA-binding transcription factor activity that represses or decreases the transcription of specific gene sets transcribed by RNA polymerase II." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH-2018" -- [parathyroid gland](http://purl.obolibrary.org/obo/UBERON_0001132) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Homo sapiens](http://purl.obolibrary.org/obo/NCBITaxon_9606)) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [pharyngeal pouch 4](http://purl.obolibrary.org/obo/UBERON_0007125) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "pouches 3 and 4 in human" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "transcriptional repressor activity, RNA polymerase II distal enhancer sequence-specific binding" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:16313389" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "RNA polymerase II distal enhancer sequence-specific DNA-binding transcription factor activity involved in negative regulation of transcription" -- [gonad primordium](http://purl.obolibrary.org/obo/UBERON_0005564) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Deuterostomia](http://purl.obolibrary.org/obo/NCBITaxon_33511)) SubClassOf [located in](http://purl.obolibrary.org/obo/RO_0001025) some [coelemic cavity lumen](http://purl.obolibrary.org/obo/UBERON_0002323) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "conservatively place at deuterostome, excluding acoelomates" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "For usage guidance, see comment in GO:0003700 ; DNA-binding transcription factor activity." -- [central nervous system](http://purl.obolibrary.org/obo/UBERON_0001017) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Vertebrata ](http://purl.obolibrary.org/obo/NCBITaxon_7742)) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [neural tube](http://purl.obolibrary.org/obo/UBERON_0001049) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "proximal promoter DNA-binding transcription repressor activity, RNA polymerase II-specific" -- [parathyroid gland](http://purl.obolibrary.org/obo/UBERON_0001132) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Aves](http://purl.obolibrary.org/obo/NCBITaxon_8782)) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [ventral part of pharyngeal pouch 3](http://purl.obolibrary.org/obo/UBERON_0010026) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "Aves" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001206" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0073040584-table13.1" +- Class: [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) -- [telencephalic ventricle](http://purl.obolibrary.org/obo/UBERON_0002285) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Tetrapoda](http://purl.obolibrary.org/obo/NCBITaxon_32523)) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [cerebral hemisphere](http://purl.obolibrary.org/obo/UBERON_0001869) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "evaginated" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) EquivalentTo [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122)) and ([has part](http://purl.obolibrary.org/obo/BFO_0000051) some [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977)) -- [lens vesicle](http://purl.obolibrary.org/obo/UBERON_0005426) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Teleostei](http://purl.obolibrary.org/obo/NCBITaxon_32443)) SubClassOf [has quality](http://purl.obolibrary.org/obo/RO_0000086) some [solid configuration](http://purl.obolibrary.org/obo/PATO_0001736) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "teleosts" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) SubClassOf [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) -- [common iliac artery](http://purl.obolibrary.org/obo/UBERON_0001191) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Homo sapiens](http://purl.obolibrary.org/obo/NCBITaxon_9606)) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [left umbilical artery](http://purl.obolibrary.org/obo/UBERON_0005458) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "requires review" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2" +- [DNA-binding transcription repressor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0001227) SubClassOf [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) -- [rib](http://purl.obolibrary.org/obo/UBERON_0002228) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Euarchontoglires](http://purl.obolibrary.org/obo/NCBITaxon_314146)) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [thoracic rib cage](http://purl.obolibrary.org/obo/UBERON_0003252) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "Euarchontoglires" -- [esophagus](http://purl.obolibrary.org/obo/UBERON_0001043) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Mammalia](http://purl.obolibrary.org/obo/NCBITaxon_40674)) SubClassOf [distally connected to](http://purl.obolibrary.org/obo/uberon/core#distally_connected_to) some [stomach](http://purl.obolibrary.org/obo/UBERON_0000945) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "only in species that have a stomach" +### DNA-templated transcription `http://purl.obolibrary.org/obo/GO_0006351` -- [right subclavian artery](http://purl.obolibrary.org/obo/UBERON_0001534) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [Mammalia](http://purl.obolibrary.org/obo/NCBITaxon_40674)) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [pharyngeal arch artery 4](http://purl.obolibrary.org/obo/UBERON_0003121) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "embryology.ch" +#### Added +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0061022" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "right arch 4 in human" +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "transcription from bacterial-type RNA polymerase promoter" +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0006350" +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Wikipedia:Transcription_(genetics)" -### Glaucocystophyceae `http://purl.obolibrary.org/obo/NCBITaxon_38254` -#### Removed -- [Glaucocystophyceae](http://purl.obolibrary.org/obo/NCBITaxon_38254) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_class](http://purl.obolibrary.org/obo/NCBITaxon_class) +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The synthesis of an RNA transcript from a DNA template." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:jl" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH" +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/14854"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -### Glires `http://purl.obolibrary.org/obo/NCBITaxon_314147` -#### Removed -- [Glires](http://purl.obolibrary.org/obo/NCBITaxon_314147) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_generic](http://purl.obolibrary.org/obo/go#goslim_generic) +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "bacterial transcription" -### Gnathostomata `http://purl.obolibrary.org/obo/NCBITaxon_7776` -#### Removed -- [Gnathostomata ](http://purl.obolibrary.org/obo/NCBITaxon_7776) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0061018" +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/22555"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_pir](http://purl.obolibrary.org/obo/go#goslim_pir) -### Gnetales `http://purl.obolibrary.org/obo/NCBITaxon_3378` -#### Removed -- [Gnetales](http://purl.obolibrary.org/obo/NCBITaxon_3378) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_order](http://purl.obolibrary.org/obo/NCBITaxon_order) +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "DNA-dependent transcription" +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_drosophila](http://purl.obolibrary.org/obo/go#goslim_drosophila) +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_pombe](http://purl.obolibrary.org/obo/go#goslim_pombe) -### Gnetidae `http://purl.obolibrary.org/obo/NCBITaxon_1445966` -#### Removed -- [Gnetidae](http://purl.obolibrary.org/obo/NCBITaxon_1445966) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_subclass](http://purl.obolibrary.org/obo/NCBITaxon_subclass) +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/22258"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "cellular transcription" -### Gnetopsida `http://purl.obolibrary.org/obo/NCBITaxon_3372` -#### Removed -- [Gnetopsida](http://purl.obolibrary.org/obo/NCBITaxon_3372) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_class](http://purl.obolibrary.org/obo/NCBITaxon_class) +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote](http://purl.obolibrary.org/obo/go#goslim_prokaryote) +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [label](http://www.w3.org/2000/01/rdf-schema#label) "DNA-templated transcription" +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -### Haplorrhini `http://purl.obolibrary.org/obo/NCBITaxon_376913` -#### Removed -- [Haplorrhini](http://purl.obolibrary.org/obo/NCBITaxon_376913) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_suborder](http://purl.obolibrary.org/obo/NCBITaxon_suborder) +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_metagenomics](http://purl.obolibrary.org/obo/go#goslim_metagenomics) +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "transcription" +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0006351" -### Hexapoda `http://purl.obolibrary.org/obo/NCBITaxon_6960` -#### Removed -- [Hexapoda](http://purl.obolibrary.org/obo/NCBITaxon_6960) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_subphylum](http://purl.obolibrary.org/obo/NCBITaxon_subphylum) +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "transcription, DNA-templated" +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_mouse](http://purl.obolibrary.org/obo/go#goslim_mouse) +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "transcription, DNA-dependent" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH" -### His-Purkinje system `http://purl.obolibrary.org/obo/UBERON_0004146` -#### Removed -- [His-Purkinje system](http://purl.obolibrary.org/obo/UBERON_0004146) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "the intraventricular conduction system from the bundle of His to the distal Purkinje fibers, which carries the impulse to the ventricles." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/His-Purkinje+system" +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/16737"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001121" +- Class: [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) -### Hominidae `http://purl.obolibrary.org/obo/NCBITaxon_9604` -#### Removed -- [Hominidae](http://purl.obolibrary.org/obo/NCBITaxon_9604) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_family](http://purl.obolibrary.org/obo/NCBITaxon_family) +- [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [gene expression](http://purl.obolibrary.org/obo/GO_0010467) +### Eumycetozoan cell `http://purl.obolibrary.org/obo/CL_0000257` -### Homininae `http://purl.obolibrary.org/obo/NCBITaxon_207598` -#### Removed -- [Homininae](http://purl.obolibrary.org/obo/NCBITaxon_207598) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_subfamily](http://purl.obolibrary.org/obo/NCBITaxon_subfamily) +#### Added +- [Eumycetozoan cell](http://purl.obolibrary.org/obo/CL_0000257) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any cell that only exists in Eumycetozoa." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" +### G protein-coupled receptor activity `http://purl.obolibrary.org/obo/GO_0004930` -### Hominoidea `http://purl.obolibrary.org/obo/NCBITaxon_314295` -#### Removed -- [Hominoidea](http://purl.obolibrary.org/obo/NCBITaxon_314295) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_superfamily](http://purl.obolibrary.org/obo/NCBITaxon_superfamily) +#### Added +- [G protein-coupled receptor activity](http://purl.obolibrary.org/obo/GO_0004930) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### G-protein coupled receptor `http://purl.obolibrary.org/obo/PR_000030035` -### Homo `http://purl.obolibrary.org/obo/NCBITaxon_9605` -#### Removed -- [Homo](http://purl.obolibrary.org/obo/NCBITaxon_9605) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_genus](http://purl.obolibrary.org/obo/NCBITaxon_genus) +#### Added +- [G-protein coupled receptor](http://purl.obolibrary.org/obo/PR_000030035) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) +- [G-protein coupled receptor](http://purl.obolibrary.org/obo/PR_000030035) SubClassOf [material entity](http://purl.obolibrary.org/obo/BFO_0000040) -### Homo sapiens `http://purl.obolibrary.org/obo/NCBITaxon_9606` -#### Removed -- [Homo sapiens](http://purl.obolibrary.org/obo/NCBITaxon_9606) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_species](http://purl.obolibrary.org/obo/NCBITaxon_species) +### GABA receptor activity `http://purl.obolibrary.org/obo/GO_0016917` +#### Added +- [GABA receptor activity](http://purl.obolibrary.org/obo/GO_0016917) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### IAO_0000111 `http://purl.obolibrary.org/obo/IAO_0000111` +### GABAergic neuron `http://purl.obolibrary.org/obo/CL_0000617` #### Removed -- AnnotationProperty: [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) +- [GABAergic neuron](http://purl.obolibrary.org/obo/CL_0000617) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007228" + +#### Added +- [GABAergic neuron](http://purl.obolibrary.org/obo/CL_0000617) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009276" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [GABAergic neuron](http://purl.obolibrary.org/obo/CL_0000617) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007228" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### IAO_0000112 `http://purl.obolibrary.org/obo/IAO_0000112` +### GCIs #### Removed -- AnnotationProperty: [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) +- [causally influences](http://purl.obolibrary.org/obo/RO_0002566) some [material entity](http://purl.obolibrary.org/obo/BFO_0000040) SubClassOf ([participates in](http://purl.obolibrary.org/obo/RO_0000056) some ([causally upstream of or within](http://purl.obolibrary.org/obo/RO_0002418) some [process](http://purl.obolibrary.org/obo/BFO_0000015))) or ([capable of](http://purl.obolibrary.org/obo/RO_0002215) some ([participates in](http://purl.obolibrary.org/obo/RO_0000056) some ([causally upstream of or within](http://purl.obolibrary.org/obo/RO_0002418) some [process](http://purl.obolibrary.org/obo/BFO_0000015)))) -### IAO_0000114 `http://purl.obolibrary.org/obo/IAO_0000114` +### GlyA-positive erythrocyte `http://purl.obolibrary.org/obo/CL_0002021` #### Removed -- AnnotationProperty: [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) - +- [GlyA-positive erythrocyte](http://purl.obolibrary.org/obo/CL_0002021) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### IAO_0000117 `http://purl.obolibrary.org/obo/IAO_0000117` -#### Removed -- AnnotationProperty: [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) +### Golgi apparatus `http://purl.obolibrary.org/obo/GO_0005794` +#### Added +- [Golgi apparatus](http://purl.obolibrary.org/obo/GO_0005794) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -### IAO_0000118 `http://purl.obolibrary.org/obo/IAO_0000118` -#### Removed -- AnnotationProperty: [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) +- [Golgi apparatus](http://purl.obolibrary.org/obo/GO_0005794) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) +### His-Purkinje system cell `http://purl.obolibrary.org/obo/CL_0010007` -### IAO_0000119 `http://purl.obolibrary.org/obo/IAO_0000119` -#### Removed -- AnnotationProperty: [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) +#### Added +- [His-Purkinje system cell](http://purl.obolibrary.org/obo/CL_0010007) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any cell that is part of some His-Purkinje system." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" +### Hofbauer cell `http://purl.obolibrary.org/obo/CL_3000001` -### IAO_0000232 `http://purl.obolibrary.org/obo/IAO_0000232` -#### Removed -- AnnotationProperty: [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) +#### Added +- [Hofbauer cell](http://purl.obolibrary.org/obo/CL_3000001) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [human_reference_atlas](http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas) +- [Hofbauer cell](http://purl.obolibrary.org/obo/CL_3000001) [present in taxon](http://purl.obolibrary.org/obo/RO_0002175) [Homo sapiens](http://purl.obolibrary.org/obo/NCBITaxon_9606) -### IAO_0000233 `http://www.geneontology.org/formats/oboInOwl#http://purl.obolibrary.org/obo/IAO_0000233` +### Kenyon cell `http://purl.obolibrary.org/obo/CL_0000673` #### Removed -- AnnotationProperty: [IAO_0000233](http://www.geneontology.org/formats/oboInOwl#http://purl.obolibrary.org/obo/IAO_0000233) +- [Kenyon cell](http://purl.obolibrary.org/obo/CL_0000673) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00003686" +#### Added +- [Kenyon cell](http://purl.obolibrary.org/obo/CL_0000673) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00003686" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### IAO_0000234 `http://purl.obolibrary.org/obo/IAO_0000234` +### Kit and Sca1-positive hematopoietic stem cell `http://purl.obolibrary.org/obo/CL_0001008` #### Removed -- AnnotationProperty: [IAO_0000234](http://purl.obolibrary.org/obo/IAO_0000234) +- [Kit and Sca1-positive hematopoietic stem cell](http://purl.obolibrary.org/obo/CL_0001008) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### IAO_0000425 `http://purl.obolibrary.org/obo/IAO_0000425` +### Kit-negative, Ly-76 high orthochromatophilic erythroblasts `http://purl.obolibrary.org/obo/CL_0002017` #### Removed -- AnnotationProperty: [IAO_0000425](http://purl.obolibrary.org/obo/IAO_0000425) +- [Kit-negative, Ly-76 high orthochromatophilic erythroblasts](http://purl.obolibrary.org/obo/CL_0002017) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### IAO_0000426 `http://purl.obolibrary.org/obo/IAO_0000426` +### Kit-positive macrophage dendritic cell progenitor `http://purl.obolibrary.org/obo/CL_0002011` #### Removed -- AnnotationProperty: [IAO_0000426](http://purl.obolibrary.org/obo/IAO_0000426) +- [Kit-positive macrophage dendritic cell progenitor](http://purl.obolibrary.org/obo/CL_0002011) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### IAO_0000589 `http://purl.obolibrary.org/obo/IAO_0000589` +### Kit-positive megakaryocyte progenitor cell `http://purl.obolibrary.org/obo/CL_0002024` #### Removed -- AnnotationProperty: [IAO_0000589](http://purl.obolibrary.org/obo/IAO_0000589) +- [Kit-positive megakaryocyte progenitor cell](http://purl.obolibrary.org/obo/CL_0002024) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### IAO_0000600 `http://purl.obolibrary.org/obo/IAO_0000600` +### Kit-positive, CD34-negative megakaryocyte erythroid progenitor cell `http://purl.obolibrary.org/obo/CL_0002006` #### Removed -- AnnotationProperty: [IAO_0000600](http://purl.obolibrary.org/obo/IAO_0000600) +- [Kit-positive, CD34-negative megakaryocyte erythroid progenitor cell](http://purl.obolibrary.org/obo/CL_0002006) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### IAO_0006012 `http://purl.obolibrary.org/obo/IAO_0006012` +### Kit-positive, Sca1-positive common lymphoid progenitor `http://purl.obolibrary.org/obo/CL_0001025` #### Removed -- AnnotationProperty: [IAO_0006012](http://purl.obolibrary.org/obo/IAO_0006012) +- [Kit-positive, Sca1-positive common lymphoid progenitor](http://purl.obolibrary.org/obo/CL_0001025) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### Insecta `http://purl.obolibrary.org/obo/NCBITaxon_50557` -#### Removed -- [Insecta](http://purl.obolibrary.org/obo/NCBITaxon_50557) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_class](http://purl.obolibrary.org/obo/NCBITaxon_class) +### Kolmer-Agduhr neuron `http://purl.obolibrary.org/obo/CL_0005007` +#### Added +- [Kolmer-Agduhr neuron](http://purl.obolibrary.org/obo/CL_0005007) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005240" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### L-selectin `http://purl.obolibrary.org/obo/PR_000001318` +### Kupffer cell `http://purl.obolibrary.org/obo/CL_0000091` #### Removed -- [L-selectin](http://purl.obolibrary.org/obo/PR_000001318) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [L-selectin (human)](http://purl.obolibrary.org/obo/PR_P14151) +- [Kupffer cell](http://purl.obolibrary.org/obo/CL_0000091) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### Laurasiatheria `http://purl.obolibrary.org/obo/NCBITaxon_314145` +### L cone cell `http://purl.obolibrary.org/obo/CL_0003048` #### Removed -- [Laurasiatheria](http://purl.obolibrary.org/obo/NCBITaxon_314145) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_superorder](http://purl.obolibrary.org/obo/NCBITaxon_superorder) +- [L cone cell](http://purl.obolibrary.org/obo/CL_0003048) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### Lophotrochozoa `http://purl.obolibrary.org/obo/NCBITaxon_1206795` +### L-glutamate biosynthetic process `http://purl.obolibrary.org/obo/GO_0097054` #### Removed -- [Lophotrochozoa](http://purl.obolibrary.org/obo/NCBITaxon_1206795) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) - +- [L-glutamate biosynthetic process](http://purl.obolibrary.org/obo/GO_0097054) EquivalentTo [metabolic process](http://purl.obolibrary.org/obo/GO_0008152) and ([has primary input or output](http://purl.obolibrary.org/obo/RO_0004007) some [CHEBI_29985](http://purl.obolibrary.org/obo/CHEBI_29985)) +- [L-glutamate biosynthetic process](http://purl.obolibrary.org/obo/GO_0097054) SubClassOf [has primary input or output](http://purl.obolibrary.org/obo/RO_0004007) some [CHEBI_29985](http://purl.obolibrary.org/obo/CHEBI_29985) -### Magnoliopsida `http://purl.obolibrary.org/obo/NCBITaxon_3398` -#### Removed -- [Magnoliopsida](http://purl.obolibrary.org/obo/NCBITaxon_3398) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_class](http://purl.obolibrary.org/obo/NCBITaxon_class) +#### Added +- [L-glutamate biosynthetic process](http://purl.obolibrary.org/obo/GO_0097054) EquivalentTo [biosynthetic process](http://purl.obolibrary.org/obo/GO_0009058) and ([has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_29985](http://purl.obolibrary.org/obo/CHEBI_29985)) +- [L-glutamate biosynthetic process](http://purl.obolibrary.org/obo/GO_0097054) SubClassOf [has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_29985](http://purl.obolibrary.org/obo/CHEBI_29985) -### Malpighian tubule `http://purl.obolibrary.org/obo/UBERON_0001054` +### L-glutamate transmembrane transport `http://purl.obolibrary.org/obo/GO_0015813` #### Removed -- [Malpighian tubule](http://purl.obolibrary.org/obo/UBERON_0001054) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "It is unclear as to whether the Malpighian tubules of arachnids and those of the Uniramia are homologous or the result of convergent evolution.[Wikipedia:Malpighian_tubule_system]" - -- [Malpighian tubule](http://purl.obolibrary.org/obo/UBERON_0001054) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005786" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [L-glutamate transmembrane transport](http://purl.obolibrary.org/obo/GO_0015813) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The directed movement of L-glutamate across a membrane." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:21307582" +#### Added +- [L-glutamate transmembrane transport](http://purl.obolibrary.org/obo/GO_0015813) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The directed movement of L-glutamate across a membrane by means of some agent such as a transporter or a pore." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:21307582" -### Mammalia `http://purl.obolibrary.org/obo/NCBITaxon_40674` -#### Removed -- [Mammalia](http://purl.obolibrary.org/obo/NCBITaxon_40674) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_class](http://purl.obolibrary.org/obo/NCBITaxon_class) +### L2 intratelencephalic projecting glutamatergic neuron `http://purl.obolibrary.org/obo/CL_4030060` +#### Added +- [L2 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030060) [symbol](http://purl.obolibrary.org/obo/IAO_0000028) "L2 IT" -### Mandibulata `http://purl.obolibrary.org/obo/NCBITaxon_197563` +### L2/3 intratelencephalic projecting glutamatergic neuron `http://purl.obolibrary.org/obo/CL_4030059` #### Removed -- [Mandibulata](http://purl.obolibrary.org/obo/NCBITaxon_197563) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) - +- [L2/3 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030059) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 2/3." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37292694" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34004146" -### Metazoa `http://purl.obolibrary.org/obo/NCBITaxon_33208` -#### Removed -- [Metazoa](http://purl.obolibrary.org/obo/NCBITaxon_33208) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_kingdom](http://purl.obolibrary.org/obo/NCBITaxon_kingdom) +#### Added +- [L2/3 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030059) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ILX:0770156" +- [L2/3 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030059) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Hystorically, the L2/3 intratelencephalic projectic glutametergic neuron was known to have its soma in cortical layer 2/3. MERFISH data showed that this intratelencephalic-projecting glutametergic neuron can have its soma in layer 2/3, 4B, 4C. The position of the soma in layer 4b and 4C is less frequent for this neuronal type in comparison to cortical layer 2/3." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" +- [L2/3 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030059) [symbol](http://purl.obolibrary.org/obo/IAO_0000028) "L2/3 IT" -### Mullerian duct `http://purl.obolibrary.org/obo/UBERON_0003890` -#### Removed -- [Mullerian duct](http://purl.obolibrary.org/obo/UBERON_0003890) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Either of the paired embryonic ducts developing into the uterine tubes, uterus, and vagina in the female and becoming largely obliterated in the male. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/paramesonephric+duct" +- [L2/3 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030059) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A transcriptomically distinct intratelencephalic-projecting glutamatergic neuron with a soma found between cortical layer 2-4. This intratelencephalic-projecting glutamatergic neuron has thin-tufted apical dendrites and extends its axonal projection into L5 in the neocortex. This neuronal type has a hyperpolarised resting membrane potential. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', clusters L2/3 IT." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:25622573" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37292694" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "https://cellxgene.cziscience.com/e/c3aa4f95-7a18-4a7d-8dd8-ca324d714363.cxg/" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001199" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34004146" -- [Mullerian duct](http://purl.obolibrary.org/obo/UBERON_0003890) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In females, the archinephric (mesonephric) ducts tend to function only within the urinary systems. The muellerian duct arises embryologically next to the archinephric (wolffian) duct. In males, the muellerian duct regresses if it appears at all, but in females, the muellerian ducts become the oviducts of the reproductive system.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.559" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### L2/3 intratelencephalic projecting glutamatergic neuron of the primary motor cortex `http://purl.obolibrary.org/obo/CL_4023047` +#### Removed +- [L2/3 intratelencephalic projecting glutamatergic neuron of the primary motor cortex](http://purl.obolibrary.org/obo/CL_4023047) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "L2/3 IT MOp" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [L2/3 intratelencephalic projecting glutamatergic neuron of the primary motor cortex](http://purl.obolibrary.org/obo/CL_4023047) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 2/3 of the primary motor cortex." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "DOI:10.1101/2020.10.19.343129" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [L2/3 intratelencephalic projecting glutamatergic neuron of the primary motor cortex](http://purl.obolibrary.org/obo/CL_4023047) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "L2/3 IT M1" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001199" +#### Added +- [L2/3 intratelencephalic projecting glutamatergic neuron of the primary motor cortex](http://purl.obolibrary.org/obo/CL_4023047) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "L2/3 IT MOp" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34616075" -- [Mullerian duct](http://purl.obolibrary.org/obo/UBERON_0003890) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Transient developmental organ which gives rise to oviducts in female (documented to persist in some male frogs).[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [L2/3 intratelencephalic projecting glutamatergic neuron of the primary motor cortex](http://purl.obolibrary.org/obo/CL_4023047) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "L2/3 IT M1" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34616075" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010141" +- [L2/3 intratelencephalic projecting glutamatergic neuron of the primary motor cortex](http://purl.obolibrary.org/obo/CL_4023047) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 2/3 of the primary motor cortex." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34616075" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:RED" +### L2/3-6 intratelencephalic projecting glutamatergic neuron `http://purl.obolibrary.org/obo/CL_4023040` +#### Removed +- [L2/3-6 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4023040) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layers L2/3-6" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "DOI:10.1101/2020.10.19.343129" -- [Mullerian duct](http://purl.obolibrary.org/obo/UBERON_0003890) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Sertoli cells secrete anti-Mullerian hormone (AMH) inducing the demise of this duct" +#### Added +- [L2/3-6 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4023040) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layers L2/3-6." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34616075" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "https://cellxgene.cziscience.com/e/c3aa4f95-7a18-4a7d-8dd8-ca324d714363.cxg/" -### Muridae `http://purl.obolibrary.org/obo/NCBITaxon_10066` -#### Removed -- [Muridae](http://purl.obolibrary.org/obo/NCBITaxon_10066) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_family](http://purl.obolibrary.org/obo/NCBITaxon_family) +### L3 intratelencephalic projecting glutamatergic neuron `http://purl.obolibrary.org/obo/CL_4030061` +#### Added +- [L3 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030061) [symbol](http://purl.obolibrary.org/obo/IAO_0000028) "L3 IT" -### Murinae `http://purl.obolibrary.org/obo/NCBITaxon_39107` +### L4 intratelencephalic projecting glutamatergic neuron `http://purl.obolibrary.org/obo/CL_4030063` #### Removed -- [Murinae](http://purl.obolibrary.org/obo/NCBITaxon_39107) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_subfamily](http://purl.obolibrary.org/obo/NCBITaxon_subfamily) +- [L4 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030063) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 4." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37292694" +#### Added +- [L4 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030063) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A transcriptomically distinct intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 3-4. This neuron type can have a pyramidal, star-pyramidal or spiny stellate morphology and projects its output to L2/3 and L5A/B. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', L4 IT." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37292694" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" -### Muroidea `http://purl.obolibrary.org/obo/NCBITaxon_337687` -#### Removed -- [Muroidea](http://purl.obolibrary.org/obo/NCBITaxon_337687) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "https://cellxgene.cziscience.com/e/c3aa4f95-7a18-4a7d-8dd8-ca324d714363.cxg/" +- [L4 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030063) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Historically, the L4 intratelencephalic projectic glutametergic neuron was known to have its soma in cortical layer 4. MERFISH data showed that this intratelencephalic-projecting glutametergic neuron can also have its soma in layer 3." +- [L4 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030063) [symbol](http://purl.obolibrary.org/obo/IAO_0000028) "L4 IT" -### Mus `http://purl.obolibrary.org/obo/NCBITaxon_10088` -#### Removed -- [Mus ](http://purl.obolibrary.org/obo/NCBITaxon_10088) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "mice" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [OMO_0003003](http://purl.obolibrary.org/obo/OMO_0003003) -- [Mus ](http://purl.obolibrary.org/obo/NCBITaxon_10088) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_genus](http://purl.obolibrary.org/obo/NCBITaxon_genus) +### L4/5 intratelencephalic projecting glutamatergic neuron `http://purl.obolibrary.org/obo/CL_4030062` #### Added -- [Mus ](http://purl.obolibrary.org/obo/NCBITaxon_10088) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "mice" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [genbank_common_name](http://purl.obolibrary.org/obo/ncbitaxon#genbank_common_name) +- [L4/5 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030062) [symbol](http://purl.obolibrary.org/obo/IAO_0000028) "L4/5 IT" -### Mus `http://purl.obolibrary.org/obo/NCBITaxon_862507` +### L5 extratelencephalic projecting glutamatergic cortical neuron `http://purl.obolibrary.org/obo/CL_4023041` #### Removed -- [Mus ](http://purl.obolibrary.org/obo/NCBITaxon_862507) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_subgenus](http://purl.obolibrary.org/obo/NCBITaxon_subgenus) +- [L5 extratelencephalic projecting glutamatergic cortical neuron](http://purl.obolibrary.org/obo/CL_4023041) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "Pyramidal tract-like (PT-l)" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "DOI:10.1016/j.cell.2019.09.023" + - [comment](http://www.w3.org/2000/01/rdf-schema#comment) "pyramidal tract-like is used because, unlike pyramidal tract neurons in the motor cortex, neurons in the structures like the auditory cortex do not project to the spinal cord." +- [L5 extratelencephalic projecting glutamatergic cortical neuron](http://purl.obolibrary.org/obo/CL_4023041) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A glutamatergic neuron, with a soma found in the deeper portion of L5, that has long-range axonal projections including deep subcortical targets outside of the telencephalon and, in some cases, the spinal cord. While the L5 ET neuron projections are not limited to ET targets, they are clearly differentiated from the neuron subclasses whose projections are constrained to intratelencephalic (IT) targets. L5 ET neurons are generally the largest excitatory cortical neurons, typically having a thick apical dendrite with a prominent dendritic tuft in layer 1 and displaying burst-firing physiological characteristics." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "DOI:10.1101/2020.10.19.343129" -### Mus musculus `http://purl.obolibrary.org/obo/NCBITaxon_10090` -#### Removed -- [Mus musculus](http://purl.obolibrary.org/obo/NCBITaxon_10090) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_species](http://purl.obolibrary.org/obo/NCBITaxon_species) - +#### Added +- [L5 extratelencephalic projecting glutamatergic cortical neuron](http://purl.obolibrary.org/obo/CL_4023041) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "Pyramidal tract-like (PT-l)" + - [comment](http://www.w3.org/2000/01/rdf-schema#comment) "pyramidal tract-like is used because, unlike pyramidal tract neurons in the motor cortex, neurons in the structures like the auditory cortex do not project to the spinal cord." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:31626774" -### Myomorpha `http://purl.obolibrary.org/obo/NCBITaxon_1963758` -#### Removed -- [Myomorpha](http://purl.obolibrary.org/obo/NCBITaxon_1963758) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_suborder](http://purl.obolibrary.org/obo/NCBITaxon_suborder) +- [L5 extratelencephalic projecting glutamatergic cortical neuron](http://purl.obolibrary.org/obo/CL_4023041) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A glutamatergic neuron, with a soma found in the deeper portion of L5, that has long-range axonal projections including deep subcortical targets outside of the telencephalon and, in some cases, the spinal cord. While the L5 ET neuron projections are not limited to ET targets, they are clearly differentiated from the neuron subclasses whose projections are constrained to intratelencephalic (IT) targets. L5 ET neurons are generally the largest excitatory cortical neurons, typically having a thick apical dendrite with a prominent dendritic tuft in layer 1 and displaying burst-firing physiological characteristics." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34616075" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" -### NKG2-A/NKG2-B type II integral membrane protein `http://purl.obolibrary.org/obo/PR_000002023` +### L5 intratelencephalic projecting glutamatergic neuron `http://purl.obolibrary.org/obo/CL_4030064` #### Removed -- [NKG2-A/NKG2-B type II integral membrane protein](http://purl.obolibrary.org/obo/PR_000002023) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [NKG2-A/NKG2-B type II integral membrane protein (human)](http://purl.obolibrary.org/obo/PR_P26715) +- [L5 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030064) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 5." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37609206" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37292694" +#### Added +- [L5 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030064) [symbol](http://purl.obolibrary.org/obo/IAO_0000028) "L5 IT" -### Nematoda `http://purl.obolibrary.org/obo/NCBITaxon_6231` -#### Removed -- [Nematoda](http://purl.obolibrary.org/obo/NCBITaxon_6231) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_phylum](http://purl.obolibrary.org/obo/NCBITaxon_phylum) +- [L5 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030064) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ILX:0770157" +- [L5 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030064) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 5. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', L5 IT." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37609206" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37292694" -### Neopterygii `http://purl.obolibrary.org/obo/NCBITaxon_41665` -#### Removed -- [Neopterygii](http://purl.obolibrary.org/obo/NCBITaxon_41665) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_subclass](http://purl.obolibrary.org/obo/NCBITaxon_subclass) + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "https://cellxgene.cziscience.com/e/c3aa4f95-7a18-4a7d-8dd8-ca324d714363.cxg/" -### Opisthokonta `http://purl.obolibrary.org/obo/NCBITaxon_33154` -#### Removed -- [Opisthokonta](http://purl.obolibrary.org/obo/NCBITaxon_33154) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +### L5/6 cck GABAergic interneuron (Mmus) `http://purl.obolibrary.org/obo/CL_4023071` +#### Added +- [L5/6 cck GABAergic interneuron (Mmus)](http://purl.obolibrary.org/obo/CL_4023071) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### Panarthropoda `http://purl.obolibrary.org/obo/NCBITaxon_88770` +### L5/6 near-projecting glutamatergic neuron `http://purl.obolibrary.org/obo/CL_4030067` #### Removed -- [Panarthropoda](http://purl.obolibrary.org/obo/NCBITaxon_88770) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) +- [L5/6 near-projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030067) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A near-projecting glutamatergic neuron with a soma found in cortical layer 5/6." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37292694" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34004146" +#### Added +- [L5/6 near-projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030067) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A near-projecting glutamatergic neuron with a soma found in cortical layer 5/6." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37292694" -### Pancrustacea `http://purl.obolibrary.org/obo/NCBITaxon_197562` -#### Removed -- [Pancrustacea](http://purl.obolibrary.org/obo/NCBITaxon_197562) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34004146" -### Peloderinae `http://purl.obolibrary.org/obo/NCBITaxon_55885` +### L5/6 near-projecting glutamatergic neuron of the primary motor cortex `http://purl.obolibrary.org/obo/CL_4023043` #### Removed -- [Peloderinae](http://purl.obolibrary.org/obo/NCBITaxon_55885) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_subfamily](http://purl.obolibrary.org/obo/NCBITaxon_subfamily) - +- [L5/6 near-projecting glutamatergic neuron of the primary motor cortex](http://purl.obolibrary.org/obo/CL_4023043) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A near-projecting glutamatergic neuron with a soma found in layer 5/6 of the primary motor cortex." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "DOI:10.1101/2020.10.19.343129" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:31209381" -### Perissodactyla `http://purl.obolibrary.org/obo/NCBITaxon_9787` -#### Removed -- [Perissodactyla](http://purl.obolibrary.org/obo/NCBITaxon_9787) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_order](http://purl.obolibrary.org/obo/NCBITaxon_order) +#### Added +- [L5/6 near-projecting glutamatergic neuron of the primary motor cortex](http://purl.obolibrary.org/obo/CL_4023043) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A near-projecting glutamatergic neuron with a soma found in layer 5/6 of the primary motor cortex." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34616075" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:31209381" -### Peyer's patch `http://purl.obolibrary.org/obo/UBERON_0001211` +### L6 corticothalamic-projecting glutamatergic cortical neuron `http://purl.obolibrary.org/obo/CL_4023042` #### Removed -- [Peyer's patch](http://purl.obolibrary.org/obo/UBERON_0001211) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Reptiles have accumulations of lymphocytes in their guts that may be primitive Peyer's patches (Zapata and Solas)." +- [L6 corticothalamic-projecting glutamatergic cortical neuron](http://purl.obolibrary.org/obo/CL_4023042) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "L6 CT" -- [Peyer's patch](http://purl.obolibrary.org/obo/UBERON_0001211) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA has [set of?] [aggregated,small] lymphoid [follice,nodule] of [colon, SI, I, etc]" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [Peyer's patch](http://purl.obolibrary.org/obo/UBERON_0001211) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Pp is a syn for Aggregated lymphoid follicle of small intestine; but MA uses Pp as covering both SI and LI. MA also includes follicle as a part. WP says duodenum and jejunum lack PPs" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +- [L6 corticothalamic-projecting glutamatergic cortical neuron](http://purl.obolibrary.org/obo/CL_4023042) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A corticothalamic-projecting neuron with a soma found in cortical layer 6." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "DOI:10.1101/2020.10.19.343129" +#### Added +- [L6 corticothalamic-projecting glutamatergic cortical neuron](http://purl.obolibrary.org/obo/CL_4023042) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "L6 CT" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34616075" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:28625486" -### Platyhelminthes `http://purl.obolibrary.org/obo/NCBITaxon_6157` -#### Removed -- [Platyhelminthes](http://purl.obolibrary.org/obo/NCBITaxon_6157) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_phylum](http://purl.obolibrary.org/obo/NCBITaxon_phylum) +- [L6 corticothalamic-projecting glutamatergic cortical neuron](http://purl.obolibrary.org/obo/CL_4023042) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A corticothalamic-projecting neuron with a soma found in cortical layer 6." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34616075" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" -### Platyrrhini `http://purl.obolibrary.org/obo/NCBITaxon_9479` +### L6 intratelencephalic projecting Car3 glutamatergic neuron `http://purl.obolibrary.org/obo/CL_4030068` #### Removed -- [Platyrrhini](http://purl.obolibrary.org/obo/NCBITaxon_9479) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_parvorder](http://purl.obolibrary.org/obo/NCBITaxon_parvorder) +- [L6 intratelencephalic projecting Car3 glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030068) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 6 that expresses Car3." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "doi:10.1016/j.cell.2021.04.021" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "doi:10.1101/2022.11.06.515349" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "doi:10.1101/2022.11.30.518285" -### Primates `http://purl.obolibrary.org/obo/NCBITaxon_9443` -#### Removed -- [Primates](http://purl.obolibrary.org/obo/NCBITaxon_9443) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_order](http://purl.obolibrary.org/obo/NCBITaxon_order) +- [L6 intratelencephalic projecting Car3 glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030068) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "L6-IT-Car3 cell" + - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "doi:10.1101/2022.11.30.518285" +- [L6 intratelencephalic projecting Car3 glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030068) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "L6 IT Car3 neuron" + - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) -### Protostomia `http://purl.obolibrary.org/obo/NCBITaxon_33317` -#### Removed -- [Protostomia](http://purl.obolibrary.org/obo/NCBITaxon_33317) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "doi:10.1101/2022.11.06.515349" +#### Added +- [L6 intratelencephalic projecting Car3 glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030068) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A transcriptomically distinct intratelencepalic-projecting glutamatergic neuron that expresses Car3 with a soma found in L6 . The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_cluster', L6 IT Car3." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "doi:10.1101/2022.11.30.518285" -### Purkinje cell layer of cerebellar cortex `http://purl.obolibrary.org/obo/UBERON_0002979` -#### Removed -- [Purkinje cell layer of cerebellar cortex](http://purl.obolibrary.org/obo/UBERON_0002979) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [granular layer of cerebellar cortex](http://purl.obolibrary.org/obo/UBERON_0002956) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "doi:10.1007/s00424-024-02923-2" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34004146" +- [L6 intratelencephalic projecting Car3 glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030068) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "L6 IT Car3 neuron" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" -### RO_0001900 `http://purl.obolibrary.org/obo/RO_0001900` -#### Removed -- AnnotationProperty: [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) + - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) +- [L6 intratelencephalic projecting Car3 glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030068) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "L6-IT-Car3 cell" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" + - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) -### RO_0002171 `http://purl.obolibrary.org/obo/RO_0002171` -#### Removed -- AnnotationProperty: [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) +- [L6 intratelencephalic projecting Car3 glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030068) [symbol](http://purl.obolibrary.org/obo/IAO_0000028) "L6 IT Car3" +- [L6 intratelencephalic projecting Car3 glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030068) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### RO_0002174 `http://purl.obolibrary.org/obo/RO_0002174` +### L6 intratelencephalic projecting glutamatergic neuron `http://purl.obolibrary.org/obo/CL_4030065` #### Removed -- AnnotationProperty: [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) +- [L6 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030065) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 6." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37609206" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37292694" +#### Added +- [L6 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030065) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ILX:0770158" -### RO_0002475 `http://purl.obolibrary.org/obo/RO_0002475` -#### Removed -- AnnotationProperty: [RO_0002475](http://purl.obolibrary.org/obo/RO_0002475) +- [L6 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030065) [symbol](http://purl.obolibrary.org/obo/IAO_0000028) "L6 IT" +- [L6 intratelencephalic projecting glutamatergic neuron](http://purl.obolibrary.org/obo/CL_4030065) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A transcriptomically distinct intratelencephalic-projecting glutamatergic neuron with a soma found in L6 of the primary motor cortex. These cells are short untufted pyramidal cells, which could be stellate or inverted. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', L6 IT." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37609206" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37292694" -### RO_0002575 `http://purl.obolibrary.org/obo/RO_0002575` -#### Removed -- AnnotationProperty: [RO_0002575](http://purl.obolibrary.org/obo/RO_0002575) + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "https://cellxgene.cziscience.com/e/c3aa4f95-7a18-4a7d-8dd8-ca324d714363.cxg/" -### RO_0002579 `http://purl.obolibrary.org/obo/RO_0002579` +### L6 intratelencephalic projecting glutamatergic neuron of the primary motor cortex `http://purl.obolibrary.org/obo/CL_4023050` #### Removed -- AnnotationProperty: [RO_0002579](http://purl.obolibrary.org/obo/RO_0002579) +- [L6 intratelencephalic projecting glutamatergic neuron of the primary motor cortex](http://purl.obolibrary.org/obo/CL_4023050) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "An intratelencephalic-projecting glutamatergic neuron with a soma found in L6 of the primary motor cortex. These cells are short untufted pyramidal cells, which could be stellate or inverted." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:9236245" +#### Added +- [L6 intratelencephalic projecting glutamatergic neuron of the primary motor cortex](http://purl.obolibrary.org/obo/CL_4023050) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "An intratelencephalic-projecting glutamatergic neuron with a soma found in L6 of the primary motor cortex. These cells are short untufted pyramidal cells, which could be stellate or inverted." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34616063" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34616075" -### RO_0002604 `http://purl.obolibrary.org/obo/RO_0002604` -#### Removed -- AnnotationProperty: [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:9236245" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:33184512" -### RO_0004036 `http://purl.obolibrary.org/obo/RO_0004036` +### L6b glutamatergic cortical neuron `http://purl.obolibrary.org/obo/CL_4023038` #### Removed -- AnnotationProperty: [RO_0004036](http://purl.obolibrary.org/obo/RO_0004036) +- [L6b glutamatergic cortical neuron](http://purl.obolibrary.org/obo/CL_4023038) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A glutamatergic neuron with a soma found in cortical layer 6b. They are transcriptomically related to corticothalamic-projecting neurons but have differential projections to the thalamus or anterior cingulate." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "DOI:10.1101/2020.10.19.34312" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:30382198" +#### Added +- [L6b glutamatergic cortical neuron](http://purl.obolibrary.org/obo/CL_4023038) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A glutamatergic neuron with a soma found in cortical layer 6b. They are transcriptomically related to corticothalamic-projecting neurons but have differential projections to the thalamus or anterior cingulate." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "DOI:10.1101/2020.10.19.34312" -### RO_0004049 `http://purl.obolibrary.org/obo/RO_0004049` -#### Removed -- AnnotationProperty: [RO_0004049](http://purl.obolibrary.org/obo/RO_0004049) + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:30382198" -### RO_0040042 `http://purl.obolibrary.org/obo/RO_0040042` -#### Removed -- AnnotationProperty: [RO_0040042](http://purl.obolibrary.org/obo/RO_0040042) +### Leydig cell `http://purl.obolibrary.org/obo/CL_0000178` +#### Added +- [Leydig cell](http://purl.obolibrary.org/obo/CL_0000178) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009108" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [Leydig cell](http://purl.obolibrary.org/obo/CL_0000178) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### Rathke's pouch `http://purl.obolibrary.org/obo/UBERON_0005356` -#### Removed -- [Rathke's pouch](http://purl.obolibrary.org/obo/UBERON_0005356) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "median funnel­-shaped invagination of ectoderm, the nasohypophyseal pouch. It will contribute to the formation of the pituitary gland of the adult lamprey and is homologous to Rathke's pouch and perhaps to Hatschek 's pit (amphioxus)." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://webs.lander.edu/rsfox/invertebrates/ammocoetes.html" -- [Rathke's pouch](http://purl.obolibrary.org/obo/UBERON_0005356) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [NCBITaxon_7955](http://purl.obolibrary.org/obo/NCBITaxon_7955) +### Leydig cell proliferation `http://purl.obolibrary.org/obo/GO_0160024` -- [Rathke's pouch](http://purl.obolibrary.org/obo/UBERON_0005356) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "EHDAA2 distinguishes between the adenohypophyseal pouch and it's precursor Rathke's pouch epithelium." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" +#### Added +- [Leydig cell proliferation](http://purl.obolibrary.org/obo/GO_0160024) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [Rathke's pouch](http://purl.obolibrary.org/obo/UBERON_0005356) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "It (the hypophysis) develops embryonically in all vertebrates from two ectodermal evaginations that meet and unite. An infundibulum grows ventrally from the diencephalon of the brain, and Rathke's pouch extends dorsally from the roof of the developing mouth, or stomodaeum. The infundibulum remains connected to the floor of the diencephalon, which becomes the hypothalamus, and gives rise to the part of the gland known as the neurohypophysis. (...) Rathke's pouch loses its connection with the stomodaeum in most adult vertebrates and gives rise to the rest of the gland, the adenohypophysis. (...) A well-developed hypophyseal system with functional connections to the hypothalamus is unique to craniates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### Leydig cell region of testis `http://purl.obolibrary.org/obo/UBERON_0005212` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.510 and Figure 15-5" +#### Added +- [Leydig cell region of testis](http://purl.obolibrary.org/obo/UBERON_0005212) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000674" +### Ly-76 high positive erythrocyte `http://purl.obolibrary.org/obo/CL_0002022` +#### Removed +- [Ly-76 high positive erythrocyte](http://purl.obolibrary.org/obo/CL_0002022) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [Rathke's pouch](http://purl.obolibrary.org/obo/UBERON_0005356) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A depression that forms in the roof of the mouth of an embryo, anterior to the buccopharyngeal membrane. The walls of the diverticulum develop into the anterior lobe of the pituitary gland. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### M cell of gut `http://purl.obolibrary.org/obo/CL_0000682` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/rathke's+pouch" +#### Added +- [M cell of gut](http://purl.obolibrary.org/obo/CL_0000682) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009293" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000674" +### M cone cell `http://purl.obolibrary.org/obo/CL_0003049` +#### Removed +- [M cone cell](http://purl.obolibrary.org/obo/CL_0003049) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### Reissner's fiber `http://purl.obolibrary.org/obo/UBERON_0011357` -#### Removed -- [Reissner's fiber](http://purl.obolibrary.org/obo/UBERON_0011357) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Reissner's fiber is present in the central canal of species in all chordate subphyla[Olsson R. (1993) Reissner's fiber mechanisms: some common denominators. In The Subcommissural Organ: An Ependymal Brain Gland ]" -#### Added -- [Reissner's fiber](http://purl.obolibrary.org/obo/UBERON_0011357) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### Rhabditida `http://purl.obolibrary.org/obo/NCBITaxon_6236` -#### Removed -- [Rhabditida](http://purl.obolibrary.org/obo/NCBITaxon_6236) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_order](http://purl.obolibrary.org/obo/NCBITaxon_order) - - - -### Rhabditidae `http://purl.obolibrary.org/obo/NCBITaxon_6243` -#### Removed -- [Rhabditidae](http://purl.obolibrary.org/obo/NCBITaxon_6243) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_family](http://purl.obolibrary.org/obo/NCBITaxon_family) - - - -### Rhabditina `http://purl.obolibrary.org/obo/NCBITaxon_2301116` -#### Removed -- [Rhabditina](http://purl.obolibrary.org/obo/NCBITaxon_2301116) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_suborder](http://purl.obolibrary.org/obo/NCBITaxon_suborder) - - - -### Rhabditoidea `http://purl.obolibrary.org/obo/NCBITaxon_55879` -#### Removed -- [Rhabditoidea](http://purl.obolibrary.org/obo/NCBITaxon_55879) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_superfamily](http://purl.obolibrary.org/obo/NCBITaxon_superfamily) - - - -### Rhabditomorpha `http://purl.obolibrary.org/obo/NCBITaxon_2301119` -#### Removed -- [Rhabditomorpha](http://purl.obolibrary.org/obo/NCBITaxon_2301119) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_infraorder](http://purl.obolibrary.org/obo/NCBITaxon_infraorder) - - - -### Rodentia `http://purl.obolibrary.org/obo/NCBITaxon_9989` -#### Removed -- [Rodentia](http://purl.obolibrary.org/obo/NCBITaxon_9989) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_order](http://purl.obolibrary.org/obo/NCBITaxon_order) - - - -### Rules -#### Removed -- [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629)(?mf, ?mf2), [has effector activity](http://purl.obolibrary.org/obo/RO_0002025)(?mf, ?eff) -> [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629)(?eff, ?mf2) - - [comment](http://www.w3.org/2000/01/rdf-schema#comment) "if effector directly positively regulates X, its parent MF directly positively regulates X" - -- [causally upstream of](http://purl.obolibrary.org/obo/RO_0002411)(?x, ?y), [overlaps](http://purl.obolibrary.org/obo/RO_0002131)(?x, ?y) -> [Nothing](http://www.w3.org/2002/07/owl#Nothing)(?x), [Nothing](http://www.w3.org/2002/07/owl#Nothing)(?y) - - [label](http://www.w3.org/2000/01/rdf-schema#label) "'causally upstream of' and 'overlaps' should be disjoint properties (a SWRL rule is required because these are non-simple properties)." - -- [input of](http://purl.obolibrary.org/obo/RO_0002352)(?B, ?C), [enabled by](http://purl.obolibrary.org/obo/RO_0002333)(?A, ?B), [has regulatory component activity](http://purl.obolibrary.org/obo/RO_0002013)(?D, ?C) -> [directly regulates](http://purl.obolibrary.org/obo/RO_0002578)(?A, ?D) - - [label](http://www.w3.org/2000/01/rdf-schema#label) "inferring direct reg edge from input to regulatory subfunction" - - - [comment](http://www.w3.org/2000/01/rdf-schema#comment) "If a molecular function (X) has a regulatory subfunction, then any gene product which is an input to that subfunction has an activity that directly_regulates X. Note: this is intended for cases where the regaultory subfunction is protein binding, so it could be tightened with an additional clause to specify this." - -- [input of](http://purl.obolibrary.org/obo/RO_0002352)(?B, ?C), [enabled by](http://purl.obolibrary.org/obo/RO_0002333)(?A, ?B), [has negative regulatory component activity](http://purl.obolibrary.org/obo/RO_0002014)(?D, ?C) -> [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630)(?A, ?D) - - [label](http://www.w3.org/2000/01/rdf-schema#label) "inferring direct neg reg edge from input to regulatory subfunction" - -- [biological_process](http://purl.obolibrary.org/obo/GO_0008150)(?z), [part_of](http://purl.obolibrary.org/obo/BFO_0000050)(?y, ?z), [enables](http://purl.obolibrary.org/obo/RO_0002327)(?x, ?y) -> [involved in](http://purl.obolibrary.org/obo/RO_0002331)(?x, ?z) - - [label](http://www.w3.org/2000/01/rdf-schema#label) "involved in BP" - - - [isRuleEnabled](http://swrl.stanford.edu/ontologies/3.3/swrla.owl#isRuleEnabled) true - - - [comment](http://www.w3.org/2000/01/rdf-schema#comment) "GP(X)-enables->MF(Y)-part_of->BP(Z) => GP(X) involved_in BP(Z) e.g. if X enables 'protein kinase activity' and Y 'part of' 'signal tranduction' then X involved in 'signal transduction'" - -- [molecular_function](http://purl.obolibrary.org/obo/GO_0003674)(?y), [enables](http://purl.obolibrary.org/obo/RO_0002327)(?x, ?y), [has part](http://purl.obolibrary.org/obo/BFO_0000051)(?y, ?z) -> [enables](http://purl.obolibrary.org/obo/RO_0002327)(?x, ?z) - - [label](http://www.w3.org/2000/01/rdf-schema#label) "enabling an MF enables its parts" - - - [comment](http://www.w3.org/2000/01/rdf-schema#comment) "GP(X)-enables->MF(Y)-has_part->MF(Z) => GP(X) enables MF(Z), -e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase coupled transporter activity' has_part 'ATPase activity' then GP(X) enables 'ATPase activity'" - -- [has input](http://purl.obolibrary.org/obo/RO_0002233)(?mf, ?in), [has effector activity](http://purl.obolibrary.org/obo/RO_0002025)(?mf, ?eff) -> [has input](http://purl.obolibrary.org/obo/RO_0002233)(?eff, ?in) - - [label](http://www.w3.org/2000/01/rdf-schema#label) "Input of effector is input of its parent MF" - -- [directly regulates](http://purl.obolibrary.org/obo/RO_0002578)(?a1, ?a2), [kinase activity](http://purl.obolibrary.org/obo/GO_0016301)(?a1), [enabled by](http://purl.obolibrary.org/obo/RO_0002333)(?a1, ?g1), [enabled by](http://purl.obolibrary.org/obo/RO_0002333)(?a2, ?g2) -> [phosphorylates](http://purl.obolibrary.org/obo/RO_0002447)(?g1, ?g2) - -- [has input](http://purl.obolibrary.org/obo/RO_0002233)(?eff, ?in), [has effector activity](http://purl.obolibrary.org/obo/RO_0002025)(?mf, ?eff) -> [has input](http://purl.obolibrary.org/obo/RO_0002233)(?mf, ?in) - - [label](http://www.w3.org/2000/01/rdf-schema#label) "effector input is compound function input" - -- [causally downstream of](http://purl.obolibrary.org/obo/RO_0002404)(?x, ?y), [overlaps](http://purl.obolibrary.org/obo/RO_0002131)(?x, ?y) -> [Nothing](http://www.w3.org/2002/07/owl#Nothing)(?x), [Nothing](http://www.w3.org/2002/07/owl#Nothing)(?y) - - [label](http://www.w3.org/2000/01/rdf-schema#label) "'causally downstream of' and 'overlaps' should be disjoint properties (a SWRL rule is required because these are non-simple properties)." - -- [has effector activity](http://purl.obolibrary.org/obo/RO_0002025)(?mf, ?eff), [directly regulates](http://purl.obolibrary.org/obo/RO_0002578)(?mf, ?mf2) -> [directly regulates](http://purl.obolibrary.org/obo/RO_0002578)(?eff, ?mf2) - - [comment](http://www.w3.org/2000/01/rdf-schema#comment) "if effector directly regulates X, its parent MF directly regulates X" - -- [positively regulates](http://purl.obolibrary.org/obo/RO_0002213)(?y, ?z), [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212)(?x, ?y) -> [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212)(?x, ?z) - -- [positively regulates](http://purl.obolibrary.org/obo/RO_0002213)(?x, ?y), [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212)(?y, ?z) -> [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212)(?x, ?z) - -- [input of](http://purl.obolibrary.org/obo/RO_0002352)(?B, ?C), [enabled by](http://purl.obolibrary.org/obo/RO_0002333)(?A, ?B), [has positive regulatory component activity](http://purl.obolibrary.org/obo/RO_0002015)(?D, ?C) -> [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629)(?A, ?D) - - [label](http://www.w3.org/2000/01/rdf-schema#label) "inferring direct positive reg edge from input to regulatory subfunction" - -- [enables](http://purl.obolibrary.org/obo/RO_0002327)(?, ?), [directly regulates](http://purl.obolibrary.org/obo/RO_0002578)(?, ?), [molecular_function](http://purl.obolibrary.org/obo/GO_0003674)(?), [molecular_function](http://purl.obolibrary.org/obo/GO_0003674)(?) -> [has input](http://purl.obolibrary.org/obo/RO_0002233)(?, ?) - - [isRuleEnabled](http://swrl.stanford.edu/ontologies/3.3/swrla.owl#isRuleEnabled) true - - - [label](http://www.w3.org/2000/01/rdf-schema#label) "infer input from direct reg" - - - [comment](http://www.w3.org/2000/01/rdf-schema#comment) "MF(X)-directly_regulates->MF(Y)-enabled_by->GP(Z) => MF(Y)-has_input->GP(Y) e.g. if 'protein kinase activity'(X) directly_regulates 'protein binding activity (Y)and this is enabled by GP(Z) then X has_input Z" - -- [has effector activity](http://purl.obolibrary.org/obo/RO_0002025)(?mf, ?eff), [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630)(?mf, ?mf2) -> [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630)(?eff, ?mf2) - - [label](http://www.w3.org/2000/01/rdf-schema#label) "if effector directly negatively regulates X, its parent MF directly negatively regulates X" - -- [has component](http://purl.obolibrary.org/obo/RO_0002180)(?w, ?p), [process](http://purl.obolibrary.org/obo/BFO_0000015)(?w), [process](http://purl.obolibrary.org/obo/BFO_0000015)(?p) -> [has component process](http://purl.obolibrary.org/obo/RO_0002018)(?w, ?p) - -#### Added -- [directly regulates](http://purl.obolibrary.org/obo/RO_0002578)(?a1, ?a2), [kinase activity](http://purl.obolibrary.org/obo/GO_0016301)(?a1), [enabled by](http://purl.obolibrary.org/obo/RO_0002333)(?a1, ?g1), [enabled by](http://purl.obolibrary.org/obo/RO_0002333)(?a2, ?g2) -> [phosphorylates](http://purl.obolibrary.org/obo/RO_0002447)(?g1, ?g2) - -- [causally upstream of](http://purl.obolibrary.org/obo/RO_0002411)(?x, ?y), [overlaps](http://purl.obolibrary.org/obo/RO_0002131)(?x, ?y) -> [Nothing](http://www.w3.org/2002/07/owl#Nothing)(?x), [Nothing](http://www.w3.org/2002/07/owl#Nothing)(?y) - - [label](http://www.w3.org/2000/01/rdf-schema#label) "'causally upstream of' and 'overlaps' should be disjoint properties (a SWRL rule is required because these are non-simple properties)." - -- [input of](http://purl.obolibrary.org/obo/RO_0002352)(?B, ?C), [enabled by](http://purl.obolibrary.org/obo/RO_0002333)(?A, ?B), [has regulatory component activity](http://purl.obolibrary.org/obo/RO_0002013)(?D, ?C) -> [directly regulates](http://purl.obolibrary.org/obo/RO_0002578)(?A, ?D) - - [label](http://www.w3.org/2000/01/rdf-schema#label) "inferring direct reg edge from input to regulatory subfunction" - - - [comment](http://www.w3.org/2000/01/rdf-schema#comment) "If a molecular function (X) has a regulatory subfunction, then any gene product which is an input to that subfunction has an activity that directly_regulates X. Note: this is intended for cases where the regaultory subfunction is protein binding, so it could be tightened with an additional clause to specify this." - -- [input of](http://purl.obolibrary.org/obo/RO_0002352)(?B, ?C), [enabled by](http://purl.obolibrary.org/obo/RO_0002333)(?A, ?B), [has negative regulatory component activity](http://purl.obolibrary.org/obo/RO_0002014)(?D, ?C) -> [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630)(?A, ?D) - - [label](http://www.w3.org/2000/01/rdf-schema#label) "inferring direct neg reg edge from input to regulatory subfunction" - -- [has input](http://purl.obolibrary.org/obo/RO_0002233)(?eff, ?in), [has effector activity](http://purl.obolibrary.org/obo/RO_0002025)(?mf, ?eff) -> [has input](http://purl.obolibrary.org/obo/RO_0002233)(?mf, ?in) - - [label](http://www.w3.org/2000/01/rdf-schema#label) "effector input is compound function input" - -- [molecular_function](http://purl.obolibrary.org/obo/GO_0003674)(?y), [enables](http://purl.obolibrary.org/obo/RO_0002327)(?x, ?y), [has part](http://purl.obolibrary.org/obo/BFO_0000051)(?y, ?z) -> [enables](http://purl.obolibrary.org/obo/RO_0002327)(?x, ?z) - - [label](http://www.w3.org/2000/01/rdf-schema#label) "enabling an MF enables its parts" - - - [comment](http://www.w3.org/2000/01/rdf-schema#comment) "GP(X)-enables->MF(Y)-has_part->MF(Z) => GP(X) enables MF(Z), -e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase coupled transporter activity' has_part 'ATPase activity' then GP(X) enables 'ATPase activity'" - -- [has effector activity](http://purl.obolibrary.org/obo/RO_0002025)(?mf, ?eff), [directly regulates](http://purl.obolibrary.org/obo/RO_0002578)(?mf, ?mf2) -> [directly regulates](http://purl.obolibrary.org/obo/RO_0002578)(?eff, ?mf2) - - [comment](http://www.w3.org/2000/01/rdf-schema#comment) "if effector directly regulates X, its parent MF directly regulates X" - -- [has effector activity](http://purl.obolibrary.org/obo/RO_0002025)(?mf, ?eff), [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630)(?mf, ?mf2) -> [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630)(?eff, ?mf2) - - [label](http://www.w3.org/2000/01/rdf-schema#label) "if effector directly negatively regulates X, its parent MF directly negatively regulates X" - -- [has input](http://purl.obolibrary.org/obo/RO_0002233)(?mf, ?in), [has effector activity](http://purl.obolibrary.org/obo/RO_0002025)(?mf, ?eff) -> [has input](http://purl.obolibrary.org/obo/RO_0002233)(?eff, ?in) - - [label](http://www.w3.org/2000/01/rdf-schema#label) "Input of effector is input of its parent MF" - -- [causally downstream of](http://purl.obolibrary.org/obo/RO_0002404)(?x, ?y), [overlaps](http://purl.obolibrary.org/obo/RO_0002131)(?x, ?y) -> [Nothing](http://www.w3.org/2002/07/owl#Nothing)(?x), [Nothing](http://www.w3.org/2002/07/owl#Nothing)(?y) - - [label](http://www.w3.org/2000/01/rdf-schema#label) "'causally downstream of' and 'overlaps' should be disjoint properties (a SWRL rule is required because these are non-simple properties)." - -- [has component](http://purl.obolibrary.org/obo/RO_0002180)(?w, ?p), [process](http://purl.obolibrary.org/obo/BFO_0000015)(?w), [process](http://purl.obolibrary.org/obo/BFO_0000015)(?p) -> [has component process](http://purl.obolibrary.org/obo/RO_0002018)(?w, ?p) - -- [positively regulates](http://purl.obolibrary.org/obo/RO_0002213)(?y, ?z), [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212)(?x, ?y) -> [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212)(?x, ?z) - -- [positively regulates](http://purl.obolibrary.org/obo/RO_0002213)(?x, ?y), [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212)(?y, ?z) -> [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212)(?x, ?z) - -- [input of](http://purl.obolibrary.org/obo/RO_0002352)(?B, ?C), [enabled by](http://purl.obolibrary.org/obo/RO_0002333)(?A, ?B), [has positive regulatory component activity](http://purl.obolibrary.org/obo/RO_0002015)(?D, ?C) -> [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629)(?A, ?D) - - [label](http://www.w3.org/2000/01/rdf-schema#label) "inferring direct positive reg edge from input to regulatory subfunction" - -- [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629)(?mf, ?mf2), [has effector activity](http://purl.obolibrary.org/obo/RO_0002025)(?mf, ?eff) -> [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629)(?eff, ?mf2) - - [comment](http://www.w3.org/2000/01/rdf-schema#comment) "if effector directly positively regulates X, its parent MF directly positively regulates X" - - -### S-shaped body `http://purl.obolibrary.org/obo/UBERON_0004199` -#### Removed -- [S-shaped body](http://purl.obolibrary.org/obo/UBERON_0004199) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VO:0010896" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) - - - -### SCO-spondin `http://purl.obolibrary.org/obo/PR_000015658` -#### Removed -- [SCO-spondin](http://purl.obolibrary.org/obo/PR_000015658) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [SCO-spondin (human)](http://purl.obolibrary.org/obo/PR_A2VEC9) - - - -### SLAM family member 5 `http://purl.obolibrary.org/obo/PR_000001319` -#### Removed -- [SLAM family member 5](http://purl.obolibrary.org/obo/PR_000001319) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [SLAM family member 5 (human)](http://purl.obolibrary.org/obo/PR_Q9UIB8) - - - -### Saccharomyces `http://purl.obolibrary.org/obo/NCBITaxon_4930` -#### Removed -- [Saccharomyces](http://purl.obolibrary.org/obo/NCBITaxon_4930) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_genus](http://purl.obolibrary.org/obo/NCBITaxon_genus) - - - -### Saccharomyces cerevisiae `http://purl.obolibrary.org/obo/NCBITaxon_4932` -#### Removed -- [Saccharomyces cerevisiae](http://purl.obolibrary.org/obo/NCBITaxon_4932) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_species](http://purl.obolibrary.org/obo/NCBITaxon_species) - - - -### Saccharomycetaceae `http://purl.obolibrary.org/obo/NCBITaxon_4893` -#### Removed -- [Saccharomycetaceae](http://purl.obolibrary.org/obo/NCBITaxon_4893) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_family](http://purl.obolibrary.org/obo/NCBITaxon_family) - - - -### Saccharomycetales `http://purl.obolibrary.org/obo/NCBITaxon_4892` -#### Removed -- [Saccharomycetales](http://purl.obolibrary.org/obo/NCBITaxon_4892) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_order](http://purl.obolibrary.org/obo/NCBITaxon_order) - - - -### Saccharomycetes `http://purl.obolibrary.org/obo/NCBITaxon_4891` -#### Removed -- [Saccharomycetes](http://purl.obolibrary.org/obo/NCBITaxon_4891) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_class](http://purl.obolibrary.org/obo/NCBITaxon_class) - - - -### Saccharomycotina `http://purl.obolibrary.org/obo/NCBITaxon_147537` -#### Removed -- [Saccharomycotina](http://purl.obolibrary.org/obo/NCBITaxon_147537) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_subphylum](http://purl.obolibrary.org/obo/NCBITaxon_subphylum) - - - -### Sar `http://purl.obolibrary.org/obo/NCBITaxon_2698737` -#### Removed -- [Sar](http://purl.obolibrary.org/obo/NCBITaxon_2698737) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) - - - -### Sarcopterygii `http://purl.obolibrary.org/obo/NCBITaxon_8287` -#### Removed -- [Sarcopterygii](http://purl.obolibrary.org/obo/NCBITaxon_8287) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_superclass](http://purl.obolibrary.org/obo/NCBITaxon_superclass) - - - -### Sauria `http://purl.obolibrary.org/obo/NCBITaxon_32561` -#### Removed -- [Sauria](http://purl.obolibrary.org/obo/NCBITaxon_32561) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) - - - -### Saurischia `http://purl.obolibrary.org/obo/NCBITaxon_436489` -#### Removed -- [Saurischia](http://purl.obolibrary.org/obo/NCBITaxon_436489) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) - - - -### Sauropsida `http://purl.obolibrary.org/obo/NCBITaxon_8457` -#### Removed -- [Sauropsida](http://purl.obolibrary.org/obo/NCBITaxon_8457) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) - - - -### Schizosaccharomyces `http://purl.obolibrary.org/obo/NCBITaxon_4895` -#### Removed -- [Schizosaccharomyces](http://purl.obolibrary.org/obo/NCBITaxon_4895) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_genus](http://purl.obolibrary.org/obo/NCBITaxon_genus) - - - -### Schizosaccharomyces pombe `http://purl.obolibrary.org/obo/NCBITaxon_4896` -#### Removed -- [Schizosaccharomyces pombe](http://purl.obolibrary.org/obo/NCBITaxon_4896) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_species](http://purl.obolibrary.org/obo/NCBITaxon_species) - - - -### Schizosaccharomycetaceae `http://purl.obolibrary.org/obo/NCBITaxon_4894` -#### Removed -- [Schizosaccharomycetaceae](http://purl.obolibrary.org/obo/NCBITaxon_4894) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_family](http://purl.obolibrary.org/obo/NCBITaxon_family) - - - -### Schizosaccharomycetales `http://purl.obolibrary.org/obo/NCBITaxon_34346` -#### Removed -- [Schizosaccharomycetales](http://purl.obolibrary.org/obo/NCBITaxon_34346) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_order](http://purl.obolibrary.org/obo/NCBITaxon_order) - - - -### Schizosaccharomycetes `http://purl.obolibrary.org/obo/NCBITaxon_147554` -#### Removed -- [Schizosaccharomycetes](http://purl.obolibrary.org/obo/NCBITaxon_147554) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_class](http://purl.obolibrary.org/obo/NCBITaxon_class) - - - -### Simiiformes `http://purl.obolibrary.org/obo/NCBITaxon_314293` -#### Removed -- [Simiiformes](http://purl.obolibrary.org/obo/NCBITaxon_314293) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_infraorder](http://purl.obolibrary.org/obo/NCBITaxon_infraorder) - - - -### Spermatophyta `http://purl.obolibrary.org/obo/NCBITaxon_58024` -#### Removed -- [Spermatophyta](http://purl.obolibrary.org/obo/NCBITaxon_58024) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) - - - -### Spiralia `http://purl.obolibrary.org/obo/NCBITaxon_2697495` -#### Removed -- [Spiralia](http://purl.obolibrary.org/obo/NCBITaxon_2697495) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) - - - -### Streptophyta `http://purl.obolibrary.org/obo/NCBITaxon_35493` -#### Removed -- [Streptophyta](http://purl.obolibrary.org/obo/NCBITaxon_35493) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_phylum](http://purl.obolibrary.org/obo/NCBITaxon_phylum) - - - -### Streptophytina `http://purl.obolibrary.org/obo/NCBITaxon_131221` -#### Removed -- [Streptophytina](http://purl.obolibrary.org/obo/NCBITaxon_131221) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_subphylum](http://purl.obolibrary.org/obo/NCBITaxon_subphylum) - - - -### T-box transcription factor TBX21 `http://purl.obolibrary.org/obo/PR_000001835` -#### Removed -- [T-box transcription factor TBX21](http://purl.obolibrary.org/obo/PR_000001835) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [T-box transcription factor TBX21 (human)](http://purl.obolibrary.org/obo/PR_Q9UL17) - - - -### T-cell acute lymphocytic leukemia protein 1 `http://purl.obolibrary.org/obo/PR_000016043` -#### Removed -- [T-cell acute lymphocytic leukemia protein 1](http://purl.obolibrary.org/obo/PR_000016043) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [T-cell acute lymphocytic leukemia protein 1 (human)](http://purl.obolibrary.org/obo/PR_P17542) - - - -### T-cell surface glycoprotein CD1a `http://purl.obolibrary.org/obo/PR_000002025` -#### Removed -- [T-cell surface glycoprotein CD1a](http://purl.obolibrary.org/obo/PR_000002025) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [T-cell surface glycoprotein CD1a (human)](http://purl.obolibrary.org/obo/PR_P06126) - - - -### T-cell surface glycoprotein CD1c `http://purl.obolibrary.org/obo/PR_000002027` -#### Removed -- [T-cell surface glycoprotein CD1c](http://purl.obolibrary.org/obo/PR_000002027) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [T-cell surface glycoprotein CD1c (human)](http://purl.obolibrary.org/obo/PR_P29017) - - - -### T-cell surface glycoprotein CD5 `http://purl.obolibrary.org/obo/PR_000001839` -#### Removed -- [T-cell surface glycoprotein CD5](http://purl.obolibrary.org/obo/PR_000001839) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [T-cell surface glycoprotein CD5 (human)](http://purl.obolibrary.org/obo/PR_P06127) - - - -### T-cell surface glycoprotein CD8 alpha chain `http://purl.obolibrary.org/obo/PR_000001084` -#### Removed -- [T-cell surface glycoprotein CD8 alpha chain](http://purl.obolibrary.org/obo/PR_000001084) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [T-cell surface glycoprotein CD8 alpha chain (human)](http://purl.obolibrary.org/obo/PR_P01732) - - - -### T-cell surface glycoprotein CD8 alpha chain isoform 1 `http://purl.obolibrary.org/obo/PR_000025403` -#### Removed -- [T-cell surface glycoprotein CD8 alpha chain isoform 1](http://purl.obolibrary.org/obo/PR_000025403) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [T-cell surface glycoprotein CD8 alpha chain isoform 1 (human)](http://purl.obolibrary.org/obo/PR_P01732-1) - - - -### T-cell surface glycoprotein CD8 beta chain `http://purl.obolibrary.org/obo/PR_000001085` -#### Removed -- [T-cell surface glycoprotein CD8 beta chain](http://purl.obolibrary.org/obo/PR_000001085) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [T-cell surface glycoprotein CD8 beta chain (human)](http://purl.obolibrary.org/obo/PR_P10966) - - - -### T-cell-specific surface glycoprotein CD28 `http://purl.obolibrary.org/obo/PR_000001841` -#### Removed -- [T-cell-specific surface glycoprotein CD28](http://purl.obolibrary.org/obo/PR_000001841) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [T-cell-specific surface glycoprotein CD28 (human)](http://purl.obolibrary.org/obo/PR_P10747) - - - -### TAC3-positive medium spiny neuron `http://purl.obolibrary.org/obo/CL_4042002` - -#### Added -- [TAC3-positive medium spiny neuron](http://purl.obolibrary.org/obo/CL_4042002) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "A TAC3-positive medium spiny neuron has its soma in a cluster in the medial shell region of the nucleus accumbens. In Rhesus Macaque, this medium spiny neuron has an enriched expression of the genes MPPED1, HPCAL1, MEIS3." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34727523" - -- [TAC3-positive medium spiny neuron](http://purl.obolibrary.org/obo/CL_4042002) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "TAC3-positive D1Sh-MSN" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34727523" - -- [TAC3-positive medium spiny neuron](http://purl.obolibrary.org/obo/CL_4042002) [contributor](http://purl.org/dc/terms/contributor) [0000-0002-0098-8958](https://orcid.org/0000-0002-0098-8958) - -- [TAC3-positive medium spiny neuron](http://purl.obolibrary.org/obo/CL_4042002) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "TAC3-positive MSN" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34727523" - -- [TAC3-positive medium spiny neuron](http://purl.obolibrary.org/obo/CL_4042002) [date](http://purl.org/dc/terms/date) "2024-03-05T13:36:54Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) - -- [TAC3-positive medium spiny neuron](http://purl.obolibrary.org/obo/CL_4042002) [label](http://www.w3.org/2000/01/rdf-schema#label) "TAC3-positive medium spiny neuron"@en - -- [TAC3-positive medium spiny neuron](http://purl.obolibrary.org/obo/CL_4042002) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A nucleus accumbens shell and olfactory tubercle D1 medium spiny neuron that co-expresses TAC3 and the DRD1 receptor." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34727523" - -- [TAC3-positive medium spiny neuron](http://purl.obolibrary.org/obo/CL_4042002) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "D1Sh TAC3 archetype" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34727523" - -- Class: [TAC3-positive medium spiny neuron](http://purl.obolibrary.org/obo/CL_4042002) - -- [TAC3-positive medium spiny neuron](http://purl.obolibrary.org/obo/CL_4042002) SubClassOf [has plasma membrane part](http://purl.obolibrary.org/obo/RO_0002104) some [tachykinin-3](http://purl.obolibrary.org/obo/PR_000016004) - -- [TAC3-positive medium spiny neuron](http://purl.obolibrary.org/obo/CL_4042002) SubClassOf [nucleus accumbens shell and olfactory tubercle D1 medium spiny neuron](http://purl.obolibrary.org/obo/CL_4030051) - -- [TAC3-positive medium spiny neuron](http://purl.obolibrary.org/obo/CL_4042002) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - -### TAC3-positive striatal interneuron `http://purl.obolibrary.org/obo/CL_4042001` - -#### Added -- [TAC3-positive striatal interneuron](http://purl.obolibrary.org/obo/CL_4042001) [contributor](http://purl.org/dc/terms/contributor) [0000-0002-0098-8958](https://orcid.org/0000-0002-0098-8958) - -- [TAC3-positive striatal interneuron](http://purl.obolibrary.org/obo/CL_4042001) [label](http://www.w3.org/2000/01/rdf-schema#label) "TAC3-positive striatal interneuron"@en - -- [TAC3-positive striatal interneuron](http://purl.obolibrary.org/obo/CL_4042001) [date](http://purl.org/dc/terms/date) "2024-03-05T14:29:32Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) - -- [TAC3-positive striatal interneuron](http://purl.obolibrary.org/obo/CL_4042001) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A GABAergic interneuron that has its soma located in the striatum and that has an enriched expression of the gene TAC3." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34727523" - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:32999462" - -- [TAC3-positive striatal interneuron](http://purl.obolibrary.org/obo/CL_4042001) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "TAC3 interneuron" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34727523" - -- Class: [TAC3-positive striatal interneuron](http://purl.obolibrary.org/obo/CL_4042001) - -- [TAC3-positive striatal interneuron](http://purl.obolibrary.org/obo/CL_4042001) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - -- [TAC3-positive striatal interneuron](http://purl.obolibrary.org/obo/CL_4042001) SubClassOf [GABAergic interneuron](http://purl.obolibrary.org/obo/CL_0011005) - -- [TAC3-positive striatal interneuron](http://purl.obolibrary.org/obo/CL_4042001) SubClassOf [has plasma membrane part](http://purl.obolibrary.org/obo/RO_0002104) some [tachykinin-3](http://purl.obolibrary.org/obo/PR_000016004) - -- [TAC3-positive striatal interneuron](http://purl.obolibrary.org/obo/CL_4042001) SubClassOf [has soma location](http://purl.obolibrary.org/obo/RO_0002100) some [striatum](http://purl.obolibrary.org/obo/UBERON_0002435) - -- [TAC3-positive striatal interneuron](http://purl.obolibrary.org/obo/CL_4042001) SubClassOf [CNS interneuron](http://purl.obolibrary.org/obo/CL_0000402) - - -### Taphrinomycotina `http://purl.obolibrary.org/obo/NCBITaxon_451866` -#### Removed -- [Taphrinomycotina](http://purl.obolibrary.org/obo/NCBITaxon_451866) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_subphylum](http://purl.obolibrary.org/obo/NCBITaxon_subphylum) - - - -### Teleostei `http://purl.obolibrary.org/obo/NCBITaxon_32443` -#### Removed -- [Teleostei](http://purl.obolibrary.org/obo/NCBITaxon_32443) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_infraclass](http://purl.obolibrary.org/obo/NCBITaxon_infraclass) - - - -### Teleostomi `http://purl.obolibrary.org/obo/NCBITaxon_117570` -#### Removed -- [Teleostomi](http://purl.obolibrary.org/obo/NCBITaxon_117570) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) - - - -### Tetrapoda `http://purl.obolibrary.org/obo/NCBITaxon_32523` -#### Removed -- [Tetrapoda](http://purl.obolibrary.org/obo/NCBITaxon_32523) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) - - - -### Theria `http://purl.obolibrary.org/obo/NCBITaxon_32525` -#### Removed -- [Theria ](http://purl.obolibrary.org/obo/NCBITaxon_32525) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) - - - -### Theropoda `http://purl.obolibrary.org/obo/NCBITaxon_436491` -#### Removed -- [Theropoda](http://purl.obolibrary.org/obo/NCBITaxon_436491) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) - - - -### Thy-1 membrane glycoprotein `http://purl.obolibrary.org/obo/PR_000001843` -#### Removed -- [Thy-1 membrane glycoprotein](http://purl.obolibrary.org/obo/PR_000001843) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [Thy-1 membrane glycoprotein (human)](http://purl.obolibrary.org/obo/PR_P04216) - - - -### Tracheophyta `http://purl.obolibrary.org/obo/NCBITaxon_58023` -#### Removed -- [Tracheophyta](http://purl.obolibrary.org/obo/NCBITaxon_58023) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) - - - -### UBPROP_0000001 `http://purl.obolibrary.org/obo/UBPROP_0000001` -#### Removed -- AnnotationProperty: [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) - - - -### UBPROP_0000002 `http://purl.obolibrary.org/obo/UBPROP_0000002` -#### Removed -- AnnotationProperty: [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) - - - -### UBPROP_0000003 `http://purl.obolibrary.org/obo/UBPROP_0000003` -#### Removed -- AnnotationProperty: [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) - - - -### UBPROP_0000004 `http://purl.obolibrary.org/obo/UBPROP_0000004` -#### Removed -- AnnotationProperty: [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) - - - -### UBPROP_0000005 `http://purl.obolibrary.org/obo/UBPROP_0000005` -#### Removed -- AnnotationProperty: [UBPROP_0000005](http://purl.obolibrary.org/obo/UBPROP_0000005) - - - -### UBPROP_0000006 `http://purl.obolibrary.org/obo/UBPROP_0000006` -#### Removed -- AnnotationProperty: [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) - - - -### UBPROP_0000007 `http://purl.obolibrary.org/obo/UBPROP_0000007` -#### Removed -- AnnotationProperty: [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) - - - -### UBPROP_0000008 `http://purl.obolibrary.org/obo/UBPROP_0000008` -#### Removed -- AnnotationProperty: [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) - - - -### UBPROP_0000009 `http://purl.obolibrary.org/obo/UBPROP_0000009` -#### Removed -- AnnotationProperty: [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) - - - -### UBPROP_0000010 `http://purl.obolibrary.org/obo/UBPROP_0000010` -#### Removed -- AnnotationProperty: [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) - - - -### UBPROP_0000011 `http://purl.obolibrary.org/obo/UBPROP_0000011` -#### Removed -- AnnotationProperty: [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) - - - -### UBPROP_0000012 `http://purl.obolibrary.org/obo/UBPROP_0000012` -#### Removed -- AnnotationProperty: [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) - - - -### UBPROP_0000013 `http://purl.obolibrary.org/obo/UBPROP_0000013` -#### Removed -- AnnotationProperty: [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) - - - -### UBPROP_0000015 `http://purl.obolibrary.org/obo/UBPROP_0000015` -#### Removed -- AnnotationProperty: [UBPROP_0000015](http://purl.obolibrary.org/obo/UBPROP_0000015) - - - -### UBPROP_0000103 `http://purl.obolibrary.org/obo/UBPROP_0000103` -#### Removed -- AnnotationProperty: [UBPROP_0000103](http://purl.obolibrary.org/obo/UBPROP_0000103) - - - -### UBPROP_0000105 `http://purl.obolibrary.org/obo/UBPROP_0000105` -#### Removed -- AnnotationProperty: [UBPROP_0000105](http://purl.obolibrary.org/obo/UBPROP_0000105) - - - -### UBPROP_0000107 `http://purl.obolibrary.org/obo/UBPROP_0000107` -#### Removed -- AnnotationProperty: [UBPROP_0000107](http://purl.obolibrary.org/obo/UBPROP_0000107) - - - -### UBPROP_0000111 `http://purl.obolibrary.org/obo/UBPROP_0000111` -#### Removed -- AnnotationProperty: [UBPROP_0000111](http://purl.obolibrary.org/obo/UBPROP_0000111) - - - -### UBPROP_0000202 `http://purl.obolibrary.org/obo/UBPROP_0000202` -#### Removed -- AnnotationProperty: [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) - - - -### V(D)J recombination-activating protein 1 `http://purl.obolibrary.org/obo/PR_000003457` -#### Removed -- [V(D)J recombination-activating protein 1](http://purl.obolibrary.org/obo/PR_000003457) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [V(D)J recombination-activating protein 1 (human)](http://purl.obolibrary.org/obo/PR_P15918) - - - -### V(D)J recombination-activating protein 2 `http://purl.obolibrary.org/obo/PR_000003460` -#### Removed -- [V(D)J recombination-activating protein 2](http://purl.obolibrary.org/obo/PR_000003460) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [V(D)J recombination-activating protein 2 (human)](http://purl.obolibrary.org/obo/PR_P55895) - - - -### VIP peptides `http://purl.obolibrary.org/obo/PR_000017299` -#### Removed -- [VIP peptides](http://purl.obolibrary.org/obo/PR_000017299) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [VIP peptides (human)](http://purl.obolibrary.org/obo/PR_P01282) - - - -### Vertebrata `http://purl.obolibrary.org/obo/NCBITaxon_7742` -#### Removed -- [Vertebrata ](http://purl.obolibrary.org/obo/NCBITaxon_7742) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) - - - -### Viridiplantae `http://purl.obolibrary.org/obo/NCBITaxon_33090` -#### Removed -- [Viridiplantae](http://purl.obolibrary.org/obo/NCBITaxon_33090) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_kingdom](http://purl.obolibrary.org/obo/NCBITaxon_kingdom) - - - -### Zygnematales `http://purl.obolibrary.org/obo/NCBITaxon_3176` -#### Removed -- [Zygnematales](http://purl.obolibrary.org/obo/NCBITaxon_3176) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_order](http://purl.obolibrary.org/obo/NCBITaxon_order) - - - -### Zygnematophycidae `http://purl.obolibrary.org/obo/NCBITaxon_2684882` -#### Removed -- [Zygnematophycidae](http://purl.obolibrary.org/obo/NCBITaxon_2684882) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_subclass](http://purl.obolibrary.org/obo/NCBITaxon_subclass) - - - -### Zygnemophyceae `http://purl.obolibrary.org/obo/NCBITaxon_131209` -#### Removed -- [Zygnemophyceae](http://purl.obolibrary.org/obo/NCBITaxon_131209) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_class](http://purl.obolibrary.org/obo/NCBITaxon_class) - - - -### abbreviation `http://purl.obolibrary.org/obo/OMO_0003000` -#### Removed -- [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) [created](http://purl.org/dc/terms/created) "2023-03-03"^^[date](http://www.w3.org/2001/XMLSchema#date) - -- [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "CHEBI:26523 (reactive oxygen species) has an exact synonym (ROS), which is of type OMO:0003000 (abbreviation)" - - - -### abdomen `http://purl.obolibrary.org/obo/UBERON_0000916` -#### Removed -- [abdomen](http://purl.obolibrary.org/obo/UBERON_0000916) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "celiac" - -- [abdomen](http://purl.obolibrary.org/obo/UBERON_0000916) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "abdominal" - - - -### abdomen blood vessel `http://purl.obolibrary.org/obo/UBERON_0003497` -#### Removed -- [abdomen blood vessel](http://purl.obolibrary.org/obo/UBERON_0003497) [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "UBERON:0012254" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "abdominal aorta artery" - - - -### abdomen musculature `http://purl.obolibrary.org/obo/UBERON_0002343` -#### Removed -- [abdomen musculature](http://purl.obolibrary.org/obo/UBERON_0002343) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "distinction between abdomen muscle and abdomen musculature" - - - -### abdominal cavity `http://purl.obolibrary.org/obo/UBERON_0003684` -#### Removed -- [abdominal cavity](http://purl.obolibrary.org/obo/UBERON_0003684) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA this contains the pelvic cavity, but this is inconsistent with the concept of abdominopelvic cavity" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### abdominal mammary gland `http://purl.obolibrary.org/obo/UBERON_0003488` -#### Removed -- [abdominal mammary gland](http://purl.obolibrary.org/obo/UBERON_0003488) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Female mice normally have five pairs of nipples and mammary glands, three in the thoracic and two in the abdominal region. (There is an additional abdominal pair in female rats.) http://www.informatics.jax.org/greenbook/chapters/chapter13.shtml" - - - -### abnormal `http://purl.obolibrary.org/obo/PATO_0000460` -#### Removed -- [abnormal](http://purl.obolibrary.org/obo/PATO_0000460) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [normal](http://purl.obolibrary.org/obo/PATO_0000461) - - - -### accessory XI nerve `http://purl.obolibrary.org/obo/UBERON_0002019` -#### Removed -- [accessory XI nerve](http://purl.obolibrary.org/obo/UBERON_0002019) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Small motor nerve which innervates a single pectoral suspensory muscle, the m. cucullaris.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010476" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [accessory XI nerve](http://purl.obolibrary.org/obo/UBERON_0002019) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA has distinct cranial and spinal parts - WP says 'Traditional descriptions of the accessory nerve divide it into two parts: a spinal part and a cranial part.[1] However, because the cranial component rapidly joins the vagus nerve, becoming an integral part of said nerve, modern descriptions often consider the cranial component to be part of the vagus nerve and not part of the accessory nerve proper.[2]" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [accessory XI nerve](http://purl.obolibrary.org/obo/UBERON_0002019) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A small motor nerve which emerges from the lateral wall of the medulla with the roots of the vagus nerve, and innervates a single pectoral suspensory muscle, the m.cucullaris." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "XAO:0004214" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:080184780X" - -- [accessory XI nerve](http://purl.obolibrary.org/obo/UBERON_0002019) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cranial nerve that innervates the sternocleidomastoid and trapezius complex of muscles. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-1, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000699" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - -- [accessory XI nerve](http://purl.obolibrary.org/obo/UBERON_0002019) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In mice, the spinal branch of this motor nerve innervates the trapezius and the sternocleidomastoid muscles. The cranial branch joins the vagus nerve and innervates the same targets as the vagus nerve" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO" - -- [accessory XI nerve](http://purl.obolibrary.org/obo/UBERON_0002019) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Cranial nerves XI and XII evolved in the common ancestor to amniotes (non-amphibian tetrapods) thus totalling twelve pairs.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000699" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Cranial_nerves" - -- [accessory XI nerve](http://purl.obolibrary.org/obo/UBERON_0002019) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [NCBITaxon_8292](http://purl.obolibrary.org/obo/NCBITaxon_8292) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "VHOG" - - - [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "http://code.google.com/p/xenopus-anatomy-ontology/issues/detail?id=7" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia" - - - -### acellular anatomical structure `http://purl.obolibrary.org/obo/UBERON_0000476` -#### Removed -- [acellular anatomical structure](http://purl.obolibrary.org/obo/UBERON_0000476) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007013" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### acinus of lacrimal gland `http://purl.obolibrary.org/obo/UBERON_0011857` - -#### Added -- [acinus of lacrimal gland](http://purl.obolibrary.org/obo/UBERON_0011857) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### acinus of lactiferous gland `http://purl.obolibrary.org/obo/UBERON_0011856` - -#### Added -- [acinus of lactiferous gland](http://purl.obolibrary.org/obo/UBERON_0011856) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### acinus of sebaceous gland `http://purl.obolibrary.org/obo/UBERON_0011846` - -#### Added -- [acinus of sebaceous gland](http://purl.obolibrary.org/obo/UBERON_0011846) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### acoustico-facial VII-VIII ganglion complex `http://purl.obolibrary.org/obo/UBERON_0012175` -#### Removed -- [acoustico-facial VII-VIII ganglion complex](http://purl.obolibrary.org/obo/UBERON_0012175) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VHOG:0000715" - - - -### acromioclavicular joint `http://purl.obolibrary.org/obo/UBERON_0003692` -#### Removed -- [acromioclavicular joint](http://purl.obolibrary.org/obo/UBERON_0003692) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The gliding joint formed by the outer extremity of the clavicle and the inner margin of the acromion process of the scapula." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MESH:A02.835.583.032" - - - -### acromion `http://purl.obolibrary.org/obo/UBERON_0002497` -#### Removed -- [acromion](http://purl.obolibrary.org/obo/UBERON_0002497) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of pars acromialis (AAO:0000752)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000826" - -- [acromion](http://purl.obolibrary.org/obo/UBERON_0002497) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anterior rounded projection of the pars acromialis of the scapula.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000826" - - - -### acropodial skeleton `http://purl.obolibrary.org/obo/UBERON_0010543` - -#### Added -- [acropodial skeleton](http://purl.obolibrary.org/obo/UBERON_0010543) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### acropodium region `http://purl.obolibrary.org/obo/UBERON_0012354` -#### Removed -- [acropodium region](http://purl.obolibrary.org/obo/UBERON_0012354) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "class refers to an entire limb segment, not just the bones" - - - -### acts upstream of `http://purl.obolibrary.org/obo/RO_0002263` -#### Removed -- [acts upstream of](http://purl.obolibrary.org/obo/RO_0002263) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "A faulty traffic light (material entity) whose malfunctioning (a process) is causally upstream of a traffic collision (a process): the traffic light acts upstream of the collision." - - - -### acts upstream of or within `http://purl.obolibrary.org/obo/RO_0002264` -#### Removed -- [acts upstream of or within](http://purl.obolibrary.org/obo/RO_0002264) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "A gene product that has some activity, where that activity may be a part of a pathway or upstream of the pathway." - - - -### acts upstream of or within, positive effect `http://purl.obolibrary.org/obo/RO_0004032` -#### Removed -- [acts upstream of or within, positive effect](http://purl.obolibrary.org/obo/RO_0004032) [RO_0004049](http://purl.obolibrary.org/obo/RO_0004049) [acts upstream of or within](http://purl.obolibrary.org/obo/RO_0002264) - - - -### acts upstream of, positive effect `http://purl.obolibrary.org/obo/RO_0004034` -#### Removed -- [acts upstream of, positive effect](http://purl.obolibrary.org/obo/RO_0004034) [RO_0004049](http://purl.obolibrary.org/obo/RO_0004049) [acts upstream of](http://purl.obolibrary.org/obo/RO_0002263) - - - -### adenohypophyseal placode `http://purl.obolibrary.org/obo/UBERON_0009122` -#### Removed -- [adenohypophyseal placode](http://purl.obolibrary.org/obo/UBERON_0009122) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Fate-mapping studies in amphibian, chick and mouse embryos (Eagleson et al., 1986; 1995; Couly and Le Douarin, 1985; Cobos et al., 2001; Osumi-Yamachita et al., 1994; Kawamura et al., 2002) have shown that the cells contributing to the adenohypophysis develop at the midline of the anterior neural ridge, which delineates the rostral boundary of the neural plate, a region devoid of neural crest. The anterior neural ridge also gives rise to the olfactory placodes and some forebrain tissues including the olfactory bulbs (reviewed in Papalopulu, 1995). Ablation of this region in chick embryos at the 2-4 somite stage confirmed these lineage analyses as it prevented formation of Rathke's pouch and any further pituitary development (elAmraoui and Dubois, 1993). Upon head folding, the oral ectoderm cells of the adenohypophyseal placode invaginate towards the prospective ventral diencephalon to form Rathke's pouch, the anlage of the adenohypophysis. Rathke's pouch starts as an invagination of the oral ectoderm in response to inductive signals from the prospective diencephalon. The region of the diencephalon above the pouch is known as the infundibulum and forms the posterior lobe of the pituitary or neurohypohysis (Figure 3). While in most basal fish and tetrapods the adenohypophyseal anlagen invaginates to form Rathke's pouch, in teleost fish the adenohypophyseal placode does not invaginate but rather maintains its initial organization forming a solid structure in the head (reviewed in Pogoda and Hammerschmidt; 2009)" - - - -### adenohypophysis `http://purl.obolibrary.org/obo/UBERON_0002196` -#### Removed -- [adenohypophysis](http://purl.obolibrary.org/obo/UBERON_0002196) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "It (the hypophysis) develops embryonically in all vertebrates from two ectodermal evaginations that meet and unite. An infundibulum grows ventrally from the diencephalon of the brain, and Rathke's pouch extends dorsally from the roof of the developing mouth, or stomodaeum. The infundibulum remains connected to the floor of the diencephalon, which becomes the hypothalamus, and gives rise to the part of the gland known as the neurohypophysis. (...) Rathke's pouch loses its connection with the stomodaeum in most adult vertebrates and gives rise to the rest of the gland, the adenohypophysis. (...) A well-developed hypophyseal system with functional connections to the hypothalamus is unique to craniates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.510 and Figure 15-5" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000141" - -- [adenohypophysis](http://purl.obolibrary.org/obo/UBERON_0002196) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The anterior lobe of the hypophysis (pituitary gland). This lobe contains cells that produce prolactin, growth hormone, thyroid-stimulating hormone, follicle-stimulating hormone and proopiomelanocortin. In contrast to mamalian vertebrates, the adenohypophysis remains in a subepithelial position and there exists no equivalent of Rathke's pouch in zebrafish. Herzog et al, 2004.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001282" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [adenohypophysis](http://purl.obolibrary.org/obo/UBERON_0002196) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "While in most basal fish and tetrapods the adenohypophyseal anlagen invaginates to form Rathke's pouch, in teleost fish the adenohypophyseal placode does not invaginate but rather maintains its initial organization forming a solid structure in the head[NCBIBook:NBK53175]." - -- [adenohypophysis](http://purl.obolibrary.org/obo/UBERON_0002196) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Region of the pituitary gland derived from the buccal protrusion consisting of three regions.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010540" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [adenohypophysis](http://purl.obolibrary.org/obo/UBERON_0002196) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In contrast to mammalian vertebrates, the adenohypophysis remains in a subepithelial position and there exists no equivalent of Rathke's pouch in zebrafish" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA" - -#### Added -- [adenohypophysis](http://purl.obolibrary.org/obo/UBERON_0002196) SubClassOf [structure with developmental contribution from neural crest](http://purl.obolibrary.org/obo/UBERON_0010314) - - -### adhesion G protein-coupled receptor E1 `http://purl.obolibrary.org/obo/PR_000001813` -#### Removed -- [adhesion G protein-coupled receptor E1](http://purl.obolibrary.org/obo/PR_000001813) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [adhesion G protein-coupled receptor E1 (human)](http://purl.obolibrary.org/obo/PR_Q14246) - - - -### adipose tissue `http://purl.obolibrary.org/obo/UBERON_0001013` -#### Removed -- [adipose tissue](http://purl.obolibrary.org/obo/UBERON_0001013) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA this is dense irregular connective tissue" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [adipose tissue](http://purl.obolibrary.org/obo/UBERON_0001013) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, adipose tissue is located beneath the skin (subcutaneous fat), around internal organs (visceral fat), in bone marrow (yellow bone marrow) and in breast tissue. Adipose tissue is found in specific locations, which are referred to as adipose depots. Adipose tissue contains several cell types, with the highest percentage of cells being adipocytes, which contain fat droplets. Other cell types include fibroblasts, macrophages, and endothelial cells. Adipose tissue contains many small blood vessels.; Mice have eight major adipose depots, four of which are within the abdominal cavity. The paired gonadal depots are attached to the uterus and ovaries in females and the epididymis and testes in males; the paired retroperitoneal depots are found along the dorsal wall of the abdomen, surrounding the kidney, and, when massive, extend into the pelvis. The mesenteric depot forms a glue-like web that supports the intestines, and the omental depot, which originates near the stomach and spleen, and, when massive, extends into the ventral abdomen." - -- [adipose tissue](http://purl.obolibrary.org/obo/UBERON_0001013) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Adipose tissue is unique to vertebrates. It is found in mostmammals, birds, reptiles and amphibians, and a variety is found in some species of fish. Furthermore, in insects the fat body found in larvae as well as in adults shares some homology with adipose tissue.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1017/S0029665107005423 Haugen F, Drevon CA, The interplay between nutrients and the adipose tissue. The Proceedings of the Nutrition Society (2007)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001284" - -- [adipose tissue](http://purl.obolibrary.org/obo/UBERON_0001013) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Connective tissue in which fat is stored.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002134" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [adipose tissue](http://purl.obolibrary.org/obo/UBERON_0001013) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "adipose" - -- [adipose tissue](http://purl.obolibrary.org/obo/UBERON_0001013) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Tissue that contains adipocytes, used for cushioning, thermal insulation, lubrication (primarily in the pericardium) and energy storage.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000001" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [adipose tissue](http://purl.obolibrary.org/obo/UBERON_0001013) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: subclass connective tissue proper (AAO:0000099)[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000001" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - -### adjacent to `http://purl.obolibrary.org/obo/RO_0002220` -#### Removed -- [adjacent to](http://purl.obolibrary.org/obo/RO_0002220) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) - -- [adjacent to](http://purl.obolibrary.org/obo/RO_0002220) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "A caterpillar walking on the surface of a leaf is adjacent_to the leaf, if one of the caterpillar appendages is touching the leaf. In contrast, a butterfly flying close to a flower is not considered adjacent, unless there are any touching parts." - - [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) [issuecomment-218584934](https://github.com/jhpoelen/eol-globi-data/issues/225#issuecomment-218584934) - -- [adjacent to](http://purl.obolibrary.org/obo/RO_0002220) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [adjacent to](http://purl.obolibrary.org/obo/RO_0002220) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "The plasma membrane of a cell is adjacent to the cytoplasm, and also to the cell lumen which the cytoplasm occupies." - -- [adjacent to](http://purl.obolibrary.org/obo/RO_0002220) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "The epidermis layer of a vertebrate is adjacent to the dermis." - -- [adjacent to](http://purl.obolibrary.org/obo/RO_0002220) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [adjacent to](http://purl.obolibrary.org/obo/RO_0002220) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [adjacent to](http://purl.obolibrary.org/obo/RO_0002220) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "The skin of the forelimb is adjacent to the skin of the torso if these are considered anatomical subdivisions with a defined border. Otherwise a relation such as continuous_with would be used." - - - -### adrenal cortex `http://purl.obolibrary.org/obo/UBERON_0001235` -#### Removed -- [adrenal cortex](http://purl.obolibrary.org/obo/UBERON_0001235) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Kardong states that mammals are the first to have distinct cortext and medulla, but this contradicts XAO" - -- [adrenal cortex](http://purl.obolibrary.org/obo/UBERON_0001235) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "All craniates have groups of cells homologous to the mammalian adrenocortical and chromaffin tissues (medulla), but they are scattered in and near the kidneys in fishes. (...) The cortical and chromaffin tissues come together to form adrenal glands in tetrapods.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001481" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.518 and Figure 15-9" - -#### Added -- [adrenal cortex](http://purl.obolibrary.org/obo/UBERON_0001235) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### adrenal gland `http://purl.obolibrary.org/obo/UBERON_0002369` -#### Removed -- [adrenal gland](http://purl.obolibrary.org/obo/UBERON_0002369) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "suprarenal cortex manufactures corticosteroids; suprarenal medulla manufactures epinephrine and norepinephrine; suprarenal medulla receives preganglionic sympathetic innervation from the greater thoracic splanchnic n." - -- [adrenal gland](http://purl.obolibrary.org/obo/UBERON_0002369) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VHOG:0001141" - -- [adrenal gland](http://purl.obolibrary.org/obo/UBERON_0002369) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The origin of the adrenal gland is still controversial. It is thought to share the same origin as the kidney and gonads, derived from coelomic epithelium of the urogenital ridge and/or the underlying mesenchyme (Keegan and Hammer, 2002; Morohashi, 1997). We follow Kardong and state homology at the level of the cortex and medulla rather than gland as a whole" - -- [adrenal gland](http://purl.obolibrary.org/obo/UBERON_0002369) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "All craniates have groups of cells homologous to the mammalian adrenocortical and chromaffin tissues, but they are scattered in and near the kidneys in fishes. (...) The cortical and chromaffin tissues come together to form adrenal glands in tetrapods.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.518 and Figure 15-9" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001141" - -- [adrenal gland](http://purl.obolibrary.org/obo/UBERON_0002369) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical structure which is found on the surface of the kidney and secretes various hormones including epinephrine, norephinephrine, aldosterone, corticosterone, and cortisol.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010551" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [adrenal gland](http://purl.obolibrary.org/obo/UBERON_0002369) SubClassOf [structure with developmental contribution from neural crest](http://purl.obolibrary.org/obo/UBERON_0010314) - - - -### adrenal gland capsule `http://purl.obolibrary.org/obo/UBERON_0002052` - -#### Added -- [adrenal gland capsule](http://purl.obolibrary.org/obo/UBERON_0002052) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - -- [adrenal gland capsule](http://purl.obolibrary.org/obo/UBERON_0002052) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### adrenal gland cortex zone `http://purl.obolibrary.org/obo/UBERON_0009753` - -#### Added -- [adrenal gland cortex zone](http://purl.obolibrary.org/obo/UBERON_0009753) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - -- [adrenal gland cortex zone](http://purl.obolibrary.org/obo/UBERON_0009753) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### adrenal medulla `http://purl.obolibrary.org/obo/UBERON_0001236` -#### Removed -- [adrenal medulla](http://purl.obolibrary.org/obo/UBERON_0001236) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "All craniates have groups of cells homologous to the mammalian adrenocortical and chromaffin tissues (medulla), but they are scattered in and near the kidneys in fishes. (...) The cortical and chromaffin tissues come together to form adrenal glands in tetrapods.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001378" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.518 and Figure 15-9" - -#### Added -- [adrenal medulla](http://purl.obolibrary.org/obo/UBERON_0001236) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### adrenal tissue `http://purl.obolibrary.org/obo/UBERON_0018303` - -#### Added -- [adrenal tissue](http://purl.obolibrary.org/obo/UBERON_0018303) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - -- [adrenal tissue](http://purl.obolibrary.org/obo/UBERON_0018303) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### adrenal/interrenal gland `http://purl.obolibrary.org/obo/UBERON_0006858` -#### Removed -- [adrenal/interrenal gland](http://purl.obolibrary.org/obo/UBERON_0006858) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VHOG:0001141" - -- [adrenal/interrenal gland](http://purl.obolibrary.org/obo/UBERON_0006858) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "All craniates have groups of cells homologous to the mammalian adrenocortical and chromaffin tissues, but they are scattered in and near the kidneys in fishes. (...) The cortical and chromaffin tissues come together to form adrenal glands in tetrapods.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.518 and Figure 15-9" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001141" - -#### Added -- [adrenal/interrenal gland](http://purl.obolibrary.org/obo/UBERON_0006858) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### adult organism `http://purl.obolibrary.org/obo/UBERON_0007023` -#### Removed -- [adult organism](http://purl.obolibrary.org/obo/UBERON_0007023) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Whole organism that is fully grown or sexually mature.[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002046" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" - -- [adult organism](http://purl.obolibrary.org/obo/UBERON_0007023) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00003004" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### adventitia `http://purl.obolibrary.org/obo/UBERON_0005742` -#### Removed -- [adventitia](http://purl.obolibrary.org/obo/UBERON_0005742) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D063194" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### adventitia of epididymis `http://purl.obolibrary.org/obo/UBERON_0006645` - -#### Added -- [adventitia of epididymis](http://purl.obolibrary.org/obo/UBERON_0006645) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### adventitia of seminal vesicle `http://purl.obolibrary.org/obo/UBERON_0006648` - -#### Added -- [adventitia of seminal vesicle](http://purl.obolibrary.org/obo/UBERON_0006648) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### adventitia of ureter `http://purl.obolibrary.org/obo/UBERON_0001252` - -#### Added -- [adventitia of ureter](http://purl.obolibrary.org/obo/UBERON_0001252) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### aggregate regional part of brain `http://purl.obolibrary.org/obo/UBERON_0010009` -#### Removed -- [aggregate regional part of brain](http://purl.obolibrary.org/obo/UBERON_0010009) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:256381" - - - -### airway submucosal gland `http://purl.obolibrary.org/obo/UBERON_8410077` - -#### Added -- [airway submucosal gland](http://purl.obolibrary.org/obo/UBERON_8410077) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### alimentary part of gastrointestinal system `http://purl.obolibrary.org/obo/UBERON_0005409` -#### Removed -- [alimentary part of gastrointestinal system](http://purl.obolibrary.org/obo/UBERON_0005409) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "that many anatomy ontologies consider this synonymous with digestive system. here we follow MA in dividing digestive system into gastrointestinal and hepatobiliary. hepatobiliary includes the liver and biliary tract. species-specific AO classes are categorized according to whether liver is included. For example, XAO includes liver as part of XAO:0000125 alimentary system, so we assume this class is the more generic class. We have one entity that is part of both gastrointestinal and hepatobiliary systems: hepatopancreatic ampulla." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - -- [alimentary part of gastrointestinal system](http://purl.obolibrary.org/obo/UBERON_0005409) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The system that includes the esophagus, stomach, small and large intestine, anus, liver, biliary tract, and pancreas[ncithesaurus:Gastrointestinal_System]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ncithesaurus:Gastrointestinal_System" - -- [alimentary part of gastrointestinal system](http://purl.obolibrary.org/obo/UBERON_0005409) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EV:0100056" - -- [alimentary part of gastrointestinal system](http://purl.obolibrary.org/obo/UBERON_0005409) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "All metazoans (with degenerate exceptions) have some sort of digestive cavity with a means of entrance to and exit from it.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000412" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0721676685 Sherwood Romer A and Parsons T, Vertebrate body (1977) p.3" - - - -### allantois `http://purl.obolibrary.org/obo/UBERON_0004340` -#### Removed -- [allantois](http://purl.obolibrary.org/obo/UBERON_0004340) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "allantoic" - -- [allantois](http://purl.obolibrary.org/obo/UBERON_0004340) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "a diverticulum of the hindgut endoderm [ISBN:0073040584 (Vertebrates, Kardong)]" - -- [allantois](http://purl.obolibrary.org/obo/UBERON_0004340) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A membranous sac that develops from the posterior part of the alimentary canal in the embryos of mammals, birds, and reptiles, and it is important in the formation of the umbilical cord and placenta in mammals. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/allantois" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000738" - -- [allantois](http://purl.obolibrary.org/obo/UBERON_0004340) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "part_of embryo in EHDAA2 - note differences in humans" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" - -- [allantois](http://purl.obolibrary.org/obo/UBERON_0004340) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Structures homologous to the four extraembryonic membranes of reptiles and birds appear in mammals: amnion, chorion, yolk sac, and allantois.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.187" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000738" - -- [allantois](http://purl.obolibrary.org/obo/UBERON_0004340) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [endoderm](http://purl.obolibrary.org/obo/UBERON_0000925) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0073040584" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "hindgut diverticulum endoderm" - -#### Added -- [allantois](http://purl.obolibrary.org/obo/UBERON_0004340) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [endoderm](http://purl.obolibrary.org/obo/UBERON_0000925) - - -### alpha-(1,3)-fucosyltransferase 4 `http://purl.obolibrary.org/obo/PR_000001456` -#### Removed -- [alpha-(1,3)-fucosyltransferase 4](http://purl.obolibrary.org/obo/PR_000001456) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [alpha-(1,3)-fucosyltransferase 4 (human)](http://purl.obolibrary.org/obo/PR_P22083) - - - -### alveolar ridge `http://purl.obolibrary.org/obo/UBERON_0004103` -#### Removed -- [alveolar ridge](http://purl.obolibrary.org/obo/UBERON_0004103) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in BTO, this is part of an embryo" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "BTO" - -#### Added -- [alveolar ridge](http://purl.obolibrary.org/obo/UBERON_0004103) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### alveolar system `http://purl.obolibrary.org/obo/UBERON_0006524` - -#### Added -- [alveolar system](http://purl.obolibrary.org/obo/UBERON_0006524) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### alveolar wall `http://purl.obolibrary.org/obo/UBERON_0004894` -#### Removed -- [alveolar wall](http://purl.obolibrary.org/obo/UBERON_0004894) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "part of wall in FMA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -#### Added -- [alveolar wall](http://purl.obolibrary.org/obo/UBERON_0004894) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### alveolus `http://purl.obolibrary.org/obo/UBERON_0003215` -#### Removed -- [alveolus](http://purl.obolibrary.org/obo/UBERON_0003215) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EV:0100043" - -- [alveolus](http://purl.obolibrary.org/obo/UBERON_0003215) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "alveolar" - - - -### alveolus of lung `http://purl.obolibrary.org/obo/UBERON_0002299` -#### Removed -- [alveolus of lung](http://purl.obolibrary.org/obo/UBERON_0002299) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EV:0100043" - -#### Added -- [alveolus of lung](http://purl.obolibrary.org/obo/UBERON_0002299) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### amino acid transmembrane transporter activity `http://purl.obolibrary.org/obo/GO_0015171` -#### Removed -- [amino acid transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015171) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [amino acid transmembrane transport](http://purl.obolibrary.org/obo/GO_0003333) - - [source](http://www.geneontology.org/formats/oboInOwl#http://purl.org/dc/terms/source) "GO_REF:0000090" - -#### Added -- [amino acid transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015171) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [amino acid transmembrane transport](http://purl.obolibrary.org/obo/GO_0003333) - - -### aminopeptidase N `http://purl.obolibrary.org/obo/PR_000002031` -#### Removed -- [aminopeptidase N](http://purl.obolibrary.org/obo/PR_000002031) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [aminopeptidase N (human)](http://purl.obolibrary.org/obo/PR_P15144) - - - -### ammonium transmembrane transporter activity `http://purl.obolibrary.org/obo/GO_0008519` -#### Removed -- [ammonium transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0008519) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "TC:1.A.11" - - [IAO_0000233](http://www.geneontology.org/formats/oboInOwl#http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/23129" - -- [ammonium transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0008519) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [ammonium transmembrane transport](http://purl.obolibrary.org/obo/GO_0072488) - - [source](http://www.geneontology.org/formats/oboInOwl#http://purl.org/dc/terms/source) "GO_REF:0000090" - -#### Added -- [ammonium transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0008519) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [ammonium transmembrane transport](http://purl.obolibrary.org/obo/GO_0072488) - - -### amnion `http://purl.obolibrary.org/obo/UBERON_0000305` -#### Removed -- [amnion](http://purl.obolibrary.org/obo/UBERON_0000305) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Structures homologous to the four extraembryonic membranes of reptiles and birds appear in mammals: amnion, chorion, yolk sac, and allantois.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.187" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000721" - -- [amnion](http://purl.obolibrary.org/obo/UBERON_0000305) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "amniotic" - -- [amnion](http://purl.obolibrary.org/obo/UBERON_0000305) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A thin but tough extraembryonic membrane of reptiles, birds and mammals that lines the chorion and contains the fEtus and the amniotic fluid around it. [Biology_Online][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000721" - -#### Added -- [amnion](http://purl.obolibrary.org/obo/UBERON_0000305) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### amnioserosa `http://purl.obolibrary.org/obo/UBERON_0010302` -#### Removed -- [amnioserosa](http://purl.obolibrary.org/obo/UBERON_0010302) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000095" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [amnioserosa](http://purl.obolibrary.org/obo/UBERON_0010302) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Arthropoda](http://purl.obolibrary.org/obo/NCBITaxon_6656) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1073/pnas.0709145105" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "Cyclorrhapha" - -#### Added -- [amnioserosa](http://purl.obolibrary.org/obo/UBERON_0010302) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Arthropoda](http://purl.obolibrary.org/obo/NCBITaxon_6656) - - -### amniotic ectoderm `http://purl.obolibrary.org/obo/UBERON_0003254` -#### Removed -- [amniotic ectoderm](http://purl.obolibrary.org/obo/UBERON_0003254) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [epiblast (generic)](http://purl.obolibrary.org/obo/UBERON_0002532) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:9780878932504" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2-via-amnioblasts" - -#### Added -- [amniotic ectoderm](http://purl.obolibrary.org/obo/UBERON_0003254) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) - - -### amygdala `http://purl.obolibrary.org/obo/UBERON_0001876` -#### Removed -- [amygdala](http://purl.obolibrary.org/obo/UBERON_0001876) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "One part of the striatum is called the archistriatum. (...) The archistriatum of fishes consists of several indistinctly segregated nuclei called the amygdaloid (...) complex. Tetrapods retain the structure, and in mammals the corresponding amygdala is a globular mass that tends to be ventral to the other basal nuclei.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001277" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0471090588 Hildebrand M, Analysis of vertebrate structure (1983) p.342" - -- [amygdala](http://purl.obolibrary.org/obo/UBERON_0001876) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Subdivision of basal ganglion of telencephalon which is an almond-shaped gray mass in the dorsomedial part of the temporal lobe[FMA:61841]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:61841" - -- [amygdala](http://purl.obolibrary.org/obo/UBERON_0001876) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MA and FMA differ on relationship to basal ganglion. The FMA text def suggests a subdivision, but it is classified as a subtype" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - -- [amygdala](http://purl.obolibrary.org/obo/UBERON_0001876) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "amygdalar" - - - -### anal canal `http://purl.obolibrary.org/obo/UBERON_0000159` -#### Removed -- [anal canal](http://purl.obolibrary.org/obo/UBERON_0000159) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D001003" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -#### Added -- [anal canal](http://purl.obolibrary.org/obo/UBERON_0000159) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### anal column `http://purl.obolibrary.org/obo/UBERON_0009882` - -#### Added -- [anal column](http://purl.obolibrary.org/obo/UBERON_0009882) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### anal region `http://purl.obolibrary.org/obo/UBERON_0001353` -#### Removed -- [anal region](http://purl.obolibrary.org/obo/UBERON_0001353) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0521617147 Stevens CE and Hume ID, Comparative physiology of the vertebrate digestive system (2004) p.11" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000395" - -- [anal region](http://purl.obolibrary.org/obo/UBERON_0001353) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [proctodeum](http://purl.obolibrary.org/obo/UBERON_0000931) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "cjm" - -#### Added -- [anal region](http://purl.obolibrary.org/obo/UBERON_0001353) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [proctodeum](http://purl.obolibrary.org/obo/UBERON_0000931) - - -### anal sac gland secretion `http://purl.obolibrary.org/obo/UBERON_0013212` - -#### Added -- [anal sac gland secretion](http://purl.obolibrary.org/obo/UBERON_0013212) [id](http://www.geneontology.org/formats/oboInOwl#id) "UBERON:0013212" - -- [anal sac gland secretion](http://purl.obolibrary.org/obo/UBERON_0013212) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "hyena butter" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [SENSU](http://purl.obolibrary.org/obo/uberon/core#SENSU) - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Wikipedia:Hyena_butter" - -- [anal sac gland secretion](http://purl.obolibrary.org/obo/UBERON_0013212) [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [NCBITaxon_119825](http://purl.obolibrary.org/obo/NCBITaxon_119825) - -- [anal sac gland secretion](http://purl.obolibrary.org/obo/UBERON_0013212) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "civet" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [SENSU](http://purl.obolibrary.org/obo/uberon/core#SENSU) - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "NCBITaxon:9673" - -- [anal sac gland secretion](http://purl.obolibrary.org/obo/UBERON_0013212) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A bodily secretion that is produced by a gland of anal sac." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "OBOL:automatic" - -- [anal sac gland secretion](http://purl.obolibrary.org/obo/UBERON_0013212) [label](http://www.w3.org/2000/01/rdf-schema#label) "anal sac gland secretion" - -- [anal sac gland secretion](http://purl.obolibrary.org/obo/UBERON_0013212) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [anal sac gland secretion](http://purl.obolibrary.org/obo/UBERON_0013212) [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [NCBITaxon_30533](http://purl.obolibrary.org/obo/NCBITaxon_30533) - -- [anal sac gland secretion](http://purl.obolibrary.org/obo/UBERON_0013212) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "musk" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "NCBITaxon:30533" - -- [anal sac gland secretion](http://purl.obolibrary.org/obo/UBERON_0013212) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "odorous sac" - -- [anal sac gland secretion](http://purl.obolibrary.org/obo/UBERON_0013212) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "anal gland secretion" - -- [anal sac gland secretion](http://purl.obolibrary.org/obo/UBERON_0013212) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "castoreum" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [SENSU](http://purl.obolibrary.org/obo/uberon/core#SENSU) - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "NCBITaxon:29132" - -- [anal sac gland secretion](http://purl.obolibrary.org/obo/UBERON_0013212) [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [NCBITaxon_9673](http://purl.obolibrary.org/obo/NCBITaxon_9673) - -- Class: [anal sac gland secretion](http://purl.obolibrary.org/obo/UBERON_0013212) - -- [anal sac gland secretion](http://purl.obolibrary.org/obo/UBERON_0013212) EquivalentTo [secretion of exocrine gland](http://purl.obolibrary.org/obo/UBERON_0000456) and ([produced by](http://purl.obolibrary.org/obo/RO_0003001) some [gland of anal canal](http://purl.obolibrary.org/obo/UBERON_0004760)) - -- [anal sac gland secretion](http://purl.obolibrary.org/obo/UBERON_0013212) SubClassOf [produced by](http://purl.obolibrary.org/obo/RO_0003001) some [gland of anal canal](http://purl.obolibrary.org/obo/UBERON_0004760) - -- [anal sac gland secretion](http://purl.obolibrary.org/obo/UBERON_0013212) SubClassOf [secretion of exocrine gland](http://purl.obolibrary.org/obo/UBERON_0000456) - - -### anatomical cluster `http://purl.obolibrary.org/obo/UBERON_0000477` -#### Removed -- [anatomical cluster](http://purl.obolibrary.org/obo/UBERON_0000477) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007277" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### anatomical conduit `http://purl.obolibrary.org/obo/UBERON_0004111` -#### Removed -- [anatomical conduit](http://purl.obolibrary.org/obo/UBERON_0004111) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA has both conduit and conduit space. In EHDAA2 this is a surface feature" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### anatomical entity `http://purl.obolibrary.org/obo/UBERON_0001062` -#### Removed -- [anatomical entity](http://purl.obolibrary.org/obo/UBERON_0001062) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:10000000" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### anatomical projection `http://purl.obolibrary.org/obo/UBERON_0004529` -#### Removed -- [anatomical projection](http://purl.obolibrary.org/obo/UBERON_0004529) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical structure that is a natural outgrowth, projection, or appendage. A process can be part of a bone, cartilage, or tissue.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010278" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [anatomical projection](http://purl.obolibrary.org/obo/UBERON_0004529) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical structure that is a natural outgrowth, projection, or appendage. A process can be part of a bone, cartilage, tissue, fin, scale, etc.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001834" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" - -- [anatomical projection](http://purl.obolibrary.org/obo/UBERON_0004529) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical structure that is a natural outgrowth, projection, or appendage. A process can be part of a bone, cartilage, tissue, fin, scale, etc.[VSAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:curator" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000180" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - - - -### anatomical row `http://purl.obolibrary.org/obo/UBERON_0034926` -#### Removed -- [anatomical row](http://purl.obolibrary.org/obo/UBERON_0034926) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00100152" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### anatomical space `http://purl.obolibrary.org/obo/UBERON_0000464` -#### Removed -- [anatomical space](http://purl.obolibrary.org/obo/UBERON_0000464) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007017" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### anatomical structure `http://purl.obolibrary.org/obo/UBERON_0000061` -#### Removed -- [anatomical structure](http://purl.obolibrary.org/obo/UBERON_0000061) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007001" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### anatomical surface `http://purl.obolibrary.org/obo/UBERON_0006984` -#### Removed -- [anatomical surface](http://purl.obolibrary.org/obo/UBERON_0006984) SubClassOf [bona-fide anatomical boundary](http://purl.obolibrary.org/obo/UBERON_0010199) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "via morphological boundary in CARO" - -#### Added -- [anatomical surface](http://purl.obolibrary.org/obo/UBERON_0006984) SubClassOf [bona-fide anatomical boundary](http://purl.obolibrary.org/obo/UBERON_0010199) - - -### anatomical system `http://purl.obolibrary.org/obo/UBERON_0000467` -#### Removed -- [anatomical system](http://purl.obolibrary.org/obo/UBERON_0000467) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004856" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [anatomical system](http://purl.obolibrary.org/obo/UBERON_0000467) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "IDOMAL:0002460" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) - - - -### anatomical wall `http://purl.obolibrary.org/obo/UBERON_0000060` -#### Removed -- [anatomical wall](http://purl.obolibrary.org/obo/UBERON_0000060) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:25036" - -- [anatomical wall](http://purl.obolibrary.org/obo/UBERON_0000060) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA, serosa is a wall" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### ankle joint `http://purl.obolibrary.org/obo/UBERON_0001488` -#### Removed -- [ankle joint](http://purl.obolibrary.org/obo/UBERON_0001488) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "todo - accurately represent different types of ankle joint" - - - -### ankle nerve `http://purl.obolibrary.org/obo/UBERON_0003446` -#### Removed -- [ankle nerve](http://purl.obolibrary.org/obo/UBERON_0003446) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA placement dubious" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### anlage `http://purl.obolibrary.org/obo/UBERON_0007688` -#### Removed -- [anlage](http://purl.obolibrary.org/obo/UBERON_0007688) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005426" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### annulus fibrosus `http://purl.obolibrary.org/obo/UBERON_0006444` -#### Removed -- [annulus fibrosus](http://purl.obolibrary.org/obo/UBERON_0006444) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D000070616" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -- [annulus fibrosus](http://purl.obolibrary.org/obo/UBERON_0006444) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:32670" - - - -### anorectum `http://purl.obolibrary.org/obo/UBERON_8410050` -#### Removed -- [anorectum](http://purl.obolibrary.org/obo/UBERON_8410050) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "anorectal" - - - -### anterior chamber of eyeball `http://purl.obolibrary.org/obo/UBERON_0001766` -#### Removed -- [anterior chamber of eyeball](http://purl.obolibrary.org/obo/UBERON_0001766) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The part of the eyeball between the cornea and the iris, filled with aqueous humor. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001431" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/anterior+chamber" - -- [anterior chamber of eyeball](http://purl.obolibrary.org/obo/UBERON_0001766) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "space in EHDAA2 - consider adding Cavity of anterior chamber of eyeball" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" - - - -### anterior lateral line nerve `http://purl.obolibrary.org/obo/UBERON_2000425` -#### Removed -- [anterior lateral line nerve](http://purl.obolibrary.org/obo/UBERON_2000425) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (teleost_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/tao.owl" - - - -### anterior lateral line neuromast `http://purl.obolibrary.org/obo/UBERON_2001472` -#### Removed -- [anterior lateral line neuromast](http://purl.obolibrary.org/obo/UBERON_2001472) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (teleost_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/tao.owl" - - - -### anterior lateral line placode `http://purl.obolibrary.org/obo/UBERON_2001316` -#### Removed -- [anterior lateral line placode](http://purl.obolibrary.org/obo/UBERON_2001316) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Lateral line placode that gives rise to the anterior lateral line nerve[XAO:0004221, XAO:EJS]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "XAO:EJS" - - - -### anterior lateral line primordium `http://purl.obolibrary.org/obo/UBERON_2005117` -#### Removed -- [anterior lateral line primordium](http://purl.obolibrary.org/obo/UBERON_2005117) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (teleost_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/tao.owl" - - - -### anterior lateral plate mesoderm `http://purl.obolibrary.org/obo/UBERON_0009881` - -#### Added -- [anterior lateral plate mesoderm](http://purl.obolibrary.org/obo/UBERON_0009881) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### anterior limiting lamina of cornea `http://purl.obolibrary.org/obo/UBERON_0004370` -#### Removed -- [anterior limiting lamina of cornea](http://purl.obolibrary.org/obo/UBERON_0004370) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Acellular anatomical structure that is the zone of collagen fibers adjacent the basement membrane of the corneal epithelium.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002155" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:ZDB-PUB-061010-3" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [anterior limiting lamina of cornea](http://purl.obolibrary.org/obo/UBERON_0004370) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Compared to terrestial animals, the cornea of zebrafish is relatively flat. It consists of nonpigmented, stratified squamous nonkeratinizing epithelial cells, attached to a thick basement membrane that is considered to be analogous to the Bowman's membrane in mammals" - -#### Added -- [anterior limiting lamina of cornea](http://purl.obolibrary.org/obo/UBERON_0004370) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### anterior neural tube `http://purl.obolibrary.org/obo/UBERON_0003080` -#### Removed -- [anterior neural tube](http://purl.obolibrary.org/obo/UBERON_0003080) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001384" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28" - - - -### anterior part of tongue `http://purl.obolibrary.org/obo/UBERON_0010032` -#### Removed -- [anterior part of tongue](http://purl.obolibrary.org/obo/UBERON_0010032) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "check NCIT" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "NCIT" - -- [anterior part of tongue](http://purl.obolibrary.org/obo/UBERON_0010032) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The lateral lingual swellings grow and fuse with eachother, encompassing the tuberculum impar to provide the ectodermally derived mucosa of the anterior 2/3 of the tongue" - - - -### anterior segment of eyeball `http://purl.obolibrary.org/obo/UBERON_0001801` -#### Removed -- [anterior segment of eyeball](http://purl.obolibrary.org/obo/UBERON_0001801) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [posterior segment of eyeball](http://purl.obolibrary.org/obo/UBERON_0001802) - - [exceptions](http://www.geneontology.org/formats/oboInOwl#exceptions) "ZFA" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://github.com/obophenotype/uberon/issues/378" - - - [status](http://www.geneontology.org/formats/oboInOwl#status) "pending" - -#### Added -- [anterior segment of eyeball](http://purl.obolibrary.org/obo/UBERON_0001801) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### anterior stroma of cornea `http://purl.obolibrary.org/obo/UBERON_0003952` - -#### Added -- [anterior stroma of cornea](http://purl.obolibrary.org/obo/UBERON_0003952) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### anterior to `http://purl.obolibrary.org/obo/BSPO_0000096` -#### Removed -- [anterior to](http://purl.obolibrary.org/obo/BSPO_0000096) [id](http://www.geneontology.org/formats/oboInOwl#id) "anterior_to" - -- [anterior to](http://purl.obolibrary.org/obo/BSPO_0000096) [label](http://www.w3.org/2000/01/rdf-schema#label) "anterior to" - -- [anterior to](http://purl.obolibrary.org/obo/BSPO_0000096) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0000096" - -- [anterior to](http://purl.obolibrary.org/obo/BSPO_0000096) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [anterior to](http://purl.obolibrary.org/obo/BSPO_0000096) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "anterior_to" - - - -### anterior uvea `http://purl.obolibrary.org/obo/UBERON_0011892` - -#### Added -- [anterior uvea](http://purl.obolibrary.org/obo/UBERON_0011892) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### anterior vena cava `http://purl.obolibrary.org/obo/UBERON_0001585` -#### Removed -- [anterior vena cava](http://purl.obolibrary.org/obo/UBERON_0001585) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The mouse has both left and right anterior vena cava. adult humans only have a right. Postnatally the left regresses and becomes non-functional (Wessels and Sedmera 2003). In the mouse, The right pulmonary vein passes dorsal to the right superior vena cava, the left pulmonary dorsal to the left superior vena cava (Biology of the Laboratory Mouse, Green)." - -- [anterior vena cava](http://purl.obolibrary.org/obo/UBERON_0001585) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Phylogenetic modifications within this basic pattern of arteries and veins are largely correlated with functional changes. In the transition from water to land, gills gave way to lungs, accompanied by the establishment of a pulmonary circulation. In some fishes and certainly in tetrapods, the cardinal veins become less involved in blood return. Instead, the composite, prominent postcava (posterior vena cava) arose to drain the posterior part of the body and the precava (anterior vena cava) developed to drain the anterior part of the body.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001195" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.454-455" - - - -### anterior wall of right ventricle `http://purl.obolibrary.org/obo/UBERON_0036289` -#### Removed -- [anterior wall of right ventricle](http://purl.obolibrary.org/obo/UBERON_0036289) SubClassOf [heart ventricle wall](http://purl.obolibrary.org/obo/UBERON_0004784) - -#### Added -- [anterior wall of right ventricle](http://purl.obolibrary.org/obo/UBERON_0036289) SubClassOf [wall of right ventricle](http://purl.obolibrary.org/obo/UBERON_0036286) - - -### anteroventral periventricular nucleus `http://purl.obolibrary.org/obo/UBERON_0002690` -#### Removed -- [anteroventral periventricular nucleus](http://purl.obolibrary.org/obo/UBERON_0002690) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0001934](http://purl.obolibrary.org/obo/UBERON_0001934) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [anteroventral periventricular nucleus](http://purl.obolibrary.org/obo/UBERON_0002690) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002034](http://purl.obolibrary.org/obo/UBERON_0002034) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [anteroventral periventricular nucleus](http://purl.obolibrary.org/obo/UBERON_0002690) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0007626](http://purl.obolibrary.org/obo/UBERON_0007626) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [anteroventral periventricular nucleus](http://purl.obolibrary.org/obo/UBERON_0002690) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [median preoptic nucleus](http://purl.obolibrary.org/obo/UBERON_0002625) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [anteroventral periventricular nucleus](http://purl.obolibrary.org/obo/UBERON_0002690) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002219](http://purl.obolibrary.org/obo/UBERON_0002219) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [anteroventral periventricular nucleus](http://purl.obolibrary.org/obo/UBERON_0002690) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002689](http://purl.obolibrary.org/obo/UBERON_0002689) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - - - -### antigen-presenting glycoprotein CD1d `http://purl.obolibrary.org/obo/PR_000002028` -#### Removed -- [antigen-presenting glycoprotein CD1d](http://purl.obolibrary.org/obo/PR_000002028) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [antigen-presenting glycoprotein CD1d (human)](http://purl.obolibrary.org/obo/PR_P15813) - - - -### anus `http://purl.obolibrary.org/obo/UBERON_0001245` -#### Removed -- [anus](http://purl.obolibrary.org/obo/UBERON_0001245) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "anal" - -- [anus](http://purl.obolibrary.org/obo/UBERON_0001245) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00047153" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [anus](http://purl.obolibrary.org/obo/UBERON_0001245) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In the lungfish, sharks and rays the rectum opens into the cloaca which also receives wastes (urine) from the kidneys and material from the reproductive organs. In bony fish the rectum reaches the outside environment through the anus, which is normally situated just in front the urinary and reproductive openings. However in some fish the digestive tract may be curled back on itself, and in the Electric Eel (Electrophorus electricus) the anus is situated in the fish's throat. -- http://www.earthlife.net/fish/digestion.html" - - - -### aorta `http://purl.obolibrary.org/obo/UBERON_0000947` -#### Removed -- [aorta](http://purl.obolibrary.org/obo/UBERON_0000947) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "All amniotes have a broadly similar arrangement to that of humans, albeit with a number of individual variations. In fish, however, there are two separate vessels referred to as aortas. The ventral aorta carries de-oxygenated blood from the heart to the gills; part of this vessel forms the ascending aorta in tetrapods (the remainder forms the pulmonary artery). A second, dorsal aorta carries oxygenated blood from the gills to the rest of the body, and is homologous with the descending aorta of tetrapods. The two aortas are connected by a number of vessels, one passing through each of the gills. Amphibians also retain the fifth connecting vessel, so that the aorta has two parallel arches" - -- [aorta](http://purl.obolibrary.org/obo/UBERON_0000947) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The main artery of the circulatory system which carries oxygenated blood from the heart to all the arteries of the body except those of the lungs.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010213" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [aorta](http://purl.obolibrary.org/obo/UBERON_0000947) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "When vertebrates first appeared, they must have possessed a ventral and dorsal aorta with aortic arches between them.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001523" - -- [aorta](http://purl.obolibrary.org/obo/UBERON_0000947) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "aortic" - - - -### aorta collagen fibril `http://purl.obolibrary.org/obo/UBERON_0011861` - -#### Added -- [aorta collagen fibril](http://purl.obolibrary.org/obo/UBERON_0011861) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### aortic sac `http://purl.obolibrary.org/obo/UBERON_0005432` -#### Removed -- [aortic sac](http://purl.obolibrary.org/obo/UBERON_0005432) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "the merged ventral aortae of the embryo which supplies blood to the aortic arches[TMD][http://medical-dictionary.thefreedictionary.com/aortic+sac]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/aortic+sac" - - - -### aortico-pulmonary spiral septum `http://purl.obolibrary.org/obo/UBERON_0006207` - -#### Added -- [aortico-pulmonary spiral septum](http://purl.obolibrary.org/obo/UBERON_0006207) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### apical ectodermal ridge `http://purl.obolibrary.org/obo/UBERON_0004356` -#### Removed -- [apical ectodermal ridge](http://purl.obolibrary.org/obo/UBERON_0004356) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: subclass proliferative region (TAO:0000098)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002146" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [apical ectodermal ridge](http://purl.obolibrary.org/obo/UBERON_0004356) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Proliferative region that is part of the developing fin fold or fin.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002146" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [apical ectodermal ridge](http://purl.obolibrary.org/obo/UBERON_0004356) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Distal ectodermal thickening which forms along the anterior-posterior limb axis. Signaling from this region influences proximal-distal patterning of the limb. Structure is missing in some lineages (salamanders, Eleutherodactylus coqui) however morphologically their indistinct distal ectoderm may still be involved in signaling.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010760" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [apical ectodermal ridge](http://purl.obolibrary.org/obo/UBERON_0004356) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "note that media, dorsal fins etc have AERs." - -- [apical ectodermal ridge](http://purl.obolibrary.org/obo/UBERON_0004356) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "maintaining mesenchyme in plastic proliferating state; maintaining expression of A-P axis genes; interacting with D-V proteins. Genes: AER induced by Fgf10 in mesenchyme. AER secretes Fgf8, which stimulates mitosis in the mesenchyme causing Fgf10 production - positive feedback loop" - -- [apical ectodermal ridge](http://purl.obolibrary.org/obo/UBERON_0004356) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The AER of tetrapods regresses after specification of skeletal progenitors, the AER of teleosts form an elongating fin fold" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:20574421" - - - -### apocrine gland `http://purl.obolibrary.org/obo/UBERON_0008974` -#### Removed -- [apocrine gland](http://purl.obolibrary.org/obo/UBERON_0008974) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D001050" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -- [apocrine gland](http://purl.obolibrary.org/obo/UBERON_0008974) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "apocrine" - -- [apocrine gland](http://purl.obolibrary.org/obo/UBERON_0008974) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Mammary glands are modified apocrine glands present in both humans and mice; unlike humans, mice do not have axillary apocrine sweat glands[MGI:anna]" - - - -### apocrine sweat gland `http://purl.obolibrary.org/obo/UBERON_0000382` -#### Removed -- [apocrine sweat gland](http://purl.obolibrary.org/obo/UBERON_0000382) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, apocrine sweat glands are found only in certain locations of the body: the axillae (armpits), the areola of the nipples, and the genitoanal region." - - - -### aponeurosis `http://purl.obolibrary.org/obo/UBERON_0006614` -#### Removed -- [aponeurosis](http://purl.obolibrary.org/obo/UBERON_0006614) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in ZFA, aponeuroses are subtypes of tendons, but this is inconsistent with tendons being muscle-bone connections" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" - -- [aponeurosis](http://purl.obolibrary.org/obo/UBERON_0006614) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Aponeuroses are layers of flat broad tendons. They have a shiny, whitish-silvery color, and are histologically similar to tendons, but are very sparingly supplied with blood vessels and nerves. When dissected, aponeuroses are papery, and peel off by sections. The primary regions with thick aponeurosis is in the ventral abdominal region, the dorsal lumbar region, and in the palmar region. Their primary function is to join muscles and the body parts the muscles act upon[Wikipedia:Aponeurosis]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Aponeurosis" - -- [aponeurosis](http://purl.obolibrary.org/obo/UBERON_0006614) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D000070606" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### appendage `http://purl.obolibrary.org/obo/UBERON_0000026` -#### Removed -- [appendage](http://purl.obolibrary.org/obo/UBERON_0000026) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "this is currently a subtype of organism subdivision - which would exclude feathers" - -- [appendage](http://purl.obolibrary.org/obo/UBERON_0000026) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007000" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [appendage](http://purl.obolibrary.org/obo/UBERON_0000026) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organ or organ part that is attached to the body of an organism. For example a limb[GO, modified][GO:0048736]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO:0048736" - -- [appendage](http://purl.obolibrary.org/obo/UBERON_0000026) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "appendicular" - -- [appendage](http://purl.obolibrary.org/obo/UBERON_0000026) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An appendage is an external body part, or natural prolongation, that protrudes from an organism's body, such as a vertebrate's limbs[BILA][BILA:0000018]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "BILA:0000018" - - - -### appendage girdle complex `http://purl.obolibrary.org/obo/UBERON_0010707` -#### Removed -- [appendage girdle complex](http://purl.obolibrary.org/obo/UBERON_0010707) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical group that consists of the soft and skeletal tissues of the appendicular region of the body and the appendage proper.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000214" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - -- [appendage girdle complex](http://purl.obolibrary.org/obo/UBERON_0010707) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "note that the FMA uses the term 'limb' to refer to the entire appendage complex (free limb plus girdle region)" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [appendage girdle complex](http://purl.obolibrary.org/obo/UBERON_0010707) [UBPROP_0000005](http://purl.obolibrary.org/obo/UBPROP_0000005) "It is still called a complex when one of the two parts is missing (?) There are fossil fishes with only an outgrowth (no record of a girdle), including thelodonts (which have a suprabranchial fin) as well as some anaspids which have a distinctive 'paired fin' (with differing published assertions on whether it's homologous to a pec fin or pelvic fin or both or neither). There are many fishes and other vertebrates with only a girdle and no outgrowth.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000214" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-06" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - - - -### appendage girdle region `http://purl.obolibrary.org/obo/UBERON_0007823` -#### Removed -- [appendage girdle region](http://purl.obolibrary.org/obo/UBERON_0007823) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An organism subdivision that encompasses the region containing the pectoral or pelvic girdle. Note that this includes both the skeletal elements and associated tissues (integument, muscle, etc). There are only two instances of appendage girdle regions per organism.[VSAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://orcid.org/0000-0002-6601-2165" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000303" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - -- [appendage girdle region](http://purl.obolibrary.org/obo/UBERON_0007823) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this encompasses non-skeletal tissue" - - - -### appendicular skeletal system `http://purl.obolibrary.org/obo/UBERON_0011249` -#### Removed -- [appendicular skeletal system](http://purl.obolibrary.org/obo/UBERON_0011249) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VHOG:0001666" - -- [appendicular skeletal system](http://purl.obolibrary.org/obo/UBERON_0011249) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Skeletal system which consists of the appendicular skeleton plus associated joints.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000306" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://orcid.org/0000-0002-6601-2165" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - - - -### appendicular skeleton `http://purl.obolibrary.org/obo/UBERON_0002091` -#### Removed -- [appendicular skeleton](http://purl.obolibrary.org/obo/UBERON_0002091) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VHOG:0001666" - -- [appendicular skeleton](http://purl.obolibrary.org/obo/UBERON_0002091) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "ontologies differ in whether they treat the term appendicular skeleton as being the entire set of bones in the limbs, or whether the fore and hind limbs/fins are treated as seperate appendicular skeletons. Here we follow FMA, and treat the appendicular skeleton as the sum total of skeletal elements in the organism (this is evidenced by the fact that in FMA, skeleton of left/right upper/lower limb is part_of a appendicular skeleton, and subtypes of 'subdivision of appendicular skeleton'). We have separate classes such as 'skeleton of limb', and 'skeleton of hindlimb' for the 4 parts of the appendicular skeleton. In future the ZFA/TAO classes may be moved." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [appendicular skeleton](http://purl.obolibrary.org/obo/UBERON_0002091) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The pectoral and pelvic girdles, which articulate with the axial skeleton, together with their associated limbs, the forelimbs and hind limbs, form the appendicular skeleton.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000747" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [appendicular skeleton](http://purl.obolibrary.org/obo/UBERON_0002091) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Skeletal subdivision consisting of all the skeletal elements in the pectoral and pelvic appendage complexes.[VSAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://orcid.org/0000-0002-6601-2165" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000076" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - -- [appendicular skeleton](http://purl.obolibrary.org/obo/UBERON_0002091) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Skeletal system that consists of the paired fins (pectoral or pelvic fins).[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000027" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" - - - -### aqueous drainage system `http://purl.obolibrary.org/obo/UBERON_0003956` - -#### Added -- [aqueous drainage system](http://purl.obolibrary.org/obo/UBERON_0003956) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### aqueous humor of eyeball `http://purl.obolibrary.org/obo/UBERON_0001796` -#### Removed -- [aqueous humor of eyeball](http://purl.obolibrary.org/obo/UBERON_0001796) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya (reference 1); Although the eye varies greatly in adaptative details among vertebrates, its basic structure is the same in all. The human eye is representative of the design typical for a tetrapod. (...) A watery aqueous humor fills the spaces in the eye in front of the lens (...) (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007), ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.424 and p.426 and p.429 and Figure 12-24" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000548" - -- [aqueous humor of eyeball](http://purl.obolibrary.org/obo/UBERON_0001796) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA says A+P chambers, and MA states A chamber. ZFA states A chamber and tha it is produced primarily by dorsal ciliary epithelial cells.To be investigated across taxa." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [aqueous humor of eyeball](http://purl.obolibrary.org/obo/UBERON_0001796) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The fluid produced by the ciliary process in the eye and occupying the anterior and posterior chambers. It provides nourishment for the lens and cornea and maintains the ocular pressure, and hence the optical integrity of the eyeball. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000548" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/aqueous+humour" - -- [aqueous humor of eyeball](http://purl.obolibrary.org/obo/UBERON_0001796) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [anterior chamber of eyeball](http://purl.obolibrary.org/obo/UBERON_0001766) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "FMA def states A and P" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "VHOG" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "located_in in EHDAA2" - -#### Added -- [aqueous humor of eyeball](http://purl.obolibrary.org/obo/UBERON_0001796) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [anterior chamber of eyeball](http://purl.obolibrary.org/obo/UBERON_0001766) - - -### arachnoid barrier layer `http://purl.obolibrary.org/obo/UBERON_0000437` - -#### Added -- [arachnoid barrier layer](http://purl.obolibrary.org/obo/UBERON_0000437) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - -- [arachnoid barrier layer](http://purl.obolibrary.org/obo/UBERON_0000437) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### arachnoid mater `http://purl.obolibrary.org/obo/UBERON_0002362` -#### Removed -- [arachnoid mater](http://purl.obolibrary.org/obo/UBERON_0002362) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [vasculature](http://purl.obolibrary.org/obo/UBERON_0002049) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0471888893" - - - -### arachnoid trabecula `http://purl.obolibrary.org/obo/UBERON_0000439` - -#### Added -- [arachnoid trabecula](http://purl.obolibrary.org/obo/UBERON_0000439) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### arch of aorta `http://purl.obolibrary.org/obo/UBERON_0001508` -#### Removed -- [arch of aorta](http://purl.obolibrary.org/obo/UBERON_0001508) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "birds have right aortic arch, mammals left." - -- [arch of aorta](http://purl.obolibrary.org/obo/UBERON_0001508) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The curving portion between the ascending aorta and the descending aorta, giving rise to the brachiocephalic trunk, the left common carotid artery, and the left subclavian artery. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/arch+of+aorta" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001196" - -- [arch of aorta](http://purl.obolibrary.org/obo/UBERON_0001508) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Do not confuse with aortic arch" - -- [arch of aorta](http://purl.obolibrary.org/obo/UBERON_0001508) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The double systemic arch arches (left and right) present in amphibians and reptiles become reduced to a single systemic arch - the right in birds, the left in mammals.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001196" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.460 and p.461 Figure 12.20" - -- [arch of aorta](http://purl.obolibrary.org/obo/UBERON_0001508) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [pharyngeal arch artery 4](http://purl.obolibrary.org/obo/UBERON_0003121) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "embryology.ch" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "left arch 4 in human" - -#### Added -- [arch of aorta](http://purl.obolibrary.org/obo/UBERON_0001508) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [pharyngeal arch artery 4](http://purl.obolibrary.org/obo/UBERON_0003121) - - -### arch of centrum of vertebra `http://purl.obolibrary.org/obo/UBERON_0010358` -#### Removed -- [arch of centrum of vertebra](http://purl.obolibrary.org/obo/UBERON_0010358) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Note that humans do not have hemal arches, so VA=NA for FMA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [arch of centrum of vertebra](http://purl.obolibrary.org/obo/UBERON_0010358) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) certain common components [of vertebral structure] are found in nearly all vertebrate. A representative vertebra has a vertebral arch or neural arch, which extends dorsally around the spinal cord.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.270" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001670" - -- [arch of centrum of vertebra](http://purl.obolibrary.org/obo/UBERON_0010358) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:11946" - - - -### arcuate nucleus of hypothalamus `http://purl.obolibrary.org/obo/UBERON_0001932` -#### Removed -- [arcuate nucleus of hypothalamus](http://purl.obolibrary.org/obo/UBERON_0001932) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "the semantics of the BTO class arcuate nucleus are not clear" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "BTO" - -- [arcuate nucleus of hypothalamus](http://purl.obolibrary.org/obo/UBERON_0001932) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0001929](http://purl.obolibrary.org/obo/UBERON_0001929) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [arcuate nucleus of hypothalamus](http://purl.obolibrary.org/obo/UBERON_0001932) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [paraventricular nucleus of hypothalamus](http://purl.obolibrary.org/obo/UBERON_0001930) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - - - -### areolar connective tissue `http://purl.obolibrary.org/obo/UBERON_0006815` -#### Removed -- [areolar connective tissue](http://purl.obolibrary.org/obo/UBERON_0006815) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "cushions body organs" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO" - -- [areolar connective tissue](http://purl.obolibrary.org/obo/UBERON_0006815) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Also known as loose connective tissue. A pliable, mesh-like tissue with a fluid matrix that functions to cushion and protect body organs.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000027" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [areolar connective tissue](http://purl.obolibrary.org/obo/UBERON_0006815) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: subclass connective tissue proper (AAO:0000099)[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000027" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - -### arginase-1 `http://purl.obolibrary.org/obo/PR_000001844` -#### Removed -- [arginase-1](http://purl.obolibrary.org/obo/PR_000001844) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [arginase-1 (human)](http://purl.obolibrary.org/obo/PR_P05089) - - - -### arm `http://purl.obolibrary.org/obo/UBERON_0001460` -#### Removed -- [arm](http://purl.obolibrary.org/obo/UBERON_0001460) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class refers to the combination of the stylopod and zeugopod of a forelimb. Sometimes (cf FMA), 'arm' denotes the stylopod only; sometimes (cf MA), 'arm' denotes the part of the forelimb covering both (i.e. shoulder to hand). Also note distinction between arm and forelimb: hand is part of forelimb, but not part of arm" - -- [arm](http://purl.obolibrary.org/obo/UBERON_0001460) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Most anatomists now agree that the three proximal bones of the tetrapod limbs are homologous to the two or three proximal elements of the paired fin skeleton of other sarcopterygians, that is the humerus-femur, radius-tibia, and ulna-fibula.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000339" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0198540472 Janvier P, Early vertebrates (1996) p.268" - - - -### arm bone `http://purl.obolibrary.org/obo/UBERON_0003460` -#### Removed -- [arm bone](http://purl.obolibrary.org/obo/UBERON_0003460) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D050280" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### arrector muscle of hair `http://purl.obolibrary.org/obo/UBERON_0002033` -#### Removed -- [arrector muscle of hair](http://purl.obolibrary.org/obo/UBERON_0002033) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "When contracted the arrector pili causes the raising of the hair" - - - -### arterial blood `http://purl.obolibrary.org/obo/UBERON_0013755` -#### Removed -- [arterial blood](http://purl.obolibrary.org/obo/UBERON_0013755) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0006188" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) - - - -### arterial system `http://purl.obolibrary.org/obo/UBERON_0004572` -#### Removed -- [arterial system](http://purl.obolibrary.org/obo/UBERON_0004572) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000273" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2005)" - - - -### arteriole `http://purl.obolibrary.org/obo/UBERON_0001980` -#### Removed -- [arteriole](http://purl.obolibrary.org/obo/UBERON_0001980) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Multi-tissue structure part of the blood vasculature, feeds into capillaries. Arterioles carry blood away from the heart.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002138" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [arteriole](http://purl.obolibrary.org/obo/UBERON_0001980) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Small, terminal branch of an artery which generally connects to capillaries.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010253" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - - -### artery `http://purl.obolibrary.org/obo/UBERON_0001637` -#### Removed -- [artery](http://purl.obolibrary.org/obo/UBERON_0001637) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "arterial" - -- [artery](http://purl.obolibrary.org/obo/UBERON_0001637) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Some arthropods have primitive arterial systems but this term refers to arteries in a true closed circulatory system." - -- [artery](http://purl.obolibrary.org/obo/UBERON_0001637) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EHDAA2:0000143" - -- [artery](http://purl.obolibrary.org/obo/UBERON_0001637) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_63812](http://purl.obolibrary.org/obo/FMA_63812) - -- [artery](http://purl.obolibrary.org/obo/UBERON_0001637) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the circulatory system composed of blood vessels which carry oxygenated blood away from the heart to the rest of the body.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010211" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [artery](http://purl.obolibrary.org/obo/UBERON_0001637) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2006)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001251" - - - -### arthropod sensillum `http://purl.obolibrary.org/obo/UBERON_0002536` -#### Removed -- [arthropod sensillum](http://purl.obolibrary.org/obo/UBERON_0002536) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007152" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### arthropod tagma `http://purl.obolibrary.org/obo/UBERON_6000002` -#### Removed -- [arthropod tagma](http://purl.obolibrary.org/obo/UBERON_6000002) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000002" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### articular capsule `http://purl.obolibrary.org/obo/UBERON_0001484` -#### Removed -- [articular capsule](http://purl.obolibrary.org/obo/UBERON_0001484) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "check ncita" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ncit" - - - -### articulation `http://purl.obolibrary.org/obo/UBERON_0004905` -#### Removed -- [articulation](http://purl.obolibrary.org/obo/UBERON_0004905) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005811" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### ascending colon `http://purl.obolibrary.org/obo/UBERON_0001156` -#### Removed -- [ascending colon](http://purl.obolibrary.org/obo/UBERON_0001156) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in MA, this is a subclass of colon" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - -- [ascending colon](http://purl.obolibrary.org/obo/UBERON_0001156) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D044682" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### atlanto-occipital joint `http://purl.obolibrary.org/obo/UBERON_0000220` -#### Removed -- [atlanto-occipital joint](http://purl.obolibrary.org/obo/UBERON_0000220) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D001269" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### atrioventricular node `http://purl.obolibrary.org/obo/UBERON_0002352` -#### Removed -- [atrioventricular node](http://purl.obolibrary.org/obo/UBERON_0002352) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Three major adaptations, or 'novel cardiac components', that were not present in the ancestor chordate heart tube can be distinguished in the lower vertebrate heart: the atrium, ventricle, and possibly the muscular sinus venosus. Furthermore, within the ventricular component a compact outer myocardial component and an interiorly localized extensive trabecular component can be distinguished. The specific activation of the ventricle adds to its complexity as follows. The depolarizing impulse travels rapidly from the atrioventricular node toward the apex and then toward the conal region, achieving activation from apex to base.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001474" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1152/physrev.00006.2003 Moorman AFM, Christoffels VM, Cardiac Chamber Formation: Development, Genes, and Evolution. Physiological Reviews (2003)" - - - -### atrioventricular region `http://purl.obolibrary.org/obo/UBERON_0011820` - -#### Added -- [atrioventricular region](http://purl.obolibrary.org/obo/UBERON_0011820) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### atrium myocardial trabecula `http://purl.obolibrary.org/obo/UBERON_0005988` - -#### Added -- [atrium myocardial trabecula](http://purl.obolibrary.org/obo/UBERON_0005988) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### attached to `http://purl.obolibrary.org/obo/RO_0002371` -#### Removed -- [attached to](http://purl.obolibrary.org/obo/RO_0002371) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "attaches_to" - -- [attached to](http://purl.obolibrary.org/obo/RO_0002371) [label](http://www.w3.org/2000/01/rdf-schema#label) "attached to" - -- [attached to](http://purl.obolibrary.org/obo/RO_0002371) [id](http://www.geneontology.org/formats/oboInOwl#id) "attaches_to" - -- [attached to](http://purl.obolibrary.org/obo/RO_0002371) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [attached to](http://purl.obolibrary.org/obo/RO_0002371) [IAO_0000589](http://purl.obolibrary.org/obo/IAO_0000589) "attached to (anatomical structure to anatomical structure)" - -- [attached to](http://purl.obolibrary.org/obo/RO_0002371) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002371" - -- [attached to](http://purl.obolibrary.org/obo/RO_0002371) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### attached to part of `http://purl.obolibrary.org/obo/RO_0002177` -#### Removed -- [attached to part of](http://purl.obolibrary.org/obo/RO_0002177) [IAO_0000589](http://purl.obolibrary.org/obo/IAO_0000589) "attached to part of (anatomical structure to anatomical structure)" - -- [attached to part of](http://purl.obolibrary.org/obo/RO_0002177) [id](http://www.geneontology.org/formats/oboInOwl#id) "attaches_to_part_of" - -- [attached to part of](http://purl.obolibrary.org/obo/RO_0002177) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "attaches_to_part_of" - -- [attached to part of](http://purl.obolibrary.org/obo/RO_0002177) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002177" - -- [attached to part of](http://purl.obolibrary.org/obo/RO_0002177) [label](http://www.w3.org/2000/01/rdf-schema#label) "attached to part of" - -- [attached to part of](http://purl.obolibrary.org/obo/RO_0002177) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [attached to](http://purl.obolibrary.org/obo/RO_0002371) o [part_of](http://purl.obolibrary.org/obo/BFO_0000050) SubPropertyOf: [attached to part of](http://purl.obolibrary.org/obo/RO_0002177) - - [is a defining property chain axiom where second argument is reflexive](http://purl.obolibrary.org/obo/RO_0002582) true - - - -### auditory meatus epithelium `http://purl.obolibrary.org/obo/UBERON_0010065` - -#### Added -- [auditory meatus epithelium](http://purl.obolibrary.org/obo/UBERON_0010065) SubClassOf [endo-epithelium](http://purl.obolibrary.org/obo/UBERON_0005911) - -- [auditory meatus epithelium](http://purl.obolibrary.org/obo/UBERON_0010065) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### auditory ossicle bone `http://purl.obolibrary.org/obo/UBERON_0001686` -#### Removed -- [auditory ossicle bone](http://purl.obolibrary.org/obo/UBERON_0001686) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The small bones of the middle ear: incus, malleus, and stapes. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/auditory+ossicles" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000461" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - -- [auditory ossicle bone](http://purl.obolibrary.org/obo/UBERON_0001686) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Additional structural analysis within a phylogenetic context has led to the remarkable discovery that in synapsids, thought to be ancestral to mammals, both the quadrate and articular have become reduced and less firmly articulated with their surrounding bones, reducing their jaw-joint-bearing role. This trend culminated with the incorporation of the quadrate, the columella (which remains articulated with the quadrate), and the articular into the expanded middle ear in mammals.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.695" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000461" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - -- [auditory ossicle bone](http://purl.obolibrary.org/obo/UBERON_0001686) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Studies have shown that ear bones in mammal embryos are attached to the dentary, which is part of the jaw. These are ossified portions of cartilage -- called Meckel's cartilage -- that are attached to the jaw. As the embryo develops, the cartilage hardens to form bone. Later in development, the bone structure breaks loose from the jaw and migrates to the inner ear area. The structure is known as the middle ear, and is made up of the incus, stapes, malleus, and tympanic membrane. These correspond to the quadrate, prearticular, articular, and angular structures in the reptile jaw. For this reason, researchers believe the similarity of the results shows that mammals and reptiles have a common ancestry." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" - - - -### auditory ossicle endochondral element `http://purl.obolibrary.org/obo/UBERON_0035130` - -#### Added -- [auditory ossicle endochondral element](http://purl.obolibrary.org/obo/UBERON_0035130) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### auditory system `http://purl.obolibrary.org/obo/UBERON_0016490` -#### Removed -- [auditory system](http://purl.obolibrary.org/obo/UBERON_0016490) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Auditory system is general anatomical term in FMA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### author_id `https://w3id.org/sssom/author_id` -#### Removed -- AnnotationProperty: [author_id](https://w3id.org/sssom/author_id) - - - -### autonomic ganglion `http://purl.obolibrary.org/obo/UBERON_0001805` -#### Removed -- [autonomic ganglion](http://purl.obolibrary.org/obo/UBERON_0001805) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17157" - - - -### autonomic nerve `http://purl.obolibrary.org/obo/UBERON_0034728` -#### Removed -- [autonomic nerve](http://purl.obolibrary.org/obo/UBERON_0034728) SubClassOf [nerve](http://purl.obolibrary.org/obo/UBERON_0001021) - -#### Added -- [autonomic nerve](http://purl.obolibrary.org/obo/UBERON_0034728) SubClassOf [nerve of head region](http://purl.obolibrary.org/obo/UBERON_0011779) - - -### autonomic nervous system `http://purl.obolibrary.org/obo/UBERON_0002410` -#### Removed -- [autonomic nervous system](http://purl.obolibrary.org/obo/UBERON_0002410) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Nervous system including a portion of the central and peripheral systems and presiding over the control and coordination of the vegetative functions of the organism. It innervates smooth and cardiac muscles and glandular tissues and is responsible for many actions which are more or less automatic (e.g. secretion, vasoconstriction etc.). It consists of the sympathetic and parasympathetic nervous systems. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000396" - -- [autonomic nervous system](http://purl.obolibrary.org/obo/UBERON_0002410) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "From comparative analyses of craniate brains, a morphotype of the brain in the earliest craniate stock can be constructed. In marked contrast to cephalochordates, the ancestral craniate morphotype had a plethora of unique features, which included a telencephalon with pallial and subpallial parts, paired olfactory bulbs with substantial projections to most or all of the telencephalic pallium, paired lateral eyes and ears, a lateral line system for both electroreception and mechanoreception, spinal cord dorsal root ganglia, and an autonomic nervous system.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000396" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1002/1097-0185(20000615)261:3<111::AID-AR6>3.0.CO;2-F Butler AB, Chordate evolution and the origin of craniates: An old brain in a new head. AnaT Rec (New Anat) (2000)" - -- [autonomic nervous system](http://purl.obolibrary.org/obo/UBERON_0002410) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the peripheral nervous system which regulates involuntary functions of the body and consists of the sympathetic and parasympathetic system.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000033" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [autonomic nervous system](http://purl.obolibrary.org/obo/UBERON_0002410) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA splits this into peripheral and nervous parts; GO has ANS directly under NS; PNS is a sib" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [autonomic nervous system](http://purl.obolibrary.org/obo/UBERON_0002410) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "IDOMAL:0002126" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### autopod bone `http://purl.obolibrary.org/obo/UBERON_0011250` -#### Removed -- [autopod bone](http://purl.obolibrary.org/obo/UBERON_0011250) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Skeleton-partonomy-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - - -### autopod cartilage `http://purl.obolibrary.org/obo/UBERON_0015064` -#### Removed -- [autopod cartilage](http://purl.obolibrary.org/obo/UBERON_0015064) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) [Skeleton-partonomy-Design-Pattern](https://github.com/obophenotype/uberon/wiki/Skeleton-partonomy-Design-Pattern) - - - -### autopod endochondral element `http://purl.obolibrary.org/obo/UBERON_0015063` -#### Removed -- [autopod endochondral element](http://purl.obolibrary.org/obo/UBERON_0015063) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) [Skeleton-partonomy-Design-Pattern](https://github.com/obophenotype/uberon/wiki/Skeleton-partonomy-Design-Pattern) - - - -### autopod region `http://purl.obolibrary.org/obo/UBERON_0002470` -#### Removed -- [autopod region](http://purl.obolibrary.org/obo/UBERON_0002470) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "Naming conventions for pod terms under discussion within phenoscape group; note that this refers to the limb segment, not just the skeleton." - -- [autopod region](http://purl.obolibrary.org/obo/UBERON_0002470) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [embryonic autopod plate](http://purl.obolibrary.org/obo/UBERON_0010130) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [autopod region](http://purl.obolibrary.org/obo/UBERON_0002470) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [embryonic autopod plate](http://purl.obolibrary.org/obo/UBERON_0010130) - - -### autopodial skeleton `http://purl.obolibrary.org/obo/UBERON_0006717` -#### Removed -- [autopodial skeleton](http://purl.obolibrary.org/obo/UBERON_0006717) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "Naming conventions for pod terms under discussion within phenoscape group" - -- [autopodial skeleton](http://purl.obolibrary.org/obo/UBERON_0006717) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Distal section of the limb skeleton, consisting of the anterior autopodium or posterior autopodium.[VSAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "VSAO:NI" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0005019" - -#### Added -- [autopodial skeleton](http://purl.obolibrary.org/obo/UBERON_0006717) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### axial mesoderm `http://purl.obolibrary.org/obo/UBERON_0003068` -#### Removed -- [axial mesoderm](http://purl.obolibrary.org/obo/UBERON_0003068) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The portion of the mesoderm underlying the midline of the embryo. [Gastrulation:_From_cells_to_embryo_(2004)_Cold_Spring_Harbor, Glossary_XV, New_York:_Cold_Spring_Harbor_Laboratory_Press, Stern_CD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000107" - - - -### axial skeleton plus cranial skeleton `http://purl.obolibrary.org/obo/UBERON_0005944` -#### Removed -- [axial skeleton plus cranial skeleton](http://purl.obolibrary.org/obo/UBERON_0005944) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:18043" - -- [axial skeleton plus cranial skeleton](http://purl.obolibrary.org/obo/UBERON_0005944) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Skeletal subdivision of the central body axis including the cranium, vertebrae, notochord, ribs, and sternum.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000056" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - - - -### axial vasculature `http://purl.obolibrary.org/obo/UBERON_2001073` -#### Removed -- [axial vasculature](http://purl.obolibrary.org/obo/UBERON_2001073) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (teleost_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/tao.owl" - - - -### axilla `http://purl.obolibrary.org/obo/UBERON_0009472` -#### Removed -- [axilla](http://purl.obolibrary.org/obo/UBERON_0009472) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "axillary" - - - -### axillary artery `http://purl.obolibrary.org/obo/UBERON_0001394` -#### Removed -- [axillary artery](http://purl.obolibrary.org/obo/UBERON_0001394) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In human anatomy, the axillary artery is a large blood vessel that conveys oxygenated blood to the lateral aspect of the thorax, the axilla (armpit) and the upper limb. Its origin is at the lateral margin of the first rib, before which it is called the subclavian artery. After passing the lower margin of teres major it becomes the brachial artery." - - - -### axillary vein `http://purl.obolibrary.org/obo/UBERON_0000985` -#### Removed -- [axillary vein](http://purl.obolibrary.org/obo/UBERON_0000985) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In human anatomy, the axillary vein is a large blood vessel that conveys blood from the lateral aspect of the thorax, axilla (armpit) and upper limb toward the heart. There is one axillary vein on each side of the body. Its origin is at the lower margin of the teres major muscle and a continuation of the brachial vein. Its tributaries include the basilic vein and cephalic vein, which are both superficial veins. It terminates at the lateral margin of the first rib, at which it becomes the subclavian vein. It is accompanied along its course by a similarly named artery, the axillary artery" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" - - - -### axon synapses in `http://purl.obolibrary.org/obo/RO_0002102` -#### Removed -- [axon synapses in](http://purl.obolibrary.org/obo/RO_0002102) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [axon synapses in](http://purl.obolibrary.org/obo/RO_0002102) [citesAsAuthority](http://purl.org/spar/cito/citesAsAuthority) [22402613](http://www.ncbi.nlm.nih.gov/pubmed/22402613) - -- [axon synapses in](http://purl.obolibrary.org/obo/RO_0002102) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [axon synapses in](http://purl.obolibrary.org/obo/RO_0002102) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) - -- [axon synapses in](http://purl.obolibrary.org/obo/RO_0002102) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) - - - -### axon tract `http://purl.obolibrary.org/obo/UBERON_0001018` -#### Removed -- [axon tract](http://purl.obolibrary.org/obo/UBERON_0001018) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "White matter structure of CNS that contains axons that arise predominantly in one central nervous system part and terminate in another. Tracts are generally named by their region or origin followed by their region of primary termination, e.g., mammillothalamic tract contains axons that arise from neurons in the mammillary bodies and terminate in the thalamus. (CUMBO)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://neurolex.org/wiki/Cumbo_terms" - -- [axon tract](http://purl.obolibrary.org/obo/UBERON_0001018) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005100" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### basal forebrain `http://purl.obolibrary.org/obo/UBERON_0002743` -#### Removed -- [basal forebrain](http://purl.obolibrary.org/obo/UBERON_0002743) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D066187" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### basal nuclear complex `http://purl.obolibrary.org/obo/UBERON_0006098` -#### Removed -- [basal nuclear complex](http://purl.obolibrary.org/obo/UBERON_0006098) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D001479" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### basal plate metencephalon `http://purl.obolibrary.org/obo/UBERON_0005239` -#### Removed -- [basal plate metencephalon](http://purl.obolibrary.org/obo/UBERON_0005239) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The ventral half of the developing neural tube that is the metencephalon. [Chordate_evolution_and_the_origin_of_craniates:_An_old_brain_in_a_new_head._AnaT_Rec_(New_Anat)_(2000)_261(3):_111-125, See_Butler_AB][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000320" - - - -### basement membrane of epithelium `http://purl.obolibrary.org/obo/UBERON_0005769` -#### Removed -- [basement membrane of epithelium](http://purl.obolibrary.org/obo/UBERON_0005769) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class represents a continuous sheet of basement membrane which can underlie multiple epithelial cells over large regions. In contrast, the GO class 'basal membrane' represents a portion of substance on the scale of a single cell." - - - -### basicranium `http://purl.obolibrary.org/obo/UBERON_0002517` -#### Removed -- [basicranium](http://purl.obolibrary.org/obo/UBERON_0002517) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "basicranial" - - - -### bearer of `http://purl.obolibrary.org/obo/RO_0000053` -#### Removed -- [bearer of](http://purl.obolibrary.org/obo/RO_0000053) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this apple is bearer of this red color"@en - -- [bearer of](http://purl.obolibrary.org/obo/RO_0000053) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) - -- [bearer of](http://purl.obolibrary.org/obo/RO_0000053) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this vase is bearer of this fragility"@en - -- [bearer of](http://purl.obolibrary.org/obo/RO_0000053) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "bearer_of"@en - -- [bearer of](http://purl.obolibrary.org/obo/RO_0000053) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "bearer of"@en - -- [bearer of](http://purl.obolibrary.org/obo/RO_0000053) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "is bearer of"@en - - - -### before or simultaneous with `http://purl.obolibrary.org/obo/RO_0002081` -#### Removed -- [before or simultaneous with](http://purl.obolibrary.org/obo/RO_0002081) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "David Osumi-Sutherland" - -- [before or simultaneous with](http://purl.obolibrary.org/obo/RO_0002081) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "<="@en - - - -### bestrophin-4 `http://purl.obolibrary.org/obo/PR_000004724` -#### Removed -- [bestrophin-4](http://purl.obolibrary.org/obo/PR_000004724) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [bestrophin-4 (human)](http://purl.obolibrary.org/obo/PR_Q8NFU0) - - - -### biconcave `http://purl.obolibrary.org/obo/PATO_0002039` -#### Removed -- [biconcave](http://purl.obolibrary.org/obo/PATO_0002039) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [PATO_0002040](http://purl.obolibrary.org/obo/PATO_0002040) - - - -### bile `http://purl.obolibrary.org/obo/UBERON_0001970` -#### Removed -- [bile](http://purl.obolibrary.org/obo/UBERON_0001970) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "elimination of cholesterol" - -- [bile](http://purl.obolibrary.org/obo/UBERON_0001970) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "major excretory route for potentially harmful exogenous lipophilic substances" - -- [bile](http://purl.obolibrary.org/obo/UBERON_0001970) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "protects the organism from enteric infections by excreting immune globulin A (IgA), inflammatory cytokines, and stimulating the innate immune system in the intestine" - -- [bile](http://purl.obolibrary.org/obo/UBERON_0001970) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "many hormones and pheromones are excreted in bile, and contribute to growth and development of the intestine in some species and provide attractants for the weaning of non-human vertebrates" - -- [bile](http://purl.obolibrary.org/obo/UBERON_0001970) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "aids the process of digestion of lipids in the small intestine" - -- [bile](http://purl.obolibrary.org/obo/UBERON_0001970) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In many species, bile is stored in the gallbladder and upon eating is discharged into the duodenum." - -- [bile](http://purl.obolibrary.org/obo/UBERON_0001970) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "bile salts function to emulsify dietary fats and facilitate their intestinal absorption" - -- [bile](http://purl.obolibrary.org/obo/UBERON_0001970) SubClassOf [has part](http://purl.obolibrary.org/obo/BFO_0000051) some [CHEBI_16990](http://purl.obolibrary.org/obo/CHEBI_16990) - - [composition](http://www.geneontology.org/formats/oboInOwl#composition) "0.3% in humans" - -#### Added -- [bile](http://purl.obolibrary.org/obo/UBERON_0001970) SubClassOf [has part](http://purl.obolibrary.org/obo/BFO_0000051) some [CHEBI_16990](http://purl.obolibrary.org/obo/CHEBI_16990) - - -### bile duct `http://purl.obolibrary.org/obo/UBERON_0002394` -#### Removed -- [bile duct](http://purl.obolibrary.org/obo/UBERON_0002394) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we place the ZFA class here as this fits its textual definition and child nodes. We may recommend a label change for ZFA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" - -- [bile duct](http://purl.obolibrary.org/obo/UBERON_0002394) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A duct that carries bile from the liver to the intestine." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA:0001100, ZFA:curator" - -- [bile duct](http://purl.obolibrary.org/obo/UBERON_0002394) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EHDAA2:0000741" - -- [bile duct](http://purl.obolibrary.org/obo/UBERON_0002394) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) the amphibian liver has characteristics in common with both fish and terrestrial vertebrates. (...) The histological structure of the liver is similar to that in other vertebrates, with hepatocytes arranged in clusters and cords separated by a meshwork of sinusoids and the presence of the traditional triad of portal venule, hepatic arteriole, and bile duct.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1053/ax.2000.7133 Crawshaw GJ, Weinkle TK, Clinical and pathological aspects of the amphibian liver. Seminars in Avian and Exotic Pet Medicine (2000)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000212" - -- [bile duct](http://purl.obolibrary.org/obo/UBERON_0002394) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Any of the excretory ducts in the liver that convey bile between the liver and the intestine. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/bile+duct" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000212" - - - -### bile duct epithelium `http://purl.obolibrary.org/obo/UBERON_0004820` -#### Removed -- [bile duct epithelium](http://purl.obolibrary.org/obo/UBERON_0004820) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The irregularly shaped proliferating bile ducts are lined by normal cuboidal epithelium." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "BTO:0000417" - -#### Added -- [bile duct epithelium](http://purl.obolibrary.org/obo/UBERON_0004820) SubClassOf [endo-epithelium](http://purl.obolibrary.org/obo/UBERON_0005911) - - -### biliary ductule `http://purl.obolibrary.org/obo/UBERON_0004058` -#### Removed -- [biliary ductule](http://purl.obolibrary.org/obo/UBERON_0004058) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "In ZFA, Digestive system duct that collects bile from the canaliculus and transports bile through the liver -- (check if the same) // The smallest and the most peripheral branches of the biliary tree consist of a portal part (portal ductule) and an intralobular part (intralobular ductule)" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" - -#### Added -- [biliary ductule](http://purl.obolibrary.org/obo/UBERON_0004058) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### biliary system `http://purl.obolibrary.org/obo/UBERON_0002294` -#### Removed -- [biliary system](http://purl.obolibrary.org/obo/UBERON_0002294) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [liver stroma](http://purl.obolibrary.org/obo/UBERON_0016478) - - - -### biliary tree `http://purl.obolibrary.org/obo/UBERON_0001173` -#### Removed -- [biliary tree](http://purl.obolibrary.org/obo/UBERON_0001173) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D001659" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -- [biliary tree](http://purl.obolibrary.org/obo/UBERON_0001173) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [gallbladder](http://purl.obolibrary.org/obo/UBERON_0002110) - -- [biliary tree](http://purl.obolibrary.org/obo/UBERON_0001173) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Hollow tree organ, the organ parts of which consist of the bile ducts.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0011020" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "UBERON:0001173" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - -### biomechanically related to `http://purl.obolibrary.org/obo/RO_0002567` -#### Removed -- [biomechanically related to](http://purl.obolibrary.org/obo/RO_0002567) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [biomechanically related to](http://purl.obolibrary.org/obo/RO_0002567) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving the biomechanical processes." - - - -### blood `http://purl.obolibrary.org/obo/UBERON_0000178` -#### Removed -- [blood](http://purl.obolibrary.org/obo/UBERON_0000178) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "This class excludes blood analogues, such as the insect analog of blood. See UBERON:0000179 haemolymphatic fluid." - -- [blood](http://purl.obolibrary.org/obo/UBERON_0000178) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: subclass specialized connective tissue (AAO:0000571)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000046" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [blood](http://purl.obolibrary.org/obo/UBERON_0000178) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Recent findings strongly suggest that the molecular pathways involved in the development and function of blood cells are highly conserved among vertebrates and various invertebrates phyla. (...) There is now good reason to believe that, in vertebrates and invertebrates alike, blood cell lineages diverge from a common type of progenitor cell, the hemocytoblast.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1146/annurev.cellbio.22.010605.093317 Hartenstein V, Blood cells and blood cell development in the animal kingdom. Annual review of cell and developmental biology (2006) " - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000224" - -- [blood](http://purl.obolibrary.org/obo/UBERON_0000178) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Highly specialized circulating tissue consisting of several types of cells suspended in a fluid medium known as plasma.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000046" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [blood](http://purl.obolibrary.org/obo/UBERON_0000178) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A complex mixture of cells suspended in a liquid matrix that delivers nutrients to cells and removes wastes. (Source: BioGlossary, www.Biology-Text.com)[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000007" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### blood brain barrier `http://purl.obolibrary.org/obo/UBERON_0000120` -#### Removed -- [blood brain barrier](http://purl.obolibrary.org/obo/UBERON_0000120) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D001812" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### blood island `http://purl.obolibrary.org/obo/UBERON_0003061` -#### Removed -- [blood island](http://purl.obolibrary.org/obo/UBERON_0003061) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "EHDAA2 distinguishes 3 types, but does not have a superclass. The VHOG class may refer to yolk sac" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" - -- [blood island](http://purl.obolibrary.org/obo/UBERON_0003061) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Region located on the ventral surface of the developing embryo that is a site of hematopoiesis and that is analogous to the yolk sac blood islands of higher vertebrates.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0011006" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [blood island](http://purl.obolibrary.org/obo/UBERON_0003061) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Nests of developing blood cells arising late in the segmentation period from the intermediate mass, and located in the anterior-ventral tail, just posterior to the yolk extension. Kimmel et al, 1995.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000094" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [blood island](http://purl.obolibrary.org/obo/UBERON_0003061) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Small clusters of mesodermal cells called blood islands mark the embryonic debut of the cardiovascular system (in vertebrates) (reference 1); In birds and mammals, primitive hemangioblasts are extraembryonic, populating the yolk sac as the so-called blood islands (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.450, DOI:10.1146/annurev.cellbio.22.010605.093317 Hartenstein V, Blood cells and blood cell development in the animal kingdom. Annual Review of Cell and Developmental Biology (2006)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000085" - -- [blood island](http://purl.obolibrary.org/obo/UBERON_0003061) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of intermediate cell mass of mesoderm (TAO:0000033)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000094" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### blood microvessel `http://purl.obolibrary.org/obo/UBERON_8410081` -#### Removed -- [blood microvessel](http://purl.obolibrary.org/obo/UBERON_8410081) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "microvascular" - - - -### blood nerve barrier `http://purl.obolibrary.org/obo/UBERON_0003209` -#### Removed -- [blood nerve barrier](http://purl.obolibrary.org/obo/UBERON_0003209) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D049428" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### blood vessel `http://purl.obolibrary.org/obo/UBERON_0001981` -#### Removed -- [blood vessel](http://purl.obolibrary.org/obo/UBERON_0001981) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2006)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001250" - -- [blood vessel](http://purl.obolibrary.org/obo/UBERON_0001981) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Any of the vessels through which blood circulates in the body. [XAO:0001011_][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001250" - -- [blood vessel](http://purl.obolibrary.org/obo/UBERON_0001981) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "annelids have blood vessels, but this class is not applicable to annelids." - -- [blood vessel](http://purl.obolibrary.org/obo/UBERON_0001981) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA:63183 Blood vessel is categorized as 'general anatomical term'. Suggestion to map to region of vascular tree from Terry H at JAX" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [blood vessel](http://purl.obolibrary.org/obo/UBERON_0001981) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Any of the vessels through which blood circulates in the body.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0011004" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -#### Added -- [blood vessel](http://purl.obolibrary.org/obo/UBERON_0001981) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### blood vessel elastic tissue `http://purl.obolibrary.org/obo/UBERON_0003614` - -#### Added -- [blood vessel elastic tissue](http://purl.obolibrary.org/obo/UBERON_0003614) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### blood vessel layer `http://purl.obolibrary.org/obo/UBERON_0004797` - -#### Added -- [blood vessel layer](http://purl.obolibrary.org/obo/UBERON_0004797) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### blood vessel smooth muscle `http://purl.obolibrary.org/obo/UBERON_0004237` -#### Removed -- [blood vessel smooth muscle](http://purl.obolibrary.org/obo/UBERON_0004237) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "Vascular smooth muscle contracts or relaxes to both change the volume of blood vessels and the local blood pressure, a mechanism that is responsible for the redistribution of the blood within the body to areas where it is needed (i.e. areas with temporarily enhanced oxygen consumption). Thus the main function of vascular smooth muscle tonus is to regulate the caliber of the blood vessels in the body. Excessive vasoconstriction leads to hypertension, while excessive vasodilation as in shock leads to hypotension." - - - -### blood-cerebrospinal fluid barrier `http://purl.obolibrary.org/obo/UBERON_0003210` - -#### Added -- [blood-cerebrospinal fluid barrier](http://purl.obolibrary.org/obo/UBERON_0003210) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### body external integument structure `http://purl.obolibrary.org/obo/UBERON_3000977` -#### Removed -- [body external integument structure](http://purl.obolibrary.org/obo/UBERON_3000977) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (amphibian_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/aao.owl" - - - -### body proper `http://purl.obolibrary.org/obo/UBERON_0013702` -#### Removed -- [body proper](http://purl.obolibrary.org/obo/UBERON_0013702) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:36031" - -- [body proper](http://purl.obolibrary.org/obo/UBERON_0013702) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cardinal body part, which consists of a maximal set of diverse subclasses of organ and organ part spatially associated with the vertebral column and ribcage. Examples: There is only one body proper[FMA:231424]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:231424" - - - -### body wall `http://purl.obolibrary.org/obo/UBERON_0000309` -#### Removed -- [body wall](http://purl.obolibrary.org/obo/UBERON_0000309) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "the BTO class refers to earthworms." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "BTO" - -- [body wall](http://purl.obolibrary.org/obo/UBERON_0000309) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "defined generically to encompass both vertebrates and invertebrates" - - - -### bone element `http://purl.obolibrary.org/obo/UBERON_0001474` -#### Removed -- [bone element](http://purl.obolibrary.org/obo/UBERON_0001474) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: subclass specialized connective tissue (AAO:0000571)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000047" - -- [bone element](http://purl.obolibrary.org/obo/UBERON_0001474) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [muscle tissue](http://purl.obolibrary.org/obo/UBERON_0002385) - -- [bone element](http://purl.obolibrary.org/obo/UBERON_0001474) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Also called osseous tissue, (Latin: os). Is a type of hard endoskeletal connective tissue found in many vertebrate animals. Bone is the main tissue of body organs that support body structures, protect internal organs, (in conjunction with muscles) facilitate movement; and are involved with cell formation, calcium metabolism, and mineral storage.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000047" - -- [bone element](http://purl.obolibrary.org/obo/UBERON_0001474) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of tissue which is calcified connective tissue making up the structural elements of the skeletal system.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001514" - -- [bone element](http://purl.obolibrary.org/obo/UBERON_0001474) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Skeletal element that is composed of bone tissue.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000057" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - -- [bone element](http://purl.obolibrary.org/obo/UBERON_0001474) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [muscle organ](http://purl.obolibrary.org/obo/UBERON_0001630) - -- [bone element](http://purl.obolibrary.org/obo/UBERON_0001474) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [musculature](http://purl.obolibrary.org/obo/UBERON_0001015) - -- [bone element](http://purl.obolibrary.org/obo/UBERON_0001474) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The 'new animal phylogeny' reveals that many of the groups known to biomineralize sit among close relatives that do not, and it favours an interpretation of convergent or parallel evolution for biomineralization in animals. (...) Whether this 'biomineralization toolkit'of genes reflects a parallel co-option of a common suite of genes or the inheritance of a skeletogenic gene regulatory network from a biomineralizing common ancestor remains an open debate.[debated][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001190" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1159/000324245 Murdock DJ, Donoghue PC, Evolutionary Origins of Animal Skeletal Biomineralization. Cells Tissues Organs (2011)" - - - -### bone foramen `http://purl.obolibrary.org/obo/UBERON_0005744` -#### Removed -- [bone foramen](http://purl.obolibrary.org/obo/UBERON_0005744) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA and ZFA this is a conduit space, not a conduit. Note there may be some additional disambiguation required: foramen is used loosely in the sense of any opening (e.g. foramen primum). FMA appears to use cranial conduit (undefined) in the sense of any foramen of the skull (includes mental foramen, which is not in the cranium proper)." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### bone fossa `http://purl.obolibrary.org/obo/UBERON_0004704` -#### Removed -- [bone fossa](http://purl.obolibrary.org/obo/UBERON_0004704) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical space that is a concavity, shallow depression, or groove on a bone.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001743" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" - -- [bone fossa](http://purl.obolibrary.org/obo/UBERON_0004704) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "General Anatomical term in FMA; not restricted to bone in ncit; surface feature in VSAO; note that entities named 'fossa' are cavities in FMA, hence placement here" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### bone marrow `http://purl.obolibrary.org/obo/UBERON_0002371` -#### Removed -- [bone marrow](http://purl.obolibrary.org/obo/UBERON_0002371) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "In adults, marrow in large bones produces new blood cells[Wikipedia:Bone_marrow]" - -- [bone marrow](http://purl.obolibrary.org/obo/UBERON_0002371) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The bone marrow is the hematopoietic organ in all vertebrates but fishes, in which hematopoiesis occurs in the kidney.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1146/annurev.cellbio.22.010605.093317 Hartenstein V, Blood Cells and Blood Cell Development in the Animal Kingdom. Annual Review of Cell and Developmental Biology (2006)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001218" - -#### Added -- [bone marrow](http://purl.obolibrary.org/obo/UBERON_0002371) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### bone marrow cavity `http://purl.obolibrary.org/obo/UBERON_0002484` -#### Removed -- [bone marrow cavity](http://purl.obolibrary.org/obo/UBERON_0002484) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "not clear if the FMA intends to have two classes. MP:0000065: 'the medullary cavities of the bones.'. NCITA also has 'medullary bone'" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [bone marrow cavity](http://purl.obolibrary.org/obo/UBERON_0002484) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [NCBITaxon_7955](http://purl.obolibrary.org/obo/NCBITaxon_7955) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1177/0192623311409597" - -- [bone marrow cavity](http://purl.obolibrary.org/obo/UBERON_0002484) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "Located in the main shaft (cortical bone) of a long bone (diaphysis) (consisting mostly of compact bone), the medullary cavity has walls composed of spongy bone (cancellous bone) and is lined with a thin, vascular membrane (endosteum)[Wikipedia:Bone_marrow_of_ovaryry_cavity]" - - - -### bone marrow proteoglycan `http://purl.obolibrary.org/obo/PR_000013206` -#### Removed -- [bone marrow proteoglycan](http://purl.obolibrary.org/obo/PR_000013206) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [bone marrow proteoglycan (human)](http://purl.obolibrary.org/obo/PR_P13727) - - - -### bone marrow stromal antigen 2 `http://purl.obolibrary.org/obo/PR_000001326` -#### Removed -- [bone marrow stromal antigen 2](http://purl.obolibrary.org/obo/PR_000001326) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [bone marrow stromal antigen 2 (human)](http://purl.obolibrary.org/obo/PR_Q10589) - - - -### bone of appendage girdle complex `http://purl.obolibrary.org/obo/UBERON_0010740` -#### Removed -- [bone of appendage girdle complex](http://purl.obolibrary.org/obo/UBERON_0010740) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [appendicular skeleton](http://purl.obolibrary.org/obo/UBERON_0002091) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "UBERONREF:0000003" - -#### Added -- [bone of appendage girdle complex](http://purl.obolibrary.org/obo/UBERON_0010740) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [appendicular skeleton](http://purl.obolibrary.org/obo/UBERON_0002091) - - -### bone of dorsum `http://purl.obolibrary.org/obo/UBERON_0004247` -#### Removed -- [bone of dorsum](http://purl.obolibrary.org/obo/UBERON_0004247) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class may be obsoleted. See: https://github.com/obophenotype/mouse-anatomy-ontology/issues/93" - -- [bone of dorsum](http://purl.obolibrary.org/obo/UBERON_0004247) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Skeleton-partonomy-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - - -### bone of free limb or fin `http://purl.obolibrary.org/obo/UBERON_0004375` - -#### Added -- [bone of free limb or fin](http://purl.obolibrary.org/obo/UBERON_0004375) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### bone of hip region `http://purl.obolibrary.org/obo/UBERON_0008202` -#### Removed -- [bone of hip region](http://purl.obolibrary.org/obo/UBERON_0008202) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in MA, this includes the femur. i.e. pelvic girdle bone or femur; note that this makes the ilium etc in MA hindlimb bones. in MA this is a hindlimb bone" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - - - -### bone of lower jaw `http://purl.obolibrary.org/obo/UBERON_0004768` -#### Removed -- [bone of lower jaw](http://purl.obolibrary.org/obo/UBERON_0004768) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - - -### bone of pectoral complex `http://purl.obolibrary.org/obo/UBERON_0010741` -#### Removed -- [bone of pectoral complex](http://purl.obolibrary.org/obo/UBERON_0010741) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "note that the MA class includes girdle parts so it belongs here;" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - -- [bone of pectoral complex](http://purl.obolibrary.org/obo/UBERON_0010741) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:32623" - - - -### bone of pelvic complex `http://purl.obolibrary.org/obo/UBERON_0010742` -#### Removed -- [bone of pelvic complex](http://purl.obolibrary.org/obo/UBERON_0010742) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:32633" - -- [bone of pelvic complex](http://purl.obolibrary.org/obo/UBERON_0010742) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "the MA class called 'hindlimb bone' belongs here, as it includes bones in the pelvic girdle" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - - - -### bone of tail `http://purl.obolibrary.org/obo/UBERON_0006068` -#### Removed -- [bone of tail](http://purl.obolibrary.org/obo/UBERON_0006068) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MA has distinct classes for 'tail bone', 'caudal vertebra' and 'coccygeal vertebra' but these may all be equivalent. This class may be obsoleted in future." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - - - -### bone tissue `http://purl.obolibrary.org/obo/UBERON_0002481` -#### Removed -- [bone tissue](http://purl.obolibrary.org/obo/UBERON_0002481) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Skeletal tissue with a collagen-rich extracellular matrix vascularized, mineralized with hydroxyapatite and typically including osteocytes located in lacunae that communicate with one another by cell processes (in canaliculi). Bone is deposited by osteoblasts.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000047" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - - - -### bony labyrinth `http://purl.obolibrary.org/obo/UBERON_0001839` - -#### Added -- [bony labyrinth](http://purl.obolibrary.org/obo/UBERON_0001839) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### bony otic capsule `http://purl.obolibrary.org/obo/UBERON_0005411` -#### Removed -- [bony otic capsule](http://purl.obolibrary.org/obo/UBERON_0005411) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In elasmobranchs, the otic capsule remains cartilaginous in the adult; in the embryos of higher vertebrates, it is cartilaginous at first but later becomes bony (at approximately 23 weeks in humans)" - -- [bony otic capsule](http://purl.obolibrary.org/obo/UBERON_0005411) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17596" - - - -### bony vertebral centrum `http://purl.obolibrary.org/obo/UBERON_0001075` -#### Removed -- [bony vertebral centrum](http://purl.obolibrary.org/obo/UBERON_0001075) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "VSAO definition states it surrounds notochord but not applicable to post-natal." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "VSAO" - -- [bony vertebral centrum](http://purl.obolibrary.org/obo/UBERON_0001075) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The body is the largest part of a vertebra, and is more or less cylindrical in shape. Its upper and lower surfaces are flattened and rough, and give attachment to the intervertebral fibrocartilages, and each presents a rim around its circumference. In front, the body is convex from side to side and concave from above downward. Behind, it is flat from above downward and slightly concave from side to side. Its anterior surface presents a few small apertures, for the passage of nutrient vessels. On the posterior surface is a single large, irregular aperture, or occasionally more than one, for the exit of the basi-vertebral veins from the body of the vertebra. [WP,unvetted][Wikipedia:Body_of_vertebra]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Body_of_vertebra" - -- [bony vertebral centrum](http://purl.obolibrary.org/obo/UBERON_0001075) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cylindrical body of bone, round or oval in cross section, which functionally replaces the notochord.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:Duellman_and_Trueb_2008" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000697" - -- [bony vertebral centrum](http://purl.obolibrary.org/obo/UBERON_0001075) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Centra are represented by mineralized, calcified, or ossified portions that surround the notochord. The autocentrum, present in Danio and all other living teleosts, is formed by direct ossification outside the elastica externa of the notochord (Arratia, 1999).[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000126" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [bony vertebral centrum](http://purl.obolibrary.org/obo/UBERON_0001075) [UBPROP_0000005](http://purl.obolibrary.org/obo/UBPROP_0000005) "The vertebral centrum may be cartilaginous, develop as cartilage but be replaced by bone or mineralized, or form directly through intramembranous ossification.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000183" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-06" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - -- [bony vertebral centrum](http://purl.obolibrary.org/obo/UBERON_0001075) SubClassOf [bone element](http://purl.obolibrary.org/obo/UBERON_0001474) - -#### Added -- [bony vertebral centrum](http://purl.obolibrary.org/obo/UBERON_0001075) SubClassOf [endochondral bone](http://purl.obolibrary.org/obo/UBERON_0002513) - - -### border associated macrophage `http://purl.obolibrary.org/obo/CL_4042003` - -#### Added -- [border associated macrophage](http://purl.obolibrary.org/obo/CL_4042003) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "In humans, a border associate macrophage expresses CD45 and CD11B. This cell is also known to have the following molecular signature: CD206, CD38, LYVE1, CD163, CD169." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:29426702" - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37232741" - -- [border associated macrophage](http://purl.obolibrary.org/obo/CL_4042003) [label](http://www.w3.org/2000/01/rdf-schema#label) "border associated macrophage"@en - -- [border associated macrophage](http://purl.obolibrary.org/obo/CL_4042003) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "BAM" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:36945367" - - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) - -- [border associated macrophage](http://purl.obolibrary.org/obo/CL_4042003) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "CAM" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:33556248" - - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) - -- [border associated macrophage](http://purl.obolibrary.org/obo/CL_4042003) [date](http://purl.org/dc/terms/date) "2024-03-26T16:39:56Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) - -- [border associated macrophage](http://purl.obolibrary.org/obo/CL_4042003) [contributor](http://purl.org/dc/terms/contributor) [0000-0002-0098-8958](https://orcid.org/0000-0002-0098-8958) - -- [border associated macrophage](http://purl.obolibrary.org/obo/CL_4042003) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A central nervous system macrophage that is part of a choroid plexus, a meninx and a perivascular space. A border associated macrophage interacts with various components of the CNS vasculature and meninges, it participates in immune surveillance and in the regulation of the blood brain barrier." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37626977" - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37232741" - -- [border associated macrophage](http://purl.obolibrary.org/obo/CL_4042003) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "CNS-associated macrophage" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37232741" - -- Class: [border associated macrophage](http://purl.obolibrary.org/obo/CL_4042003) - -- [border associated macrophage](http://purl.obolibrary.org/obo/CL_4042003) SubClassOf [central nervous system macrophage](http://purl.obolibrary.org/obo/CL_0000878) - - -### border between sublaminar layers `http://purl.obolibrary.org/obo/UBERON_0009740` - -#### Added -- [border between sublaminar layers](http://purl.obolibrary.org/obo/UBERON_0009740) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### bounding layer of `http://purl.obolibrary.org/obo/RO_0002007` -#### Removed -- [bounding layer of](http://purl.obolibrary.org/obo/RO_0002007) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) - -- [bounding layer of](http://purl.obolibrary.org/obo/RO_0002007) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - - - -### brachial nerve plexus `http://purl.obolibrary.org/obo/UBERON_0001814` -#### Removed -- [brachial nerve plexus](http://purl.obolibrary.org/obo/UBERON_0001814) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A nerve plexus originating from the anterior branches of the last four cervical and the first thoracic spinal nerves, giving off many of the principal nerves of the shoulder, chest, and arms. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000372" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/brachial+plexus" - -- [brachial nerve plexus](http://purl.obolibrary.org/obo/UBERON_0001814) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "To reach the muscles, dermatomes, and other structures of the limbs, some of the neurons in the spinal nerves come together in the plexus at the base of the limb. Such plexuses occur in all gnathostomes, and they reach their highest complexity among mammals and birds in which the cervical plexus supplies many ventral neck muscles, the brachial plexus supplies the pectoral appendage, a lumbosacral plexus supplies the pelvic appendage, and a coccygeal plexus supplies some of the pelvic muscles.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000372" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.436" - - - -### brain `http://purl.obolibrary.org/obo/UBERON_0000955` -#### Removed -- [brain](http://purl.obolibrary.org/obo/UBERON_0000955) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The part of the central nervous system contained within the cranium, comprising the forebrain, midbrain, hindbrain, and metencephalon. It is derived from the anterior part of the embryonic neural tube (or the encephalon). Does not include retina. (CUMBO)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://neurolex.org/wiki/Cumbo_terms" - -- [brain](http://purl.obolibrary.org/obo/UBERON_0000955) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...) (reference 1); The neural tube is destined to differentiate into the brain and spinal cord (the central nervous system) (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28, ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.165" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000157" - -- [brain](http://purl.obolibrary.org/obo/UBERON_0000955) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the central nervous system situated within the cranium and composed of both nerve cell bodies and nerve fibers.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010478" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [brain](http://purl.obolibrary.org/obo/UBERON_0000955) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005095" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [brain](http://purl.obolibrary.org/obo/UBERON_0000955) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cavitated compound organ which is comprised of gray and white matter and surrounds the cerebral ventricular system.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000008" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### brain arachnoid mater `http://purl.obolibrary.org/obo/UBERON_0005397` -#### Removed -- [brain arachnoid mater](http://purl.obolibrary.org/obo/UBERON_0005397) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000230" - -- [brain arachnoid mater](http://purl.obolibrary.org/obo/UBERON_0005397) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The middle membrane of the three mammalian meninges covering the brain and spinal cord. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/arachnoid+mater" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000230" - - - -### brain blood vessel `http://purl.obolibrary.org/obo/UBERON_0003499` - -#### Added -- [brain blood vessel](http://purl.obolibrary.org/obo/UBERON_0003499) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### brain dura mater `http://purl.obolibrary.org/obo/UBERON_0002092` -#### Removed -- [brain dura mater](http://purl.obolibrary.org/obo/UBERON_0002092) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EV:0100313" - -- [brain dura mater](http://purl.obolibrary.org/obo/UBERON_0002092) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000270" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - -- [brain dura mater](http://purl.obolibrary.org/obo/UBERON_0002092) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The outermost and densest membrane of the three mammalian meninges covering the brain and spinal cord. [Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier, adapted_from_Dorian_AF][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000270" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - -### brain endothelium `http://purl.obolibrary.org/obo/UBERON_0013694` - -#### Added -- [brain endothelium](http://purl.obolibrary.org/obo/UBERON_0013694) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### brain ependyma `http://purl.obolibrary.org/obo/UBERON_0005357` -#### Removed -- [brain ependyma](http://purl.obolibrary.org/obo/UBERON_0005357) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA this is treated as part of the ependyma, but here we treat ependyma as a portion" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### brain marginal zone `http://purl.obolibrary.org/obo/UBERON_0010403` -#### Removed -- [brain marginal zone](http://purl.obolibrary.org/obo/UBERON_0010403) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "not clear if the MA/EMAPA classes refer specifically to the cortical subset. DHBA class incldues non-neocortex derivatives so it belongs here" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - - - -### brain meninx `http://purl.obolibrary.org/obo/UBERON_0003547` -#### Removed -- [brain meninx](http://purl.obolibrary.org/obo/UBERON_0003547) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000013" - -- [brain meninx](http://purl.obolibrary.org/obo/UBERON_0003547) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Meninges that are part of the brain. [Bgee_curator][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000013" - -- [brain meninx](http://purl.obolibrary.org/obo/UBERON_0003547) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EV:0100312" - - - -### brain pia mater `http://purl.obolibrary.org/obo/UBERON_0003549` -#### Removed -- [brain pia mater](http://purl.obolibrary.org/obo/UBERON_0003549) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The innermost of the three mammalian meninges covering the brain and spinal cord. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/pia+mater" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000470" - -- [brain pia mater](http://purl.obolibrary.org/obo/UBERON_0003549) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EV:0100315" - -- [brain pia mater](http://purl.obolibrary.org/obo/UBERON_0003549) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000470" - - - -### brain ventricle `http://purl.obolibrary.org/obo/UBERON_0004086` -#### Removed -- [brain ventricle](http://purl.obolibrary.org/obo/UBERON_0004086) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organ cavity of the brain which consists of the lateral ventricles, the third and fourth ventricles and the cerebral aqueduct[BIRNLEX:1356]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "BIRNLEX:1356" - -- [brain ventricle](http://purl.obolibrary.org/obo/UBERON_0004086) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA draws the distinction between e.g. 'fourth ventricle' and 'cavity of fourth ventricle'. The latter is a cavity, and part of the former, which is a region. The superclass of 'fourth ventricle' is_a 'region of ventricular system of the brain'. We place this class here, although it is not equivalent to ventricles, as it includes ventricle bodies." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### brain ventricle/choroid plexus `http://purl.obolibrary.org/obo/UBERON_0003947` - -#### Added -- [brain ventricle/choroid plexus](http://purl.obolibrary.org/obo/UBERON_0003947) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### brain white matter `http://purl.obolibrary.org/obo/UBERON_0003544` -#### Removed -- [brain white matter](http://purl.obolibrary.org/obo/UBERON_0003544) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "HBA:9218" - - - -### brainstem `http://purl.obolibrary.org/obo/UBERON_0002298` -#### Removed -- [brainstem](http://purl.obolibrary.org/obo/UBERON_0002298) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [forebrain](http://purl.obolibrary.org/obo/UBERON_0001890) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "we apply a strict definition" - -- [brainstem](http://purl.obolibrary.org/obo/UBERON_0002298) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [midbrain tectum](http://purl.obolibrary.org/obo/UBERON_0002314) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "we apply a strict definition" - -- [brainstem](http://purl.obolibrary.org/obo/UBERON_0002298) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Multi-tissue structure that has as its parts the medulla oblongata of the hindbrain and the tegmentum of the midbrain[ZFA,adopted][ZFA:0001707]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA:0001707" - -- [brainstem](http://purl.obolibrary.org/obo/UBERON_0002298) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "the stalk-like part of the brain that comprises the midbrain (aka mesencephalon), the pons (aka pons Varolii), and the medulla oblongata, and connects the cerebral hemispheres with the cervical spinal cord[MP]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0005277" - -- [brainstem](http://purl.obolibrary.org/obo/UBERON_0002298) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [cerebellum](http://purl.obolibrary.org/obo/UBERON_0002037) - - [exceptions](http://www.geneontology.org/formats/oboInOwl#exceptions) "ZFA" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://github.com/obophenotype/uberon/issues/378" - - - [status](http://www.geneontology.org/formats/oboInOwl#status) "pending" - -- [brainstem](http://purl.obolibrary.org/obo/UBERON_0002298) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Multi-tissue structure that has as its parts the medulla oblongata of the hindbrain and the tegmentum of the midbrain.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:3764351209" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002156" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### branched `http://purl.obolibrary.org/obo/PATO_0000402` -#### Removed -- [branched](http://purl.obolibrary.org/obo/PATO_0000402) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [PATO_0000414](http://purl.obolibrary.org/obo/PATO_0000414) - - - -### branching part of `http://purl.obolibrary.org/obo/RO_0002380` -#### Removed -- [branching part of](http://purl.obolibrary.org/obo/RO_0002380) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [branching part of](http://purl.obolibrary.org/obo/RO_0002380) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "branching_part_of" - -- [branching part of](http://purl.obolibrary.org/obo/RO_0002380) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [branching part of](http://purl.obolibrary.org/obo/RO_0002380) [id](http://www.geneontology.org/formats/oboInOwl#id) "branching_part_of" - -- [branching part of](http://purl.obolibrary.org/obo/RO_0002380) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002380" - -- [branching part of](http://purl.obolibrary.org/obo/RO_0002380) [label](http://www.w3.org/2000/01/rdf-schema#label) "branching part of" - -- [branching part of](http://purl.obolibrary.org/obo/RO_0002380) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "In the tree T depicted in https://oborel.github.io/obo-relations/branching_part_of.png, B1 is a (direct) branching part of T. B1-1, B1-2, and B1-3 are also branching parts of T, but these are considered indirect branching parts as they do not directly connect to the main stem S" - - - -### branchiomeric muscle `http://purl.obolibrary.org/obo/UBERON_0004164` -#### Removed -- [branchiomeric muscle](http://purl.obolibrary.org/obo/UBERON_0004164) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The branchiomeric muscle is derived from cranial mesoderm and controls facial expression, pharyngeal and laryngeal function, operating the jaw. Branchiomeric muscles of mammals correspond to the musculature of fish[GO][GO:0014707]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO:0014707" - -- [branchiomeric muscle](http://purl.obolibrary.org/obo/UBERON_0004164) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "It has been hypothesized that Haikouella must have been powered by branchiomeric muscles, as in living craniates, rather than by water moving through the pharynx via ciliary currents, as in lancelets[http://icb.oxfordjournals.org/content/42/4/743.full]" - - - -### breast `http://purl.obolibrary.org/obo/UBERON_0000310` -#### Removed -- [breast](http://purl.obolibrary.org/obo/UBERON_0000310) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The breasts of a female primate's body contain the mammary glands, which secrete milk used to feed infants. Both men and women develop breasts from the same embryological tissues. However, at puberty female sex hormones, mainly estrogens, promote breast development, which does not happen with men. As a result women's breasts become more prominent than men's." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP,unvetted" - - - -### broad ligament of uterus `http://purl.obolibrary.org/obo/UBERON_0012332` - -#### Added -- [broad ligament of uterus](http://purl.obolibrary.org/obo/UBERON_0012332) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### bronchial lymph node `http://purl.obolibrary.org/obo/UBERON_0016481` - -#### Added -- [bronchial lymph node](http://purl.obolibrary.org/obo/UBERON_0016481) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### bronchial mucosa `http://purl.obolibrary.org/obo/UBERON_0000410` - -#### Added -- [bronchial mucosa](http://purl.obolibrary.org/obo/UBERON_0000410) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### bronchial submucosal gland ciliated duct `http://purl.obolibrary.org/obo/UBERON_8600010` - -#### Added -- [bronchial submucosal gland ciliated duct](http://purl.obolibrary.org/obo/UBERON_8600010) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### bronchial-associated lymphoid tissue `http://purl.obolibrary.org/obo/UBERON_0001963` - -#### Added -- [bronchial-associated lymphoid tissue](http://purl.obolibrary.org/obo/UBERON_0001963) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### bronchiole `http://purl.obolibrary.org/obo/UBERON_0002186` -#### Removed -- [bronchiole](http://purl.obolibrary.org/obo/UBERON_0002186) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "bronchiolar" - -- [bronchiole](http://purl.obolibrary.org/obo/UBERON_0002186) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D055745" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -- [bronchiole](http://purl.obolibrary.org/obo/UBERON_0002186) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "In FMA2 and FMA3, lobular bronchiole is an exact synonym of bronchiole; however, there are two distinct terms for the corresponding epithelium." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [bronchiole](http://purl.obolibrary.org/obo/UBERON_0002186) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "lacks submucosa and cartilage plates; they have 3 layers: mucosa, muscular layer and outer layer" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0123813611" - - - -### bronchopulmonary segment `http://purl.obolibrary.org/obo/UBERON_8600017` - -#### Added -- [bronchopulmonary segment](http://purl.obolibrary.org/obo/UBERON_8600017) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### bronchus `http://purl.obolibrary.org/obo/UBERON_0002185` -#### Removed -- [bronchus](http://purl.obolibrary.org/obo/UBERON_0002185) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, the main bronchus is histologically identical to trachea; 2ary and 3ary bronchi are not; epithelium becomes simple columnar, goblet cell number decreases, elastic fibers in lamina propria increases, distribution more uniform. Muscular layer between mucosa and submucosa appears. cartilage rings become discontinuous plates connected by fibrous connective tissue" - -- [bronchus](http://purl.obolibrary.org/obo/UBERON_0002185) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "bronchial" - -- [bronchus](http://purl.obolibrary.org/obo/UBERON_0002185) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Each of the two primary divisions of the trachea leading respectively into the right and the left lung. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000262" - - - -### bronchus basement membrane `http://purl.obolibrary.org/obo/UBERON_0009652` -#### Removed -- [bronchus basement membrane](http://purl.obolibrary.org/obo/UBERON_0009652) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MA classifies as type of connective tissue: https://github.com/obophenotype/mouse-anatomy-ontology/issues/108" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - -#### Added -- [bronchus basement membrane](http://purl.obolibrary.org/obo/UBERON_0009652) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### brown adipose tissue `http://purl.obolibrary.org/obo/UBERON_0001348` -#### Removed -- [brown adipose tissue](http://purl.obolibrary.org/obo/UBERON_0001348) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Adipose tissue, cells of which contain multiple small lipid droplets.[FMA]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA" - -- [brown adipose tissue](http://purl.obolibrary.org/obo/UBERON_0001348) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "thermogenesis" - -- [brown adipose tissue](http://purl.obolibrary.org/obo/UBERON_0001348) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "especially abundant in newborns and in hibernating mammals" - - - -### bulb of hair follicle `http://purl.obolibrary.org/obo/UBERON_0005932` - -#### Added -- [bulb of hair follicle](http://purl.obolibrary.org/obo/UBERON_0005932) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### bulbus cordis `http://purl.obolibrary.org/obo/UBERON_0004706` -#### Removed -- [bulbus cordis](http://purl.obolibrary.org/obo/UBERON_0004706) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A pear shaped chamber that functions as a capacitor, maintaining continuous blood flow into the gill arches. The bulbus arteriosus has three distinct layers. Hu et al. 2000.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000173" - - - -### cadherin-1 `http://purl.obolibrary.org/obo/PR_000001447` -#### Removed -- [cadherin-1](http://purl.obolibrary.org/obo/PR_000001447) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [cadherin-1 (human)](http://purl.obolibrary.org/obo/PR_P12830) - - - -### cadherin-5 `http://purl.obolibrary.org/obo/PR_000001444` -#### Removed -- [cadherin-5](http://purl.obolibrary.org/obo/PR_000001444) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [cadherin-5 (human)](http://purl.obolibrary.org/obo/PR_P33151) - - - -### caecum `http://purl.obolibrary.org/obo/UBERON_0001153` -#### Removed -- [caecum](http://purl.obolibrary.org/obo/UBERON_0001153) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "A cecum is present in most amniote species, and also in lungfish, but not in any living species of amphibian. In reptiles, it is usually a single median structure, arising from the dorsal side of the large intestine. Birds typically have two paired ceca, as, unlike other mammals, do hyraxes. Most mammalian herbivores have a relatively large cecum, hosting a large number of bacteria, which aid in the enzymatic breakdown of plant materials such as cellulose; in many species, it is considerably wider than the colon. In contrast, obligatory carnivores, whose diets contain little or no plant material, have a reduced cecum, which is often partially or wholly replaced by the vermiform appendix. Many fish have a number of small outpocketings, called pyloric ceca, along their intestine; despite the name they are not homologous with the cecum of amniotes, and their purpose is to increase the overall area of the digestive epithelium.[2] Some invertebrates, such as squid,[3] may also have structures with the same name, but these have no relationship with those of vertebrates." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" - -- [caecum](http://purl.obolibrary.org/obo/UBERON_0001153) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "caecal" - - - -### calcareous tooth `http://purl.obolibrary.org/obo/UBERON_0001091` -#### Removed -- [calcareous tooth](http://purl.obolibrary.org/obo/UBERON_0001091) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0000694" - -- [calcareous tooth](http://purl.obolibrary.org/obo/UBERON_0001091) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The ancestor of recent vertebrate teeth was a tooth-like structure on the outer body surface of jawless fishes.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001733" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:19266065 Koussoulakou DS, Margaritis LH, Koussoulakos SL, A curriculum vitae of teeth: evolution, generation, regeneration. International Journal of Biological Sciences (2009)" - -- [calcareous tooth](http://purl.obolibrary.org/obo/UBERON_0001091) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "absent in living platypus, present in toothed Miocene platypus Obduron dicksoni" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:10210685" - -- [calcareous tooth](http://purl.obolibrary.org/obo/UBERON_0001091) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "dental" - -#### Added -- [calcareous tooth](http://purl.obolibrary.org/obo/UBERON_0001091) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### camera-type eye `http://purl.obolibrary.org/obo/UBERON_0000019` -#### Removed -- [camera-type eye](http://purl.obolibrary.org/obo/UBERON_0000019) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007)" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000275" - -- [camera-type eye](http://purl.obolibrary.org/obo/UBERON_0000019) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA distinguishes Eye (subdivision of face) which has its parts an Eyeball (organ), as well as other structures, and the orbit of skull. MA includes eyelid, conjunctiva and lacrimal apparatus as part of MA:eye - consistent with FMA - so we can infer that MA:eye is more like FMA:eye than FMA:eyeball. For other AOs this distinction is less meaningful - e.g. ZFA has no eyelid; XAO has no eyelid, but it has conjuctiva, which is considered part of the xao:eye. GO considers eyelid development part of eye development. See also notes on optic nerve - XAO, AAO and BTO consider this part of the eye. MA considers the eye muscles part of the eye, whereas FMA has a class 'orbital content' for this" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [camera-type eye](http://purl.obolibrary.org/obo/UBERON_0000019) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A cavitated compound organ that transduces light waves into neural signals.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000107" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" - -- [camera-type eye](http://purl.obolibrary.org/obo/UBERON_0000019) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [optic cup](http://purl.obolibrary.org/obo/UBERON_0003072) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [camera-type eye](http://purl.obolibrary.org/obo/UBERON_0000019) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [optic cup](http://purl.obolibrary.org/obo/UBERON_0003072) - - -### camera-type eye photoreceptor cell `http://purl.obolibrary.org/obo/CL_0010009` -#### Removed -- [camera-type eye photoreceptor cell](http://purl.obolibrary.org/obo/CL_0010009) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [camera-type eye](http://purl.obolibrary.org/obo/UBERON_0000019) - -#### Added -- [camera-type eye photoreceptor cell](http://purl.obolibrary.org/obo/CL_0010009) SubClassOf [retinal cell](http://purl.obolibrary.org/obo/CL_0009004) - -- [camera-type eye photoreceptor cell](http://purl.obolibrary.org/obo/CL_0010009) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [retina](http://purl.obolibrary.org/obo/UBERON_0000966) - - [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "https://github.com/obophenotype/cell-ontology/issues/2245" - - -### capable of `http://purl.obolibrary.org/obo/RO_0002215` -#### Removed -- [capable of](http://purl.obolibrary.org/obo/RO_0002215) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "has function realized in" - -- [capable of](http://purl.obolibrary.org/obo/RO_0002215) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [capable of](http://purl.obolibrary.org/obo/RO_0002215) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [20123131](http://www.ncbi.nlm.nih.gov/pubmed/20123131) - -- [capable of](http://purl.obolibrary.org/obo/RO_0002215) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "osteoclast SubClassOf 'capable of' some 'bone resorption'" - -- [capable of](http://purl.obolibrary.org/obo/RO_0002215) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [21208450](http://www.ncbi.nlm.nih.gov/pubmed/21208450) - -- [capable of](http://purl.obolibrary.org/obo/RO_0002215) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [capable of](http://purl.obolibrary.org/obo/RO_0002215) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "mechanosensory neuron capable of detection of mechanical stimulus involved in sensory perception (GO:0050974)" - -- [capable of](http://purl.obolibrary.org/obo/RO_0002215) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "For compatibility with BFO, this relation has a shortcut definition in which the expression "capable of some P" expands to "bearer_of (some realized_by only P)"." - - - -### capable of negatively regulating `http://purl.obolibrary.org/obo/RO_0002597` -#### Removed -- [capable of negatively regulating](http://purl.obolibrary.org/obo/RO_0002597) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [causal-relations](http://purl.obolibrary.org/obo/ro/docs/causal-relations) - - - -### capable of part of `http://purl.obolibrary.org/obo/RO_0002216` -#### Removed -- [capable of part of](http://purl.obolibrary.org/obo/RO_0002216) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [capable of part of](http://purl.obolibrary.org/obo/RO_0002216) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [capable of part of](http://purl.obolibrary.org/obo/RO_0002216) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "has function in" - -- [capable of](http://purl.obolibrary.org/obo/RO_0002215) o [part_of](http://purl.obolibrary.org/obo/BFO_0000050) SubPropertyOf: [capable of part of](http://purl.obolibrary.org/obo/RO_0002216) - - [is a defining property chain axiom where second argument is reflexive](http://purl.obolibrary.org/obo/RO_0002582) true - - - -### capable of positively regulating `http://purl.obolibrary.org/obo/RO_0002598` -#### Removed -- [capable of positively regulating](http://purl.obolibrary.org/obo/RO_0002598) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "renin -> arteriolar smooth muscle contraction" - -- [capable of positively regulating](http://purl.obolibrary.org/obo/RO_0002598) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [causal-relations](http://purl.obolibrary.org/obo/ro/docs/causal-relations) - - - -### capable of regulating `http://purl.obolibrary.org/obo/RO_0002596` -#### Removed -- [capable of regulating](http://purl.obolibrary.org/obo/RO_0002596) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "pyrethroid -> growth" - -- [capable of regulating](http://purl.obolibrary.org/obo/RO_0002596) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [causal-relations](http://purl.obolibrary.org/obo/ro/docs/causal-relations) - - - -### capillary `http://purl.obolibrary.org/obo/UBERON_0001982` -#### Removed -- [capillary](http://purl.obolibrary.org/obo/UBERON_0001982) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001253" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2006)" - -- [capillary](http://purl.obolibrary.org/obo/UBERON_0001982) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Any of the tiny blood vessels connecting the arterioles to the venules.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010252" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [capillary](http://purl.obolibrary.org/obo/UBERON_0001982) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "capillaries lack tunica media and tunica adventitia; only the endothelial wall of the tunica intima belongs" - - - -### capsule `http://purl.obolibrary.org/obo/UBERON_0003893` -#### Removed -- [capsule](http://purl.obolibrary.org/obo/UBERON_0003893) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "capsular" - - - -### capsule of lens `http://purl.obolibrary.org/obo/UBERON_0001804` -#### Removed -- [capsule of lens](http://purl.obolibrary.org/obo/UBERON_0001804) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya (reference 1); Although the eye varies greatly in adaptative details among vertebrates, its basic structure is the same in all. The human eye is representative of the design typical for a tetrapod. (...) A watery aqueous humor fills the spaces in the eye in front of the lens (...) (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007), ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.424 and p.426 and p.429 and Figure 12-24" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000550" - -- [capsule of lens](http://purl.obolibrary.org/obo/UBERON_0001804) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The transparent membrane which surrounds the lens of the eye. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000550" - -- [capsule of lens](http://purl.obolibrary.org/obo/UBERON_0001804) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "synthesized by the lens epithelium and its main components are Type IV collagen and sulfated glycosaminoglycans (GAGs). [Wikipedia:Capsule_of_lens" - -- [capsule of lens](http://purl.obolibrary.org/obo/UBERON_0001804) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA classifies this is a capsule and hence an organ part. In contrast we classify this as acellular" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### capsule of liver `http://purl.obolibrary.org/obo/UBERON_0016479` -#### Removed -- [capsule of liver](http://purl.obolibrary.org/obo/UBERON_0016479) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "It consists of type III collagen and extends to the stroma of endothelial sinusoids. It is covered by a single layer of mesothelial cells." - -#### Added -- [capsule of liver](http://purl.obolibrary.org/obo/UBERON_0016479) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### capsule of lymph node `http://purl.obolibrary.org/obo/UBERON_0002194` -#### Removed -- [capsule of lymph node](http://purl.obolibrary.org/obo/UBERON_0002194) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "from its internal surface are given off a number of membranous processes or trabeculae, consisting, in man, of connective tissue, with a small admixture of plain muscle fibers; but in many of the lower animals composed almost entirely of involuntary muscle[WP]" - - - -### capsule of pancreas `http://purl.obolibrary.org/obo/UBERON_0018235` -#### Removed -- [capsule of pancreas](http://purl.obolibrary.org/obo/UBERON_0018235) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "typically thin but can thicken with age" - - - -### capsule of thymus `http://purl.obolibrary.org/obo/UBERON_0002122` - -#### Added -- [capsule of thymus](http://purl.obolibrary.org/obo/UBERON_0002122) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) - - -### capsule of thyroid gland `http://purl.obolibrary.org/obo/UBERON_0001746` - -#### Added -- [capsule of thyroid gland](http://purl.obolibrary.org/obo/UBERON_0001746) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### carbohydrate derivative transmembrane transporter activity `http://purl.obolibrary.org/obo/GO_1901505` -#### Removed -- [carbohydrate derivative transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_1901505) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [carbohydrate derivative transport](http://purl.obolibrary.org/obo/GO_1901264) - - [source](http://www.geneontology.org/formats/oboInOwl#http://purl.org/dc/terms/source) "GO_REF:0000090" - -#### Added -- [carbohydrate derivative transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_1901505) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [carbohydrate derivative transport](http://purl.obolibrary.org/obo/GO_1901264) - - -### carbohydrate transmembrane transporter activity `http://purl.obolibrary.org/obo/GO_0015144` -#### Removed -- [carbohydrate transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015144) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [carbohydrate transmembrane transport](http://purl.obolibrary.org/obo/GO_0034219) - - [source](http://www.geneontology.org/formats/oboInOwl#http://purl.org/dc/terms/source) "GO_REF:0000090" - -#### Added -- [carbohydrate transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015144) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [carbohydrate transmembrane transport](http://purl.obolibrary.org/obo/GO_0034219) - - -### carcinoembryonic antigen-related cell adhesion molecule 8 `http://purl.obolibrary.org/obo/PR_000001332` -#### Removed -- [carcinoembryonic antigen-related cell adhesion molecule 8](http://purl.obolibrary.org/obo/PR_000001332) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [carcinoembryonic antigen-related cell adhesion molecule 8 (human)](http://purl.obolibrary.org/obo/PR_P31997) - - - -### cardiac atrium `http://purl.obolibrary.org/obo/UBERON_0002081` -#### Removed -- [cardiac atrium](http://purl.obolibrary.org/obo/UBERON_0002081) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of two chambers of the heart which receive blood from the veins and forces it by muscular contration to the ventricle.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010246" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [cardiac atrium](http://purl.obolibrary.org/obo/UBERON_0002081) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of four heart chambers.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000471" - -- [cardiac atrium](http://purl.obolibrary.org/obo/UBERON_0002081) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In the primitive vertebrate heart the four chambers are: 1. Sinus venosus (...) 2. Atrium (...) 3. Ventricle (...) 4. Conus arteriosus (...).[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000175" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0721676678 Romer AS, Vertebrate body (1970) p.428" - -- [cardiac atrium](http://purl.obolibrary.org/obo/UBERON_0002081) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - - -### cardiac chamber `http://purl.obolibrary.org/obo/UBERON_0004151` - -#### Added -- [cardiac chamber](http://purl.obolibrary.org/obo/UBERON_0004151) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### cardiac ganglion `http://purl.obolibrary.org/obo/UBERON_0014463` -#### Removed -- [cardiac ganglion](http://purl.obolibrary.org/obo/UBERON_0014463) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Any of the parasympathetic ganglia of the cardiac plexus between the arch of the aorta and the bifurcation of the pulmonary artery[http://medical-dictionary.thefreedictionary.com/cardiac+ganglion]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/cardiac+ganglion" - - - -### cardiac gastric gland `http://purl.obolibrary.org/obo/UBERON_0008859` -#### Removed -- [cardiac gastric gland](http://purl.obolibrary.org/obo/UBERON_0008859) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The cardiac glands of the stomach secrete primarily mucus. They are few in number and occur close to the cardiac orifice where the esophagus joins the stomach. In general, they are more shallow than those in the other parts of the stomach. They are of two kinds: (1) simple tubular glands resembling those of the pyloric end of the stomach, but with short ducts. (2) compound racemose glands resembling the duodenal glands. The cardiac gland is both innervated by the parasympathetic and symapthetic nerve fibres of the autonomic nervous system[Wikipedia:Cardiac_glands]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Cardiac_glands" - -- [cardiac gastric gland](http://purl.obolibrary.org/obo/UBERON_0008859) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Kardong places this in the glandular epithelium, FMA more generally in the mucosa" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### cardiac mesenchyme `http://purl.obolibrary.org/obo/UBERON_0009751` - -#### Added -- [cardiac mesenchyme](http://purl.obolibrary.org/obo/UBERON_0009751) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### cardiac muscle tissue of atrium `http://purl.obolibrary.org/obo/UBERON_0004490` -#### Removed -- [cardiac muscle tissue of atrium](http://purl.obolibrary.org/obo/UBERON_0004490) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in GO, this is equivalent to the atrial myocardium, but FMA distinguishes these two. Consider merging." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "GO" - - - -### cardiac muscle tissue of myocardium `http://purl.obolibrary.org/obo/UBERON_0004493` -#### Removed -- [cardiac muscle tissue of myocardium](http://purl.obolibrary.org/obo/UBERON_0004493) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:32688" - - - -### cardiac neural crest `http://purl.obolibrary.org/obo/UBERON_0000095` -#### Removed -- [cardiac neural crest](http://purl.obolibrary.org/obo/UBERON_0000095) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "ZFA treats this as a subtype of NC." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" - -- [cardiac neural crest](http://purl.obolibrary.org/obo/UBERON_0000095) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A subpopulation of the cephalic neural crest that emerges from the otic level to the anterior limit of somite 4. It migrates to the heart and is essential for the septation of the outflow track[DOI:10.1242/dev.091751]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1242/dev.091751" - -#### Added -- [cardiac neural crest](http://purl.obolibrary.org/obo/UBERON_0000095) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### cardiac septum `http://purl.obolibrary.org/obo/UBERON_0002099` -#### Removed -- [cardiac septum](http://purl.obolibrary.org/obo/UBERON_0002099) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in GO, septum morphogenesis is part of cardiac chamber morphogenesis; need to add axioms to infer this" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "GO" - -- [cardiac septum](http://purl.obolibrary.org/obo/UBERON_0002099) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "'Terrestrial vertebrates have divided hearts in which septae separate the oxygenated and deoxygenated blood within the pulmonary and systemic circulations'" - -#### Added -- [cardiac septum](http://purl.obolibrary.org/obo/UBERON_0002099) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### cardiac skeleton `http://purl.obolibrary.org/obo/UBERON_0004292` -#### Removed -- [cardiac skeleton](http://purl.obolibrary.org/obo/UBERON_0004292) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "It is not a true skeleton, but it does provide structure and support for the heart, as well as isolating the atria from the ventricles. This allows the AV node and AV bundle to delay the wave of depolarisation such that the atria can contract and assist in ventricular filling before the ventricles themselves depolarise and contract (the AV bundle is the only part of the conduction system that passes from the atria to the ventricles in a normal heart). It also allows the valves (bicuspid, tricuspid, semilunar) to keep open by giving them structural support[WP]" - -#### Added -- [cardiac skeleton](http://purl.obolibrary.org/obo/UBERON_0004292) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### cardiac valve `http://purl.obolibrary.org/obo/UBERON_0000946` -#### Removed -- [cardiac valve](http://purl.obolibrary.org/obo/UBERON_0000946) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Extensive conservation of valve developmental mechanisms also has been observed among vertebrate species including chicken, mouse, and human.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1161/CIRCRESAHA.109.201566 Combs MD, Yutzey KE, Heart valve development. Circulatory Research (2009)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000818" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - -- [cardiac valve](http://purl.obolibrary.org/obo/UBERON_0000946) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "Rector et al: One might be tempted to define 'heart valve' equivalently to 'valve in the heart', and 'valve' as a 'structure which functions as a valve'. But this combination results in the 'foramen ovale' being classified as a kind of 'heart valve', since it is undoubtedly located in the heart and functions as a valve" - -- [cardiac valve](http://purl.obolibrary.org/obo/UBERON_0000946) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of the four structures within the heart that prevent backflow of blood by opening and closing with each heartbeat. The valves include two semilunar valves, the aortic and pulmonary; the mitral or bicuspid valve; and the tricuspid valve. The valves permit blood flow in only one direction. [TFD][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000818" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/heart+valve" - -#### Added -- [cardiac valve](http://purl.obolibrary.org/obo/UBERON_0000946) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### cardiac ventricle `http://purl.obolibrary.org/obo/UBERON_0002082` -#### Removed -- [cardiac ventricle](http://purl.obolibrary.org/obo/UBERON_0002082) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of four heart chambers.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000009" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [cardiac ventricle](http://purl.obolibrary.org/obo/UBERON_0002082) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A chamber of the heart that receives blood from one or more atria and pumps it by muscular contraction into the arteries.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010249" - -- [cardiac ventricle](http://purl.obolibrary.org/obo/UBERON_0002082) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In the primitive vertebrate heart the four chambers are: 1. Sinus venosus (...) 2. Atrium (...) 3. Ventricle (...) 4. Conus arteriosus (...)[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000435" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0721676678 Romer AS, Vertebrate body (1970) p.428" - -- [cardiac ventricle](http://purl.obolibrary.org/obo/UBERON_0002082) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - - -### cardiogenic plate `http://purl.obolibrary.org/obo/UBERON_0004139` -#### Removed -- [cardiogenic plate](http://purl.obolibrary.org/obo/UBERON_0004139) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(In vertebrates) The embryonic mesoderm is the source of both the cardiogenic plate, giving rise to the future myocardium as well as the endocardium that will line the system on the inner side.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000975" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:15611355 Gittenberger-de Groot AC, Bartelings MM, Deruiter MC, Poelmann RE, Basics of cardiac development for the understanding of congenital heart malformations. Pediatric Research (2005)" - - - -### cardiogenic splanchnic mesoderm `http://purl.obolibrary.org/obo/UBERON_0007005` - -#### Added -- [cardiogenic splanchnic mesoderm](http://purl.obolibrary.org/obo/UBERON_0007005) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### cardiovascular system `http://purl.obolibrary.org/obo/UBERON_0004535` -#### Removed -- [cardiovascular system](http://purl.obolibrary.org/obo/UBERON_0004535) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "we treat cardiovascular as part of circulatory system, with the latter including other kinds of circulation, including lymph." - -- [cardiovascular system](http://purl.obolibrary.org/obo/UBERON_0004535) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EHDAA2:0000216" - -- [cardiovascular system](http://purl.obolibrary.org/obo/UBERON_0004535) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:16370" - -- [cardiovascular system](http://purl.obolibrary.org/obo/UBERON_0004535) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The vessels of the cardiovascular system are as varied as the diverse organs they supply. However, these variations are based on modifications of a fundamental plan of organization common to vertebrates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.451" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000302" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - -### cardiovascular system endothelium `http://purl.obolibrary.org/obo/UBERON_0004852` -#### Removed -- [cardiovascular system endothelium](http://purl.obolibrary.org/obo/UBERON_0004852) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Vertebrates and a very few invertebrates such as squids have evolved a secondary epithelium, the endothelium, that lines their blood vessels.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001217" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.207" - - - -### carotid artery segment `http://purl.obolibrary.org/obo/UBERON_0005396` -#### Removed -- [carotid artery segment](http://purl.obolibrary.org/obo/UBERON_0005396) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Artery originating at the junction of the first two aortic arches and supplying the anterior brain. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000097" - - - -### carpal bone `http://purl.obolibrary.org/obo/UBERON_0001435` -#### Removed -- [carpal bone](http://purl.obolibrary.org/obo/UBERON_0001435) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In tetrapods, the carpals is the sole cluster of the bones in the wrist between the radius and ulna and the metacarpus. The bones of the carpus do not belong to individual fingers (or toes in quadrupeds), whereas those of the metacarpus do. The corresponding part of the foot is the tarsus. The carpal bones allow the wrist to move and rotate vertically, horizontally and laterally. In human anatomy, the main role of the carpus is to facilitate effective positioning of the hand and powerful use of the extensors and flexors of the forearm, but the mobility of individual carpal bones increase the freedom of movements at the wrist." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Carpus" - - - -### carpal skeleton `http://purl.obolibrary.org/obo/UBERON_0009880` -#### Removed -- [carpal skeleton](http://purl.obolibrary.org/obo/UBERON_0009880) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The three main outgroup taxa of tetrapods, panderichthyids, osteolepiforms, and rhizodontids, have endoskeletal elements corresponding to the stylo- and zeugopodial elements in a tetrapod limb. In addition, there are elements that share the position and possibly the developmental derivation of the ulnare and the intermedium. From these observations, most authors have concluded that the stylo- and zeugopodial elements as well as the proximal mesopodial elements have counterparts in the fins of tetrapod ancestors, but there are no indications of wrist or ankle joints.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1002/jez.1100 Wagner GP, Chiu C, The tetrapod limb: A hypothesis on its origin. J Exp Zool (Mol Dev Evol) (2001)" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001161" - -- [carpal skeleton](http://purl.obolibrary.org/obo/UBERON_0009880) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we assume MA:carpus belongs here, as there is a distinct class MA:wrist, with the carpal bone being part of the former. XAO:carpus is part of the forelimb skeleton. FMA set-of class lacks definition but we assume this to be equivalent." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - -- [carpal skeleton](http://purl.obolibrary.org/obo/UBERON_0009880) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Segment of the forearm corresponding to the carpus. It consists of several elements that articulate with the radius and ulna at one end and the metacarpals at the other end.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000201" - -- [carpal skeleton](http://purl.obolibrary.org/obo/UBERON_0009880) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The structure of the carpus varies widely between different groups of tetrapods, even among those that retain the full set of five digits. In primitive fossil amphibians, such as Eryops, the carpus consists of three rows of bones; a proximal row of three carpals, a second row of four bones, and a distal row of five bones. The proximal carpals are referred to as the radiale, intermediale, and ulnare, after their proximal articulations, and are homologous with the scaphoid, lunate, and triquetal bones respectively. The remaining bones are simply numbered, as the first to fourth centralia (singular: centrale), and the first to fifth distal carpals. Primitively, each of the distal bones appears to have articulated with a single metacarpal. However, the vast majority of later vertebrates, including modern amphibians, have undergone varying degrees of loss and fusion of these primitive bones, resulting in a smaller number of carpals. Almost all mammals and reptiles, for example, have lost the fifth distal carpal, and have only a single centrale - and even this is missing in humans. The pisiform bone is somewhat unusual, in that it first appears in primitive reptiles, and is never found in amphibians. Because many tetrapods have less than five digits on the forelimb, even greater degrees of fusion are common, and a huge array of different possible combinations are found. The wing of a modern bird, for example, has only two remaining carpals; the radiale (the scaphoid of mammals) and a bone formed from the fusion of four of the distal carpals. In some macropods, the scaphoid and lunar bones are fused into the scaphollunar bone" - -- [carpal skeleton](http://purl.obolibrary.org/obo/UBERON_0009880) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Not always associated with digits, in sarcopterygians the ulnare is present without true digits being formed, though their homologous radial elements are present[PHENOSCAPE:ad]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Carpus#Evolutionary_variations" - - - -### carpometacarpal joint `http://purl.obolibrary.org/obo/UBERON_0011119` -#### Removed -- [carpometacarpal joint](http://purl.obolibrary.org/obo/UBERON_0011119) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D052737" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### cartilage element `http://purl.obolibrary.org/obo/UBERON_0007844` -#### Removed -- [cartilage element](http://purl.obolibrary.org/obo/UBERON_0007844) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:32730" - -- [cartilage element](http://purl.obolibrary.org/obo/UBERON_0007844) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "TAO still mixes tissue and element" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "TAO" - - - -### cartilage of external acoustic meatus `http://purl.obolibrary.org/obo/UBERON_0035606` - -#### Added -- [cartilage of external acoustic meatus](http://purl.obolibrary.org/obo/UBERON_0035606) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - -- [cartilage of external acoustic meatus](http://purl.obolibrary.org/obo/UBERON_0035606) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### cartilage tissue `http://purl.obolibrary.org/obo/UBERON_0002418` -#### Removed -- [cartilage tissue](http://purl.obolibrary.org/obo/UBERON_0002418) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: subclass specialized connective tissue (AAO:0000571)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000060" - -- [cartilage tissue](http://purl.obolibrary.org/obo/UBERON_0002418) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Skeletal tissue that is avascular, rich in glycosaminoglycans (GAGs) and typically includes chondrocytes within isolated lacunae. Cartilage tissue is deposited by chondroblasts.[VSAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000040" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - -- [cartilage tissue](http://purl.obolibrary.org/obo/UBERON_0002418) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Phylogenetic analysis suggests that cartilage arose independently in cnidarians, hemichordates, vertebrates, arthropods, annelids, brachiopods, and molluscs - or a common ancestor of brachiopods and molluscs (...). Analyses of cartilage as a tissue and of the development of invertebrate cartilages are consistent with homology between invertebrate and vertebrate cartilage. From the discussion above, it will be clear that understanding genetic changes underlying cartilage evolution is key to determining whether the multiple origins of cartilage represent parallel evolution.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1525-142X.2011.00520.x Hall BK, Parallelism, deep homology, and evo-devo. Evolution and Development (2012)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001207" - -- [cartilage tissue](http://purl.obolibrary.org/obo/UBERON_0002418) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A type of dense connective tissue. It is composed of cells called chondrocytes which are dispersed in a firm gel-like ground substance, called the matrix. Cartilage is avascular (contains no blood vessels) and nutrients are diffused through the matrix. Cartilage is found in the joints, the rib cage, the ear, the nose, in the throat and between intervertebral disks. It makes up virtually the entire skeleton in chondrichthyes.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000060" - -- [cartilage tissue](http://purl.obolibrary.org/obo/UBERON_0002418) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of tissue which is connective tissue composed of collagen and/or elastin fibers and chondrocytes. Cartilage is avascular and provides both skeletal functions and a framework upon which bone is deposited.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001501" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### cartilaginous condensation `http://purl.obolibrary.org/obo/UBERON_0005863` -#### Removed -- [cartilaginous condensation](http://purl.obolibrary.org/obo/UBERON_0005863) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "isa cell condensation in VSAO; has_part chondroblast in AEO" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "VSAO" - - - -### cartilaginous neurocranium `http://purl.obolibrary.org/obo/UBERON_0004761` -#### Removed -- [cartilaginous neurocranium](http://purl.obolibrary.org/obo/UBERON_0004761) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "AAO:0010153" - -- [cartilaginous neurocranium](http://purl.obolibrary.org/obo/UBERON_0004761) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in contrast to chondrocranium, this structure is entirely cartiliginous. In Chondricthyes this is the same as the neurocranium. FMA:76621 is an undefined fetal structure, so we assume the correct placement is here. Note that this is distinct from MA:0000317 which is the uberon:neurocranium (the part of the cranium that encloses the brain)" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### cartilaginous otic capsule `http://purl.obolibrary.org/obo/UBERON_0005410` -#### Removed -- [cartilaginous otic capsule](http://purl.obolibrary.org/obo/UBERON_0005410) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Bilaterally paired cartilage encasing the semicircular canals of the inner ear.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001500" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [cartilaginous otic capsule](http://purl.obolibrary.org/obo/UBERON_0005410) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In elasmobranchs, the otic capsule remains cartilaginous in the adult; in the embryos of higher vertebrates, it is cartilaginous at first but later becomes bony (at approximately 23 weeks in humans). todo - check EMAPA" - -- [cartilaginous otic capsule](http://purl.obolibrary.org/obo/UBERON_0005410) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17596" - -- [cartilaginous otic capsule](http://purl.obolibrary.org/obo/UBERON_0005410) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: overlaps neurocranium (TAO:0001580) CHANGED TO: part_of neurocranium (UBERON:0001703)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001500" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [cartilaginous otic capsule](http://purl.obolibrary.org/obo/UBERON_0005410) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: overlaps neurocranium (TAO:0001580) CHANGED TO: develops_from neurocranium (UBERON:0001703)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001500" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### cathepsin K `http://purl.obolibrary.org/obo/PR_000001850` -#### Removed -- [cathepsin K](http://purl.obolibrary.org/obo/PR_000001850) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [cathepsin K (human)](http://purl.obolibrary.org/obo/PR_P43235) - - - -### caudal artery `http://purl.obolibrary.org/obo/UBERON_0003086` -#### Removed -- [caudal artery](http://purl.obolibrary.org/obo/UBERON_0003086) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The posterior extension of the dorsal aorta to the tail region, which degenerates at metamorphosis.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0-226-55763-4" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0011023" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [caudal artery](http://purl.obolibrary.org/obo/UBERON_0003086) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Extension of the dorsal aorta in the tail. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000011" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### caudal region `http://purl.obolibrary.org/obo/UBERON_0006071` -#### Removed -- [caudal region](http://purl.obolibrary.org/obo/UBERON_0006071) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "This region is reduced in humans and corresponds to the coccyx" - -- [caudal region](http://purl.obolibrary.org/obo/UBERON_0006071) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "We follow XAO is distinguishing the tail region from the tail; the tail bud is part of the tail region; the tail starts after the tail bud" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "XAO" - - - -### caudal region of vertebral column `http://purl.obolibrary.org/obo/UBERON_0006076` -#### Removed -- [caudal region of vertebral column](http://purl.obolibrary.org/obo/UBERON_0006076) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Region of the vertebral column posterior to the caudal-sacral region, that may consists of two or three to more than 100 vertebrae. These vertebrae exhibit a gradual reduction in the sizes of their transverse processes and zygapophyses, but these structures are never entirely absent. All caudal vertebrae bear haemal arches.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000082" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:Duellman_and_Trueb_1994" - -- [caudal region of vertebral column](http://purl.obolibrary.org/obo/UBERON_0006076) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in AAO, this is posterior to the caudal-sacral region" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "AAO" - - - -### caudal vertebra `http://purl.obolibrary.org/obo/UBERON_0001095` -#### Removed -- [caudal vertebra](http://purl.obolibrary.org/obo/UBERON_0001095) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we deliberately merge the MA classes as we believe them equivalent" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - -- [caudal vertebra](http://purl.obolibrary.org/obo/UBERON_0001095) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Vertebrae bearing a hemal arch and spine. The most posterior caudal vertebrae support the caudal fin and are referred to as preural vertebrae.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000326" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### caudate nucleus `http://purl.obolibrary.org/obo/UBERON_0001873` -#### Removed -- [caudate nucleus](http://purl.obolibrary.org/obo/UBERON_0001873) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Nucleus of brain which is an elongated crescent-shaped mass lying parallel and adjacent to the lateral ventricle throughout its extent[FMA:61833]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:61833" - - - -### caudate-putamen `http://purl.obolibrary.org/obo/UBERON_0005383` -#### Removed -- [caudate-putamen](http://purl.obolibrary.org/obo/UBERON_0005383) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "In the human, histologically the caudate nucleus and putamen are identically and share a common embryological origin[ISBN:0123813611]" - - - -### causal agent in process `http://purl.obolibrary.org/obo/RO_0002500` -#### Removed -- [causal agent in process](http://purl.obolibrary.org/obo/RO_0002500) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [causal-relations](http://purl.obolibrary.org/obo/ro/docs/causal-relations) - - - -### causal relation between entities `http://purl.obolibrary.org/obo/RO_0002506` -#### Removed -- [causal relation between entities](http://purl.obolibrary.org/obo/RO_0002506) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [causal relation between entities](http://purl.obolibrary.org/obo/RO_0002506) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [causal-relations](http://purl.obolibrary.org/obo/ro/docs/causal-relations) - -- [causal relation between entities](http://purl.obolibrary.org/obo/RO_0002506) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." - - - -### causal relation between material entity and a process `http://purl.obolibrary.org/obo/RO_0002595` -#### Removed -- [causal relation between material entity and a process](http://purl.obolibrary.org/obo/RO_0002595) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [causal relation between material entity and a process](http://purl.obolibrary.org/obo/RO_0002595) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [causal-relations](http://purl.obolibrary.org/obo/ro/docs/causal-relations) - - - -### causal relation between processes `http://purl.obolibrary.org/obo/RO_0002501` -#### Removed -- [causal relation between processes](http://purl.obolibrary.org/obo/RO_0002501) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." - -- [causal relation between processes](http://purl.obolibrary.org/obo/RO_0002501) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [causal-relations](http://purl.obolibrary.org/obo/ro/docs/causal-relations) - -- [causal relation between processes](http://purl.obolibrary.org/obo/RO_0002501) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### causally downstream of `http://purl.obolibrary.org/obo/RO_0002404` -#### Removed -- [causally downstream of](http://purl.obolibrary.org/obo/RO_0002404) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [causally downstream of](http://purl.obolibrary.org/obo/RO_0002404) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [requires discussion](http://purl.obolibrary.org/obo/IAO_0000428) - - - -### causally downstream of or within `http://purl.obolibrary.org/obo/RO_0002427` -#### Removed -- [causally downstream of or within](http://purl.obolibrary.org/obo/RO_0002427) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [causally downstream of or within](http://purl.obolibrary.org/obo/RO_0002427) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [causal-relations](http://purl.obolibrary.org/obo/ro/docs/causal-relations) - - - -### causally influenced by `http://purl.obolibrary.org/obo/RO_0002559` -#### Removed -- [causally influenced by](http://purl.obolibrary.org/obo/RO_0002559) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [causally influenced by](http://purl.obolibrary.org/obo/RO_0002559) [IAO_0000589](http://purl.obolibrary.org/obo/IAO_0000589) "causally influenced by (entity-centric)" - -- [causally influenced by](http://purl.obolibrary.org/obo/RO_0002559) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [causal-relations](http://purl.obolibrary.org/obo/ro/docs/causal-relations) - - - -### causally influences `http://purl.obolibrary.org/obo/RO_0002566` -#### Removed -- [causally influences](http://purl.obolibrary.org/obo/RO_0002566) [IAO_0000589](http://purl.obolibrary.org/obo/IAO_0000589) "causally influences (entity-centric)" - -- [causally influences](http://purl.obolibrary.org/obo/RO_0002566) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [causally influences](http://purl.obolibrary.org/obo/RO_0002566) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0003-4639-4431](https://orcid.org/0000-0003-4639-4431) - -- [causally influences](http://purl.obolibrary.org/obo/RO_0002566) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [causal-relations](http://purl.obolibrary.org/obo/ro/docs/causal-relations) - - - -### causally related to `http://purl.obolibrary.org/obo/RO_0002410` -#### Removed -- [causally related to](http://purl.obolibrary.org/obo/RO_0002410) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." - -- [causally related to](http://purl.obolibrary.org/obo/RO_0002410) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### causally upstream of `http://purl.obolibrary.org/obo/RO_0002411` -#### Removed -- [causally upstream of](http://purl.obolibrary.org/obo/RO_0002411) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### causally upstream of or within `http://purl.obolibrary.org/obo/RO_0002418` -#### Removed -- [causally upstream of or within](http://purl.obolibrary.org/obo/RO_0002418) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [causally upstream of or within](http://purl.obolibrary.org/obo/RO_0002418) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "influences (processual)" - - - -### causally upstream of or within, positive effect `http://purl.obolibrary.org/obo/RO_0004047` -#### Removed -- [causally upstream of or within, positive effect](http://purl.obolibrary.org/obo/RO_0004047) [RO_0004049](http://purl.obolibrary.org/obo/RO_0004049) [causally upstream of or within](http://purl.obolibrary.org/obo/RO_0002418) - - - -### causally upstream of, negative effect `http://purl.obolibrary.org/obo/RO_0002305` -#### Removed -- [causally upstream of, negative effect](http://purl.obolibrary.org/obo/RO_0002305) [creator](http://purl.org/dc/terms/creator) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### causally upstream of, positive effect `http://purl.obolibrary.org/obo/RO_0002304` -#### Removed -- [causally upstream of, positive effect](http://purl.obolibrary.org/obo/RO_0002304) [RO_0004049](http://purl.obolibrary.org/obo/RO_0004049) [causally upstream of](http://purl.obolibrary.org/obo/RO_0002411) - -- [causally upstream of, positive effect](http://purl.obolibrary.org/obo/RO_0002304) [creator](http://purl.org/dc/terms/creator) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### cavernous sinus `http://purl.obolibrary.org/obo/UBERON_0003712` -#### Removed -- [cavernous sinus](http://purl.obolibrary.org/obo/UBERON_0003712) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An irregularly shaped venous space in the dura mater at either side of the sphenoid bone[MESH:A07.231.908.224.334]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MESH:A07.231.908.224.334" - - - -### cavitated compound organ `http://purl.obolibrary.org/obo/UBERON_0000489` -#### Removed -- [cavitated compound organ](http://purl.obolibrary.org/obo/UBERON_0000489) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class was introduced for consistency with CARO, however, it has yet to be used in this or other ontologies. It may be retired in the future" - - - -### cavity of pharynx `http://purl.obolibrary.org/obo/UBERON_0001731` -#### Removed -- [cavity of pharynx](http://purl.obolibrary.org/obo/UBERON_0001731) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "See notes for pharynx - as a grouping class this is probably too bad. We exclude WBbt:0005790 (pharyngeal lumen) because of the developmental relationship" - -- [cavity of pharynx](http://purl.obolibrary.org/obo/UBERON_0001731) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "TOODO check" - - - -### cecal tonsil `http://purl.obolibrary.org/obo/UBERON_0013478` -#### Removed -- [cecal tonsil](http://purl.obolibrary.org/obo/UBERON_0013478) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In avians the polycryptic cecal tissue is similar to the mammalian palatine tonsil" - - - -### cell cluster organ `http://purl.obolibrary.org/obo/UBERON_0010001` -#### Removed -- [cell cluster organ](http://purl.obolibrary.org/obo/UBERON_0010001) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007229" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### cellular bone tissue `http://purl.obolibrary.org/obo/UBERON_4000118` -#### Removed -- [cellular bone tissue](http://purl.obolibrary.org/obo/UBERON_4000118) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (vertebrate_skeletal_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/vsao.owl" - -#### Added -- [cellular bone tissue](http://purl.obolibrary.org/obo/UBERON_4000118) SubClassOf [structure with developmental contribution from neural crest](http://purl.obolibrary.org/obo/UBERON_0010314) - - -### cementum `http://purl.obolibrary.org/obo/UBERON_0001753` -#### Removed -- [cementum](http://purl.obolibrary.org/obo/UBERON_0001753) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Odontoid tissue that is deposited by cementoblasts onto dentine tissue and functions to attach teeth, odontodes and other odontogenic derivatives to bone tissue and the integument.[VSAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000062" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - -- [cementum](http://purl.obolibrary.org/obo/UBERON_0001753) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Substance of tooth produced by cementoblasts; surrounds the dentine of the root of the tooth[FMA:55630]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:55630" - -- [cementum](http://purl.obolibrary.org/obo/UBERON_0001753) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Cementum, the supporting tissue that anchors mammalian and crocodylian teeth into their sockets, differs among species and can have features of dentine, of bone, and of calcified cartilage, as well as unique features. Cementum is deposited by cementoblasts onto existing dentine. As in bone and dentine, cementoblasts produce an organic matrix, the main constituent of which is collagen type I (Bosshardt, 2005), but cementum, dentine, and bone also share a number of important noncollagenous matrix components such as osteopontin, osteocalcin, bone sialoprotein, a2-HS- glycoprotein, dentine matrix protein, dentine sialoprotein, and den- tine phosphoprotein (McKee et al., 1996; Bosshardt, 2005). it has been argued that in all rodents and ruminants, cementum is a form of calcified cartilage[H&W]" - - - -### central nervous system `http://purl.obolibrary.org/obo/UBERON_0001017` -#### Removed -- [central nervous system](http://purl.obolibrary.org/obo/UBERON_0001017) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The brain and spinal cord. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000012" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [central nervous system](http://purl.obolibrary.org/obo/UBERON_0001017) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The central nervous system (CNS) is the part of the nervous system which includes the brain, spinal cord, and nerve cell layer of the retina (CUMBO)." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "BIRNLEX:1099" - -- [central nervous system](http://purl.obolibrary.org/obo/UBERON_0001017) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the nervous system which includes the brain and spinal cord.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000090" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [central nervous system](http://purl.obolibrary.org/obo/UBERON_0001017) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...) (reference 1); The neural tube is destined to differentiate into the brain and spinal cord (the central nervous system) (reference 2); Taken together, our data make a very strong case that the complex molecular mediolateral architecture of the developing trunk CNS (central nervous system), as shared between Platynereis and vertebrates, was already present in their last common ancestor, Urbilateria. The concept of bilaterian nervous system centralization implies that neuron types concentrate on one side of the trunk, as is the case in vertebrates and many invertebrates including Platynereis, where they segregate and become spatially organized (as opposed to a diffuse nerve net). Our data reveal that a large part of the spatial organization of the annelid and vertebrate CNS was already present in their last common ancestor, which implies that Urbilateria had already possessed a CNS (reference 3).[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000293" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28 (reference 1), ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.165 (reference 2), DOI:10.1016/j.cell.2007.02.040 Denes AS, Jekely G, Steinmetz PRH, Raible F, Snyman H, Prud'homme B, Ferrier DEK, Balavoine G and Arendt D, Molecular architecture of annelid nerve cord supports common origin of nervous system centralization in Bilateria. Cell (2007) (reference 3)" - -- [central nervous system](http://purl.obolibrary.org/obo/UBERON_0001017) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005094" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### central nervous system cell part cluster `http://purl.obolibrary.org/obo/UBERON_0011215` - -#### Added -- [central nervous system cell part cluster](http://purl.obolibrary.org/obo/UBERON_0011215) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### central tendon of diaphragm `http://purl.obolibrary.org/obo/UBERON_0006670` -#### Removed -- [central tendon of diaphragm](http://purl.obolibrary.org/obo/UBERON_0006670) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In mammals, the diaphragm muscle divides the thoracoabdominal cavity into thorax and abdomen. In most mammals, the diaphragm is a flat sheet with muscle fibers radiating outward from a central tendon, and the diaphragm's apposition to the cranial surface of the liver gives it a dome-shape. Muscle fiber contraction reduces the curvature of the dome, thereby expanding the thoracic cavity and aspirating air into the lungs.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/j.resp.2006.06.003" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001399" - -- [central tendon of diaphragm](http://purl.obolibrary.org/obo/UBERON_0006670) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future central tendon](http://purl.obolibrary.org/obo/UBERON_0006239) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [central tendon of diaphragm](http://purl.obolibrary.org/obo/UBERON_0006670) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future central tendon](http://purl.obolibrary.org/obo/UBERON_0006239) - - -### cerebellar cortex `http://purl.obolibrary.org/obo/UBERON_0002129` -#### Removed -- [cerebellar cortex](http://purl.obolibrary.org/obo/UBERON_0002129) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002130](http://purl.obolibrary.org/obo/UBERON_0002130) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [cerebellar cortex](http://purl.obolibrary.org/obo/UBERON_0002129) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The cerebellar cortex is a thin mantle of gray matter that covers the surface of each cerebral hemisphere. It has a characteristic morphology with convolutions (gyri) and crevices (sulci) that have specific functions. Six layers of nerve cells and the nerve pathways that connect them comprise the cerebellar cortex. Together, these regions are responsible for the processes of conscious thought, perception, emotion and memory as well as advanced motor function[GO][GO:0021695]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO:0021695" - - - -### cerebellum `http://purl.obolibrary.org/obo/UBERON_0002037` -#### Removed -- [cerebellum](http://purl.obolibrary.org/obo/UBERON_0002037) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Dorsal part of the hindbrain that coordinates muscle movement, posture, and balance.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010485" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [cerebellum](http://purl.obolibrary.org/obo/UBERON_0002037) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "almost all AOs agree that the cerebellum is part of the hindbrain (sometimes specifically part of the metencephalon, which, when present, is part of the hindbrain). However, ABA has cerebellum and brain stem as partof siblings, with the hindbrain part of the brainstem" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ABA" - -- [cerebellum](http://purl.obolibrary.org/obo/UBERON_0002037) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [telencephalon](http://purl.obolibrary.org/obo/UBERON_0001893) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [cerebellum](http://purl.obolibrary.org/obo/UBERON_0002037) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "However, although the lamprey possesses a region comparable to the cerebellum and display expression of LjFgf8/17 at the MHB (midbrain hindbrain boundary), it does not have Purkinje cells and cerebellar nuclei, as well as components of the rhombic lip-derived cerebellar and pre-cerebellar systems. It is noteworthy that the latter structures require specific expression of Pax6 in the rhombic lip of the gnathostome hindbrain. Interestingly, the lamprey rhombic lip does not express Pax6. Thus, it is tempting to speculate that in vertebrate evolution the rostral hindbrain is incapable of differentiating into the cerebellum before the co-option of Pax6 in that region. In other words, cerebellum has been brought about as an evolutionary innovation in gnathostomes, based on exaptation of MHB, rhombic lip, and some regulatory gene expression already present in the vertebrate common ancestor.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/j.ydbio.2005.02.008 Murakami Y, Uchida K, Rijli FM and Kuratani S, Evolution of the brain developmental plan: Insights from agnathans. Developmental Biology (2005)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000024" - -- [cerebellum](http://purl.obolibrary.org/obo/UBERON_0002037) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Specialized brain region derived from the dorsal metencephalon (anterior hindbrain, and perhaps including posterior midbrain) and becoming distinctive late in the segmentation period. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000100" - -- [cerebellum](http://purl.obolibrary.org/obo/UBERON_0002037) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [NCBITaxon_117569](http://purl.obolibrary.org/obo/NCBITaxon_117569) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://icb.oxfordjournals.org/content/42/4/743.full" - -- [cerebellum](http://purl.obolibrary.org/obo/UBERON_0002037) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The absence of a cerebellum in hagfishes and lampreys appears to be the only exception [to the rule that vertebrates possess the same number of brain divisions]. Both hagfishes and lampreys do possess a thin band of cells located medial to the lateral line centers of the medulla (Ronan and Northcutt, 1998), which has been interpreted as a primitive cerebellum (Larsell, 1967), but more recent experimental studies (Kishida et al., 1987; Weigle and Northcutt, 1998) fail to support Larsell's claim[http://icb.oxfordjournals.org/content/42/4/743.full]" - -- [cerebellum](http://purl.obolibrary.org/obo/UBERON_0002037) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [brainstem](http://purl.obolibrary.org/obo/UBERON_0002298) - - [exceptions](http://www.geneontology.org/formats/oboInOwl#exceptions) "ZFA" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://github.com/obophenotype/uberon/issues/378" - - - [status](http://www.geneontology.org/formats/oboInOwl#status) "pending" - -- [cerebellum](http://purl.obolibrary.org/obo/UBERON_0002037) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "cerebellar" - -- [cerebellum](http://purl.obolibrary.org/obo/UBERON_0002037) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [rhombic lip](http://purl.obolibrary.org/obo/UBERON_0006215) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [cerebellum](http://purl.obolibrary.org/obo/UBERON_0002037) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [rhombic lip](http://purl.obolibrary.org/obo/UBERON_0006215) - - -### cerebellum fissure `http://purl.obolibrary.org/obo/UBERON_0003980` -#### Removed -- [cerebellum fissure](http://purl.obolibrary.org/obo/UBERON_0003980) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_77789](http://purl.obolibrary.org/obo/FMA_77789) - - - -### cerebellum marginal layer `http://purl.obolibrary.org/obo/UBERON_0034708` -#### Removed -- [cerebellum marginal layer](http://purl.obolibrary.org/obo/UBERON_0034708) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "In the cerebellum, some neuronal precursors enter the marginal zone to form clusters of neurons called nuclei[NBK10047]" - - - -### cerebral artery `http://purl.obolibrary.org/obo/UBERON_0004449` -#### Removed -- [cerebral artery](http://purl.obolibrary.org/obo/UBERON_0004449) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in AAO this is part_of the internal carotid, but in humans the PCA intervenes for some cerebral arteries. Proper comparative review required" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "AAO" - -- [cerebral artery](http://purl.obolibrary.org/obo/UBERON_0004449) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the internal carotid containing many branches supplying blood to the chorioid plexuses of the brain.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010493" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [cerebral artery](http://purl.obolibrary.org/obo/UBERON_0004449) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of internal carotid (AAO:0010219)[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010493" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - -### cerebral cortex `http://purl.obolibrary.org/obo/UBERON_0000956` -#### Removed -- [cerebral cortex](http://purl.obolibrary.org/obo/UBERON_0000956) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "We follow NIFSTD in defining cerebral cortex and including both neocortex and hippocampal formation (DG+hippocampus)." - -- [cerebral cortex](http://purl.obolibrary.org/obo/UBERON_0000956) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "hagfishes have independently evolved a highly laminated cerebral cortex, comparable in many ways to the cerebral cortex of mammals [http://icb.oxfordjournals.org/content/42/4/743]" - -- [cerebral cortex](http://purl.obolibrary.org/obo/UBERON_0000956) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Migration of neurons from the basal or striatal portions of the anterior part of the neural tube occurs to varying degrees in different vertebrate classes, but a true cerebral cortex is generally acknowledged to have made its first appearance in reptiles. The definition can be unambiguous, since 'cortex' simply implies the existence of a surface neuronal layer with an overlying 'zonal lamina' or 'molecular' layer containing dendrites and axons, which is separated from the underlying basal 'matrix' by white matter. Although reptilian cerebral cortex does indeed fulfill these conditions in certain locations, the separation from striatal structures is often indistinct, so that it may even be argued that some primitive dipnoans possess a pallium or cortex. Nevertheless, an extensive laminated layer separated by underlying white matter is well represented only in reptiles and mammals.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000722" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1749-6632.1969.tb20437.x Kruger L, Experimental analyses of the reptilian nervous system. Annals of the New York Academy of Sciences (1969)" - -- [cerebral cortex](http://purl.obolibrary.org/obo/UBERON_0000956) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The cerebral cortex is a structure within the brain that plays a key role in memory, attention, perceptual awareness, thought, language, and consciousness. It constitutes the outermost layer of the cerebrum. In preserved brains, it has a grey color, hence the name 'grey matter'. Grey matter is formed by neurons and their unmyelinated fibers, whereas the white matter below the grey matter of the cortex is formed predominantly by myelinated axons interconnecting different regions of the central nervous system. The human cerebral cortex is 2-4 mm (0.08-0.16 inches) thick. The surface of the cerebral cortex is folded in large mammals, such that more than two-thirds of the cortical surface is buried in the grooves, called 'sulci. ' The phylogenetically most recent part of the cerebral cortex, the neocortex, also called isocortex, is differentiated into six horizontal layers; the more ancient part of the cerebral cortex, the hippocampus (also called archicortex), has at most three cellular layers, and is divided into subfields. Relative variations in thickness or cell type (among other parameters) allow us to distinguish between different neocortical architectonic fields. The geometry of at least some of these fields seems to be related to the anatomy of the cortical folds, and, for example, layers in the upper part of the cortical ridges seem to be more clearly differentiated than in its deeper parts. [WP,unvetted][Wikipedia:Cerebral_cortex]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Cerebral_cortex" - - - -### cerebral cortex marginal layer `http://purl.obolibrary.org/obo/UBERON_0014935` -#### Removed -- [cerebral cortex marginal layer](http://purl.obolibrary.org/obo/UBERON_0014935) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "EMAPA temporally divides this into zone and layer. TODO - unify this with marginal layers in EHDAA2" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EMAPA" - -- [cerebral cortex marginal layer](http://purl.obolibrary.org/obo/UBERON_0014935) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "in humans develops into cortical layer I" - - - -### cerebral hemisphere `http://purl.obolibrary.org/obo/UBERON_0001869` -#### Removed -- [cerebral hemisphere](http://purl.obolibrary.org/obo/UBERON_0001869) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the telencephalon consisting of either of the two smooth, elongated halves of the cerebrum.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010480" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [cerebral hemisphere](http://purl.obolibrary.org/obo/UBERON_0001869) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The presence of paired evaginated hemispheres and olfactory bulbs in both agnathan and gnathostome radiations suggests that such hemispheres were also present in the common ancestor.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1146/annurev.ne.04.030181.001505 Northcutt RG, Evolution of the telencephalon in nonmammals. Ann. Rev. Neurosci. (1981)" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001639" - -#### Added -- [cerebral hemisphere](http://purl.obolibrary.org/obo/UBERON_0001869) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### cerebral hemisphere gray matter `http://purl.obolibrary.org/obo/UBERON_0005401` -#### Removed -- [cerebral hemisphere gray matter](http://purl.obolibrary.org/obo/UBERON_0005401) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "BTO may actually be a more generic structure; FMA may represent a more specific structure. Consider merging with gray matter of telencephalon" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "BTO" - - - -### cerebral hemisphere white matter `http://purl.obolibrary.org/obo/UBERON_0002437` -#### Removed -- [cerebral hemisphere white matter](http://purl.obolibrary.org/obo/UBERON_0002437) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "sometimes the term 'cerebral white matter' may be used generically but here is refers specifically to the white matter in a hemisphere" - -- [cerebral hemisphere white matter](http://purl.obolibrary.org/obo/UBERON_0002437) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "The BTO class is inconsistent as it is part of the brain and spinal cord." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "BTO" - - - -### cerebral subcortex `http://purl.obolibrary.org/obo/UBERON_0000454` - -#### Added -- [cerebral subcortex](http://purl.obolibrary.org/obo/UBERON_0000454) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### cerebral vein `http://purl.obolibrary.org/obo/UBERON_0001663` -#### Removed -- [cerebral vein](http://purl.obolibrary.org/obo/UBERON_0001663) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_70861](http://purl.obolibrary.org/obo/FMA_70861) - - - -### cerebrospinal fluid `http://purl.obolibrary.org/obo/UBERON_0001359` -#### Removed -- [cerebrospinal fluid](http://purl.obolibrary.org/obo/UBERON_0001359) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "the FMA def states that this is subarachnoid spaces only. ZFA def states subarachnoid spaces and brain ventricles, but not SC (and has part_of to brain). Circulation: It circulates from the lateral ventricles to the foramen of Monro (Interventricular foramen), third ventricle, aqueduct of Sylvius (Cerebral aqueduct), fourth ventricle, foramen of Magendie (Median aperture) and foramina of Luschka (Lateral apertures), subarachnoid space over brain and spinal cord. It should be noted that the CSF moves in a pulsatile manner throughout the CSF system with nearly zero net flow. CSF is reabsorbed into venous sinus blood via arachnoid granulations." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [cerebrospinal fluid](http://purl.obolibrary.org/obo/UBERON_0001359) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In vertebrates, at early stages of Central Nervous System (CNS) development, the architecture of the brain primordium reveals the presence of the cavity of brain vesicles, which is filled by Embryonic Cerebro-Spinal Fluid (E-CSF). (...) Rat and chick E-CSF proteomes are similar, although rat is more complex in certain groups of proteins, e.g., apolipoproteins, which may be involved in the control of neural diversity, and has soluble enzymes present, just like adult human CSF, but unlike chick E-CSF, revealing phylogenetic brain differences between these groups of vertebrates.[uncertain][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001278" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1021/pr050213t Parada C, Gato A, Bueno D, Mammalian embryonic cerebrospinal fluid proteome has greater apolipoprotein and enzyme pattern complexity than the avian proteome. Journal of Proteome Research (2005)" - -- [cerebrospinal fluid](http://purl.obolibrary.org/obo/UBERON_0001359) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "EHDAA2 models this as developing from CP, which is wrong" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" - -- [cerebrospinal fluid](http://purl.obolibrary.org/obo/UBERON_0001359) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of organism substance that is a clear fluid that occupies the subarachnoid space and the ventricular system around and inside the brain.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002184" - -- [cerebrospinal fluid](http://purl.obolibrary.org/obo/UBERON_0001359) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [choroid plexus of lateral ventricle](http://purl.obolibrary.org/obo/UBERON_0002307) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "see notes" - -#### Added -- [cerebrospinal fluid](http://purl.obolibrary.org/obo/UBERON_0001359) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [choroid plexus of lateral ventricle](http://purl.obolibrary.org/obo/UBERON_0002307) - - -### cervical gland `http://purl.obolibrary.org/obo/UBERON_0012247` -#### Removed -- [cervical gland](http://purl.obolibrary.org/obo/UBERON_0012247) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_71646](http://purl.obolibrary.org/obo/FMA_71646) - - - -### cervical mammary gland `http://purl.obolibrary.org/obo/UBERON_0005199` -#### Removed -- [cervical mammary gland](http://purl.obolibrary.org/obo/UBERON_0005199) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "mice have a single pair of cervical mammary glands" - - - -### cervical region of vertebral column `http://purl.obolibrary.org/obo/UBERON_0006072` -#### Removed -- [cervical region of vertebral column](http://purl.obolibrary.org/obo/UBERON_0006072) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anterior region of the vertebral column consisting of one to 19 or 20 vertebrae.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000092" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:Duellman_and_Trueb_1994" - - - -### cervical rib `http://purl.obolibrary.org/obo/UBERON_0018144` -#### Removed -- [cervical rib](http://purl.obolibrary.org/obo/UBERON_0018144) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D057070" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -- [cervical rib](http://purl.obolibrary.org/obo/UBERON_0018144) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "May be homologous with the transverse processes of cervical vertebra" - - - -### cervical spinal cord `http://purl.obolibrary.org/obo/UBERON_0002726` -#### Removed -- [cervical spinal cord](http://purl.obolibrary.org/obo/UBERON_0002726) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D066193" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### cervical spinal cord ventral horn `http://purl.obolibrary.org/obo/UBERON_0014621` -#### Removed -- [cervical spinal cord ventral horn](http://purl.obolibrary.org/obo/UBERON_0014621) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D066151" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### cervical thymus `http://purl.obolibrary.org/obo/UBERON_0009114` -#### Removed -- [cervical thymus](http://purl.obolibrary.org/obo/UBERON_0009114) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "A cervical thymus is a pathological structure in a human - it can form during the migration of the thymus to its location in the mediastinum. Some mice have a cervical thymus. There are examples of cervical thymi in marsupials and prosimians[ISBN:0781714125]" - - - -### cervical vertebra `http://purl.obolibrary.org/obo/UBERON_0002413` -#### Removed -- [cervical vertebra](http://purl.obolibrary.org/obo/UBERON_0002413) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In some species, some parts of the skull may be composed of vertebra-like elements, e.g. the occipital bone in humans is composed of four vertebra-like segments. In many vertebrate species, cervical vertebrae are variable in number; however, almost all mammals have seven (including those with very short necks relative to body size, such as elephants or whales, and those with very long necks, such as giraffes). The few exceptions include the manatee and the sloths, of which the two-toed sloth has six cervical vertebrae and the three-toed sloth has up to nine cervical vertebrae. In many species, though not in mammals, the cervical vertebrae bear ribs. In many other groups, such as lizards and saurischian dinosaurs, the cervical ribs are large; in birds they are small and completely fused to the vertebrae. The transverse processes of mammals are homologous to the cervical ribs of other amniotes. Thoracic vertebrae in all species are defined as those vertebrae which also carry a pair of ribs, and lie caudal to the cervical vertebrae. In humans, cervical vertebrae are the smallest of the true vertebrae, and can be readily distinguished from those of the thoracic or lumbar regions by the presence of a foramen (hole) in each transverse process, through which passes the vertebral artery." - - - -### cervix epithelium `http://purl.obolibrary.org/obo/UBERON_0004801` -#### Removed -- [cervix epithelium](http://purl.obolibrary.org/obo/UBERON_0004801) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "The epithelium of the cervix is varied. The ectocervix (more distal, by the vagina) is composed of nonkeratinized stratified squamous epithelium. The endocervix (more proximal, within the uterus) is composed of simple columnar epithelium" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Cervix#Histology" - - - -### cervix glandular epithelium `http://purl.obolibrary.org/obo/UBERON_0012250` -#### Removed -- [cervix glandular epithelium](http://purl.obolibrary.org/obo/UBERON_0012250) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "The 'glandular' or columnar epithelium of the cervix is located cephalad to the squamocolumnar junction. It covers a variable amount of the ectocervix and lines the endocervical canal. It is comprised of a single layer of mucin-secreting cells. The epithelium is thrown into longitudinal folds and invaginations that make up the so-called endocervical glands (they are not true glands). These infolding crypts and channels make the cytologic and colposcopic detection of neoplasia less reliable and more problematic. The complex architecture of the endocervical glands gives the columnar epithelium a papillary appearance through the colposcope and a grainy appearance upon gross visual inspection. The single cell layer allows the coloration of the underlying vasculature to be seen more easily. Therefore, the columnar epithelium appears more red in comparison with the more opaque squamous epithelium." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://www.asccp.org/practicemanagement/cervix/histologyofthenormalcervix/tabid/5842/default.aspx" - - - -### chamber of eyeball `http://purl.obolibrary.org/obo/UBERON_0006311` - -#### Added -- [chamber of eyeball](http://purl.obolibrary.org/obo/UBERON_0006311) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### channel for `http://purl.obolibrary.org/obo/uberon/core#channel_for` -#### Removed -- [channel for](http://purl.obolibrary.org/obo/uberon/core#channel_for) Domain [anatomical conduit](http://purl.obolibrary.org/obo/UBERON_0004111) - -- [channel for](http://purl.obolibrary.org/obo/uberon/core#channel_for) Range [organism substance](http://purl.obolibrary.org/obo/UBERON_0000463) - - - -### channels_from `http://purl.obolibrary.org/obo/uberon/core#channels_from` -#### Removed -- Transitive: [channels_from](http://purl.obolibrary.org/obo/uberon/core#channels_from) - - - -### channels_into `http://purl.obolibrary.org/obo/uberon/core#channels_into` -#### Removed -- Transitive: [channels_into](http://purl.obolibrary.org/obo/uberon/core#channels_into) - - - -### characteristic of `http://purl.obolibrary.org/obo/RO_0000052` -#### Removed -- [characteristic of](http://purl.obolibrary.org/obo/RO_0000052) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) - -- [characteristic of](http://purl.obolibrary.org/obo/RO_0000052) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "inheres in"@en - -- [characteristic of](http://purl.obolibrary.org/obo/RO_0000052) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this red color is a characteristic of this apple"@en - -- [characteristic of](http://purl.obolibrary.org/obo/RO_0000052) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this fragility is a characteristic of this vase"@en - -- [characteristic of](http://purl.obolibrary.org/obo/RO_0000052) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "inheres_in"@en - - - -### characteristic of part of `http://purl.obolibrary.org/obo/RO_0002314` -#### Removed -- [characteristic of part of](http://purl.obolibrary.org/obo/RO_0002314) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [20064205](http://www.ncbi.nlm.nih.gov/pubmed/20064205) - -- [characteristic of part of](http://purl.obolibrary.org/obo/RO_0002314) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) - -- [characteristic of part of](http://purl.obolibrary.org/obo/RO_0002314) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [characteristic of part of](http://purl.obolibrary.org/obo/RO_0002314) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "inheres in part of" - -- [characteristic of](http://purl.obolibrary.org/obo/RO_0000052) o [part_of](http://purl.obolibrary.org/obo/BFO_0000050) SubPropertyOf: [characteristic of part of](http://purl.obolibrary.org/obo/RO_0002314) - - [is a defining property chain axiom where second argument is reflexive](http://purl.obolibrary.org/obo/RO_0002582) true - - - -### chemosensory organ `http://purl.obolibrary.org/obo/UBERON_0000005` -#### Removed -- [chemosensory organ](http://purl.obolibrary.org/obo/UBERON_0000005) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005157" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### chest `http://purl.obolibrary.org/obo/UBERON_0001443` -#### Removed -- [chest](http://purl.obolibrary.org/obo/UBERON_0001443) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "pectoral" - -- [chest](http://purl.obolibrary.org/obo/UBERON_0001443) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [abdomen](http://purl.obolibrary.org/obo/UBERON_0000916) - -- [chest](http://purl.obolibrary.org/obo/UBERON_0001443) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "thoracic" - - - -### chest muscle `http://purl.obolibrary.org/obo/UBERON_0002426` -#### Removed -- [chest muscle](http://purl.obolibrary.org/obo/UBERON_0002426) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17748" - - - -### chest wall `http://purl.obolibrary.org/obo/UBERON_0016435` -#### Removed -- [chest wall](http://purl.obolibrary.org/obo/UBERON_0016435) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D035441" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### cholecystokinin `http://purl.obolibrary.org/obo/PR_000005110` -#### Removed -- [cholecystokinin](http://purl.obolibrary.org/obo/PR_000005110) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [cholecystokinin (human)](http://purl.obolibrary.org/obo/PR_P06307) - - - -### chondrocranium `http://purl.obolibrary.org/obo/UBERON_0002241` -#### Removed -- [chondrocranium](http://purl.obolibrary.org/obo/UBERON_0002241) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster that is part of the cranium and composed of cartilage and cartilage replacement bones.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010169" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [chondrocranium](http://purl.obolibrary.org/obo/UBERON_0002241) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "covers the brain dorsally in chondrichthyans" - -- [chondrocranium](http://purl.obolibrary.org/obo/UBERON_0002241) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "chondrocranial" - -- [chondrocranium](http://purl.obolibrary.org/obo/UBERON_0002241) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster that is part of the cranium and composed of cartilage and cartilage replacement bones.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001424" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### chondrolectin `http://purl.obolibrary.org/obo/PR_000005444` -#### Removed -- [chondrolectin](http://purl.obolibrary.org/obo/PR_000005444) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [chondrolectin (human)](http://purl.obolibrary.org/obo/PR_Q9H9P2) - - - -### chordal neural plate `http://purl.obolibrary.org/obo/UBERON_0003057` -#### Removed -- [chordal neural plate](http://purl.obolibrary.org/obo/UBERON_0003057) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001201" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28" - - - -### chordamesoderm `http://purl.obolibrary.org/obo/UBERON_0004880` -#### Removed -- [chordamesoderm](http://purl.obolibrary.org/obo/UBERON_0004880) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Notochord rudiment[ZFIN:ZDB-PUB-961014-576]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:ZDB-PUB-961014-576" - -- [chordamesoderm](http://purl.obolibrary.org/obo/UBERON_0004880) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "WP treats this as synonym of axial mesoderm. Induces neural tube. Gilbert: contains an anterior head process and the notochord." - - - -### chordate pharyngeal muscle `http://purl.obolibrary.org/obo/UBERON_0000933` -#### Removed -- [chordate pharyngeal muscle](http://purl.obolibrary.org/obo/UBERON_0000933) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_67169](http://purl.obolibrary.org/obo/FMA_67169) - -- [chordate pharyngeal muscle](http://purl.obolibrary.org/obo/UBERON_0000933) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:18963" - -- [chordate pharyngeal muscle](http://purl.obolibrary.org/obo/UBERON_0000933) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A pharyngeal muscle is any muscle that forms part of the pharynx[GO]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GOC:go_curators" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "does not quite work for some muscles such as stylopharyngeus" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-30" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "GO:0043282" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "GO" - - - -### chordate pharynx `http://purl.obolibrary.org/obo/UBERON_0001042` -#### Removed -- [chordate pharynx](http://purl.obolibrary.org/obo/UBERON_0001042) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Swollen region of the anterior foregut, posterior to the mouth and anterior to the liver; its walls form the jaws and gills[ZFA:0000056, ZFIN:ZDB-PUB-961014-576]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:ZDB-PUB-961014-576" - -- [chordate pharynx](http://purl.obolibrary.org/obo/UBERON_0001042) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A funnel-shaped fibromuscular tube that conducts food to the ESOPHAGUS, and air to the LARYNYX and LUNGS. It is located posterior to the NASAL CAVITY; ORAL CAVITY; and LARYNX, and extends from the SKULL BASE to the inferior border of the CRICOID CARTILAGE anteriorly and to the inferior border of the C6 vertebra posteriorly. It is divided into the NASOPHARYNX; OROPHARYNX; and HYPOPHARYNX (laryngopharynx)[MESH:A03.867]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MESH:A03.867" - -- [chordate pharynx](http://purl.obolibrary.org/obo/UBERON_0001042) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Swollen region of the anterior foregut, posterior to the mouth and anterior to the liver; its walls form the jaws and gills. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000056" - -- [chordate pharynx](http://purl.obolibrary.org/obo/UBERON_0001042) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: part_of_proxy respiratory system (AAO:0000541) CHANGED TO: part_of respiratory system (UBERON:0001004)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000967" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [chordate pharynx](http://purl.obolibrary.org/obo/UBERON_0001042) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The portion of the alimentary canal between the mouth and the oesophagus. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000462" - -- [chordate pharynx](http://purl.obolibrary.org/obo/UBERON_0001042) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MA/FMA pharynx not part of digestive/alimentary system, we are consistent with this scheme" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - -- [chordate pharynx](http://purl.obolibrary.org/obo/UBERON_0001042) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: part_of_proxy respiratory system (AAO:0000541) CHANGED TO: develops_from respiratory system (UBERON:0001004)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000967" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [chordate pharynx](http://purl.obolibrary.org/obo/UBERON_0001042) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cavity bounded by the derivatives of the branchial arches.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000967" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [chordate pharynx](http://purl.obolibrary.org/obo/UBERON_0001042) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) the earliest vertebrates possessed unjointed internal and external branchial arches, and musculature encircling the pharynx.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) Box essay 13.1 and Box figure I, p.502-503" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000462" - - - -### chordotonal organ `http://purl.obolibrary.org/obo/UBERON_0001038` -#### Removed -- [chordotonal organ](http://purl.obolibrary.org/obo/UBERON_0001038) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005215" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### chorion membrane `http://purl.obolibrary.org/obo/UBERON_0003124` -#### Removed -- [chorion membrane](http://purl.obolibrary.org/obo/UBERON_0003124) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Structures homologous to the four extraembryonic membranes of reptiles and birds appear in mammals: amnion, chorion, yolk sac, and allantois.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.187" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000200" - -- [chorion membrane](http://purl.obolibrary.org/obo/UBERON_0003124) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Extra-embryonic ectoderm" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:19829370" - -- [chorion membrane](http://purl.obolibrary.org/obo/UBERON_0003124) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The outer membrane of the two membranes enclosing the embryo in reptiles, birds, and mammals. In placental mammals it contributes to the development of the placenta[BTO:0000252]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "BTO:0000252" - -- [chorion membrane](http://purl.obolibrary.org/obo/UBERON_0003124) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The chorion of placentals is bilaminar as in reptiles and birds, but forms from the trophoblast and includes the ajdacent mesodermal layer [ISBN:0073040584]" - -- [chorion membrane](http://purl.obolibrary.org/obo/UBERON_0003124) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The outer membrane enclosing the embryo in reptiles, birds, and mammals. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/chorion" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000200" - -- [chorion membrane](http://purl.obolibrary.org/obo/UBERON_0003124) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "chorionic" - -#### Added -- [chorion membrane](http://purl.obolibrary.org/obo/UBERON_0003124) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### chorion syncytiotrophoblast `http://purl.obolibrary.org/obo/UBERON_0003224` -#### Removed -- [chorion syncytiotrophoblast](http://purl.obolibrary.org/obo/UBERON_0003224) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [syncytiotrophoblast](http://purl.obolibrary.org/obo/UBERON_0000371) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "polar trophectoderm syncytiotrophoblast" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2" - -#### Added -- [chorion syncytiotrophoblast](http://purl.obolibrary.org/obo/UBERON_0003224) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [syncytiotrophoblast](http://purl.obolibrary.org/obo/UBERON_0000371) - - -### chorionic plate `http://purl.obolibrary.org/obo/UBERON_0004027` - -#### Added -- [chorionic plate](http://purl.obolibrary.org/obo/UBERON_0004027) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### chorionic villous mesenchyme `http://purl.obolibrary.org/obo/UBERON_8600039` -#### Removed -- [chorionic villous mesenchyme](http://purl.obolibrary.org/obo/UBERON_8600039) SubClassOf [embryonic tissue](http://purl.obolibrary.org/obo/UBERON_0005291) - -#### Added -- [chorionic villous mesenchyme](http://purl.obolibrary.org/obo/UBERON_8600039) SubClassOf [mesenchyme from somatopleure](http://purl.obolibrary.org/obo/UBERON_0010377) - - -### chorionic villus `http://purl.obolibrary.org/obo/UBERON_0007106` -#### Removed -- [chorionic villus](http://purl.obolibrary.org/obo/UBERON_0007106) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The mouse and human placentas have labyrinthine and villous types of interdigitation between maternal and fetal tissues, respectively" - -- [chorionic villus](http://purl.obolibrary.org/obo/UBERON_0007106) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "The bulk of the villi consist of connective tissues in which blood vessels are found. Most of the cells in the connective tissue core of the villi are fibroblasts. Macrophages known as Hofbauer cells are also present." - - - -### chorioretinal region `http://purl.obolibrary.org/obo/UBERON_0019207` - -#### Added -- [chorioretinal region](http://purl.obolibrary.org/obo/UBERON_0019207) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - -- [chorioretinal region](http://purl.obolibrary.org/obo/UBERON_0019207) SubClassOf [structure with developmental contribution from neural crest](http://purl.obolibrary.org/obo/UBERON_0010314) - - -### choroid epiplexus macrophage `http://purl.obolibrary.org/obo/CL_4042004` - -#### Added -- [choroid epiplexus macrophage](http://purl.obolibrary.org/obo/CL_4042004) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A choroid plexus macrophage that is part of the apical surface of some choroid plexus epithelium. This macrophage has a star-like shaped body." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:31061494" - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37232741" - -- [choroid epiplexus macrophage](http://purl.obolibrary.org/obo/CL_4042004) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "epiplexus cpMΦ" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:38347231" - -- [choroid epiplexus macrophage](http://purl.obolibrary.org/obo/CL_4042004) [contributor](http://purl.org/dc/terms/contributor) [0000-0002-0098-8958](https://orcid.org/0000-0002-0098-8958) - -- [choroid epiplexus macrophage](http://purl.obolibrary.org/obo/CL_4042004) [label](http://www.w3.org/2000/01/rdf-schema#label) "choroid epiplexus macrophage"@en - -- [choroid epiplexus macrophage](http://purl.obolibrary.org/obo/CL_4042004) [date](http://purl.org/dc/terms/date) "2024-03-26T19:14:58Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) - -- [choroid epiplexus macrophage](http://purl.obolibrary.org/obo/CL_4042004) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "Kolmer’s cell" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:31433571" - -- [choroid epiplexus macrophage](http://purl.obolibrary.org/obo/CL_4042004) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "cpepiMΦ" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:38347231" - -- Class: [choroid epiplexus macrophage](http://purl.obolibrary.org/obo/CL_4042004) - -- [choroid epiplexus macrophage](http://purl.obolibrary.org/obo/CL_4042004) SubClassOf [choroid-plexus macrophage](http://purl.obolibrary.org/obo/CL_0000880) - -- [choroid epiplexus macrophage](http://purl.obolibrary.org/obo/CL_4042004) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [choroid plexus epithelium](http://purl.obolibrary.org/obo/UBERON_0003911) - - -### choroid plexus `http://purl.obolibrary.org/obo/UBERON_0001886` -#### Removed -- [choroid plexus](http://purl.obolibrary.org/obo/UBERON_0001886) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "choroidal" - -- [choroid plexus](http://purl.obolibrary.org/obo/UBERON_0001886) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Fringe of the tela choroidea of the brain ventricles[MP]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0000820" - -- [choroid plexus](http://purl.obolibrary.org/obo/UBERON_0001886) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A tuft of capillaries that project into the ventricles of the brain and secretes cerebral spinal fluid. The choroid plexus is covered by a cuboidal epithelium which maintains the integrity of the blood-brain barrier.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001443" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### choroid plexus epithelium `http://purl.obolibrary.org/obo/UBERON_0003911` -#### Removed -- [choroid plexus epithelium](http://purl.obolibrary.org/obo/UBERON_0003911) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "The CP epithelial layer is continuous with the ependymal cell layer that lines the ventricles, but unlike the ependyma, the epithelial layer has tight gap junctions between the cells on the side facing the ventricle (apical surface). These gap junctions prevent the majority of substances from crossing the cell layer into the CSF; thus the CP acts as a blood-CSF barrier" - -- [choroid plexus epithelium](http://purl.obolibrary.org/obo/UBERON_0003911) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0006008" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) - -- [choroid plexus epithelium](http://purl.obolibrary.org/obo/UBERON_0003911) SubClassOf [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) - -#### Added -- [choroid plexus epithelium](http://purl.obolibrary.org/obo/UBERON_0003911) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### choroid plexus stroma `http://purl.obolibrary.org/obo/UBERON_0005206` - -#### Added -- [choroid plexus stroma](http://purl.obolibrary.org/obo/UBERON_0005206) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### choroid-plexus macrophage `http://purl.obolibrary.org/obo/CL_0000880` -#### Removed -- [choroid-plexus macrophage](http://purl.obolibrary.org/obo/CL_0000880) [label](http://www.w3.org/2000/01/rdf-schema#label) "choroid-plexus macrophage" - -- [choroid-plexus macrophage](http://purl.obolibrary.org/obo/CL_0000880) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A central nervous system macrophage found at the interface between the blood and the cerebrospinal fluid in the brain. This cell expresses scavenger receptors." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:9550136" - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GO_REF:0000031" - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:ana" - -- [choroid-plexus macrophage](http://purl.obolibrary.org/obo/CL_0000880) EquivalentTo [central nervous system macrophage](http://purl.obolibrary.org/obo/CL_0000878) and ([located in](http://purl.obolibrary.org/obo/RO_0001025) some [choroid plexus](http://purl.obolibrary.org/obo/UBERON_0001886)) and ([capable of](http://purl.obolibrary.org/obo/RO_0002215) some [scavenger receptor activity](http://purl.obolibrary.org/obo/GO_0005044)) - -- [choroid-plexus macrophage](http://purl.obolibrary.org/obo/CL_0000880) SubClassOf [central nervous system macrophage](http://purl.obolibrary.org/obo/CL_0000878) - - [is_inferred](http://www.geneontology.org/formats/oboInOwl#is_inferred) "true" - -- [choroid-plexus macrophage](http://purl.obolibrary.org/obo/CL_0000880) SubClassOf [located in](http://purl.obolibrary.org/obo/RO_0001025) some [choroid plexus](http://purl.obolibrary.org/obo/UBERON_0001886) - -#### Added -- [choroid-plexus macrophage](http://purl.obolibrary.org/obo/CL_0000880) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "cpMΦ" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37232741" - -- [choroid-plexus macrophage](http://purl.obolibrary.org/obo/CL_0000880) [label](http://www.w3.org/2000/01/rdf-schema#label) "choroid plexus macrophage" - -- [choroid-plexus macrophage](http://purl.obolibrary.org/obo/CL_0000880) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A border associated macrophage found at the interface between the blood and the cerebrospinal fluid in the brain. This central nervous system macrophage has a star-like shaped body and expresses scavenger receptors." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:9550136" - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GO_REF:0000031" - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:ana" - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37232741" - -- [choroid-plexus macrophage](http://purl.obolibrary.org/obo/CL_0000880) EquivalentTo [border associated macrophage](http://purl.obolibrary.org/obo/CL_4042003) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [choroid plexus](http://purl.obolibrary.org/obo/UBERON_0001886)) and ([capable of](http://purl.obolibrary.org/obo/RO_0002215) some [scavenger receptor activity](http://purl.obolibrary.org/obo/GO_0005044)) - -- [choroid-plexus macrophage](http://purl.obolibrary.org/obo/CL_0000880) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [choroid plexus](http://purl.obolibrary.org/obo/UBERON_0001886) - -- [choroid-plexus macrophage](http://purl.obolibrary.org/obo/CL_0000880) SubClassOf [border associated macrophage](http://purl.obolibrary.org/obo/CL_4042003) - - -### choroidal blood vessel `http://purl.obolibrary.org/obo/UBERON_0002443` - -#### Added -- [choroidal blood vessel](http://purl.obolibrary.org/obo/UBERON_0002443) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### chromaffin system `http://purl.obolibrary.org/obo/UBERON_0010074` -#### Removed -- [chromaffin system](http://purl.obolibrary.org/obo/UBERON_0010074) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in adult cylostomes and teleosts, the interrenal bodies are separate from chromaffin bodies" - - - -### ciliary body `http://purl.obolibrary.org/obo/UBERON_0001775` -#### Removed -- [ciliary body](http://purl.obolibrary.org/obo/UBERON_0001775) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000102" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - -### ciliary processes `http://purl.obolibrary.org/obo/UBERON_0010427` - -#### Added -- [ciliary processes](http://purl.obolibrary.org/obo/UBERON_0010427) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### ciliated columnar epithelium `http://purl.obolibrary.org/obo/UBERON_0007592` -#### Removed -- [ciliated columnar epithelium](http://purl.obolibrary.org/obo/UBERON_0007592) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "Ciliated columnar epithelium in the pulmonary system is interspersed with goblet cells that secrete mucous to form a mucosal layer apical to the epithelial layer. The rowing-like action of epithelial cilia work in tandem with goblet cells to propel mucus away from the lungs, preventing particulate matter from causing infection[http://www.bio.davidson.edu/people/kabernd/berndcv/lab/epithelialinfoweb/ciliated%20columnar%20epithelium.html]" - -- [ciliated columnar epithelium](http://purl.obolibrary.org/obo/UBERON_0007592) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, Ciliated columnar epithelial cells are found mainly in the tracheal and bronchial regions of the pulmonary system and also in the fallopian tubes of the female reproductive system" - - - -### ciliated columnar oviduct epithelium `http://purl.obolibrary.org/obo/UBERON_0007589` -#### Removed -- [ciliated columnar oviduct epithelium](http://purl.obolibrary.org/obo/UBERON_0007589) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA, epithelium of uterine tube is a subclass of ciliated columnar epithelium. MA introduces subtypes: ciliated columnar and cuboidal. We map the FMA type according to its relationships, not its label" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### circle of Willis `http://purl.obolibrary.org/obo/UBERON_0003709` -#### Removed -- [circle of Willis](http://purl.obolibrary.org/obo/UBERON_0003709) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In zebrafish, the circle of vessels comprised of the basal communicating artery (BCA) and posterior communicating segments (PCS) superficially resemble but are not homologous to the human circle of Willis" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://zfish.nichd.nih.gov/zfatlas/Intro%20Page/comparative.html" - - - -### circulatory organ `http://purl.obolibrary.org/obo/UBERON_0015228` -#### Removed -- [circulatory organ](http://purl.obolibrary.org/obo/UBERON_0015228) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "SPD:0000130" - - - -### circulatory system `http://purl.obolibrary.org/obo/UBERON_0001009` -#### Removed -- [circulatory system](http://purl.obolibrary.org/obo/UBERON_0001009) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "We should divest ourselves of the view that earlier vertebrate groups were 'on their way' to becoming mammals, as clearly they were not such visionaries. Neither were their systems 'imperfect' as earlier anatomists thought. Instead, their circulatory systems served them well to address the ecological demands arising from their lifestyles.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.493" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001248" - -- [circulatory system](http://purl.obolibrary.org/obo/UBERON_0001009) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical system of ion binding, a pumping mechanism, and an efficient vascular system; consisting of the blood, heart, and blood and lymph vessels, respectively.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000959" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [circulatory system](http://purl.obolibrary.org/obo/UBERON_0001009) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D002319" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -- [circulatory system](http://purl.obolibrary.org/obo/UBERON_0001009) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [Nematoda](http://purl.obolibrary.org/obo/NCBITaxon_6231) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "WBbt coelomocyte currently classified as circulating cell" - -- [circulatory system](http://purl.obolibrary.org/obo/UBERON_0001009) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "the cardiovascular system and the lymphatic system are parts of the circulatory system" - - - -### circumventricular organ `http://purl.obolibrary.org/obo/UBERON_0005408` -#### Removed -- [circumventricular organ](http://purl.obolibrary.org/obo/UBERON_0005408) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0006267" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) - -- [circumventricular organ](http://purl.obolibrary.org/obo/UBERON_0005408) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "CVOs contain neural tissue and are an integral part of neuroendocrine function; all of the CVOs, besides the subcommissural organ, contain extensive vasculature and fenestrated capillaries which leads to a leaky BBB at the site of the organs; the lack of a BBB allows CVOs to act as an alternative route for peptides and hormones in the neural tissue to the peripheral blood stream, while still protecting it from toxic substances" - -- [circumventricular organ](http://purl.obolibrary.org/obo/UBERON_0005408) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "All vertebrates possess at least 4 circumventricular organs (including the hypothalamus) which can monitor the contents of the cerebrospinal fluid and secrete additional substances into it. (Butler, 1996, p. 330)" - -- [circumventricular organ](http://purl.obolibrary.org/obo/UBERON_0005408) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D066280" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### citesAsAuthority `http://purl.org/spar/cito/citesAsAuthority` -#### Removed -- AnnotationProperty: [citesAsAuthority](http://purl.org/spar/cito/citesAsAuthority) - - - -### clavicle bone `http://purl.obolibrary.org/obo/UBERON_0001105` -#### Removed -- [clavicle bone](http://purl.obolibrary.org/obo/UBERON_0001105) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA and MA differ in whether they consider this part of the shoulder" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [clavicle bone](http://purl.obolibrary.org/obo/UBERON_0001105) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "clavicular" - -- [clavicle bone](http://purl.obolibrary.org/obo/UBERON_0001105) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Slender, paired bones of intramembranous origin that invest the anterior margins of the procoracoids.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000761" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [clavicle bone](http://purl.obolibrary.org/obo/UBERON_0001105) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of zonal element (AAO:0000936)[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000761" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [clavicle bone](http://purl.obolibrary.org/obo/UBERON_0001105) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "In most birds and mammals the clavicles are the only dermal elements in the trunk, and is the only membrane bone associated with the pectoral girdle in these taxa. However, there can be secondary cartilage, or subsequent endochondral ossification, or fusion with endochondral elements. In rodents, the lateral ends of the clavicle are endochondral but the main portion is dermal." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0-12-319060-4" - -- [clavicle bone](http://purl.obolibrary.org/obo/UBERON_0001105) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The clavicle first appears as part of the skeleton in primitive bony fish, where it is associated with the pectoral fin; they also have a bone called the cleithrum. In such fish, the paired clavicles run behind and below the gills on each side, and are joined by a solid symphysis on the fish's underside. They are, however, absent in cartilagenous fish and in the vast majority of living bony fish, including all of the teleosts[ISBN 0-03-910284-X]." - -- [clavicle bone](http://purl.obolibrary.org/obo/UBERON_0001105) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In early tetrapods, the connecting skull bone, the posttemporal, and adjoining shoulder bones, supracleithrum and postcleithrum (=anocleithrum), are absent, leaving a dermal shoulder girdle composed of the remaining ventral elements: the paired cleithrum and clavicle, and an unpaired midventral interclavicle that joins both halves of the girdle across the midline. (...) Several dermal elements of the shoulder persist in early synapsids. The clavicle and interclavicle are present in therapsids and monotremes, but in marsupials and placentals, the interclavicle is absent, the clavicle often is reduced in size, and the scapula becomes the predominant shoulder element.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.330-333 and Figure 9.18" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000849" - -- [clavicle bone](http://purl.obolibrary.org/obo/UBERON_0001105) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [clavicle cartilage element](http://purl.obolibrary.org/obo/UBERON_0010843) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0-12-319060-4" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "from secondary cartilage of fusion" - -- [clavicle bone](http://purl.obolibrary.org/obo/UBERON_0001105) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [clavicle bone primordium](http://purl.obolibrary.org/obo/UBERON_0010905) - - [editor](http://www.geneontology.org/formats/oboInOwl#editor) "mah" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0-12-319060-4" - -#### Added -- [clavicle bone](http://purl.obolibrary.org/obo/UBERON_0001105) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [clavicle bone primordium](http://purl.obolibrary.org/obo/UBERON_0010905) - -- [clavicle bone](http://purl.obolibrary.org/obo/UBERON_0001105) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [clavicle cartilage element](http://purl.obolibrary.org/obo/UBERON_0010843) - - -### clavicle bone primordium `http://purl.obolibrary.org/obo/UBERON_0010905` -#### Removed -- [clavicle bone primordium](http://purl.obolibrary.org/obo/UBERON_0010905) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [neural crest](http://purl.obolibrary.org/obo/UBERON_0002342) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMC1352163" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "shown in mouse" - - - [editor](http://www.geneontology.org/formats/oboInOwl#editor) "mah" - -#### Added -- [clavicle bone primordium](http://purl.obolibrary.org/obo/UBERON_0010905) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [neural crest](http://purl.obolibrary.org/obo/UBERON_0002342) - - -### clavicle cartilage element `http://purl.obolibrary.org/obo/UBERON_0010843` -#### Removed -- [clavicle cartilage element](http://purl.obolibrary.org/obo/UBERON_0010843) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In most birds and mammals the clavicles are the only dermal elements in the trunk, and is the only membrane bone associated with the pectoral girdle in these taxa. However, there can be secondary cartilage, or subsequent endochondral ossification, or fusion with endochondral elements. In rodents, the lateral ends of the clavicle are endochondral but the main portion is dermal." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0-12-319060-4" - - - -### clavicle pre-cartilage condensation `http://purl.obolibrary.org/obo/UBERON_0010844` -#### Removed -- [clavicle pre-cartilage condensation](http://purl.obolibrary.org/obo/UBERON_0010844) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In most birds and mammals the clavicles are the only dermal elements in the trunk, and is the only membrane bone associated with the pectoral girdle in these taxa. However, there can be secondary cartilage, or subsequent endochondral ossification, or fusion with endochondral elements. In rodents, the lateral ends of the clavicle are endochondral but the main portion is dermal." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0-12-319060-4" - - - -### clitoris `http://purl.obolibrary.org/obo/UBERON_0002411` -#### Removed -- [clitoris](http://purl.obolibrary.org/obo/UBERON_0002411) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "clitoral" - -#### Added -- [clitoris](http://purl.obolibrary.org/obo/UBERON_0002411) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### cloaca `http://purl.obolibrary.org/obo/UBERON_0000162` -#### Removed -- [cloaca](http://purl.obolibrary.org/obo/UBERON_0000162) [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [NCBITaxon_9369](http://purl.obolibrary.org/obo/NCBITaxon_9369) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "most adult placentals have no trace of a cloaca. However, the tenrecs and golden moles, small placental mammals native to Africa, retain a cloaca as adults." - -- [cloaca](http://purl.obolibrary.org/obo/UBERON_0000162) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A common passage for fecal, urinary, and reproductive discharge in most lower vertebrates as well as the terminal end of the hindgut before division into rectum, bladder, and genital primordia in mammalian embryos. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/cloaca" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001186" - -- [cloaca](http://purl.obolibrary.org/obo/UBERON_0000162) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "cloacal" - -- [cloaca](http://purl.obolibrary.org/obo/UBERON_0000162) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Human beings only have an embryonic cloaca, which is split up into separate tracts during the development of the urinary and reproductive organs" - -- [cloaca](http://purl.obolibrary.org/obo/UBERON_0000162) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical structure which is the common receptacle for the alimentary canal, Wolffian ducts, oviducts, and the bladder.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000095" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [cloaca](http://purl.obolibrary.org/obo/UBERON_0000162) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "hindgut endoderm and proctodeal ectoderm." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" - -- [cloaca](http://purl.obolibrary.org/obo/UBERON_0000162) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "A cloaca is apparently a primitive vertebrate feature because it occurs in most primitive gnathostomes and persists in the embryos of almost all vertebrates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001186" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.572" - - - -### cloacal epithelium `http://purl.obolibrary.org/obo/UBERON_0012481` -#### Removed -- [cloacal epithelium](http://purl.obolibrary.org/obo/UBERON_0012481) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "cloacal epithelium (cle) (syn: cloacal endoderm) (TS17-TS20): the cloacal epithelium is derived from endoderm and lines the cloacal cavity. It is marked by Shh and Cdh1 and lines the cloacal lumen. The cloacal epithelium gives rise to the urogenital sinus epithelium, hindgut epithelium and the urethral plate epithelium." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EMAPA:27577" - - - -### cloacal lumen `http://purl.obolibrary.org/obo/UBERON_0012463` -#### Removed -- [cloacal lumen](http://purl.obolibrary.org/obo/UBERON_0012463) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "the ZFA class belongs here as it is an anatomical space. See https://sourceforge.net/p/obo/zebrafish-anatomy-zfa-term-requests/102/" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" - - - -### cloacal membrane `http://purl.obolibrary.org/obo/UBERON_0006217` -#### Removed -- [cloacal membrane](http://purl.obolibrary.org/obo/UBERON_0006217) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In mammals, the cloaca exists as an embryonic structure that undergoes septation to become distinct urethral, anal, and genital orifices.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001198" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:11830557 De Santa Barbara P, Roberts DJ, Tail gut endoderm and gut/genitourinary/tail development: a new tissue-specific role for Hoxa13. Development (2002)" - -- [cloacal membrane](http://purl.obolibrary.org/obo/UBERON_0006217) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A membrane that separates the proctodeum and the hindgut in the early embryo. [Evolution, Fourth_Edition_(2006)_McGraw-Hill, Function, Vertebrates:_Comparative_Anatomy, p.497, see_Kardong_KV][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001198" - - - -### closeMatch `http://www.w3.org/2004/02/skos/core#closeMatch` -#### Removed -- AnnotationProperty: [closeMatch](http://www.w3.org/2004/02/skos/core#closeMatch) - - - -### closed `http://purl.obolibrary.org/obo/PATO_0000608` -#### Removed -- [closed](http://purl.obolibrary.org/obo/PATO_0000608) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [open](http://purl.obolibrary.org/obo/PATO_0000610) - - - -### cochlea `http://purl.obolibrary.org/obo/UBERON_0001844` -#### Removed -- [cochlea](http://purl.obolibrary.org/obo/UBERON_0001844) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A spiral-shaped cavity in the petrous portion of the temporal bone of the inner ear, containing the nerve endings essential for hearing and forming one of the divisions of the labyrinth. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000691" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/cochlea" - -- [cochlea](http://purl.obolibrary.org/obo/UBERON_0001844) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "cochlear" - -- [cochlea](http://purl.obolibrary.org/obo/UBERON_0001844) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "sources vary in connection to bony labyrinth" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "XAO" - -- [cochlea](http://purl.obolibrary.org/obo/UBERON_0001844) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Because achieving high sensitivity is generally advantageous for auditory organs, it is not surprising that evidence for cochlear amplification is also seen in nonmammals. Spontaneous otoacoustic emissions (SOAEs) are narrow-band sound signals emitted from the inner ear, and it is generally assumed that their energy derives from the hair-cell molecular motors underlying cochlear amplification. However, all terrestrial vertebrates studied so far (including amphibians) show very similar SOAEs. The most parsimonious explanation for the universality of this phenomena is that some kind of amplifying mechanism is at least as old as land vertebrates themselves.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/S0959-4388(98)80033-0 Manley GA, Koeppl C, Phylogenetic development of the cochlea and its innervation. Current Opinion in Neurobiology (1998)" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000691" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - -- [cochlea](http://purl.obolibrary.org/obo/UBERON_0001844) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "the cochlea is coiled in most mammals, monotremes being the exceptions." - -- [cochlea](http://purl.obolibrary.org/obo/UBERON_0001844) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The association with 'lagena' in frog and fish comes from HOG, although HOG is inconsistent here, associating lagena with XAO cochlea and ZFA cochlear duct. NBK53175 says: 'In contrast, the ventrally located auditory chambers have undergone more extensive evolutionary modifications. The saccule and lagena are prominent auditory organs in fish but the saccule has a vestibular role in mammals and birds, and the lagena is absent in mammals. The primary au- ditory organ in mammals and birds is the cochlea, which has no known counterpart in amphibians and fish (Riley and Phillips, 2003)'" - -#### Added -- [cochlea](http://purl.obolibrary.org/obo/UBERON_0001844) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### cochlear basement membrane `http://purl.obolibrary.org/obo/UBERON_0011922` - -#### Added -- [cochlear basement membrane](http://purl.obolibrary.org/obo/UBERON_0011922) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### cochlear canal `http://purl.obolibrary.org/obo/UBERON_0006106` - -#### Added -- [cochlear canal](http://purl.obolibrary.org/obo/UBERON_0006106) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### cochlear duct of membranous labyrinth `http://purl.obolibrary.org/obo/UBERON_0001855` -#### Removed -- [cochlear duct of membranous labyrinth](http://purl.obolibrary.org/obo/UBERON_0001855) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In gnathostomes, each membranous labyrinth has three semicircular ducts that connect with a chamber known as the utriculus. (...) In all gnathostomes, the utriculus connects ventrally with a larger sac, called the sacculus (...) In most groups of gnathostomes, the caudoventral evagination of the sacculus forms a small lagena, and in some diapsids and mammals the lagena develops into a longer duct. The lagena becomes greatly elongated in therians and coils to form the cochlear duct.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000507" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.413-414" - -- [cochlear duct of membranous labyrinth](http://purl.obolibrary.org/obo/UBERON_0001855) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The coiled portion of the membranous labyrinth located inside the cochlea. It contains endolymph. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000507" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/cochlear+duct" - -#### Added -- [cochlear duct of membranous labyrinth](http://purl.obolibrary.org/obo/UBERON_0001855) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### cochlear ganglion `http://purl.obolibrary.org/obo/UBERON_0000395` -#### Removed -- [cochlear ganglion](http://purl.obolibrary.org/obo/UBERON_0000395) SubClassOf [located in](http://purl.obolibrary.org/obo/RO_0001025) some [cochlear modiolus](http://purl.obolibrary.org/obo/UBERON_0006723) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "cell bodies" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "BTO-modified" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia" - -#### Added -- [cochlear ganglion](http://purl.obolibrary.org/obo/UBERON_0000395) SubClassOf [located in](http://purl.obolibrary.org/obo/RO_0001025) some [cochlear modiolus](http://purl.obolibrary.org/obo/UBERON_0006723) - -- [cochlear ganglion](http://purl.obolibrary.org/obo/UBERON_0000395) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### cochlear labyrinth `http://purl.obolibrary.org/obo/UBERON_0002499` - -#### Added -- [cochlear labyrinth](http://purl.obolibrary.org/obo/UBERON_0002499) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### cochlear modiolus `http://purl.obolibrary.org/obo/UBERON_0006723` - -#### Added -- [cochlear modiolus](http://purl.obolibrary.org/obo/UBERON_0006723) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### cochlear nerve `http://purl.obolibrary.org/obo/UBERON_0004727` -#### Removed -- [cochlear nerve](http://purl.obolibrary.org/obo/UBERON_0004727) SubClassOf [nerve](http://purl.obolibrary.org/obo/UBERON_0001021) - -#### Added -- [cochlear nerve](http://purl.obolibrary.org/obo/UBERON_0004727) SubClassOf [nerve of head region](http://purl.obolibrary.org/obo/UBERON_0011779) - -- [cochlear nerve](http://purl.obolibrary.org/obo/UBERON_0004727) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### cochlear nuclear complex `http://purl.obolibrary.org/obo/UBERON_0002610` -#### Removed -- [cochlear nuclear complex](http://purl.obolibrary.org/obo/UBERON_0002610) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002864](http://purl.obolibrary.org/obo/UBERON_0002864) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [cochlear nuclear complex](http://purl.obolibrary.org/obo/UBERON_0002610) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002591](http://purl.obolibrary.org/obo/UBERON_0002591) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [cochlear nuclear complex](http://purl.obolibrary.org/obo/UBERON_0002610) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002126](http://purl.obolibrary.org/obo/UBERON_0002126) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [cochlear nuclear complex](http://purl.obolibrary.org/obo/UBERON_0002610) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0007633](http://purl.obolibrary.org/obo/UBERON_0007633) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [cochlear nuclear complex](http://purl.obolibrary.org/obo/UBERON_0002610) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002162](http://purl.obolibrary.org/obo/UBERON_0002162) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [cochlear nuclear complex](http://purl.obolibrary.org/obo/UBERON_0002610) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002866](http://purl.obolibrary.org/obo/UBERON_0002866) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [cochlear nuclear complex](http://purl.obolibrary.org/obo/UBERON_0002610) [UBPROP_0000015](http://purl.obolibrary.org/obo/UBPROP_0000015) "WP says 'The CN is located at the dorso-lateral side of the brainstem, spanning the junction of the pons and medulla.'. MA places this in pons, other sources the medulla" - -- [cochlear nuclear complex](http://purl.obolibrary.org/obo/UBERON_0002610) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002873](http://purl.obolibrary.org/obo/UBERON_0002873) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [cochlear nuclear complex](http://purl.obolibrary.org/obo/UBERON_0002610) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [medulla oblongata](http://purl.obolibrary.org/obo/UBERON_0001896) - - [inconsistent_with](http://www.geneontology.org/formats/oboInOwl#inconsistent_with) "MA" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA" - -#### Added -- [cochlear nuclear complex](http://purl.obolibrary.org/obo/UBERON_0002610) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [medulla oblongata](http://purl.obolibrary.org/obo/UBERON_0001896) - - -### coelemic cavity lumen `http://purl.obolibrary.org/obo/UBERON_0002323` -#### Removed -- [coelemic cavity lumen](http://purl.obolibrary.org/obo/UBERON_0002323) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005060" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [coelemic cavity lumen](http://purl.obolibrary.org/obo/UBERON_0002323) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In mammals it forms the peritoneal, pleural, and pericardial cavities" - -- [coelemic cavity lumen](http://purl.obolibrary.org/obo/UBERON_0002323) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical space, part of the trunk that contains the pericardial and pleuroperitoneal cavities[ZFA]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-12" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "ZFA" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "ZFA:0001438" - -- [coelemic cavity lumen](http://purl.obolibrary.org/obo/UBERON_0002323) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The cavity within the body of all animals higher than the coelenterates and certain primitive worms, formed by the splitting of the embryonic mesoderm into two layers. In mammals it forms the peritoneal, pleural, and pericardial cavities[BTO]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "BTO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "BTO:0001707" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "BTO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-12" - -- [coelemic cavity lumen](http://purl.obolibrary.org/obo/UBERON_0002323) SubClassOf [transformation of](http://purl.obolibrary.org/obo/RO_0002494) some [future coelemic cavity lumen](http://purl.obolibrary.org/obo/UBERON_0003886) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [coelemic cavity lumen](http://purl.obolibrary.org/obo/UBERON_0002323) SubClassOf [transformation of](http://purl.obolibrary.org/obo/RO_0002494) some [future coelemic cavity lumen](http://purl.obolibrary.org/obo/UBERON_0003886) - - -### coelom `http://purl.obolibrary.org/obo/UBERON_0011997` -#### Removed -- [coelom](http://purl.obolibrary.org/obo/UBERON_0011997) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "coelomic" - - - -### coelomic epithelium `http://purl.obolibrary.org/obo/UBERON_0005891` -#### Removed -- [coelomic epithelium](http://purl.obolibrary.org/obo/UBERON_0005891) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "EHDAA2:0004049 used to be called 'coelomic epithelium' but is now 'gonadal ridge mesothelium'" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" - - - -### coelomic fluid `http://purl.obolibrary.org/obo/UBERON_0036217` -#### Removed -- [coelomic fluid](http://purl.obolibrary.org/obo/UBERON_0036217) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "he coelomic fluid serves several functions; it acts as a hydroskeleton, it allows free movement and growth of internal organs, it serves for transport of gases, nutrients and waste products between different parts of the body, it allows storage of sperm and eggs during maturation and it acts as a reservoir for waste [Wikipedia:Coelom#Coelomic_fluid]" - - - -### coiled `http://purl.obolibrary.org/obo/PATO_0000404` -#### Removed -- [coiled](http://purl.obolibrary.org/obo/PATO_0000404) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [PATO_0000415](http://purl.obolibrary.org/obo/PATO_0000415) - - - -### collagen alpha-1(I) chain `http://purl.obolibrary.org/obo/PR_000003264` -#### Removed -- [collagen alpha-1(I) chain](http://purl.obolibrary.org/obo/PR_000003264) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [collagen alpha-1(I) chain (human)](http://purl.obolibrary.org/obo/PR_P02452) - - - -### collecting duct of renal tubule `http://purl.obolibrary.org/obo/UBERON_0001232` -#### Removed -- [collecting duct of renal tubule](http://purl.obolibrary.org/obo/UBERON_0001232) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in ISBN:0073040584 (Vertebrates, Kardong), the nephron is adjacent to the collecting tubule, consistent with FMA, but not GO. Wikipedia says: Many sources include the connecting tubule as part of the collecting duct system. However, the embryological origin is more similar to the nephron than it is to the rest of the collecting duct (which derives from the ureteric bud), and other sources therefore classify the connecting tubule with the nephron" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [collecting duct of renal tubule](http://purl.obolibrary.org/obo/UBERON_0001232) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Renal duct that collects the output from renal tubules.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005294" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [collecting duct of renal tubule](http://purl.obolibrary.org/obo/UBERON_0001232) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [nephron](http://purl.obolibrary.org/obo/UBERON_0001285) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "checkme" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO" - -#### Added -- [collecting duct of renal tubule](http://purl.obolibrary.org/obo/UBERON_0001232) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [nephron](http://purl.obolibrary.org/obo/UBERON_0001285) - - -### collection of basal ganglia `http://purl.obolibrary.org/obo/UBERON_0010011` -#### Removed -- [collection of basal ganglia](http://purl.obolibrary.org/obo/UBERON_0010011) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "HBA:4275" - -- [collection of basal ganglia](http://purl.obolibrary.org/obo/UBERON_0010011) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "All nuclei of the mammalian basal ganglia are also present in the oldest vertebrates.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001696" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/j.cub.2011.05.001 Stephenson-Jones M, Samuelsson E, Ericsson J, Robertson B, Grillner S, Evolutionary conservation of the basal ganglia as a common vertebrate mechanism for action selection. Current Biology (2011)" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - -- [collection of basal ganglia](http://purl.obolibrary.org/obo/UBERON_0010011) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "DHBA:10331" - -- [collection of basal ganglia](http://purl.obolibrary.org/obo/UBERON_0010011) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PBA:128012596" - - - -### collection of collagen fibrils `http://purl.obolibrary.org/obo/UBERON_0011860` -#### Removed -- [collection of collagen fibrils](http://purl.obolibrary.org/obo/UBERON_0011860) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "the FMA class specifically refers to ureter" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### colon `http://purl.obolibrary.org/obo/UBERON_0001155` -#### Removed -- [colon](http://purl.obolibrary.org/obo/UBERON_0001155) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "colonic" - -- [colon](http://purl.obolibrary.org/obo/UBERON_0001155) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "it extracts water and salt from solid wastes before they are eliminated from the body[WP]" - -- [colon](http://purl.obolibrary.org/obo/UBERON_0001155) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In mammals, the colon consists of four sections: the ascending colon, the transverse colon, the descending colon, and the sigmoid colon[WP]" - -- [colon](http://purl.obolibrary.org/obo/UBERON_0001155) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The last portion of the digestive system, it extracts water and salt from solid wastes before they are eliminated from the body.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "UBERON:0001155" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010400" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [colon](http://purl.obolibrary.org/obo/UBERON_0001155) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0521617147 Stevens CE and Hume ID, Comparative physiology of the vertebrate digestive system (2004) p.11" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000648" - -- [colon](http://purl.obolibrary.org/obo/UBERON_0001155) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In zebrafish, the posterior intestine has short longitudinally arranged epithelial folds which are similar to the colon of higher vertebrates[ZFIN]" - -- [colon](http://purl.obolibrary.org/obo/UBERON_0001155) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The posterior intestine has short longitudinally arranged epithelial folds which are similar to the colon of higher vertebrates. Wallace et al, 2005.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000706" - -- [colon](http://purl.obolibrary.org/obo/UBERON_0001155) SubClassOf [subdivision of digestive tract](http://purl.obolibrary.org/obo/UBERON_0004921) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "cjm" - - - [order](http://www.geneontology.org/formats/oboInOwl#order) "3" - -#### Added -- [colon](http://purl.obolibrary.org/obo/UBERON_0001155) SubClassOf [subdivision of digestive tract](http://purl.obolibrary.org/obo/UBERON_0004921) - - -### colonic epithelium `http://purl.obolibrary.org/obo/UBERON_0000397` -#### Removed -- [colonic epithelium](http://purl.obolibrary.org/obo/UBERON_0000397) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Intestinal epithelium which lines the lumen of the posterior intestine.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005128" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### common bile duct `http://purl.obolibrary.org/obo/UBERON_0001174` -#### Removed -- [common bile duct](http://purl.obolibrary.org/obo/UBERON_0001174) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Digestive system duct that collects bile from the hepatic bile duct and the cystic duct.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005165" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:Curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [common bile duct](http://purl.obolibrary.org/obo/UBERON_0001174) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The duct formed by the union of the common hepatic and cystic ducts. [Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier, adapted_from_Dorian_AF][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000214" - - - -### common carotid artery plus branches `http://purl.obolibrary.org/obo/UBERON_0001530` -#### Removed -- [common carotid artery plus branches](http://purl.obolibrary.org/obo/UBERON_0001530) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "in birds and reptiles, develops from arch III and parts of ventral and dorsal aortae" - -- [common carotid artery plus branches](http://purl.obolibrary.org/obo/UBERON_0001530) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "This class represents the adult and developing structures'" - - - -### common hepatic duct `http://purl.obolibrary.org/obo/UBERON_0001175` -#### Removed -- [common hepatic duct](http://purl.obolibrary.org/obo/UBERON_0001175) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The duct which conveys the bile from the liver and unites with the cystic duct to form the common bile duct. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000220" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - -- [common hepatic duct](http://purl.obolibrary.org/obo/UBERON_0001175) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future common hepatic duct](http://purl.obolibrary.org/obo/UBERON_0010081) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [common hepatic duct](http://purl.obolibrary.org/obo/UBERON_0001175) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future common hepatic duct](http://purl.obolibrary.org/obo/UBERON_0010081) - - -### common iliac vein `http://purl.obolibrary.org/obo/UBERON_0001139` -#### Removed -- [common iliac vein](http://purl.obolibrary.org/obo/UBERON_0001139) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In human anatomy, the common iliac veins are formed by the external iliac veins and internal iliac veins and together, in the abdomen at the level of the fifth lumbar vertebrae, form the inferior vena cava. They drain blood from the pelvis and lower limbs. Both common iliac veins are accompanied along their course by common iliac arteries." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Common_iliac_vein" - - - -### compact bone tissue `http://purl.obolibrary.org/obo/UBERON_0001439` -#### Removed -- [compact bone tissue](http://purl.obolibrary.org/obo/UBERON_0001439) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D000071538" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### complement component C1q receptor `http://purl.obolibrary.org/obo/PR_000002037` -#### Removed -- [complement component C1q receptor](http://purl.obolibrary.org/obo/PR_000002037) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [complement component C1q receptor (human)](http://purl.obolibrary.org/obo/PR_Q9NPY3) - - - -### complement receptor type 1 `http://purl.obolibrary.org/obo/PR_000001337` -#### Removed -- [complement receptor type 1](http://purl.obolibrary.org/obo/PR_000001337) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [complement receptor type 1 (human)](http://purl.obolibrary.org/obo/PR_P17927) - - - -### complement receptor type 2 `http://purl.obolibrary.org/obo/PR_000001338` -#### Removed -- [complement receptor type 2](http://purl.obolibrary.org/obo/PR_000001338) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [complement receptor type 2 (human)](http://purl.obolibrary.org/obo/PR_P20023) - - - -### component `http://www.geneontology.org/formats/oboInOwl#component` -#### Removed -- AnnotationProperty: [component](http://www.geneontology.org/formats/oboInOwl#component) - - - -### composed primarily of `http://purl.obolibrary.org/obo/RO_0002473` -#### Removed -- [composed primarily of](http://purl.obolibrary.org/obo/RO_0002473) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [composed primarily of](http://purl.obolibrary.org/obo/RO_0002473) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [22293552](http://www.ncbi.nlm.nih.gov/pubmed/22293552) - -- [composed primarily of](http://purl.obolibrary.org/obo/RO_0002473) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [composed primarily of](http://purl.obolibrary.org/obo/RO_0002473) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "composed_primarily_of" - -- [composed primarily of](http://purl.obolibrary.org/obo/RO_0002473) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) - -- [composed primarily of](http://purl.obolibrary.org/obo/RO_0002473) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002473" - -- [composed primarily of](http://purl.obolibrary.org/obo/RO_0002473) [id](http://www.geneontology.org/formats/oboInOwl#id) "composed_primarily_of" - -- [composed primarily of](http://purl.obolibrary.org/obo/RO_0002473) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "'otolith organ' SubClassOf 'composed primarily of' some 'calcium carbonate'" - - - -### composition `http://www.geneontology.org/formats/oboInOwl#composition` -#### Removed -- AnnotationProperty: [composition](http://www.geneontology.org/formats/oboInOwl#composition) - - - -### compound eye `http://purl.obolibrary.org/obo/UBERON_0000018` -#### Removed -- [compound eye](http://purl.obolibrary.org/obo/UBERON_0000018) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The term compound eye is sometimes used for the multi-unit eyes of annelids, bivalves, echinoderms. We follow Richter et al and restrict this class to the arthropod structure for these structures" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:21062451" - -- [compound eye](http://purl.obolibrary.org/obo/UBERON_0000018) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "IDOMAL:0002421" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) - -- [compound eye](http://purl.obolibrary.org/obo/UBERON_0000018) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004508" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### compound organ `http://purl.obolibrary.org/obo/UBERON_0003103` -#### Removed -- [compound organ](http://purl.obolibrary.org/obo/UBERON_0003103) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class was introduced for consistency with CARO. However, in this ontology we typically classify organs directly under 'organ' rather than subdividing into compound and simple organs" - - - -### compound organ component `http://purl.obolibrary.org/obo/UBERON_0000471` -#### Removed -- [compound organ component](http://purl.obolibrary.org/obo/UBERON_0000471) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class was introduced for consistency with CARO, however, it has yet to be used in this or other ontologies. It may be retired in the future" - - - -### concave `http://purl.obolibrary.org/obo/PATO_0001857` -#### Removed -- [concave](http://purl.obolibrary.org/obo/PATO_0001857) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [PATO_0001355](http://purl.obolibrary.org/obo/PATO_0001355) - - - -### concave 3-D shape `http://purl.obolibrary.org/obo/PATO_0002008` -#### Removed -- [concave 3-D shape](http://purl.obolibrary.org/obo/PATO_0002008) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [convex 3-D shape](http://purl.obolibrary.org/obo/PATO_0002007) - - - -### conducting system of heart `http://purl.obolibrary.org/obo/UBERON_0002350` -#### Removed -- [conducting system of heart](http://purl.obolibrary.org/obo/UBERON_0002350) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The fish heart displays clear polarity of contraction in a posterior-to-anterior direction. The contraction waves originate in the sinus venosus and terminate in the conus arteriosus. The nodal phenotype persists in the inflow region of the heart, varying from the venosinus to the sinoatrial junctional areas in different species . Similar to the mammalian situation, pacemaker tissue with a lower intrinsic rhythmicity is also found at the atrioventricular junction.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001271" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1152/physrev.00006.2003 Moorman AFM, Christoffels VM, Cardiac Chamber Formation: Development, Genes, and Evolution. Physiological Reviews (2003)" - - - -### conduit for `http://purl.obolibrary.org/obo/RO_0002570` -#### Removed -- [conduit for](http://purl.obolibrary.org/obo/RO_0002570) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "conduit_for" - -- [conduit for](http://purl.obolibrary.org/obo/RO_0002570) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "This relation holds between a thing with a 'conduit' (e.g. a bone foramen) and a 'conduee' (for example, a nerve) such that at the time the relationship holds, the conduee has two ends sticking out either end of the conduit. It should therefore note be used for objects that move through the conduit but whose spatial extent does not span the passage. For example, it would not be used for a mountain that contains a long tunnel through which trains pass. Nor would we use it for a digestive tract and objects such as food that pass through." - -- [conduit for](http://purl.obolibrary.org/obo/RO_0002570) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [conduit for](http://purl.obolibrary.org/obo/RO_0002570) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "UBERON:cjm" - -- [conduit for](http://purl.obolibrary.org/obo/RO_0002570) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [conduit for](http://purl.obolibrary.org/obo/RO_0002570) [id](http://www.geneontology.org/formats/oboInOwl#id) "conduit_for" - -- [conduit for](http://purl.obolibrary.org/obo/RO_0002570) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002570" - - - -### conjunctiva `http://purl.obolibrary.org/obo/UBERON_0001811` -#### Removed -- [conjunctiva](http://purl.obolibrary.org/obo/UBERON_0001811) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "conjunctival" - -- [conjunctiva](http://purl.obolibrary.org/obo/UBERON_0001811) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:18233" - -#### Added -- [conjunctiva](http://purl.obolibrary.org/obo/UBERON_0001811) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### conjunctival sac `http://purl.obolibrary.org/obo/UBERON_0005908` -#### Removed -- [conjunctival sac](http://purl.obolibrary.org/obo/UBERON_0005908) SubClassOf [adjacent to](http://purl.obolibrary.org/obo/RO_0002220) some [anterior segment of eyeball](http://purl.obolibrary.org/obo/UBERON_0001801) - - [modified_from](http://www.geneontology.org/formats/oboInOwl#modified_from) "MA" - -#### Added -- [conjunctival sac](http://purl.obolibrary.org/obo/UBERON_0005908) SubClassOf [adjacent to](http://purl.obolibrary.org/obo/RO_0002220) some [anterior segment of eyeball](http://purl.obolibrary.org/obo/UBERON_0001801) - -- [conjunctival sac](http://purl.obolibrary.org/obo/UBERON_0005908) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### conjunctival vein `http://purl.obolibrary.org/obo/UBERON_0010367` -#### Removed -- [conjunctival vein](http://purl.obolibrary.org/obo/UBERON_0010367) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:70887" - -#### Added -- [conjunctival vein](http://purl.obolibrary.org/obo/UBERON_0010367) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### connected to `http://purl.obolibrary.org/obo/RO_0002170` -#### Removed -- [connected to](http://purl.obolibrary.org/obo/RO_0002170) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [22293552](http://www.ncbi.nlm.nih.gov/pubmed/22293552) - -- [connected to](http://purl.obolibrary.org/obo/RO_0002170) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002170" - -- [connected to](http://purl.obolibrary.org/obo/RO_0002170) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "a 'toe distal phalanx bone' that is connected to a 'toe medial phalanx bone' (an interphalangeal joint *connects* these two bones)." - -- [connected to](http://purl.obolibrary.org/obo/RO_0002170) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [connected to](http://purl.obolibrary.org/obo/RO_0002170) [label](http://www.w3.org/2000/01/rdf-schema#label) "connected to" - -- [connected to](http://purl.obolibrary.org/obo/RO_0002170) [id](http://www.geneontology.org/formats/oboInOwl#id) "connected_to" - -- [connected to](http://purl.obolibrary.org/obo/RO_0002170) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "connected_to" - - - -### connecting branch of `http://purl.obolibrary.org/obo/RO_0002252` -#### Removed -- [connecting branch of](http://purl.obolibrary.org/obo/RO_0002252) [id](http://www.geneontology.org/formats/oboInOwl#id) "connecting_branch_of" - -- [connecting branch of](http://purl.obolibrary.org/obo/RO_0002252) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [connecting branch of](http://purl.obolibrary.org/obo/RO_0002252) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002252" - -- [connecting branch of](http://purl.obolibrary.org/obo/RO_0002252) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "connecting_branch_of" - -- [connecting branch of](http://purl.obolibrary.org/obo/RO_0002252) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "In the tree T depicted in https://oborel.github.io/obo-relations/branching_part_of.png, B1 is connecting branch of S, and B1-1 as a connecting branch of B1." - -- [connecting branch of](http://purl.obolibrary.org/obo/RO_0002252) [RO_0004036](http://purl.obolibrary.org/obo/RO_0004036) [part_of](http://purl.obolibrary.org/obo/BFO_0000050) - - - -### connecting stalk blood islands `http://purl.obolibrary.org/obo/UBERON_0011921` -#### Removed -- [connecting stalk blood islands](http://purl.obolibrary.org/obo/UBERON_0011921) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in EHDAA2 gives rise to connecting stalk blood vessels and extraembryonic umbilical vessels" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" - - - -### connecting stalk mesoderm `http://purl.obolibrary.org/obo/UBERON_0005667` -#### Removed -- [connecting stalk mesoderm](http://purl.obolibrary.org/obo/UBERON_0005667) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - - -### connective tissue `http://purl.obolibrary.org/obo/UBERON_0002384` -#### Removed -- [connective tissue](http://purl.obolibrary.org/obo/UBERON_0002384) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of tissue that consists of mesodermally derived cells and intercellular matrix comprised of protein fibers and carbohydrates, which supports, ensheathes and binds together other tissues.[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001641" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" - -- [connective tissue](http://purl.obolibrary.org/obo/UBERON_0002384) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Tissue with cells that deposit non-polarized extracellular matrix including connective tissue fibers and ground substance.[VSAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000017" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - -- [connective tissue](http://purl.obolibrary.org/obo/UBERON_0002384) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of the four types of tissue in traditional classifications. It is largely a category of exclusion rather than one with a precise definition, but there are certain characteristics shared by all or most tissues in this category, such as involvement in structure and support, derived from mesoderm, and characterized largely by the traits of non-living tissue.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000098" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [connective tissue](http://purl.obolibrary.org/obo/UBERON_0002384) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MA also has set of connective tissues" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - - - -### connective tissue of prostate gland `http://purl.obolibrary.org/obo/UBERON_0015130` - -#### Added -- [connective tissue of prostate gland](http://purl.obolibrary.org/obo/UBERON_0015130) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) - - -### connects `http://purl.obolibrary.org/obo/RO_0002176` -#### Removed -- [connects](http://purl.obolibrary.org/obo/RO_0002176) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [22293552](http://www.ncbi.nlm.nih.gov/pubmed/22293552) - -- [connects](http://purl.obolibrary.org/obo/RO_0002176) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002176" - -- [connects](http://purl.obolibrary.org/obo/RO_0002176) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [connects](http://purl.obolibrary.org/obo/RO_0002176) [id](http://www.geneontology.org/formats/oboInOwl#id) "connects" - -- [connects](http://purl.obolibrary.org/obo/RO_0002176) [label](http://www.w3.org/2000/01/rdf-schema#label) "connects" - -- [connects](http://purl.obolibrary.org/obo/RO_0002176) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "connects" - -- [connects](http://purl.obolibrary.org/obo/RO_0002176) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "The M8 connects Glasgow and Edinburgh" - -- [connects](http://purl.obolibrary.org/obo/RO_0002176) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "a 'toe distal phalanx bone' that is connected to a 'toe medial phalanx bone' (an interphalangeal joint *connects* these two bones)." - - - -### consistent_with `http://www.geneontology.org/formats/oboInOwl#consistent_with` -#### Removed -- AnnotationProperty: [consistent_with](http://www.geneontology.org/formats/oboInOwl#consistent_with) - - - -### contains process `http://purl.obolibrary.org/obo/BFO_0000067` -#### Removed -- [contains process](http://purl.obolibrary.org/obo/BFO_0000067) [isDefinedBy](http://www.w3.org/2000/01/rdf-schema#isDefinedBy) [bfo.owl](http://purl.obolibrary.org/obo/bfo.owl) - -- [contains process](http://purl.obolibrary.org/obo/BFO_0000067) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "site of"@en - -- [contains process](http://purl.obolibrary.org/obo/BFO_0000067) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "contains_process" - -- [contains process](http://purl.obolibrary.org/obo/BFO_0000067) [label](http://www.w3.org/2000/01/rdf-schema#label) "contains process" - -- [contains process](http://purl.obolibrary.org/obo/BFO_0000067) [id](http://www.geneontology.org/formats/oboInOwl#id) "contains_process" - -- [contains process](http://purl.obolibrary.org/obo/BFO_0000067) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [contains process](http://purl.obolibrary.org/obo/BFO_0000067) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BFO:0000067" - - - -### continuous with `http://purl.obolibrary.org/obo/RO_0002150` -#### Removed -- [continuous with](http://purl.obolibrary.org/obo/RO_0002150) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "The label for this relation was previously connected to. I relabeled this to "continuous with". The standard notion of connectedness does not imply shared boundaries - e.g. Glasgow connected_to Edinburgh via M8; my patella connected_to my femur (via patellar-femoral joint)" - -- [continuous with](http://purl.obolibrary.org/obo/RO_0002150) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [continuous with](http://purl.obolibrary.org/obo/RO_0002150) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "connected to" - -- [continuous with](http://purl.obolibrary.org/obo/RO_0002150) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) - -- [continuous with](http://purl.obolibrary.org/obo/RO_0002150) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [continuous with](http://purl.obolibrary.org/obo/RO_0002150) [id](http://www.geneontology.org/formats/oboInOwl#id) "continuous_with" - -- [continuous with](http://purl.obolibrary.org/obo/RO_0002150) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) - -- [continuous with](http://purl.obolibrary.org/obo/RO_0002150) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002150" - -- [continuous with](http://purl.obolibrary.org/obo/RO_0002150) [label](http://www.w3.org/2000/01/rdf-schema#label) "continuous with" - -- [continuous with](http://purl.obolibrary.org/obo/RO_0002150) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "continuous_with" - - - -### contractile `http://purl.obolibrary.org/obo/PATO_0001690` -#### Removed -- [contractile](http://purl.obolibrary.org/obo/PATO_0001690) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [PATO_0001691](http://purl.obolibrary.org/obo/PATO_0001691) - - - -### contradicted_by `http://www.geneontology.org/formats/oboInOwl#contradicted_by` -#### Removed -- AnnotationProperty: [contradicted_by](http://www.geneontology.org/formats/oboInOwl#contradicted_by) - - - -### contributes to morphology of `http://purl.obolibrary.org/obo/RO_0002433` -#### Removed -- [contributes to morphology of](http://purl.obolibrary.org/obo/RO_0002433) [id](http://www.geneontology.org/formats/oboInOwl#id) "contributes_to_morphology_of" - -- [contributes to morphology of](http://purl.obolibrary.org/obo/RO_0002433) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002433" - -- [contributes to morphology of](http://purl.obolibrary.org/obo/RO_0002433) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [contributes to morphology of](http://purl.obolibrary.org/obo/RO_0002433) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "contributes_to_morphology_of" - -- [contributes to morphology of](http://purl.obolibrary.org/obo/RO_0002433) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### contributor `http://purl.org/dc/terms/contributor` -#### Removed -- [contributor](http://purl.org/dc/terms/contributor) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "http://purl.org/dc/terms/contributor" - -- [contributor](http://purl.org/dc/terms/contributor) [label](http://www.w3.org/2000/01/rdf-schema#label) "contributor" - -- [contributor](http://purl.org/dc/terms/contributor) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "dc-contributor" - -- [contributor](http://purl.org/dc/terms/contributor) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [contributor](http://purl.org/dc/terms/contributor) [id](http://www.geneontology.org/formats/oboInOwl#id) "dc-contributor" - -- [contributor](http://purl.org/dc/terms/contributor) [is_metadata_tag](http://www.geneontology.org/formats/oboInOwl#is_metadata_tag) true - - - -### conus arteriosus `http://purl.obolibrary.org/obo/UBERON_0003983` -#### Removed -- [conus arteriosus](http://purl.obolibrary.org/obo/UBERON_0003983) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Kardong says absent in adult tetrapods, check AAO" - -- [conus arteriosus](http://purl.obolibrary.org/obo/UBERON_0003983) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Receives blood from the left atrium and becomes the median truncus arteriosus.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010250" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [conus arteriosus](http://purl.obolibrary.org/obo/UBERON_0003983) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "we use the term CA for the anterior chamber if it is composed of cardiac muscle, contractile, and contains conal valves internally" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0073040584" - - - -### convex 3-D shape `http://purl.obolibrary.org/obo/PATO_0002007` -#### Removed -- [convex 3-D shape](http://purl.obolibrary.org/obo/PATO_0002007) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [concave 3-D shape](http://purl.obolibrary.org/obo/PATO_0002008) - - - -### cornea `http://purl.obolibrary.org/obo/UBERON_0000964` -#### Removed -- [cornea](http://purl.obolibrary.org/obo/UBERON_0000964) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "corneal" - -- [cornea](http://purl.obolibrary.org/obo/UBERON_0000964) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Compared to terrestial animals, the cornea of zebrafish is relatively flat. It consists of nonpigmented, stratified squamous nonkeratinizing epithelial cells, attached to a thick basement membrane that is considered to be analogous to the Bowman's membrane in mammals. In fish, and aquatic vertebrates in general, the cornea plays no role in focusing light, since it has virtually the same refractive index as water" - -- [cornea](http://purl.obolibrary.org/obo/UBERON_0000964) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [optic eminence](http://purl.obolibrary.org/obo/UBERON_0004348) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [cornea](http://purl.obolibrary.org/obo/UBERON_0000964) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [optic eminence](http://purl.obolibrary.org/obo/UBERON_0004348) - - -### corneal blood vessel `http://purl.obolibrary.org/obo/UBERON_0003500` - -#### Added -- [corneal blood vessel](http://purl.obolibrary.org/obo/UBERON_0003500) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### corneal endothelium `http://purl.obolibrary.org/obo/UBERON_0001985` -#### Removed -- [corneal endothelium](http://purl.obolibrary.org/obo/UBERON_0001985) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - - -### corneal epithelium `http://purl.obolibrary.org/obo/UBERON_0001772` -#### Removed -- [corneal epithelium](http://purl.obolibrary.org/obo/UBERON_0001772) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In Humans: It consists of several layers of cells. The cells of the deepest layer are columnar; then follow two or three layers of polyhedral cells, the majority of which are prickle cells similar to those found in the stratum mucosum of the cuticle. Lastly, there are three or four layers of squamous cells, with flattened nuclei" - -- [corneal epithelium](http://purl.obolibrary.org/obo/UBERON_0001772) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of tissue comprised of four to six layers of nonkeratinized, stratified squamous cells and represents approximately 60% of the thickness of the cornea.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:ZDB-PUB-061010-3" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002187" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [corneal epithelium](http://purl.obolibrary.org/obo/UBERON_0001772) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In zebrafish: nonpigmented, stratified squamous nonkeratinizing epithelial cells, attached to a thick basement membrane that is considered to be analogous to the Bowman's membrane in mammals" - -#### Added -- [corneal epithelium](http://purl.obolibrary.org/obo/UBERON_0001772) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### corneal primordium `http://purl.obolibrary.org/obo/UBERON_0005427` - -#### Added -- [corneal primordium](http://purl.obolibrary.org/obo/UBERON_0005427) SubClassOf [immature eye](http://purl.obolibrary.org/obo/UBERON_0010312) - - -### corneal stroma collagen fibril `http://purl.obolibrary.org/obo/UBERON_0011865` - -#### Added -- [corneal stroma collagen fibril](http://purl.obolibrary.org/obo/UBERON_0011865) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### corneo-scleral junction `http://purl.obolibrary.org/obo/UBERON_0006761` - -#### Added -- [corneo-scleral junction](http://purl.obolibrary.org/obo/UBERON_0006761) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### coronary vessel `http://purl.obolibrary.org/obo/UBERON_0005985` - -#### Added -- [coronary vessel](http://purl.obolibrary.org/obo/UBERON_0005985) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### corpus luteum `http://purl.obolibrary.org/obo/UBERON_0002512` -#### Removed -- [corpus luteum](http://purl.obolibrary.org/obo/UBERON_0002512) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "maintains the endometrium in mammals[WP]. A corpus luteum is known in hagfish (100), Squalus (101), and salamander (100) but not lamprey (102). There are no data for Branchiostoma and Ciona, and given that they are multiple spawners, there is no a priori reason to conclude that they lack a corpus luteum" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:20959416" - -- [corpus luteum](http://purl.obolibrary.org/obo/UBERON_0002512) SubClassOf [female reproductive organ](http://purl.obolibrary.org/obo/UBERON_0003134) - - - -### corpus striatum `http://purl.obolibrary.org/obo/UBERON_0000369` -#### Removed -- [corpus striatum](http://purl.obolibrary.org/obo/UBERON_0000369) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Thus, certain telencephalic characters - such as the presence of a pallium divided into lateral, dorsal, and medial formations and a subpallium divided into striatum and septum - appear to characterize all vertebrates. They are primitive characters and are homologous among all vertebrates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1146/annurev.ne.04.030181.001505, ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.487 Figure 14-10" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001175" - -- [corpus striatum](http://purl.obolibrary.org/obo/UBERON_0000369) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "The term has been used in a few different ways: * It is a pair of nuclear masses which form the basal ganglia, along with the subthalamic nucleus and the substantia nigra. * It may also refer to both the basal ganglia and internal capsule collectively.[2]" - - - -### cortex `http://purl.obolibrary.org/obo/UBERON_0001851` -#### Removed -- [cortex](http://purl.obolibrary.org/obo/UBERON_0001851) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "cortical" - -- [cortex](http://purl.obolibrary.org/obo/UBERON_0001851) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "this class is used more generically than in FMA, and includes e.g. cortex of hair" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### cortex of hair `http://purl.obolibrary.org/obo/UBERON_0002077` - -#### Added -- [cortex of hair](http://purl.obolibrary.org/obo/UBERON_0002077) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### cortex of humerus `http://purl.obolibrary.org/obo/UBERON_0004109` - -#### Added -- [cortex of humerus](http://purl.obolibrary.org/obo/UBERON_0004109) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### cortex of kidney `http://purl.obolibrary.org/obo/UBERON_0001225` -#### Removed -- [cortex of kidney](http://purl.obolibrary.org/obo/UBERON_0001225) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "In the adult metanephros, it forms a continuous smooth outer zone with a number of projections that extend down between the pyramids. It contains the renal corpuscles and the renal tubules except for parts of the loop of Henle which descend into the renal medulla. It also contains blood vessels and cortical collecting ducts. The renal cortex is the part of the kidney where ultrafiltration occurs.[WP]" - - - -### cortex of thymus `http://purl.obolibrary.org/obo/UBERON_0002123` -#### Removed -- [cortex of thymus](http://purl.obolibrary.org/obo/UBERON_0002123) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "Histologically, the thymus can be divided into a central medulla and a peripheral cortex which is surrounded by an outer capsule. The cortex and medulla play different roles in the development of T cells. Cells in the thymus can be divided into thymic stromal cells and cells of hematopoietic origin[WP]" - -#### Added -- [cortex of thymus](http://purl.obolibrary.org/obo/UBERON_0002123) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) - - -### cortical layer IV `http://purl.obolibrary.org/obo/UBERON_0005393` -#### Removed -- [cortical layer IV](http://purl.obolibrary.org/obo/UBERON_0005393) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "..." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:23027930" - -- [cortical layer IV](http://purl.obolibrary.org/obo/UBERON_0005393) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Relatively undeveloped in some mammals such as the tenrec." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0471888893" - - - -### cortical plate `http://purl.obolibrary.org/obo/UBERON_0005343` -#### Removed -- [cortical plate](http://purl.obolibrary.org/obo/UBERON_0005343) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "A single stem cell in the ventricular layer can give rise to neurons (and glial cells) in any of the cortical layers (Walsh and Cepko 1988)[NCBIBook:NBK10047]" - -- [cortical plate](http://purl.obolibrary.org/obo/UBERON_0005343) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "in humans develops into cortical layers II-VI" - -- [cortical plate](http://purl.obolibrary.org/obo/UBERON_0005343) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D002540" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### cortical subplate `http://purl.obolibrary.org/obo/UBERON_0004035` -#### Removed -- [cortical subplate](http://purl.obolibrary.org/obo/UBERON_0004035) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The transient fetal subplate zone, together with the marginal zone and the cortical plate, represents the developmental anlage of the mammalian cerebral cortex. It serves as a waiting compartment for growing cortical afferents; its cells are involved in the establishment of pioneering cortical efferent projections and transient fetal circuitry, and apparently have a number of other developmental roles. The subplate zone is a phylogenetically recent structure and it is most developed in the human brain. Subplate neurons are among the first generated neurons in the mammalian cerebral cortex [1]. These neurons disappear during postnatal development and are important in establishing the correct wiring [2][3] and functional maturation [4] of the cerebral cortex. Subplate neurons appear to be selectively sensitive to injury (such as hypoxia) which in humans are associated with motor and cognitive defects" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" - -- [cortical subplate](http://purl.obolibrary.org/obo/UBERON_0004035) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VO:0011276" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) - - - -### corticospinal tract `http://purl.obolibrary.org/obo/UBERON_0002707` -#### Removed -- [corticospinal tract](http://purl.obolibrary.org/obo/UBERON_0002707) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0006132" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) - -- [corticospinal tract](http://purl.obolibrary.org/obo/UBERON_0002707) SubClassOf [axon tract](http://purl.obolibrary.org/obo/UBERON_0001018) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "In NIFSTD this is a tract of brain but this leads to issues due to its overlap with the spinal cord" - -#### Added -- [corticospinal tract](http://purl.obolibrary.org/obo/UBERON_0002707) SubClassOf [axon tract](http://purl.obolibrary.org/obo/UBERON_0001018) - - -### costal diaphragm `http://purl.obolibrary.org/obo/UBERON_0035831` -#### Removed -- [costal diaphragm](http://purl.obolibrary.org/obo/UBERON_0035831) [id](http://www.geneontology.org/formats/oboInOwl#id) "UBERON:0035831" - -- [costal diaphragm](http://purl.obolibrary.org/obo/UBERON_0035831) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:58277" - -- [costal diaphragm](http://purl.obolibrary.org/obo/UBERON_0035831) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The domain of the diaphragm that is a thin domed sheet of muscle composed of a radial array of myofibers extending laterally from the ribs and medially to a central tendon." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:23586979" - -- [costal diaphragm](http://purl.obolibrary.org/obo/UBERON_0035831) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "SCTID:368048007" - -- [costal diaphragm](http://purl.obolibrary.org/obo/UBERON_0035831) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [costal diaphragm](http://purl.obolibrary.org/obo/UBERON_0035831) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "pars costalis diaphragmatis" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [OMO_0003011](http://purl.obolibrary.org/obo/OMO_0003011) - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:TA" - -- [costal diaphragm](http://purl.obolibrary.org/obo/UBERON_0035831) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "costal part of diaphragm" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:58277" - -- [costal diaphragm](http://purl.obolibrary.org/obo/UBERON_0035831) [label](http://www.w3.org/2000/01/rdf-schema#label) "costal diaphragm" - -- Class: [costal diaphragm](http://purl.obolibrary.org/obo/UBERON_0035831) - -- [costal diaphragm](http://purl.obolibrary.org/obo/UBERON_0035831) SubClassOf [in lateral side of](http://purl.obolibrary.org/obo/BSPO_0000126) some [diaphragm](http://purl.obolibrary.org/obo/UBERON_0001103) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:23586979" - -- [costal diaphragm](http://purl.obolibrary.org/obo/UBERON_0035831) SubClassOf [organ subunit](http://purl.obolibrary.org/obo/UBERON_0000063) - -- [costal diaphragm](http://purl.obolibrary.org/obo/UBERON_0035831) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [diaphragm](http://purl.obolibrary.org/obo/UBERON_0001103) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:23586979" - -- [costal diaphragm](http://purl.obolibrary.org/obo/UBERON_0035831) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - -- [costal diaphragm](http://purl.obolibrary.org/obo/UBERON_0035831) SubClassOf [attached to](http://purl.obolibrary.org/obo/RO_0002371) some [central tendon of diaphragm](http://purl.obolibrary.org/obo/UBERON_0006670) - - - -### cranial blood vasculature `http://purl.obolibrary.org/obo/UBERON_0011362` -#### Removed -- [cranial blood vasculature](http://purl.obolibrary.org/obo/UBERON_0011362) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Blood vessel part of cranial vasculature.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005297" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### cranial bone `http://purl.obolibrary.org/obo/UBERON_0004766` -#### Removed -- [cranial bone](http://purl.obolibrary.org/obo/UBERON_0004766) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "here cranium = skull - mandible" - - - -### cranial cartilage `http://purl.obolibrary.org/obo/UBERON_0003933` -#### Removed -- [cranial cartilage](http://purl.obolibrary.org/obo/UBERON_0003933) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cartilage which is part of the cranium.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001458" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### cranial ganglion `http://purl.obolibrary.org/obo/UBERON_0001714` -#### Removed -- [cranial ganglion](http://purl.obolibrary.org/obo/UBERON_0001714) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Ganglion which is located in the head.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000013" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### cranial nerve `http://purl.obolibrary.org/obo/UBERON_0001785` -#### Removed -- [cranial nerve](http://purl.obolibrary.org/obo/UBERON_0001785) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "See https://github.com/obophenotype/mouse-anatomy-ontology/issues/6" - -- [cranial nerve](http://purl.obolibrary.org/obo/UBERON_0001785) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Twelve pairs of cranial nerves exit/enter the cranium through openings in the skull. The nerves contain efferent axons with motor and glandular functions, as well as afferent axons from cranial ganglia with sensory functions. The nerves are numbered in a rostral to caudal sequence, with the exception of the lateral line nerves.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000641" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [cranial nerve](http://purl.obolibrary.org/obo/UBERON_0001785) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (5) cranial nerves (...).[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000279" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43" - -- [cranial nerve](http://purl.obolibrary.org/obo/UBERON_0001785) SubClassOf [nerve](http://purl.obolibrary.org/obo/UBERON_0001021) - -#### Added -- [cranial nerve](http://purl.obolibrary.org/obo/UBERON_0001785) SubClassOf [nerve of head region](http://purl.obolibrary.org/obo/UBERON_0011779) - - -### cranial nerve II `http://purl.obolibrary.org/obo/UBERON_0000941` -#### Removed -- [cranial nerve II](http://purl.obolibrary.org/obo/UBERON_0000941) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup (reference 1); The (optic) stalk persists as the optic nerve (reference 2).[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000543" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429, http://medical-dictionary.thefreedictionary.com/optic+stalk" - -- [cranial nerve II](http://purl.obolibrary.org/obo/UBERON_0000941) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A collection of nerve cells that project visual information from the eyes to the brain. (Source: BioGlossary, www.Biology-Text.com)[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000435" - -- [cranial nerve II](http://purl.obolibrary.org/obo/UBERON_0000941) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "(relaion to eye): MA, XAO, AAO and BTO consider this part of the eye. This is in contrast to GO, FMA, EHDAA2 (FMA has a class 'intra-ocular part of optic nerve' which represents the region of overlap). Relation to brain: part of diencephalon in EHDAA2, ZFA. In NIF, has the optic nerve root as part, which is a feature part of the diencphalon" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - -- [cranial nerve II](http://purl.obolibrary.org/obo/UBERON_0000941) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Fibrous, somatic sensory element covered by a fibrous connective-tissue sheath and is continuous with the layer of nerve cells on the inner surface of the eye.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010345" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [cranial nerve II](http://purl.obolibrary.org/obo/UBERON_0000941) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - - -### cranial neural crest `http://purl.obolibrary.org/obo/UBERON_0003099` -#### Removed -- [cranial neural crest](http://purl.obolibrary.org/obo/UBERON_0003099) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anterior most portion of the neural crest. Migrates in three highly conserved streams: mandibular, hyoid and branchial.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010580" - -- [cranial neural crest](http://purl.obolibrary.org/obo/UBERON_0003099) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Neural crest that is part of the head.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001194" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [cranial neural crest](http://purl.obolibrary.org/obo/UBERON_0003099) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000063" - -#### Added -- [cranial neural crest](http://purl.obolibrary.org/obo/UBERON_0003099) SubClassOf [structure with developmental contribution from neural crest](http://purl.obolibrary.org/obo/UBERON_0010314) - -- [cranial neural crest](http://purl.obolibrary.org/obo/UBERON_0003099) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### cranial or facial muscle `http://purl.obolibrary.org/obo/UBERON_0015789` -#### Removed -- [cranial or facial muscle](http://purl.obolibrary.org/obo/UBERON_0015789) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "see also, 'facial nerve muscle', which is not precisely equivalent. We include this grouping to accomodate the MA class, which includes masticatory muscle as a subtype; note the masticatory muscle is noy innervated by the facial nerve, unlike the facial muscles proper" - - - -### cranial placode `http://purl.obolibrary.org/obo/UBERON_0002546` -#### Removed -- [cranial placode](http://purl.obolibrary.org/obo/UBERON_0002546) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:293966" - -- [cranial placode](http://purl.obolibrary.org/obo/UBERON_0002546) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "The term placode or placodes also applies to developing organs such as teeth, mammary glands, hair follicles, feathers and scales. We include a separate parent class for this. to avoid confusion, we include neurogenic placode as a subclass" - -- [cranial placode](http://purl.obolibrary.org/obo/UBERON_0002546) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Comparisons of developmental gene expression suggest that the anterior ectoderm in amphioxus may be homologous to the vertebrate olfactory placode, the only vertebrate placode with primary, not secondary, neurons" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:11523831" - - - -### cranial skeletal system `http://purl.obolibrary.org/obo/UBERON_0010323` -#### Removed -- [cranial skeletal system](http://purl.obolibrary.org/obo/UBERON_0010323) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Skeletal system which is part of the skull, including the splanchnocranium, chondrocranium, and dermatocranium.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000737" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [cranial skeletal system](http://purl.obolibrary.org/obo/UBERON_0010323) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "that the cranial skeleton includes the pharyngeal arch skeleton. It is thus more inclusive that the cranium itself, and extends beyond the head in tetrapods. The AAO class called 'skull' belongs here, as it includes the whole splanchnocranium" - -- [cranial skeletal system](http://purl.obolibrary.org/obo/UBERON_0010323) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Bony structure that encases the central nervous system and the primary sense organs of sight, olfaction, hearing, and equilibrium.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000109" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - -### cranial suture `http://purl.obolibrary.org/obo/UBERON_0003685` -#### Removed -- [cranial suture](http://purl.obolibrary.org/obo/UBERON_0003685) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_71385](http://purl.obolibrary.org/obo/FMA_71385) - - - -### craniocervical region musculature `http://purl.obolibrary.org/obo/UBERON_0008229` -#### Removed -- [craniocervical region musculature](http://purl.obolibrary.org/obo/UBERON_0008229) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in MA this is restricted to skeletal muscles" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - - - -### cranium `http://purl.obolibrary.org/obo/UBERON_0003128` -#### Removed -- [cranium](http://purl.obolibrary.org/obo/UBERON_0003128) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D012886" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -- [cranium](http://purl.obolibrary.org/obo/UBERON_0003128) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "The term cranium can be ambiguous, in that it can refer to the neurocranium, or the neurocranium and the Facial skeleton" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" - -- [cranium](http://purl.obolibrary.org/obo/UBERON_0003128) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17680" - -- [cranium](http://purl.obolibrary.org/obo/UBERON_0003128) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "cranial" - -- [cranium](http://purl.obolibrary.org/obo/UBERON_0003128) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "the inclusion of the FMA class here is probably not quite correct, as this class includes as parts sutures, whereas this is not part of the bones of the cranium" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [cranium](http://purl.obolibrary.org/obo/UBERON_0003128) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [skeleton of lower jaw](http://purl.obolibrary.org/obo/UBERON_0003278) - - - -### created `http://purl.org/dc/terms/created` -#### Removed -- AnnotationProperty: [created](http://purl.org/dc/terms/created) - - - -### creator `http://purl.org/dc/terms/creator` -#### Removed -- AnnotationProperty: [creator](http://purl.org/dc/terms/creator) - - - -### creator `http://purl.org/dc/elements/1.1/creator` -#### Removed -- [creator](http://purl.org/dc/elements/1.1/creator) [id](http://www.geneontology.org/formats/oboInOwl#id) "dc-creator" - -- [creator](http://purl.org/dc/elements/1.1/creator) [is_metadata_tag](http://www.geneontology.org/formats/oboInOwl#is_metadata_tag) true - -- [creator](http://purl.org/dc/elements/1.1/creator) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "dc-creator" - -- [creator](http://purl.org/dc/elements/1.1/creator) [label](http://www.w3.org/2000/01/rdf-schema#label) "creator" - -- [creator](http://purl.org/dc/elements/1.1/creator) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "http://purl.org/dc/elements/1.1/creator" - -- [creator](http://purl.org/dc/elements/1.1/creator) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - - - -### crista ampullaris `http://purl.obolibrary.org/obo/UBERON_0004721` - -#### Added -- [crista ampullaris](http://purl.obolibrary.org/obo/UBERON_0004721) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### crista terminalis `http://purl.obolibrary.org/obo/UBERON_0005979` - -#### Added -- [crista terminalis](http://purl.obolibrary.org/obo/UBERON_0005979) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### crossSpeciesExactMatch `https://w3id.org/semapv/vocab/crossSpeciesExactMatch` -#### Removed -- AnnotationProperty: [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) - - - -### crurotarsal joint `http://purl.obolibrary.org/obo/UBERON_0011980` -#### Removed -- [crurotarsal joint](http://purl.obolibrary.org/obo/UBERON_0011980) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "an ankle joint that passes between the astragalus and calcaneum[Palaeos]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://palaeos.com/vertebrates/glossary/glossaryCr.html#Crurotarsal%20joint" - - - -### crus of diaphragm `http://purl.obolibrary.org/obo/UBERON_0014765` -#### Removed -- [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Wikipedia:Crus_of_diaphragm" - -- [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "diaphragmatic crura" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Wikipedia:Crus_of_diaphragm" - -- [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17703" - -- [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "crus of the diaphragm" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Wikipedia:Crus_of_diaphragm" - -- [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "diaphragm crura" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [plural form](http://purl.obolibrary.org/obo/OMO_0003004) - -- [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "SCTID:244668003" - -- [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "crural diaphragm" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:23586979" - -- [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The domain of the diaphragm that is located dorsally and attaches to the vertebrae and surrounds the esophagus and aorta." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:23586979" - -- [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EHDAA2:0000597" - -- [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VHOG:0001546" - -- [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Classification notes: May be considered an external sphincter[PMID:8224664]" - -- [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) [id](http://www.geneontology.org/formats/oboInOwl#id) "UBERON:0014765" - -- [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) [label](http://www.w3.org/2000/01/rdf-schema#label) "crus of diaphragm" - -- [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "crura of the diaphragm" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Wikipedia:Crus_of_diaphragm" - -- Class: [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) - -- [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) SubClassOf [intersects midsagittal plane of](http://purl.obolibrary.org/obo/BSPO_0005001) some [diaphragm](http://purl.obolibrary.org/obo/UBERON_0001103) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:23586979" - -- [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) SubClassOf [organ subunit](http://purl.obolibrary.org/obo/UBERON_0000063) - -- [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [diaphragm](http://purl.obolibrary.org/obo/UBERON_0001103) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:23586979" - -- [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) SubClassOf [attached to](http://purl.obolibrary.org/obo/RO_0002371) some [central tendon of diaphragm](http://purl.obolibrary.org/obo/UBERON_0006670) - -- [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) SubClassOf [attached to](http://purl.obolibrary.org/obo/RO_0002371) some [vertebral column](http://purl.obolibrary.org/obo/UBERON_0001130) - - - -### crypt of Lieberkuhn `http://purl.obolibrary.org/obo/UBERON_0001983` -#### Removed -- [crypt of Lieberkuhn](http://purl.obolibrary.org/obo/UBERON_0001983) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "In histology, an intestinal crypt, also crypt of LieberkC<hn and intestinal gland, is a gland found in the epithelial lining of the small intestine and colon. The crypts secrete various enzymes, including sucrase and maltase, along with endopeptidases and exopeptidases. Also new epithelium is formed here, keeping in mind that the epithelium at this site is frequently worn away by the passing food. Loss of proliferation control in the crypts is thought to lead to colorectal cancer. The basal portion of the Crypt contains multipotent stem cells. At each mitosis one daughter remains a stem cell while the other differentiates and migrates up the side of the crypt and eventually the villus. Goblet cells are among the cells produced in this fashion[Wikipedia:Intestinal_crypt]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Intestinal_crypt" - -- [crypt of Lieberkuhn](http://purl.obolibrary.org/obo/UBERON_0001983) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Most fish lack intestinal glands that extend into the mucosa, Gadidae (Jacobshagen 1937) and Macrouridae (Geisterdoerfer 1973( have glands at the base of surface folds throughout intestine - these have been called crypts, but cell types are the same as for surface epithelium. Crypts have been described in salamander midguts (Reeder 1964) some reptiles (Luppa 1977) and some birds (Ziswiler and Farner 1972). Reptile crypts are less developed than birds and mammals, with epithelium similar to the surface. Avian crypts vary from those with absorprive and goblet cells to those that have cells with basophilic granules" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:9780521617147" - -- [crypt of Lieberkuhn](http://purl.obolibrary.org/obo/UBERON_0001983) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Tetrapoda](http://purl.obolibrary.org/obo/NCBITaxon_32523) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:9780521617147" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "further investigation required" - -#### Added -- [crypt of Lieberkuhn](http://purl.obolibrary.org/obo/UBERON_0001983) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Tetrapoda](http://purl.obolibrary.org/obo/NCBITaxon_32523) - - -### cuboidal epithelium `http://purl.obolibrary.org/obo/UBERON_0010077` -#### Removed -- [cuboidal epithelium](http://purl.obolibrary.org/obo/UBERON_0010077) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in NCIT this is glandular" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "NCIT" - - - -### curation status specification `http://purl.obolibrary.org/obo/IAO_0000078` -#### Removed -- [curation status specification](http://purl.obolibrary.org/obo/IAO_0000078) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "curation status specification"@en - -- [curation status specification](http://purl.obolibrary.org/obo/IAO_0000078) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [curation status specification](http://purl.obolibrary.org/obo/IAO_0000078) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "GROUP:OBI:<http://purl.obolibrary.org/obo/obi>"@en - -- [curation status specification](http://purl.obolibrary.org/obo/IAO_0000078) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "PERSON:Bill Bug"@en - -- [curation status specification](http://purl.obolibrary.org/obo/IAO_0000078) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "OBI_0000266"@en - - - -### cutaneous elastic tissue `http://purl.obolibrary.org/obo/UBERON_0003967` - -#### Added -- [cutaneous elastic tissue](http://purl.obolibrary.org/obo/UBERON_0003967) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### cuticle of hair `http://purl.obolibrary.org/obo/UBERON_0002076` - -#### Added -- [cuticle of hair](http://purl.obolibrary.org/obo/UBERON_0002076) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### cystic duct `http://purl.obolibrary.org/obo/UBERON_0001152` -#### Removed -- [cystic duct](http://purl.obolibrary.org/obo/UBERON_0001152) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Duct that connects the gall bladder and the common bile duct.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005166" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:Curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [cystic duct](http://purl.obolibrary.org/obo/UBERON_0001152) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The duct of the gallbladder which joins the common hepatic duct, thus forming the common biliary duct. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000213" - - - -### cytotoxic T-lymphocyte protein 4 `http://purl.obolibrary.org/obo/PR_000001852` -#### Removed -- [cytotoxic T-lymphocyte protein 4](http://purl.obolibrary.org/obo/PR_000001852) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [cytotoxic T-lymphocyte protein 4 (human)](http://purl.obolibrary.org/obo/PR_P16410) - - - -### data about an ontology part `http://purl.obolibrary.org/obo/IAO_0000102` -#### Removed -- [data about an ontology part](http://purl.obolibrary.org/obo/IAO_0000102) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "data about an ontology part"@en - -- [data about an ontology part](http://purl.obolibrary.org/obo/IAO_0000102) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "Person:Alan Ruttenberg"@en - - - -### data item `http://purl.obolibrary.org/obo/IAO_0000027` -#### Removed -- [data item](http://purl.obolibrary.org/obo/IAO_0000027) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "data item"@en - - - -### date `http://purl.org/dc/terms/date` -#### Removed -- [date](http://purl.org/dc/terms/date) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "http://purl.org/dc/terms/date" - -- [date](http://purl.org/dc/terms/date) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [date](http://purl.org/dc/terms/date) [is_metadata_tag](http://www.geneontology.org/formats/oboInOwl#is_metadata_tag) true - -- [date](http://purl.org/dc/terms/date) [label](http://www.w3.org/2000/01/rdf-schema#label) "date" - -- [date](http://purl.org/dc/terms/date) [id](http://www.geneontology.org/formats/oboInOwl#id) "dcterms-date" - -- [date](http://purl.org/dc/terms/date) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "dcterms-date" - - - -### date `http://www.w3.org/2001/XMLSchema#date` -#### Removed -- [date](http://www.w3.org/2001/XMLSchema#date) - - - -### date_retrieved `http://www.geneontology.org/formats/oboInOwl#date_retrieved` -#### Removed -- AnnotationProperty: [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) - - - -### death stage `http://purl.obolibrary.org/obo/UBERON_0000071` -#### Removed -- [death stage](http://purl.obolibrary.org/obo/UBERON_0000071) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "ncit:Death is an outcome" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ncit" - - - -### decidua `http://purl.obolibrary.org/obo/UBERON_0002450` -#### Removed -- [decidua](http://purl.obolibrary.org/obo/UBERON_0002450) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "formed under the influence of progesterone and forms highly-characteristic cells. [Wikipedia:Decidua]" - -- [decidua](http://purl.obolibrary.org/obo/UBERON_0002450) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [placenta](http://purl.obolibrary.org/obo/UBERON_0001987) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MA" - - - [component](http://www.geneontology.org/formats/oboInOwl#component) "maternal" - -#### Added -- [decidua](http://purl.obolibrary.org/obo/UBERON_0002450) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [placenta](http://purl.obolibrary.org/obo/UBERON_0001987) - - -### decreased coiling `http://purl.obolibrary.org/obo/PATO_0001796` -#### Removed -- [decreased coiling](http://purl.obolibrary.org/obo/PATO_0001796) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [increased coiling](http://purl.obolibrary.org/obo/PATO_0001795) - - - -### decreased contractility `http://purl.obolibrary.org/obo/PATO_0001581` -#### Removed -- [decreased contractility](http://purl.obolibrary.org/obo/PATO_0001581) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [increased contractility](http://purl.obolibrary.org/obo/PATO_0001580) - - - -### decreased elasticity `http://purl.obolibrary.org/obo/PATO_0002288` -#### Removed -- [decreased elasticity](http://purl.obolibrary.org/obo/PATO_0002288) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [increased elasticity](http://purl.obolibrary.org/obo/PATO_0002287) - - - -### decreased flexibility `http://purl.obolibrary.org/obo/PATO_0001777` -#### Removed -- [decreased flexibility](http://purl.obolibrary.org/obo/PATO_0001777) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [increased flexibility](http://purl.obolibrary.org/obo/PATO_0001776) - - - -### decreased life span `http://purl.obolibrary.org/obo/PATO_0001604` -#### Removed -- [decreased life span](http://purl.obolibrary.org/obo/PATO_0001604) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [increased life span](http://purl.obolibrary.org/obo/PATO_0001603) - - - -### decreased object quality `http://purl.obolibrary.org/obo/PATO_0002303` -#### Removed -- [decreased object quality](http://purl.obolibrary.org/obo/PATO_0002303) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [increased object quality](http://purl.obolibrary.org/obo/PATO_0002305) - - - -### decreased quality `http://purl.obolibrary.org/obo/PATO_0002301` -#### Removed -- [decreased quality](http://purl.obolibrary.org/obo/PATO_0002301) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [increased quality](http://purl.obolibrary.org/obo/PATO_0002300) - - - -### decreased size `http://purl.obolibrary.org/obo/PATO_0000587` -#### Removed -- [decreased size](http://purl.obolibrary.org/obo/PATO_0000587) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [increased size](http://purl.obolibrary.org/obo/PATO_0000586) - - - -### decreased viscosity `http://purl.obolibrary.org/obo/PATO_0001694` -#### Removed -- [decreased viscosity](http://purl.obolibrary.org/obo/PATO_0001694) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [increased viscosity](http://purl.obolibrary.org/obo/PATO_0001693) - - - -### deep to `http://purl.obolibrary.org/obo/BSPO_0000107` -#### Removed -- [deep to](http://purl.obolibrary.org/obo/BSPO_0000107) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [deep to](http://purl.obolibrary.org/obo/BSPO_0000107) [label](http://www.w3.org/2000/01/rdf-schema#label) "deep to" - -- [deep to](http://purl.obolibrary.org/obo/BSPO_0000107) [id](http://www.geneontology.org/formats/oboInOwl#id) "deep_to" - -- [deep to](http://purl.obolibrary.org/obo/BSPO_0000107) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0000107" - -- [deep to](http://purl.obolibrary.org/obo/BSPO_0000107) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "deep_to" - - - -### defined by construct `http://purl.obolibrary.org/obo/OMO_0002000` -#### Removed -- [defined by construct](http://purl.obolibrary.org/obo/OMO_0002000) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "'part disjoint with' 'defined by construct' """ - PREFIX owl: <http://www.w3.org/2002/07/owl#> - PREFIX : <http://example.org/ - CONSTRUCT { - [ - a owl:Restriction ; - owl:onProperty :part_of ; - owl:someValuesFrom ?a ; - owl:disjointWith [ - a owl:Restriction ; - owl:onProperty :part_of ; - owl:someValuesFrom ?b - ] - ] - } - WHERE { - ?a :part_disjoint_with ?b . - }" - - - -### defined class `http://purl.obolibrary.org/obo/IAO_0000420` -#### Removed -- [defined class](http://purl.obolibrary.org/obo/IAO_0000420) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "defined class"@en - -- [defined class](http://purl.obolibrary.org/obo/IAO_0000420) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "Alan Ruttenberg"@en - - - -### definition `http://purl.obolibrary.org/obo/IAO_0000115` -#### Removed -- [definition](http://purl.obolibrary.org/obo/IAO_0000115) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [ready for release](http://purl.obolibrary.org/obo/IAO_0000122) - -- [definition](http://purl.obolibrary.org/obo/IAO_0000115) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "PERSON:Daniel Schober"@en - -- [definition](http://purl.obolibrary.org/obo/IAO_0000115) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "definition"@en - -- [definition](http://purl.obolibrary.org/obo/IAO_0000115) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "GROUP:OBI:<http://purl.obolibrary.org/obo/obi>"@en - - - -### deltoid `http://purl.obolibrary.org/obo/UBERON_0001476` -#### Removed -- [deltoid](http://purl.obolibrary.org/obo/UBERON_0001476) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Muscle which originates as three heads, the pars externalis, pars clavicularis, and pars scapularis. The pars externalis originates from the lateral border of the omosternum and inserts on the distal portion of the humerus. The pars clavicularis originates from the ventro-lateral surface of the clavicle and inserts on the deltoid crest of the humerus. The pars scapularis originates from the lateral surface of the clavicle and inserts on the deltoid crest of the humerus.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:MEJ" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010716" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [deltoid](http://purl.obolibrary.org/obo/UBERON_0001476) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [acromion](http://purl.obolibrary.org/obo/UBERON_0002497) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "the anterior border and upper surface of the lateral third of the clavicle acromion spine of the scapula" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" - -- [deltoid](http://purl.obolibrary.org/obo/UBERON_0001476) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [scapula](http://purl.obolibrary.org/obo/UBERON_0006849) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "the anterior border and upper surface of the lateral third of the clavicle acromion spine of the scapula" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" - -- [deltoid](http://purl.obolibrary.org/obo/UBERON_0001476) SubClassOf [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) some [deltopectoral crest](http://purl.obolibrary.org/obo/UBERON_0002498) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "deltoid tuberosity of humerus" - -- [deltoid](http://purl.obolibrary.org/obo/UBERON_0001476) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [clavicle bone](http://purl.obolibrary.org/obo/UBERON_0001105) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "the anterior border and upper surface of the lateral third of the clavicle acromion spine of the scapula" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" - -#### Added -- [deltoid](http://purl.obolibrary.org/obo/UBERON_0001476) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [scapula](http://purl.obolibrary.org/obo/UBERON_0006849) - -- [deltoid](http://purl.obolibrary.org/obo/UBERON_0001476) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [clavicle bone](http://purl.obolibrary.org/obo/UBERON_0001105) - -- [deltoid](http://purl.obolibrary.org/obo/UBERON_0001476) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - -- [deltoid](http://purl.obolibrary.org/obo/UBERON_0001476) SubClassOf [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) some [deltopectoral crest](http://purl.obolibrary.org/obo/UBERON_0002498) - -- [deltoid](http://purl.obolibrary.org/obo/UBERON_0001476) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [acromion](http://purl.obolibrary.org/obo/UBERON_0002497) - - -### deltoid pre-muscle mass `http://purl.obolibrary.org/obo/UBERON_0006219` - -#### Added -- [deltoid pre-muscle mass](http://purl.obolibrary.org/obo/UBERON_0006219) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### deltopectoral crest `http://purl.obolibrary.org/obo/UBERON_0002498` -#### Removed -- [deltopectoral crest](http://purl.obolibrary.org/obo/UBERON_0002498) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In basal Tetrapodomorph lineages often the deltoid process and the pectoral processes are separate and thus should not be made exact synonyms to the deltopectoral crest.[PHENOSCAPE:ad]" - -#### Added -- [deltopectoral crest](http://purl.obolibrary.org/obo/UBERON_0002498) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### denotator type `http://purl.obolibrary.org/obo/IAO_0000409` -#### Removed -- [denotator type](http://purl.obolibrary.org/obo/IAO_0000409) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "Barry Smith, Werner Ceusters"@en - -- [denotator type](http://purl.obolibrary.org/obo/IAO_0000409) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "Alan Ruttenberg"@en - -- [denotator type](http://purl.obolibrary.org/obo/IAO_0000409) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "denotator type"@en - -- [denotator type](http://purl.obolibrary.org/obo/IAO_0000409) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "The Basic Formal Ontology ontology makes a distinction between Universals and defined classes, where the formal are "natural kinds" and the latter arbitrary collections of entities."@en - - - -### dense connective tissue `http://purl.obolibrary.org/obo/UBERON_0011823` -#### Removed -- [dense connective tissue](http://purl.obolibrary.org/obo/UBERON_0011823) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Connective tissue in which the fibrous component predominates. The cells, ground substance, and tissue fluid represent a minor component[NCIT]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "ncithesaurus:Dense_Connective_Tissue" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-29" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "NCIT" - - - -### dense irregular connective tissue `http://purl.obolibrary.org/obo/UBERON_0011822` -#### Removed -- [dense irregular connective tissue](http://purl.obolibrary.org/obo/UBERON_0011822) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Tissue characterized by a thick, random arrangement of collagen and elastin fibers with very few cells. The majority of the cells are fibroblasts, but mast cells and macrophages may also be seen. It is found in the dermis, periosteum, perichondrium, capsules of organs and sheaths of nerves and muscles[NCIT]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-29" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "NCIT" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "ncithesaurus:Irregular_Dense_Connective_Tissue" - - - -### dense regular connective tissue `http://purl.obolibrary.org/obo/UBERON_0007846` -#### Removed -- [dense regular connective tissue](http://purl.obolibrary.org/obo/UBERON_0007846) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Connective tissue that is dominated by collagen fibres organized into a definitive pattern (e.g., parallel to one another), with comparatively fewer cells (mostly fibroblasts).[VSAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000050" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - -- [dense regular connective tissue](http://purl.obolibrary.org/obo/UBERON_0007846) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Regular connective tissue, the intercellular matrix of which consists predominantly of collagen fiber bundles arranged in parallel arrays.[FMA]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-29" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "FMA" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "FMA:64781" - - - -### dental epithelium `http://purl.obolibrary.org/obo/UBERON_0003843` -#### Removed -- [dental epithelium](http://purl.obolibrary.org/obo/UBERON_0003843) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "In the developing molar dentition of the mouse, tooth inductive po- tential resides in the dental epithelium until embryonic day (E)12.5 (3). Thereafter, tooth inductive potential shifts to neural crest-derived dental mesenchyme, which acquires the ability to direct tooth formation in nonodontogenic tissues (3, 4)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:10954731" - -- [dental epithelium](http://purl.obolibrary.org/obo/UBERON_0003843) SubClassOf [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) - -- [dental epithelium](http://purl.obolibrary.org/obo/UBERON_0003843) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [pharyngeal arch 1](http://purl.obolibrary.org/obo/UBERON_0004362) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "JB" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "epithelium" - -#### Added -- [dental epithelium](http://purl.obolibrary.org/obo/UBERON_0003843) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [pharyngeal arch 1](http://purl.obolibrary.org/obo/UBERON_0004362) - -- [dental epithelium](http://purl.obolibrary.org/obo/UBERON_0003843) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### dental follicle `http://purl.obolibrary.org/obo/UBERON_0008969` -#### Removed -- [dental follicle](http://purl.obolibrary.org/obo/UBERON_0008969) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D003795" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### dental pulp `http://purl.obolibrary.org/obo/UBERON_0001754` -#### Removed -- [dental pulp](http://purl.obolibrary.org/obo/UBERON_0001754) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Material in the center of the dentine of the mature tooth. In secondary teeth the pulp contains blood vessels and odontoblast.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005141" - -- [dental pulp](http://purl.obolibrary.org/obo/UBERON_0001754) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The oral cavity of vertebrates is generally thought to arise as an ectodermal invagination. Consistent with this, oral teeth are proposed to arise exclusively from ectoderm, contributing to tooth enamel epithelium, and from neural crest derived mesenchyme, contributing to dentin and pulp (reference 1); Teeth and tooth-like structures, together named odontodes, are repeated organs thought to share a common evolutionary origin. These structures can be found in gnathostomes at different locations along the body: oral teeth in the jaws, teeth and denticles in the oral-pharyngeal cavity, and dermal denticles on elasmobranch skin (reference 2).[uncertain][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001469" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1038/nature07304 Soukup V, Epperlein HH, Horacek I, Cerny R, Dual epithelial origin of vertebrate oral teeth. Nature (2008), DOI:10.1186/1471-2148-11-307 The homology of odontodes in gnathostomes: insights from Dlx gene expression in the dogfish, Scyliorhinus canicula. BMC Evolutionary Biology (2011)" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - -#### Added -- [dental pulp](http://purl.obolibrary.org/obo/UBERON_0001754) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### dentary `http://purl.obolibrary.org/obo/UBERON_0004742` -#### Removed -- [dentary](http://purl.obolibrary.org/obo/UBERON_0004742) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Dermal bone that is usually the anteriormost bone of the lower jaw, and that articulates with the angular, or anguloarticular bone, posteriorly, and carries part of the mandibular sensory canal and pore openings of the mandibular sensory canal on its lateral surface. The dentary is a paired bone.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000191" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:GA_TG" - -- [dentary](http://purl.obolibrary.org/obo/UBERON_0004742) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Ossified element of intramembranous origin that invests the lateral margin of Meckel's cartilage thereby forming the lateral side of the mandible in anurans and salamanders (Duellman & Trueb, 1994:293). In caecilians, the dentary is part of a compound bone termed the pseudodentary.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000124" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [dentary](http://purl.obolibrary.org/obo/UBERON_0004742) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In lobe-finned fishes and the early fossil tetrapods, the bone homologous to the mandible of mammals is merely the largest of several bones in the lower jaw. In such animals, it is referred to as the dentary bone, and forms the body of the outer surface of the jaw. It is bordered below by a number of splenial bones, while the angle of the jaw is formed by a lower angular bone and a suprangular bone just above it. The inner surface of the jaw is lined by a prearticular bone, while the articular bone forms the articulation with the skull proper. Finally a set of three narrow coronoid bones lie above the prearticular bone. As the name implies, the majority of the teeth are attached to the dentary, but there are commonly also teeth on the coronoid bones, and sometimes on the prearticular as well. This complex primitive pattern has, however, been simplified to various degrees in the great majority of vertebrates, as bones have either fused or vanished entirely. In teleosts, only the dentary, articular, and angular bones remain, while in living amphibians, the dentary is accompanied only by the prearticular, and, in salamanders, one of the coronoids. The lower jaw of reptiles has only a single coronoid and splenial, but retains all the other primitive bones except the prearticular." - -- [dentary](http://purl.obolibrary.org/obo/UBERON_0004742) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Of all these bones [dentary, splenials, coronoids, angular, surangular and prearticular], only the dentary remains in the lower jaw of a mammal.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.248" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001022" - -- [dentary](http://purl.obolibrary.org/obo/UBERON_0004742) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: overlaps dentary-anguloarticular joint (TAO:0001749)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000191" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [dentary](http://purl.obolibrary.org/obo/UBERON_0004742) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The dentary is a dermal bone that forms the antero-lateral part of the lower jaw in fishes and amphibians. In mammals the lower jaw consists entirely of the dentary bone. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Grande_L, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF, ZFA:0000191_and_Liem_KF, p.248][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001022" - -- [dentary](http://purl.obolibrary.org/obo/UBERON_0004742) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [dermatocranium](http://purl.obolibrary.org/obo/UBERON_0003113) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0073040584" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "mandibular series" - -#### Added -- [dentary](http://purl.obolibrary.org/obo/UBERON_0004742) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [dermatocranium](http://purl.obolibrary.org/obo/UBERON_0003113) - - -### dentary tooth `http://purl.obolibrary.org/obo/UBERON_0011594` -#### Removed -- [dentary tooth](http://purl.obolibrary.org/obo/UBERON_0011594) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:321647" - -- [dentary tooth](http://purl.obolibrary.org/obo/UBERON_0011594) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Tooth that is attached to the dentary.[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001628" - -- [dentary tooth](http://purl.obolibrary.org/obo/UBERON_0011594) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of dentary tooth row (TAO:0001952)[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001628" - - - -### dentate gyrus of hippocampal formation `http://purl.obolibrary.org/obo/UBERON_0001885` -#### Removed -- [dentate gyrus of hippocampal formation](http://purl.obolibrary.org/obo/UBERON_0001885) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [Ammon's horn](http://purl.obolibrary.org/obo/UBERON_0001954) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [dentate gyrus of hippocampal formation](http://purl.obolibrary.org/obo/UBERON_0001885) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The dentate gyrus is one of two interlocking gyri of the hippocampus. It contains granule cells, which project to the pyramidal cells and interneurons of the CA3 region of the ammon gyrus[GO][GO:0021542]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO:0021542" - -- [dentate gyrus of hippocampal formation](http://purl.obolibrary.org/obo/UBERON_0001885) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002601](http://purl.obolibrary.org/obo/UBERON_0002601) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - - - -### dentine `http://purl.obolibrary.org/obo/UBERON_0001751` -#### Removed -- [dentine](http://purl.obolibrary.org/obo/UBERON_0001751) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Mineralized collagen containing substance that forms the tooth structure.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005143" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [dentine](http://purl.obolibrary.org/obo/UBERON_0001751) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Dentine is a bona fide vertebrate novelty, and dentine-secreting odontoblasts represent a cell type that is exclusively derived from the neural crest.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001589" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1469-7580.2012.01495.x Hall BK, Gillis JA, Incremental evolution of the neural crest, neural crest cells and neural crest-derived skeletal tissues. J Anat (2012)" - -- [dentine](http://purl.obolibrary.org/obo/UBERON_0001751) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "dentinal" - -- [dentine](http://purl.obolibrary.org/obo/UBERON_0001751) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Dentine is found in the fossil record as early as the late Cambrian, in fish, where it may have had a role in electrochemical sensing of the environment as well as assisting in defense[WP]" - -- [dentine](http://purl.obolibrary.org/obo/UBERON_0001751) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - - -### dentition `http://purl.obolibrary.org/obo/UBERON_0003672` -#### Removed -- [dentition](http://purl.obolibrary.org/obo/UBERON_0003672) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The teeth collectively in the dental arch. Dentition ordinarily refers to the natural teeth in position in their alveoli. (MeSH[ncithesaurus:Dentition])" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ncithesaurus:Dentition" - -- [dentition](http://purl.obolibrary.org/obo/UBERON_0003672) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "In FMA this is an anatomical set" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [dentition](http://purl.obolibrary.org/obo/UBERON_0003672) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Dentition refers to set of teeth, especially with regard to their number, kind, and arrangement, in the mouth.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000126" - - - -### depends on `http://purl.obolibrary.org/obo/RO_0002502` -#### Removed -- [depends on](http://purl.obolibrary.org/obo/RO_0002502) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### depiction `http://xmlns.com/foaf/0.1/depiction` -#### Removed -- [depiction](http://xmlns.com/foaf/0.1/depiction) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "http://xmlns.com/foaf/0.1/depiction" - -- [depiction](http://xmlns.com/foaf/0.1/depiction) [id](http://www.geneontology.org/formats/oboInOwl#id) "depiction" - -- [depiction](http://xmlns.com/foaf/0.1/depiction) [is_metadata_tag](http://www.geneontology.org/formats/oboInOwl#is_metadata_tag) true - -- [depiction](http://xmlns.com/foaf/0.1/depiction) [label](http://www.w3.org/2000/01/rdf-schema#label) "depiction" - -- [depiction](http://xmlns.com/foaf/0.1/depiction) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "depiction" - -- [depiction](http://xmlns.com/foaf/0.1/depiction) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - - - -### derives from `http://purl.obolibrary.org/obo/RO_0001000` -#### Removed -- [derives from](http://purl.obolibrary.org/obo/RO_0001000) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [derives from](http://purl.obolibrary.org/obo/RO_0001000) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "derives_from"@en - -- [derives from](http://purl.obolibrary.org/obo/RO_0001000) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "This relation is taken from the RO2005 version of RO. It may be obsoleted and replaced by relations with different definitions. See also the 'develops from' family of relations." - -- [derives from](http://purl.obolibrary.org/obo/RO_0001000) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this cell derives from this parent cell (cell division)"@en - -- [derives from](http://purl.obolibrary.org/obo/RO_0001000) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this nucleus derives from this parent nucleus (nuclear division)"@en - - - -### derives into `http://purl.obolibrary.org/obo/RO_0001001` -#### Removed -- [derives into](http://purl.obolibrary.org/obo/RO_0001001) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [derives into](http://purl.obolibrary.org/obo/RO_0001001) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "derives_into"@en - -- [derives into](http://purl.obolibrary.org/obo/RO_0001001) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this parent nucleus derives into this nucleus (nuclear division)"@en - -- [derives into](http://purl.obolibrary.org/obo/RO_0001001) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this parent cell derives into this cell (cell division)"@en - - - -### dermal bone `http://purl.obolibrary.org/obo/UBERON_0008907` -#### Removed -- [dermal bone](http://purl.obolibrary.org/obo/UBERON_0008907) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Intramembranous bone that forms superficially in the organism.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001590" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" - -- [dermal bone](http://purl.obolibrary.org/obo/UBERON_0008907) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "other AOs are not yet in sync with this classification" - - - -### dermal chromatophore `http://purl.obolibrary.org/obo/CL_4040006` - -#### Added -- [dermal chromatophore](http://purl.obolibrary.org/obo/CL_4040006) [label](http://www.w3.org/2000/01/rdf-schema#label) "dermal chromatophore" - -- [dermal chromatophore](http://purl.obolibrary.org/obo/CL_4040006) [date](http://purl.org/dc/terms/date) "2024-03-07T09:37:14Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) - -- [dermal chromatophore](http://purl.obolibrary.org/obo/CL_4040006) [contributor](http://purl.org/dc/terms/contributor) [0000-0002-0819-0473](https://orcid.org/0000-0002-0819-0473) - -- [dermal chromatophore](http://purl.obolibrary.org/obo/CL_4040006) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A chromatophore that is part of the dermis." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:28553007" - -- Class: [dermal chromatophore](http://purl.obolibrary.org/obo/CL_4040006) - -- [dermal chromatophore](http://purl.obolibrary.org/obo/CL_4040006) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [dermis](http://purl.obolibrary.org/obo/UBERON_0002067) - -- [dermal chromatophore](http://purl.obolibrary.org/obo/CL_4040006) SubClassOf [pigment cell](http://purl.obolibrary.org/obo/CL_0000147) - - -### dermal papilla `http://purl.obolibrary.org/obo/UBERON_0000412` -#### Removed -- [dermal papilla](http://purl.obolibrary.org/obo/UBERON_0000412) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "ncit has 'hair papilla' as part of hypodermis" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ncit" - -- [dermal papilla](http://purl.obolibrary.org/obo/UBERON_0000412) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "Blood vessels in the dermal papillae nourish all hair follicles and bring nutrients and oxygen to the lower layers of epidermal cells." - -- [dermal papilla](http://purl.obolibrary.org/obo/UBERON_0000412) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, at the surface of the skin in hands and feet, they appear as epidermal or papillary ridges (colloquially known as fingerprints)" - -#### Added -- [dermal papilla](http://purl.obolibrary.org/obo/UBERON_0000412) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### dermal skeletal element `http://purl.obolibrary.org/obo/UBERON_0004756` - -#### Added -- [dermal skeletal element](http://purl.obolibrary.org/obo/UBERON_0004756) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### dermatocranium `http://purl.obolibrary.org/obo/UBERON_0003113` -#### Removed -- [dermatocranium](http://purl.obolibrary.org/obo/UBERON_0003113) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster that is part of the cranium and composed of dermally derived bones.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000863" - -- [dermatocranium](http://purl.obolibrary.org/obo/UBERON_0003113) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster that is part of the cranium which consists of dermally derived bones.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010154" - - - -### dermatological-muscosal system `http://purl.obolibrary.org/obo/UBERON_0012125` -#### Removed -- [dermatological-muscosal system](http://purl.obolibrary.org/obo/UBERON_0012125) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Anatomical system that consists of the integumental system plus all mucosae and submucosae." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "https://github.com/obophenotype/uberon/issues/53" - -- [dermatological-muscosal system](http://purl.obolibrary.org/obo/UBERON_0012125) [label](http://www.w3.org/2000/01/rdf-schema#label) "dermatological-muscosal system" - -- [dermatological-muscosal system](http://purl.obolibrary.org/obo/UBERON_0012125) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "dermatological system" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "OBI:MC" - -- [dermatological-muscosal system](http://purl.obolibrary.org/obo/UBERON_0012125) [id](http://www.geneontology.org/formats/oboInOwl#id) "UBERON:0012125" - -- [dermatological-muscosal system](http://purl.obolibrary.org/obo/UBERON_0012125) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- Class: [dermatological-muscosal system](http://purl.obolibrary.org/obo/UBERON_0012125) - -- [dermatological-muscosal system](http://purl.obolibrary.org/obo/UBERON_0012125) SubClassOf [anatomical system](http://purl.obolibrary.org/obo/UBERON_0000467) - -- [dermatological-muscosal system](http://purl.obolibrary.org/obo/UBERON_0012125) SubClassOf [has part](http://purl.obolibrary.org/obo/BFO_0000051) some [hypodermis](http://purl.obolibrary.org/obo/UBERON_0002072) - -- [dermatological-muscosal system](http://purl.obolibrary.org/obo/UBERON_0012125) SubClassOf [existence ends during](http://purl.obolibrary.org/obo/RO_0002492) some [fully formed stage](http://purl.obolibrary.org/obo/UBERON_0000066) - -- [dermatological-muscosal system](http://purl.obolibrary.org/obo/UBERON_0012125) SubClassOf [has part](http://purl.obolibrary.org/obo/BFO_0000051) some [submucosa](http://purl.obolibrary.org/obo/UBERON_0000009) - -- [dermatological-muscosal system](http://purl.obolibrary.org/obo/UBERON_0012125) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - -- [dermatological-muscosal system](http://purl.obolibrary.org/obo/UBERON_0012125) SubClassOf [has part](http://purl.obolibrary.org/obo/BFO_0000051) some [skin of body](http://purl.obolibrary.org/obo/UBERON_0002097) - -- [dermatological-muscosal system](http://purl.obolibrary.org/obo/UBERON_0012125) SubClassOf [has part](http://purl.obolibrary.org/obo/BFO_0000051) some [mucosa](http://purl.obolibrary.org/obo/UBERON_0000344) - - - -### dermatome `http://purl.obolibrary.org/obo/UBERON_0004016` -#### Removed -- [dermatome](http://purl.obolibrary.org/obo/UBERON_0004016) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0006248" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) - -- [dermatome](http://purl.obolibrary.org/obo/UBERON_0004016) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "Not to be confused with 'dermatome segment of skin'." - - - -### dermis `http://purl.obolibrary.org/obo/UBERON_0002067` -#### Removed -- [dermis](http://purl.obolibrary.org/obo/UBERON_0002067) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A collagenous layer of the skin subjacent to the epidermis and covering the hypodermis. It contains various types of cells (e.g. fibroblasts, pigment cells, nerve, blood vessels and scales. Le Guellec et al, 2004.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001119" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [dermis](http://purl.obolibrary.org/obo/UBERON_0002067) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "dermal" - -- [dermis](http://purl.obolibrary.org/obo/UBERON_0002067) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "When approaching controversies surrounding skin evolution, we need to remember that the skin consists of two layers, an epidermis and a dermis, not a single evolving structure. (...) It is little wonder that controversies about homology exist. If we think of the epidermis, the dermis, and their interactions as an evolving unit, then their specialized products (hair, feathers, and reptilian scales) are broadly homologous.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000108" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.231-232 see also p.209 and p.228 and Figure 6-1" - -- [dermis](http://purl.obolibrary.org/obo/UBERON_0002067) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future dermis](http://purl.obolibrary.org/obo/UBERON_0010083) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [dermis](http://purl.obolibrary.org/obo/UBERON_0002067) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - -- [dermis](http://purl.obolibrary.org/obo/UBERON_0002067) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future dermis](http://purl.obolibrary.org/obo/UBERON_0010083) - - -### dermomyotome `http://purl.obolibrary.org/obo/UBERON_0004290` -#### Removed -- [dermomyotome](http://purl.obolibrary.org/obo/UBERON_0004290) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Epithelial sheet on the external surface of the somite that gives rise to trunk, muscle and dermis. Within the dermomyotome there is also a medio-lateral difference. The central region makes dermis, the mesenchymal connective tissue of the back skin. The medial region (closest to neural tube) makes epaxial muscle, and the lateral region (furthest from neural tube) makes hypaxial muscle[http://www.ncbi.nlm.nih.gov/bookshelf/br.fcgi?book=eurekah&part=A66768]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://www.ncbi.nlm.nih.gov/bookshelf/br.fcgi?book=eurekah&part=A66768" - -- [dermomyotome](http://purl.obolibrary.org/obo/UBERON_0004290) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "all but the sclerotome of a mesodermal somite; the primordium of skeletal muscle and, perhaps, of the dermis." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/dermomyotome" - -- [dermomyotome](http://purl.obolibrary.org/obo/UBERON_0004290) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Thus, representatives of the agnathan vertebrates, chondrichthyans, and sarcopterygians all have a layer of undifferentiated cells external to the embryonic myotome. In the amniotes, this external cell layer is the dermomyotome. The simplest interpretation of the similar position, morphology, and lack of myosin labeling is that a dermomyotome epithelium is a shared, ancestral vertebrate characteristic.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000676" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1525-142X.2006.05079.x Devoto SH, Stoiber W, Hammond CL, Steinbacher P, Haslett JR, Barresi MJF, Patterson SE, Adiarte EG and Hughes SM, Generality of vertebrate developmental patterns: evidence for a dermomyotome in fish. Evolution and Development (2006)" - -- [dermomyotome](http://purl.obolibrary.org/obo/UBERON_0004290) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Epithelial sheet on the external surface of the somite that gives rise to trunk, muscle and dermis.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001513" - -- [dermomyotome](http://purl.obolibrary.org/obo/UBERON_0004290) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of somites that gives rise to dermis and muscles.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010572" - - - -### descending aorta `http://purl.obolibrary.org/obo/UBERON_0001514` -#### Removed -- [descending aorta](http://purl.obolibrary.org/obo/UBERON_0001514) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "results from fusion of left and right dorsal aortae" - -- [descending aorta](http://purl.obolibrary.org/obo/UBERON_0001514) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - - -### descending colon `http://purl.obolibrary.org/obo/UBERON_0001158` -#### Removed -- [descending colon](http://purl.obolibrary.org/obo/UBERON_0001158) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D044683" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### descending thoracic aorta `http://purl.obolibrary.org/obo/UBERON_0002345` - -#### Added -- [descending thoracic aorta](http://purl.obolibrary.org/obo/UBERON_0002345) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### description `http://purl.org/dc/elements/1.1/description` -#### Removed -- [description](http://purl.org/dc/elements/1.1/description) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "http://purl.org/dc/elements/1.1/description" - -- [description](http://purl.org/dc/elements/1.1/description) [label](http://www.w3.org/2000/01/rdf-schema#label) "description" - -- [description](http://purl.org/dc/elements/1.1/description) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "dc-description" - -- [description](http://purl.org/dc/elements/1.1/description) [is_metadata_tag](http://www.geneontology.org/formats/oboInOwl#is_metadata_tag) true - -- [description](http://purl.org/dc/elements/1.1/description) [id](http://www.geneontology.org/formats/oboInOwl#id) "dc-description" - -- [description](http://purl.org/dc/elements/1.1/description) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - - - -### developing anatomical structure `http://purl.obolibrary.org/obo/UBERON_0005423` -#### Removed -- [developing anatomical structure](http://purl.obolibrary.org/obo/UBERON_0005423) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007006" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### developmentally contributes to `http://purl.obolibrary.org/obo/RO_0002255` -#### Removed -- [developmentally contributes to](http://purl.obolibrary.org/obo/RO_0002255) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [developmentally contributes to](http://purl.obolibrary.org/obo/RO_0002255) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - - - -### developmentally induced by `http://purl.obolibrary.org/obo/RO_0002256` -#### Removed -- [developmentally induced by](http://purl.obolibrary.org/obo/RO_0002256) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "induced by" - -- [developmentally induced by](http://purl.obolibrary.org/obo/RO_0002256) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) - -- [developmentally induced by](http://purl.obolibrary.org/obo/RO_0002256) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0001-9114-8737](https://orcid.org/0000-0001-9114-8737) - -- [developmentally induced by](http://purl.obolibrary.org/obo/RO_0002256) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) " Developmental Biology, Gilbert, 8th edition, figure 6.5(F)" - -- [developmentally induced by](http://purl.obolibrary.org/obo/RO_0002256) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "developmentally_induced_by" - -- [developmentally induced by](http://purl.obolibrary.org/obo/RO_0002256) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [developmentally induced by](http://purl.obolibrary.org/obo/RO_0002256) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [developmentally induced by](http://purl.obolibrary.org/obo/RO_0002256) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [developmentally induced by](http://purl.obolibrary.org/obo/RO_0002256) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "GO:0001759" - -- [developmentally induced by](http://purl.obolibrary.org/obo/RO_0002256) [id](http://www.geneontology.org/formats/oboInOwl#id) "developmentally_induced_by" - -- [developmentally induced by](http://purl.obolibrary.org/obo/RO_0002256) [label](http://www.w3.org/2000/01/rdf-schema#label) "developmentally induced by" - -- [developmentally induced by](http://purl.obolibrary.org/obo/RO_0002256) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "We place this under 'developmentally preceded by'. This placement should be examined in the context of reciprocal inductions[cjm]" - -- [developmentally induced by](http://purl.obolibrary.org/obo/RO_0002256) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002256" - -- [developmentally induced by](http://purl.obolibrary.org/obo/RO_0002256) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [20064205](http://www.ncbi.nlm.nih.gov/pubmed/20064205) - - - -### developmentally induces `http://purl.obolibrary.org/obo/RO_0002257` -#### Removed -- [developmentally induces](http://purl.obolibrary.org/obo/RO_0002257) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [developmentally induces](http://purl.obolibrary.org/obo/RO_0002257) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### developmentally preceded by `http://purl.obolibrary.org/obo/RO_0002258` -#### Removed -- [developmentally preceded by](http://purl.obolibrary.org/obo/RO_0002258) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [developmentally preceded by](http://purl.obolibrary.org/obo/RO_0002258) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [developmentally preceded by](http://purl.obolibrary.org/obo/RO_0002258) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "In general you should not use this relation to make assertions - use one of the more specific relations below this one" - - - -### developmentally related to `http://purl.obolibrary.org/obo/RO_0002324` -#### Removed -- [developmentally related to](http://purl.obolibrary.org/obo/RO_0002324) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving organismal development" - -- [developmentally related to](http://purl.obolibrary.org/obo/RO_0002324) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### developmentally replaces `http://purl.obolibrary.org/obo/RO_0002285` -#### Removed -- [developmentally replaces](http://purl.obolibrary.org/obo/RO_0002285) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [developmentally replaces](http://purl.obolibrary.org/obo/RO_0002285) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002285" - -- [developmentally replaces](http://purl.obolibrary.org/obo/RO_0002285) [label](http://www.w3.org/2000/01/rdf-schema#label) "developmentally replaces" - -- [developmentally replaces](http://purl.obolibrary.org/obo/RO_0002285) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "developmentally_replaces" - -- [developmentally replaces](http://purl.obolibrary.org/obo/RO_0002285) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "replaces" - -- [developmentally replaces](http://purl.obolibrary.org/obo/RO_0002285) [id](http://www.geneontology.org/formats/oboInOwl#id) "developmentally_replaces" - -- [developmentally replaces](http://purl.obolibrary.org/obo/RO_0002285) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [developmentally replaces](http://purl.obolibrary.org/obo/RO_0002285) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### developmentally succeeded by `http://purl.obolibrary.org/obo/RO_0002286` -#### Removed -- [developmentally succeeded by](http://purl.obolibrary.org/obo/RO_0002286) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [developmentally succeeded by](http://purl.obolibrary.org/obo/RO_0002286) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### develops from `http://purl.obolibrary.org/obo/RO_0002202` -#### Removed -- [develops from](http://purl.obolibrary.org/obo/RO_0002202) [id](http://www.geneontology.org/formats/oboInOwl#id) "develops_from" - -- [develops from](http://purl.obolibrary.org/obo/RO_0002202) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [develops from](http://purl.obolibrary.org/obo/RO_0002202) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) - -- [develops from](http://purl.obolibrary.org/obo/RO_0002202) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "develops_from" - -- [develops from](http://purl.obolibrary.org/obo/RO_0002202) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [develops from](http://purl.obolibrary.org/obo/RO_0002202) [label](http://www.w3.org/2000/01/rdf-schema#label) "develops from" - -- [develops from](http://purl.obolibrary.org/obo/RO_0002202) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002202" - -- [develops from](http://purl.obolibrary.org/obo/RO_0002202) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0001-9114-8737](https://orcid.org/0000-0001-9114-8737) - -- [develops from](http://purl.obolibrary.org/obo/RO_0002202) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0003-1980-3228](https://orcid.org/0000-0003-1980-3228) - -- [develops from](http://purl.obolibrary.org/obo/RO_0002202) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - - - -### develops from part of `http://purl.obolibrary.org/obo/RO_0002225` -#### Removed -- [develops from part of](http://purl.obolibrary.org/obo/RO_0002225) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [develops from part of](http://purl.obolibrary.org/obo/RO_0002225) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "develops_from_part_of" - -- [develops from part of](http://purl.obolibrary.org/obo/RO_0002225) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [develops from part of](http://purl.obolibrary.org/obo/RO_0002225) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [develops from part of](http://purl.obolibrary.org/obo/RO_0002225) [label](http://www.w3.org/2000/01/rdf-schema#label) "develops from part of" - -- [develops from part of](http://purl.obolibrary.org/obo/RO_0002225) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002225" - -- [develops from part of](http://purl.obolibrary.org/obo/RO_0002225) [id](http://www.geneontology.org/formats/oboInOwl#id) "develops_from_part_of" - - - -### develops in `http://purl.obolibrary.org/obo/RO_0002226` -#### Removed -- [develops in](http://purl.obolibrary.org/obo/RO_0002226) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "EHDAA2" - -- [develops in](http://purl.obolibrary.org/obo/RO_0002226) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [develops in](http://purl.obolibrary.org/obo/RO_0002226) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [develops in](http://purl.obolibrary.org/obo/RO_0002226) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002226" - -- [develops in](http://purl.obolibrary.org/obo/RO_0002226) [label](http://www.w3.org/2000/01/rdf-schema#label) "develops in" - -- [develops in](http://purl.obolibrary.org/obo/RO_0002226) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "develops_in" - -- [develops in](http://purl.obolibrary.org/obo/RO_0002226) [id](http://www.geneontology.org/formats/oboInOwl#id) "develops_in" - -- [develops in](http://purl.obolibrary.org/obo/RO_0002226) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [develops in](http://purl.obolibrary.org/obo/RO_0002226) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "Jonathan Bard, EHDAA2" - - - -### develops into `http://purl.obolibrary.org/obo/RO_0002203` -#### Removed -- [develops into](http://purl.obolibrary.org/obo/RO_0002203) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002203" - -- [develops into](http://purl.obolibrary.org/obo/RO_0002203) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [develops into](http://purl.obolibrary.org/obo/RO_0002203) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [develops into](http://purl.obolibrary.org/obo/RO_0002203) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0003-1980-3228](https://orcid.org/0000-0003-1980-3228) - -- [develops into](http://purl.obolibrary.org/obo/RO_0002203) [label](http://www.w3.org/2000/01/rdf-schema#label) "develops into" - -- [develops into](http://purl.obolibrary.org/obo/RO_0002203) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) - -- [develops into](http://purl.obolibrary.org/obo/RO_0002203) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [develops into](http://purl.obolibrary.org/obo/RO_0002203) [id](http://www.geneontology.org/formats/oboInOwl#id) "develops_into" - -- [develops into](http://purl.obolibrary.org/obo/RO_0002203) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "develops_into" - - - -### device utilizes material `http://purl.obolibrary.org/obo/RO_0017001` -#### Removed -- [device utilizes material](http://purl.obolibrary.org/obo/RO_0017001) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "See github ticket https://github.com/oborel/obo-relations/issues/497" - -- [device utilizes material](http://purl.obolibrary.org/obo/RO_0017001) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0001-9625-1899](https://orcid.org/0000-0001-9625-1899) - -- [device utilizes material](http://purl.obolibrary.org/obo/RO_0017001) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0003-2620-0345](https://orcid.org/0000-0003-2620-0345) - -- [device utilizes material](http://purl.obolibrary.org/obo/RO_0017001) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "A diagnostic testing device utilizes a specimen." - -- [device utilizes material](http://purl.obolibrary.org/obo/RO_0017001) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "A diagnostic testing device utilizes a specimen means that the diagnostic testing device is capable of an assay, and this assay a specimen as its input." - - - -### diaphragm `http://purl.obolibrary.org/obo/UBERON_0001103` -#### Removed -- [diaphragm](http://purl.obolibrary.org/obo/UBERON_0001103) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "breathing control" - -- [diaphragm](http://purl.obolibrary.org/obo/UBERON_0001103) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The urochordate epicardium separates digestive organs from the pharynx and heart, but the anus returns to the upper compartment to discharge wastes through an outgoing siphon (Thoracic_diaphragm#Comparative_anatomy_and_evolution)" - -- [diaphragm](http://purl.obolibrary.org/obo/UBERON_0001103) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "phrenic" - -- [diaphragm](http://purl.obolibrary.org/obo/UBERON_0001103) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The mammals are characterized by a diaphragm, which separates the thoracic portion of the body cavity from the abdominal region and assists in drawing air into the lungs and forcing it out. Modern reptiles lack a muscular diaphragm and it is reasonable to suppose that the diaphragm developed as a new device that made possible a large degree of oxygen intake for active animals. The change may have taken place during the transition from reptile to mammal (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0471384618 Colbert EH, Evolution of the vertebrates: a history of the backboned animals through time (2001) p.278" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000713" - -- [diaphragm](http://purl.obolibrary.org/obo/UBERON_0001103) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The diaphragm is a skeletal muscle that is responsible for contraction and expansion of the lungs[GO]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO:0060539" - -- [diaphragm](http://purl.obolibrary.org/obo/UBERON_0001103) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "barrier between thoracic and abdominal cavities; stop gastric contents from refluxing into the oesophagus" - -- [diaphragm](http://purl.obolibrary.org/obo/UBERON_0001103) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The existence of some membrane separating the pharynx from the stomach can be traced widely among the chordates. Thus amphioxus possesses an atrium by which water exits the pharynx, which has been argued (and disputed) to be homologous to structures in ascidians and hagfishes.[3]" - -- [diaphragm](http://purl.obolibrary.org/obo/UBERON_0001103) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "originate from the cervical somites, likely C3-C5[PMID:23586979]" - -- [diaphragm](http://purl.obolibrary.org/obo/UBERON_0001103) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future diaphragm](http://purl.obolibrary.org/obo/UBERON_0010084) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [diaphragm](http://purl.obolibrary.org/obo/UBERON_0001103) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future diaphragm](http://purl.obolibrary.org/obo/UBERON_0010084) - - -### diaphysis `http://purl.obolibrary.org/obo/UBERON_0004769` -#### Removed -- [diaphysis](http://purl.obolibrary.org/obo/UBERON_0004769) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Subdivision of long bone which forms the part of the bone between the two epiphyses; together with other the subdivisions of long bone, it constitutes the long bone. Examples: diaphysis of humerus, diaphysis of femur[FMA]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:24013" - -- [diaphysis](http://purl.obolibrary.org/obo/UBERON_0004769) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The main or mid section (shaft) of a long bone. It is made up of cortical bone and usually contains bone marrow and adipose tissue (fat)[WP][FMA:24013, Wikipedia:Diaphysis]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:24013, Wikipedia:Diaphysis" - - - -### diaphysis of femur `http://purl.obolibrary.org/obo/UBERON_0006862` -#### Removed -- [diaphysis of femur](http://purl.obolibrary.org/obo/UBERON_0006862) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The body of the femur (or shaft), almost cylindrical in form, is a little broader above than in the center, broadest and somewhat flattened from before backward below. It is slightly arched, so as to be convex in front, and concave behind, where it is strengthened by a prominent longitudinal ridge, the linea aspera. It presents for examination three borders, separating three surfaces. Of the borders, one, the linea aspera, is posterior, one is medial, and the other, lateral[Wikipedia:Body_of_femur]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Body_of_femur" - -#### Added -- [diaphysis of femur](http://purl.obolibrary.org/obo/UBERON_0006862) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### diaphysis of fibula `http://purl.obolibrary.org/obo/UBERON_0013279` -#### Removed -- [diaphysis of fibula](http://purl.obolibrary.org/obo/UBERON_0013279) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The body of fibula presents four borders - the antero-lateral, the antero-medial, the postero-lateral, and the postero-medial; and four surfaces - anterior, posterior, medial, and lateral[Wikipedia:Body_of_fibula]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Body_of_fibula" - -#### Added -- [diaphysis of fibula](http://purl.obolibrary.org/obo/UBERON_0013279) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### diaphysis of metacarpal bone `http://purl.obolibrary.org/obo/UBERON_0013752` - -#### Added -- [diaphysis of metacarpal bone](http://purl.obolibrary.org/obo/UBERON_0013752) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### diaphysis of metatarsal bone `http://purl.obolibrary.org/obo/UBERON_0013774` - -#### Added -- [diaphysis of metatarsal bone](http://purl.obolibrary.org/obo/UBERON_0013774) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### diaphysis of tibia `http://purl.obolibrary.org/obo/UBERON_0013280` -#### Removed -- [diaphysis of tibia](http://purl.obolibrary.org/obo/UBERON_0013280) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The body of the tibia has three borders and three surfaces[Wikipedia:Body_of_tibia]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Body_of_tibia" - -#### Added -- [diaphysis of tibia](http://purl.obolibrary.org/obo/UBERON_0013280) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### diaphysis proper `http://purl.obolibrary.org/obo/UBERON_0006861` -#### Removed -- [diaphysis proper](http://purl.obolibrary.org/obo/UBERON_0006861) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [metaphysis](http://purl.obolibrary.org/obo/UBERON_0001438) - -- [diaphysis proper](http://purl.obolibrary.org/obo/UBERON_0006861) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "The MA class is associated with EMAPA:35505 but we associate this with the more precise concept of diaphyseal plate" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - - - -### diencephalon `http://purl.obolibrary.org/obo/UBERON_0001894` -#### Removed -- [diencephalon](http://purl.obolibrary.org/obo/UBERON_0001894) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Fine structural, computerized three-dimensional (3D) mapping of cell connectivity in the amphioxus nervous system and comparative molecular genetic studies of amphioxus and tunicates have provided recent insights into the phylogenetic origin of the vertebrate nervous system. The results suggest that several of the genetic mechanisms for establishing and patterning the vertebrate nervous system already operated in the ancestral chordate and that the nerve cord of the proximate invertebrate ancestor of the vertebrates included a diencephalon, midbrain, hindbrain, and spinal cord.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/S0959-4388(99)00003-3 Holland LZ and Holland ND, Chordate origins of the vertebrate central nervous system. Current Opinion in Neurobiology (1999)" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000318" - -- [diencephalon](http://purl.obolibrary.org/obo/UBERON_0001894) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Unpaired part of the forebrain comprised of three major parts; the epithalamus, thalamus, and hypothalamus.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010481" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [diencephalon](http://purl.obolibrary.org/obo/UBERON_0001894) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The more posterior and ventral of two forebrain neuromeres, the other being the telencephalon; major derivatives are the eye cups, the brain pretectal region, the thalamus, hypothalamus, and epithalamus (including the habenula and epiphysis). Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000101" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [diencephalon](http://purl.obolibrary.org/obo/UBERON_0001894) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "diencephalic" - -- [diencephalon](http://purl.obolibrary.org/obo/UBERON_0001894) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [midbrain](http://purl.obolibrary.org/obo/UBERON_0001891) - - [exceptions](http://www.geneontology.org/formats/oboInOwl#exceptions) "ZFA" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://github.com/obophenotype/uberon/issues/378" - - - [status](http://www.geneontology.org/formats/oboInOwl#status) "pending" - -- [diencephalon](http://purl.obolibrary.org/obo/UBERON_0001894) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in ABA, this is part of the brain stem" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ABA" - -- [diencephalon](http://purl.obolibrary.org/obo/UBERON_0001894) [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [NCBITaxon_7762](http://purl.obolibrary.org/obo/NCBITaxon_7762) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "not well differentiated from the cerebrum. (Ariens, p. 868)" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:8932866" - -- [diencephalon](http://purl.obolibrary.org/obo/UBERON_0001894) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [hindbrain](http://purl.obolibrary.org/obo/UBERON_0002028) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [diencephalon](http://purl.obolibrary.org/obo/UBERON_0001894) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - -- [diencephalon](http://purl.obolibrary.org/obo/UBERON_0001894) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [diencephalon neural crest](http://purl.obolibrary.org/obo/UBERON_0003851) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -- [diencephalon](http://purl.obolibrary.org/obo/UBERON_0001894) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future diencephalon](http://purl.obolibrary.org/obo/UBERON_0006222) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [diencephalon](http://purl.obolibrary.org/obo/UBERON_0001894) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [diencephalon neural crest](http://purl.obolibrary.org/obo/UBERON_0003851) - -- [diencephalon](http://purl.obolibrary.org/obo/UBERON_0001894) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future diencephalon](http://purl.obolibrary.org/obo/UBERON_0006222) - - -### diencephalon arachnoid mater `http://purl.obolibrary.org/obo/UBERON_0003558` -#### Removed -- [diencephalon arachnoid mater](http://purl.obolibrary.org/obo/UBERON_0003558) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Arachnoid mater that is part of the diencephalon. [Bgee_curator][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000231" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - -- [diencephalon arachnoid mater](http://purl.obolibrary.org/obo/UBERON_0003558) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000231" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - -### diencephalon dura mater `http://purl.obolibrary.org/obo/UBERON_0003564` -#### Removed -- [diencephalon dura mater](http://purl.obolibrary.org/obo/UBERON_0003564) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000258" - -- [diencephalon dura mater](http://purl.obolibrary.org/obo/UBERON_0003564) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Dura mater that is part of the diencephalon. [Bgee_curator][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000258" - - - -### diencephalon neural crest `http://purl.obolibrary.org/obo/UBERON_0003851` -#### Removed -- [diencephalon neural crest](http://purl.obolibrary.org/obo/UBERON_0003851) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000798" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43" - - - -### diencephalon pia mater `http://purl.obolibrary.org/obo/UBERON_0003553` -#### Removed -- [diencephalon pia mater](http://purl.obolibrary.org/obo/UBERON_0003553) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Pia mater that is part of the diencephalon. [Bgee_curator][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000475" - -- [diencephalon pia mater](http://purl.obolibrary.org/obo/UBERON_0003553) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000475" - - - -### diencephalon subarachnoid space `http://purl.obolibrary.org/obo/UBERON_0005218` -#### Removed -- [diencephalon subarachnoid space](http://purl.obolibrary.org/obo/UBERON_0005218) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Subarachnoid space that is part of the diencephalon. [Bgee_curator][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001302" - - - -### digestive system `http://purl.obolibrary.org/obo/UBERON_0001007` -#### Removed -- [digestive system](http://purl.obolibrary.org/obo/UBERON_0001007) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "many anatomy ontologies consider gastrointestinal system synonymous with digestive system. here we follow MA in dividing digestive system into gastrointestinal and hepatobiliary. hepatobiliary includes the liver and biliary tract. species-specific AO classes are categorized according to whether liver is included. For example, XAO includes liver as part of XAO:0000125 alimentary system, so we assume this class is the more generic class" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - -- [digestive system](http://purl.obolibrary.org/obo/UBERON_0001007) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005055" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [digestive system](http://purl.obolibrary.org/obo/UBERON_0001007) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "digestive" - -- [digestive system](http://purl.obolibrary.org/obo/UBERON_0001007) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EV:0100056" - -- [digestive system](http://purl.obolibrary.org/obo/UBERON_0001007) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An anatomical system consisting of the alimentary canal and digestive glands responsible for intake, absorption, digestion and excretion of food.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000129" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - - -### digestive tract `http://purl.obolibrary.org/obo/UBERON_0001555` -#### Removed -- [digestive tract](http://purl.obolibrary.org/obo/UBERON_0001555) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The alimentary or digestive tract, and associated organs.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000112" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [digestive tract](http://purl.obolibrary.org/obo/UBERON_0001555) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA also has a term 'gastrointestinal tract', but this includes the liver." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [digestive tract](http://purl.obolibrary.org/obo/UBERON_0001555) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D041981" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -- [digestive tract](http://purl.obolibrary.org/obo/UBERON_0001555) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "we following Kardong in naming the entire tube from mouth to anus the alimentary canal. Kardong calls the portion of this tract that excludes buccal cavity and pharynx the 'alimentary canal', consider adding an extra class for this" - -- [digestive tract](http://purl.obolibrary.org/obo/UBERON_0001555) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The bilaterian gut is typically a complete tube that opens to the exterior at both ends. It consists of mouth, foregut, midgut, hindgut, and anus (reference 1); Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.203, ISBN:978-0521617147 Stevens CE and Hume ID, Comparative physiology of the vertebrate digestive system (2004) p.11" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000309" - -- [digestive tract](http://purl.obolibrary.org/obo/UBERON_0001555) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we place the MA and EMAPA class here, although the intent is probably a smaller region. See https://github.com/obophenotype/uberon/issues/509" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - -- [digestive tract](http://purl.obolibrary.org/obo/UBERON_0001555) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00003125" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### digestive tract diverticulum `http://purl.obolibrary.org/obo/UBERON_0009854` -#### Removed -- [digestive tract diverticulum](http://purl.obolibrary.org/obo/UBERON_0009854) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00100316" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### digestive tract epithelium `http://purl.obolibrary.org/obo/UBERON_0003929` -#### Removed -- [digestive tract epithelium](http://purl.obolibrary.org/obo/UBERON_0003929) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00047166" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [digestive tract epithelium](http://purl.obolibrary.org/obo/UBERON_0003929) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Epithelium lining the lumen of the gut.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005123" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [digestive tract epithelium](http://purl.obolibrary.org/obo/UBERON_0003929) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "" - - - -### digit `http://purl.obolibrary.org/obo/UBERON_0002544` -#### Removed -- [digit](http://purl.obolibrary.org/obo/UBERON_0002544) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:85518" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "GAT" - -- [digit](http://purl.obolibrary.org/obo/UBERON_0002544) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Our reinterpretation of the distal fin endoskeleton of Panderichthys removes the final piece of evidence supporting the formerly popular hypothesis that tetrapod digits are wholly new structures without homologues in sarcopterygian fish fins. This hypothesis, which was based partly on the complete absence of plausible digit homologues in Panderichthys (then the closest known relative of tetrapods), has already been called into question by the discovery of digit-like radials in Tiktaalik and the fact that Hox gene expression patterns closely resembling those associated with digit formation in tetrapods occur in the distal fin skeletons of paddlefish and Australian lungfish. Our new data show that Panderichthys is not an anomaly: like Tiktaalik and other fish members of the Tetrapodomorpha, it has distal radials that can be interpreted as digit homologues.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1038/nature07339 Boisvert CA, Mark-Kurik E and Ahlberg PE, The pectoral fin of Panderichthys and the origin of digits. Nature (2008)" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000944" - -- [digit](http://purl.obolibrary.org/obo/UBERON_0002544) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class represents the entire organism subdivision encompassing soft tissue as well as the underlying skeletal framework. The class represents the phalangeal part only - historically the term 'digit' has also been used to represent the unit consisting of a series of phalanges together with a metapodial bone. We may in future relabel this class to avoid confusion with this concept, but the class will continue to represent the phalangeal portion" - -- [digit](http://purl.obolibrary.org/obo/UBERON_0002544) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "digital" - -- [digit](http://purl.obolibrary.org/obo/UBERON_0002544) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [metapodium region](http://purl.obolibrary.org/obo/UBERON_0009877) - - - -### digit plus metapodial segment `http://purl.obolibrary.org/obo/UBERON_5002544` -#### Removed -- [digit plus metapodial segment](http://purl.obolibrary.org/obo/UBERON_5002544) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class represents a series of phalanges plus a metapodial element plus associated soft tissues. Instances of this class typically do not form a distinct unit." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://github.com/obophenotype/uberon/issues/458" - - - -### digitopodium bone `http://purl.obolibrary.org/obo/UBERON_0012357` -#### Removed -- [digitopodium bone](http://purl.obolibrary.org/obo/UBERON_0012357) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) [Skeleton-partonomy-Design-Pattern](https://github.com/obophenotype/uberon/wiki/Skeleton-partonomy-Design-Pattern) - - - -### digitopodium region `http://purl.obolibrary.org/obo/UBERON_0012140` -#### Removed -- [digitopodium region](http://purl.obolibrary.org/obo/UBERON_0012140) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "some sources call this the acropodium. see https://github.com/obophenotype/uberon/wiki/Subdivisions-of-the-autopod" - - - -### dilatator pupillae `http://purl.obolibrary.org/obo/UBERON_0001608` -#### Removed -- [dilatator pupillae](http://purl.obolibrary.org/obo/UBERON_0001608) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "It is innervated by the sympathetic system, which acts by releasing noradrenaline, which acts on alpha1-receptors. Thus, when presented with a threatening stimuli that activates the fight-or-flight response, this innervation dilates the iris, thus temporarily letting more light reach the retina" - -- [dilatator pupillae](http://purl.obolibrary.org/obo/UBERON_0001608) SubClassOf [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) some [iris](http://purl.obolibrary.org/obo/UBERON_0001769) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "inner margins of iris" - -- [dilatator pupillae](http://purl.obolibrary.org/obo/UBERON_0001608) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - -- [dilatator pupillae](http://purl.obolibrary.org/obo/UBERON_0001608) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [iris](http://purl.obolibrary.org/obo/UBERON_0001769) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "outer margins of iris" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" - -#### Added -- [dilatator pupillae](http://purl.obolibrary.org/obo/UBERON_0001608) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [iris](http://purl.obolibrary.org/obo/UBERON_0001769) - -- [dilatator pupillae](http://purl.obolibrary.org/obo/UBERON_0001608) SubClassOf [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) some [iris](http://purl.obolibrary.org/obo/UBERON_0001769) - - -### directly develops from `http://purl.obolibrary.org/obo/RO_0002207` -#### Removed -- [directly develops from](http://purl.obolibrary.org/obo/RO_0002207) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) - -- [directly develops from](http://purl.obolibrary.org/obo/RO_0002207) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [directly develops from](http://purl.obolibrary.org/obo/RO_0002207) [id](http://www.geneontology.org/formats/oboInOwl#id) "directly_develops_from" - -- [directly develops from](http://purl.obolibrary.org/obo/RO_0002207) [RO_0002575](http://purl.obolibrary.org/obo/RO_0002575) [develops from](http://purl.obolibrary.org/obo/RO_0002202) - -- [directly develops from](http://purl.obolibrary.org/obo/RO_0002207) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002207" - -- [directly develops from](http://purl.obolibrary.org/obo/RO_0002207) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [directly develops from](http://purl.obolibrary.org/obo/RO_0002207) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [directly develops from](http://purl.obolibrary.org/obo/RO_0002207) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "directly_develops_from" - -- [directly develops from](http://purl.obolibrary.org/obo/RO_0002207) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "FBbt" - -- [directly develops from](http://purl.obolibrary.org/obo/RO_0002207) [label](http://www.w3.org/2000/01/rdf-schema#label) "directly develops from" - - - -### directly develops into `http://purl.obolibrary.org/obo/RO_0002210` -#### Removed -- [directly develops into](http://purl.obolibrary.org/obo/RO_0002210) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [directly develops into](http://purl.obolibrary.org/obo/RO_0002210) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "developmental precursor of" - - - -### directly negatively regulates `http://purl.obolibrary.org/obo/RO_0002630` -#### Removed -- [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) [IAO_0000589](http://purl.obolibrary.org/obo/IAO_0000589) "directly negatively regulates (process to process)" - -- [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [causal-relations](http://purl.obolibrary.org/obo/ro/docs/causal-relations) - - - -### directly negatively regulates activity of `http://purl.obolibrary.org/obo/RO_0002449` -#### Removed -- [directly negatively regulates activity of](http://purl.obolibrary.org/obo/RO_0002449) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [directly negatively regulates activity of](http://purl.obolibrary.org/obo/RO_0002449) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "directly inhibits" - -- [directly negatively regulates activity of](http://purl.obolibrary.org/obo/RO_0002449) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0003-4639-4431](https://orcid.org/0000-0003-4639-4431) - - - -### directly positively regulates `http://purl.obolibrary.org/obo/RO_0002629` -#### Removed -- [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [causal-relations](http://purl.obolibrary.org/obo/ro/docs/causal-relations) - -- [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) [RO_0004049](http://purl.obolibrary.org/obo/RO_0004049) [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) - -- [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) [IAO_0000589](http://purl.obolibrary.org/obo/IAO_0000589) "directly positively regulates (process to process)" - - - -### directly positively regulates activity of `http://purl.obolibrary.org/obo/RO_0002450` -#### Removed -- [directly positively regulates activity of](http://purl.obolibrary.org/obo/RO_0002450) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "directly activates" - -- [directly positively regulates activity of](http://purl.obolibrary.org/obo/RO_0002450) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0003-4639-4431](https://orcid.org/0000-0003-4639-4431) - -- [directly positively regulates activity of](http://purl.obolibrary.org/obo/RO_0002450) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### directly regulates `http://purl.obolibrary.org/obo/RO_0002578` -#### Removed -- [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [causal-relations](http://purl.obolibrary.org/obo/ro/docs/causal-relations) - -- [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) [IAO_0000589](http://purl.obolibrary.org/obo/IAO_0000589) "directly regulates (processual)" - -- [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) [RO_0002575](http://purl.obolibrary.org/obo/RO_0002575) [regulates](http://purl.obolibrary.org/obo/RO_0002211) - -- [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### directly regulates activity of `http://purl.obolibrary.org/obo/RO_0002448` -#### Removed -- [directly regulates activity of](http://purl.obolibrary.org/obo/RO_0002448) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [directly regulates activity of](http://purl.obolibrary.org/obo/RO_0002448) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0003-4639-4431](https://orcid.org/0000-0003-4639-4431) - - - -### disconnected anatomical group `http://purl.obolibrary.org/obo/UBERON_0034923` -#### Removed -- [disconnected anatomical group](http://purl.obolibrary.org/obo/UBERON_0034923) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007276" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### distal convoluted tubule `http://purl.obolibrary.org/obo/UBERON_0001292` -#### Removed -- [distal convoluted tubule](http://purl.obolibrary.org/obo/UBERON_0001292) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "in humans it is responsible for the reabsorption of about 5% of filtered sodium via the thiazide-sensitive Na-Cl symporter." - -- [distal convoluted tubule](http://purl.obolibrary.org/obo/UBERON_0001292) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "a portion of kidney nephron between the loop of Henle and the collecting duct system[Wikipedia:Distal_convoluted_tubule]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Distal_convoluted_tubule" - - - -### distal convoluted tubule macula densa `http://purl.obolibrary.org/obo/UBERON_0003546` - -#### Added -- [distal convoluted tubule macula densa](http://purl.obolibrary.org/obo/UBERON_0003546) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) - - -### distal limb integumentary appendage `http://purl.obolibrary.org/obo/UBERON_0009564` - -#### Added -- [distal limb integumentary appendage](http://purl.obolibrary.org/obo/UBERON_0009564) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### distal phalanx `http://purl.obolibrary.org/obo/UBERON_0004300` -#### Removed -- [distal phalanx](http://purl.obolibrary.org/obo/UBERON_0004300) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In human anatomy, the distal phalanges of the four fingers and toes articulate proximally with the intermediate phalanges at the distal interphalangeal joints (DIP); in the thumb and big toe, with only two phalanges, the distal phalanges articulate proximally with the proximal phalanges. The distal phalanges carry and shape nails and claws and are therefore occasionally referred to as the ungual phalanges. The distal phalanges are cone-shaped in most mammals, including most primates, but relatively wide and flat in humans." - - - -### distal segment of digit `http://purl.obolibrary.org/obo/UBERON_0009551` -#### Removed -- [distal segment of digit](http://purl.obolibrary.org/obo/UBERON_0009551) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Newborn and adult mice are able to regrow forelimb (finger) and hindlimb (toe) digit tips after their amputation through the distal interphalangeal joint. Regeneration of the digit tip involves the integrated regrowth of multiple tissues within 2-3 months, reaching an external morphology that is cosmetically and functionally similar to normal digits. Most importantly, regeneration of the mouse distal digit shares morphological similarities with clinical cases documenting regrowth of missing distal portions of fingers in both children and adults" - - - -### distal straight tubule macula densa `http://purl.obolibrary.org/obo/UBERON_0005202` -#### Removed -- [distal straight tubule macula densa](http://purl.obolibrary.org/obo/UBERON_0005202) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:28399" - - - -### distal to `http://purl.obolibrary.org/obo/BSPO_0000097` -#### Removed -- [distal to](http://purl.obolibrary.org/obo/BSPO_0000097) [id](http://www.geneontology.org/formats/oboInOwl#id) "distal_to" - -- [distal to](http://purl.obolibrary.org/obo/BSPO_0000097) [label](http://www.w3.org/2000/01/rdf-schema#label) "distal to" - -- [distal to](http://purl.obolibrary.org/obo/BSPO_0000097) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "distal_to" - -- [distal to](http://purl.obolibrary.org/obo/BSPO_0000097) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0000097" - -- [distal to](http://purl.obolibrary.org/obo/BSPO_0000097) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - - - -### distal tubule `http://purl.obolibrary.org/obo/UBERON_0004135` -#### Removed -- [distal tubule](http://purl.obolibrary.org/obo/UBERON_0004135) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0012424](http://purl.obolibrary.org/obo/UBERON_0012424) - - - -### distally connected to `http://purl.obolibrary.org/obo/uberon/core#distally_connected_to` -#### Removed -- [distally connected to](http://purl.obolibrary.org/obo/uberon/core#distally_connected_to) InverseOf [proximally connected to](http://purl.obolibrary.org/obo/uberon/core#proximally_connected_to) - - - -### distalmost part of `http://purl.obolibrary.org/obo/BSPO_0001108` -#### Removed -- [distalmost part of](http://purl.obolibrary.org/obo/BSPO_0001108) [id](http://www.geneontology.org/formats/oboInOwl#id) "distalmost_part_of" - -- [distalmost part of](http://purl.obolibrary.org/obo/BSPO_0001108) [label](http://www.w3.org/2000/01/rdf-schema#label) "distalmost part of" - -- [distalmost part of](http://purl.obolibrary.org/obo/BSPO_0001108) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "distalmost_part_of" - -- [distalmost part of](http://purl.obolibrary.org/obo/BSPO_0001108) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [distalmost part of](http://purl.obolibrary.org/obo/BSPO_0001108) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0001108" - - - -### dorsal aorta `http://purl.obolibrary.org/obo/UBERON_0005805` -#### Removed -- [dorsal aorta](http://purl.obolibrary.org/obo/UBERON_0005805) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of axial vasculature (TAO:0001073)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000014" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [dorsal aorta](http://purl.obolibrary.org/obo/UBERON_0005805) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Principal unpaired, median artery of the trunk, leading from the paired roots (radices) of the dorsal aorta to the caudal artery. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000014" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [dorsal aorta](http://purl.obolibrary.org/obo/UBERON_0005805) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "When vertebrates first appeared, they must have possessed a ventral and dorsal aorta with aortic arches between them.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000264" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620" - -- [dorsal aorta](http://purl.obolibrary.org/obo/UBERON_0005805) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The artery in vertebrate embryos that transports blood from the aortic arches to the trunk and limbs. In adult fish it is a major artery that carries oxygenated blood from the efferent branchial arteries to branches that supply the body organ. In adult tetrapods it arises from the systemic arch" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "BTO:0004673" - -- [dorsal aorta](http://purl.obolibrary.org/obo/UBERON_0005805) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Each primitive aorta receives anteriorly a vein 'the vitelline vein' from the yolk-sac, and is prolonged backward on the lateral aspect of the notochord under the name of the dorsal aorta. The dorsal aortae give branches to the yolk-sac, and are continued backward through the body-stalk as the umbilical arteries to the villi of the chorion. The two dorsal aortae combine to become the descending aorta in later development[WP]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Dorsal_aorta" - -- [dorsal aorta](http://purl.obolibrary.org/obo/UBERON_0005805) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - - -### dorsal lateral geniculate nucleus `http://purl.obolibrary.org/obo/UBERON_0002479` -#### Removed -- [dorsal lateral geniculate nucleus](http://purl.obolibrary.org/obo/UBERON_0002479) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0001927](http://purl.obolibrary.org/obo/UBERON_0001927) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - - - -### dorsal mesentery `http://purl.obolibrary.org/obo/UBERON_0002296` -#### Removed -- [dorsal mesentery](http://purl.obolibrary.org/obo/UBERON_0002296) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The mesentery that originates from the dorsal side of the peritoneal cavity.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005130" - - - -### dorsal mesogastrium `http://purl.obolibrary.org/obo/UBERON_0005602` -#### Removed -- [dorsal mesogastrium](http://purl.obolibrary.org/obo/UBERON_0005602) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The dorsal sheet of the primitive mesentery that encloses the stomach. The greater omentum develops from the dorsal mesogastrium. [TFD][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000352" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/mesogastrium" - - - -### dorsal pancreas `http://purl.obolibrary.org/obo/UBERON_0009708` - -#### Added -- [dorsal pancreas](http://purl.obolibrary.org/obo/UBERON_0009708) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### dorsal pancreatic bud `http://purl.obolibrary.org/obo/UBERON_0003923` -#### Removed -- [dorsal pancreatic bud](http://purl.obolibrary.org/obo/UBERON_0003923) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The pancreatic bud that gives rise to the accessory pancreatic duct.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "XAO:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0011031" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [dorsal pancreatic bud](http://purl.obolibrary.org/obo/UBERON_0003923) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In chick, Xenopus laevis, and the teleost fish Medaka, the pancreas develops from three buds that emerge from the gut tube, two from its ventral aspect, and one from its dorsal aspect. In mouse, although there are initially three buds that arise from the gut tube at the point of contact between the endoderm and the vasculature, the pancreas develops from only two of these buds, one dorsal and one ventral. (...) In this study, we use a transgenic zebrafish line (...). We provide evidence for the existence of two distinct pancreatic anlagen - a ventral anterior bud and a dorsal posterior bud - that join to form the definitive pancreas (reference 1); The pancreas develops from the fusion of distinct endoderm-derived dorsal and ventral diverticula. In humans, by day 35 of development, the ventral pancreatic bud begins to migrate backwards and comes into contact and eventually fuses with the dorsal pancreatic bud during the sixth week of development (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001428" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/S0012-1606(03)00308-7 Field HA, Dong PD, Beis D, Stainier DY, Formation of the digestive system in zebrafish. II. Pancreas morphogenesis. Developmental Biology (2003), DOI:10.2337/diabetes.49.2.225 Polak M, Bouchareb-Banaei L, Scharfmann R, Czernichow P, Early pattern of differentiation in the human pancreas. Diabetes (2000)" - - - -### dorsal part of neck `http://purl.obolibrary.org/obo/UBERON_0012477` -#### Removed -- [dorsal part of neck](http://purl.obolibrary.org/obo/UBERON_0012477) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "nuchal" - - - -### dorsal part of optic cup `http://purl.obolibrary.org/obo/UBERON_0016854` - -#### Added -- [dorsal part of optic cup](http://purl.obolibrary.org/obo/UBERON_0016854) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### dorsal part of pharyngeal pouch 3 `http://purl.obolibrary.org/obo/UBERON_0010025` -#### Removed -- [dorsal part of pharyngeal pouch 3](http://purl.obolibrary.org/obo/UBERON_0010025) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Derivatives of the dorsal wings include the inferior parathyroid glands[WP] in mammals, the cranial dorsal aspect of the third pouch generates the inferior parathyroids (or parathyroid III)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP" - -- [dorsal part of pharyngeal pouch 3](http://purl.obolibrary.org/obo/UBERON_0010025) SubClassOf [foregut epithelium](http://purl.obolibrary.org/obo/UBERON_0015833) - -- [dorsal part of pharyngeal pouch 3](http://purl.obolibrary.org/obo/UBERON_0010025) SubClassOf [unilaminar epithelium](http://purl.obolibrary.org/obo/UBERON_0000490) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2" - -#### Added -- [dorsal part of pharyngeal pouch 3](http://purl.obolibrary.org/obo/UBERON_0010025) SubClassOf [endoderm of foregut](http://purl.obolibrary.org/obo/UBERON_0003258) - - -### dorsal part of pharyngeal pouch 4 `http://purl.obolibrary.org/obo/UBERON_0010027` -#### Removed -- [dorsal part of pharyngeal pouch 4](http://purl.obolibrary.org/obo/UBERON_0010027) SubClassOf [unilaminar epithelium](http://purl.obolibrary.org/obo/UBERON_0000490) - -- [dorsal part of pharyngeal pouch 4](http://purl.obolibrary.org/obo/UBERON_0010027) SubClassOf [foregut epithelium](http://purl.obolibrary.org/obo/UBERON_0015833) - -#### Added -- [dorsal part of pharyngeal pouch 4](http://purl.obolibrary.org/obo/UBERON_0010027) SubClassOf [endoderm of foregut](http://purl.obolibrary.org/obo/UBERON_0003258) - - -### dorsal plus ventral thalamus `http://purl.obolibrary.org/obo/UBERON_0001897` -#### Removed -- [dorsal plus ventral thalamus](http://purl.obolibrary.org/obo/UBERON_0001897) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of a pair of large oval nervous structures made of gray matter and forming most of the lateral walls of the third ventricle of the brain and part of the diencephalon. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000657" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/thalamus" - -- [dorsal plus ventral thalamus](http://purl.obolibrary.org/obo/UBERON_0001897) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "thalamic" - -- [dorsal plus ventral thalamus](http://purl.obolibrary.org/obo/UBERON_0001897) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [hypothalamus](http://purl.obolibrary.org/obo/UBERON_0001898) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [dorsal plus ventral thalamus](http://purl.obolibrary.org/obo/UBERON_0001897) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) the brain regions of tetrapods, the structures they contain, and their basic organizational features are the same as in fishes.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.484" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000657" - -- [dorsal plus ventral thalamus](http://purl.obolibrary.org/obo/UBERON_0001897) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the diencephalon consisting of a mass of connecting fibers which relay sensory information to the cerebral cortex.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010483" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - - -### dorsal root ganglion `http://purl.obolibrary.org/obo/UBERON_0000044` -#### Removed -- [dorsal root ganglion](http://purl.obolibrary.org/obo/UBERON_0000044) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Trunk ganglion which is located adjacent to the spine on a dorsal root and contains the cell bodies of afferent sensory nerves.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000200" - -- [dorsal root ganglion](http://purl.obolibrary.org/obo/UBERON_0000044) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The sensory ganglia of spinal nerves arise only from the neural crest, whereas many sensory ganglia of the 'dorsal' cranial nerves arise from epibranchial placodes as well as the neural crest[DOI:10.1093/icb/icn065]" - -- [dorsal root ganglion](http://purl.obolibrary.org/obo/UBERON_0000044) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "From comparative analyses of craniate brains, a morphotype of the brain in the earliest craniate stock can be constructed. In marked contrast to cephalochordates, the ancestral craniate morphotype had a plethora of unique features, which included a telencephalon with pallial and subpallial parts, paired olfactory bulbs with substantial projections to most or all of the telencephalic pallium, paired lateral eyes and ears, a lateral line system for both electroreception and mechanoreception, spinal cord dorsal root ganglia, and an autonomic nervous system.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000222" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1002/1097-0185(20000615)261:3<111::AID-AR6>3.0.CO;2-F Butler AB, Chordate evolution and the origin of craniates: An old brain in a new head. AnaT Rec (New Anat) (2000)" - -- [dorsal root ganglion](http://purl.obolibrary.org/obo/UBERON_0000044) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D005727" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -- [dorsal root ganglion](http://purl.obolibrary.org/obo/UBERON_0000044) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MA and EMAPA introduce distinct classes for what appears to be the same thing" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -#### Added -- [dorsal root ganglion](http://purl.obolibrary.org/obo/UBERON_0000044) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### dorsal root of spinal cord `http://purl.obolibrary.org/obo/UBERON_0002261` -#### Removed -- [dorsal root of spinal cord](http://purl.obolibrary.org/obo/UBERON_0002261) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "In anatomy and neurology, the dorsal root (or posterior root) is the afferent sensory root of a spinal nerve. At the distal end of the dorsal root is the dorsal root ganglion, which contains the neuron cell bodies of the nerve fibres conveyed by the root. If the dorsal root of a spinal nerve were severed it would lead to numbness in certain areas of the body. The lateral division of the dorsal root contains lightly myelinated and unmyelinated axons of small diameter. These transmit pain and temperature sensation from the body. These fibers cross through the anterior white commissure to form the Anterior lateral system in the lateral funiculus. The medial division of the dorsal root contains myelinated axons of larger diameter. These transmit information of discriminative touch, pressure, vibration, and conscious proprioception originating from spinal levels C2 through S5. These fibers are pushed in towards the posterior medial sulcus to form the fasciculus gracilis and the fasciculus cuneatus. [WP,unvetted][Wikipedia:Posterior_root_of_spinal_nerve]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Posterior_root_of_spinal_nerve" - - - -### dorsal skin of finger `http://purl.obolibrary.org/obo/UBERON_0005276` -#### Removed -- [dorsal skin of finger](http://purl.obolibrary.org/obo/UBERON_0005276) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "this class is explicitly the union of the two FMA classes" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### dorsal skin of toe `http://purl.obolibrary.org/obo/UBERON_0005277` -#### Removed -- [dorsal skin of toe](http://purl.obolibrary.org/obo/UBERON_0005277) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "this class is explicitly the union of the two FMA classes" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### dorsal striatum `http://purl.obolibrary.org/obo/UBERON_0005382` -#### Removed -- [dorsal striatum](http://purl.obolibrary.org/obo/UBERON_0005382) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "It may also refer to both the basal ganglia and the internal capsule collectively." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Dorsal_striatum" - -- [dorsal striatum](http://purl.obolibrary.org/obo/UBERON_0005382) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The term dorsal striatum refers to a composite structure of the endbrain that is defined in the striatopallidal system by connectivity and neurochemical staining. It includes most of the striatum ( Heimer-1995 ). The boundary between this structure and the ventral striatum is indistinct in sections stained for Nissl substance." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "neuronames:2340" - -- [dorsal striatum](http://purl.obolibrary.org/obo/UBERON_0005382) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "It may also refer to the putamen and caudate collectively." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Dorsal_striatum" - -- [dorsal striatum](http://purl.obolibrary.org/obo/UBERON_0005382) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "According to the 1917 version of Gray's Anatomy, it is the combination of the lentiform nucleus (putamen and the globus pallidus) and the caudate nucleus" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Dorsal_striatum" - -- [dorsal striatum](http://purl.obolibrary.org/obo/UBERON_0005382) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "According to BrainInfo it is a part of the basal ganglia comprising the globus pallidus and striatum" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Dorsal_striatum" - - - -### dorsal thalamus `http://purl.obolibrary.org/obo/UBERON_0004703` -#### Removed -- [dorsal thalamus](http://purl.obolibrary.org/obo/UBERON_0004703) [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [Gnathostomata ](http://purl.obolibrary.org/obo/NCBITaxon_7776) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:8167659" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "http://neurolex.org/wiki/Category_talk:Thalamus" - - - -### dorsal to `http://purl.obolibrary.org/obo/BSPO_0000098` -#### Removed -- [dorsal to](http://purl.obolibrary.org/obo/BSPO_0000098) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [dorsal to](http://purl.obolibrary.org/obo/BSPO_0000098) [label](http://www.w3.org/2000/01/rdf-schema#label) "dorsal to" - -- [dorsal to](http://purl.obolibrary.org/obo/BSPO_0000098) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0000098" - -- [dorsal to](http://purl.obolibrary.org/obo/BSPO_0000098) [id](http://www.geneontology.org/formats/oboInOwl#id) "dorsal_to" - -- [dorsal to](http://purl.obolibrary.org/obo/BSPO_0000098) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "dorsal_to" - - - -### dorsal trunk `http://purl.obolibrary.org/obo/UBERON_0011270` -#### Removed -- [dorsal trunk](http://purl.obolibrary.org/obo/UBERON_0011270) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, the subdivision of trunk which is demarcated from the trunk proper by the external surface of the posterolateral part of the rib cage, the anterior surface of the thoracic vertebral column and the posterior axillary lines, the external surface of the posterior abdominal wall; together with the trunk proper, it constitutes the trunk[FMA]" - - - -### dorsolateral placode `http://purl.obolibrary.org/obo/UBERON_0003067` -#### Removed -- [dorsolateral placode](http://purl.obolibrary.org/obo/UBERON_0003067) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In summary, the collective term 'placodes' refers to some rather different structures, probably with different evolutionary origins. Some sensory placodes (at least the otic and olfactory) may have homologues in basal chordates. Even if this is so, it is apparent that they were elaborated considerably during early vertebrate evolution. Epibranchial and dorsolateral placodes appear to be new; we infer that their origin depended on the evolution of specific inductive signals.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1073/pnas.97.9.4449 Shimeld SM and Holland PW. Vertebrate innovations. PNAS (2000)" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000103" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - -### dorsum `http://purl.obolibrary.org/obo/UBERON_0001137` -#### Removed -- [dorsum](http://purl.obolibrary.org/obo/UBERON_0001137) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "dorsal" - -- [dorsum](http://purl.obolibrary.org/obo/UBERON_0001137) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, called the back, a large posterior area of the human body, rising from the top of the buttocks to the back of the neck and the shoulders. It is the surface opposite to the chest, its height being defined by the vertebral column (commonly referred to as the spine or backbone) and its breadth being supported by the ribcage and shoulders. The spinal canal runs through the spine and provides nerves to the rest of the body" - - - -### drains `http://purl.obolibrary.org/obo/RO_0002179` -#### Removed -- [drains](http://purl.obolibrary.org/obo/RO_0002179) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "drains" - -- [drains](http://purl.obolibrary.org/obo/RO_0002179) [label](http://www.w3.org/2000/01/rdf-schema#label) "drains" - -- [drains](http://purl.obolibrary.org/obo/RO_0002179) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002179" - -- [drains](http://purl.obolibrary.org/obo/RO_0002179) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [drains](http://purl.obolibrary.org/obo/RO_0002179) [id](http://www.geneontology.org/formats/oboInOwl#id) "drains" - -- [drains](http://purl.obolibrary.org/obo/RO_0002179) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [20064205](http://www.ncbi.nlm.nih.gov/pubmed/20064205) - -- [drains](http://purl.obolibrary.org/obo/RO_0002179) Domain [vein](http://purl.obolibrary.org/obo/UBERON_0001638) - - - -### duct `http://purl.obolibrary.org/obo/UBERON_0000058` -#### Removed -- [duct](http://purl.obolibrary.org/obo/UBERON_0000058) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00100314" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [duct](http://purl.obolibrary.org/obo/UBERON_0000058) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Most ducts, but not all, are exocrine gland ducts. Some ontologies classify structures such as the oviduct here." - -- [duct](http://purl.obolibrary.org/obo/UBERON_0000058) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A tube shaped portion of tissue lined with epithelial cells that collects secretions and routes them to their destination[ZFA:0005171]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA:0005171" - - - -### duct of apocrine sweat gland `http://purl.obolibrary.org/obo/UBERON_0035074` - -#### Added -- [duct of apocrine sweat gland](http://purl.obolibrary.org/obo/UBERON_0035074) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### duct of eccrine sweat gland `http://purl.obolibrary.org/obo/UBERON_0035073` - -#### Added -- [duct of eccrine sweat gland](http://purl.obolibrary.org/obo/UBERON_0035073) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### duct of epididymis `http://purl.obolibrary.org/obo/UBERON_0008824` - -#### Added -- [duct of epididymis](http://purl.obolibrary.org/obo/UBERON_0008824) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### duct of male reproductive system `http://purl.obolibrary.org/obo/UBERON_0005904` -#### Removed -- [duct of male reproductive system](http://purl.obolibrary.org/obo/UBERON_0005904) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class groups the individual ducts in a variety of species" - - - -### duct of sebaceous gland `http://purl.obolibrary.org/obo/UBERON_0011845` - -#### Added -- [duct of sebaceous gland](http://purl.obolibrary.org/obo/UBERON_0011845) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### duct of seminal vesicle `http://purl.obolibrary.org/obo/UBERON_0005903` - -#### Added -- [duct of seminal vesicle](http://purl.obolibrary.org/obo/UBERON_0005903) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### ductal plate `http://purl.obolibrary.org/obo/UBERON_8410003` -#### Removed -- [ductal plate](http://purl.obolibrary.org/obo/UBERON_8410003) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Temporal stages still need to be fully researched across species." - -#### Added -- [ductal plate](http://purl.obolibrary.org/obo/UBERON_8410003) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### duodenal gland `http://purl.obolibrary.org/obo/UBERON_0001212` -#### Removed -- [duodenal gland](http://purl.obolibrary.org/obo/UBERON_0001212) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Said to be absent outside mammlian (Andrew 1959) but Ziswiler and Farner (1972) noted similar glands at the gastroduodenal junction of some birds" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:9780521617147" - -- [duodenal gland](http://purl.obolibrary.org/obo/UBERON_0001212) SubClassOf [submucosal gland](http://purl.obolibrary.org/obo/UBERON_0011148) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "compound tubular" - -- [duodenal gland](http://purl.obolibrary.org/obo/UBERON_0001212) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Mammalia](http://purl.obolibrary.org/obo/NCBITaxon_40674) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:9780521617147" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "unclear for Aves" - -#### Added -- [duodenal gland](http://purl.obolibrary.org/obo/UBERON_0001212) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Mammalia](http://purl.obolibrary.org/obo/NCBITaxon_40674) - -- [duodenal gland](http://purl.obolibrary.org/obo/UBERON_0001212) SubClassOf [submucosal gland](http://purl.obolibrary.org/obo/UBERON_0011148) - - -### duodenum `http://purl.obolibrary.org/obo/UBERON_0002114` -#### Removed -- [duodenum](http://purl.obolibrary.org/obo/UBERON_0002114) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The fixed portion of the small intestine deeply lodged in the posterior wall of the abdomen and extending from the pylorus to the beginning of the jejunum. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000052" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - -- [duodenum](http://purl.obolibrary.org/obo/UBERON_0002114) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In fish, the divisions of the small intestine are not as clear, and the terms anterior intestine or proximal intestine may be used instead of duodenum." - - [hasScope](http://www.geneontology.org/formats/oboInOwl#hasScope) "NCBITaxon:32443" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Duodenum" - -- [duodenum](http://purl.obolibrary.org/obo/UBERON_0002114) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "duodenal" - -- [duodenum](http://purl.obolibrary.org/obo/UBERON_0002114) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, the duodenum is a hollow jointed tube about 10-15 inches (25-38 centimetres) long connecting the stomach to the jejunum. It begins with the duodenal bulb and ends at the ligament of Treitz." - - [hasScope](http://www.geneontology.org/formats/oboInOwl#hasScope) "NCBITaxon:9606" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Duodenum" - -- [duodenum](http://purl.obolibrary.org/obo/UBERON_0002114) SubClassOf [subdivision of digestive tract](http://purl.obolibrary.org/obo/UBERON_0004921) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "cjm" - - - [order](http://www.geneontology.org/formats/oboInOwl#order) "3" - -#### Added -- [duodenum](http://purl.obolibrary.org/obo/UBERON_0002114) SubClassOf [subdivision of digestive tract](http://purl.obolibrary.org/obo/UBERON_0004921) - - -### dura mater `http://purl.obolibrary.org/obo/UBERON_0002363` -#### Removed -- [dura mater](http://purl.obolibrary.org/obo/UBERON_0002363) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "some ontologies consider dura mater part of the CNS, others dispute this and claim it surrounds it (e.g. DOI:10.1111/joa.12381)[https://github.com/obophenotype/uberon/issues/1261]" - -- [dura mater](http://purl.obolibrary.org/obo/UBERON_0002363) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "the outermost of the three layers of the meninges surrounding the brain and spinal cord. The other two meningeal layers are the pia mater and the arachnoid mater. The dura surrounds the brain and the spinal cord and is responsible for keeping in the cerebrospinal fluid[Wikipedia:Dura_mater]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Dura_mater" - -- [dura mater](http://purl.obolibrary.org/obo/UBERON_0002363) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EV:0100313" - -- [dura mater](http://purl.obolibrary.org/obo/UBERON_0002363) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "capable of inducing chondrogenesis - requires contact with an epithelium - http://www.ncbi.nlm.nih.gov/pubmed/16496288" - -- [dura mater](http://purl.obolibrary.org/obo/UBERON_0002363) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [ectomeninx](http://purl.obolibrary.org/obo/UBERON_0007647) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [dura mater](http://purl.obolibrary.org/obo/UBERON_0002363) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [ectomeninx](http://purl.obolibrary.org/obo/UBERON_0007647) - - -### dura mater lymph vessel `http://purl.obolibrary.org/obo/UBERON_0035608` -#### Removed -- [dura mater lymph vessel](http://purl.obolibrary.org/obo/UBERON_0035608) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "while Louveau et al (DOI:10.1038/nature14432) state this is within the CNS (thus overturning dogma about the presence of lymphatics in the CNS), in this ontology the dura" - -#### Added -- [dura mater lymph vessel](http://purl.obolibrary.org/obo/UBERON_0035608) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### dural macrophage `http://purl.obolibrary.org/obo/CL_4042006` - -#### Added -- [dural macrophage](http://purl.obolibrary.org/obo/CL_4042006) [label](http://www.w3.org/2000/01/rdf-schema#label) "dural macrophage"@en - -- [dural macrophage](http://purl.obolibrary.org/obo/CL_4042006) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A border associated macrophage which is part of a dura matter. This macrophage phagocytoses intruding pathogens and foreign molecules detected in the bloodstream or in the cerebrospinal fluid. This cell has an amoeboid body with dynamic protrusions in homeostasis." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:31061494" - -- [dural macrophage](http://purl.obolibrary.org/obo/CL_4042006) [contributor](http://purl.org/dc/terms/contributor) [0000-0002-0098-8958](https://orcid.org/0000-0002-0098-8958) - -- [dural macrophage](http://purl.obolibrary.org/obo/CL_4042006) [date](http://purl.org/dc/terms/date) "2024-03-26T19:27:03Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) - -- [dural macrophage](http://purl.obolibrary.org/obo/CL_4042006) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "dmMΦ" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37232741" - -- Class: [dural macrophage](http://purl.obolibrary.org/obo/CL_4042006) - -- [dural macrophage](http://purl.obolibrary.org/obo/CL_4042006) SubClassOf [border associated macrophage](http://purl.obolibrary.org/obo/CL_4042003) - -- [dural macrophage](http://purl.obolibrary.org/obo/CL_4042006) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [brain dura mater](http://purl.obolibrary.org/obo/UBERON_0002092) - - -### ear `http://purl.obolibrary.org/obo/UBERON_0001690` -#### Removed -- [ear](http://purl.obolibrary.org/obo/UBERON_0001690) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Both vertebrate and invertebrate auditory organs are thought to have evolved from primitive mechanosensors, but the nature of the ancestral structure and the evolutionary trajectories followed in distinct animal lineages remain unknown. In particular, we do not know how many types of mechanosensor existed in the protostome-deuterostome ancestor from which insects and vertebrates evolved or whether the PDA had an auditory organ.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1002/dvdy.20207 Boekhoff-Falk G, Hearing in Drosophila: Development of Johnston's organ and emerging parallels to vertebrate ear development. Developmental Dynamics (2005)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000330" - -- [ear](http://purl.obolibrary.org/obo/UBERON_0001690) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The organ of hearing and of equilibrium. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/ear" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000330" - -- [ear](http://purl.obolibrary.org/obo/UBERON_0001690) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "auricular" - - - -### ear vesicle `http://purl.obolibrary.org/obo/UBERON_0003051` -#### Removed -- [ear vesicle](http://purl.obolibrary.org/obo/UBERON_0003051) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of the paired sacs of invaginated ectoderm that develop into the membranous labyrinth of the internal ear. [Biology_online][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001148" - -- [ear vesicle](http://purl.obolibrary.org/obo/UBERON_0003051) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The inner ear develops embryonically in all vertebrates as an invagination of the ectodermal otic placode to form an otic vesicle.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001148" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.413" - -- [ear vesicle](http://purl.obolibrary.org/obo/UBERON_0003051) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Epithelial sac present beside the fifth rhombomere; forms the semicircular canals dorsally and the otolith organs ventrally, and houses the acoustico-vestibular sensory epithelia (maculae) of hair cells. Kimmel et al, 1995. (Also see Anatomical Atlas entry for ear by T. Whitfield.)[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000051" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [ear vesicle](http://purl.obolibrary.org/obo/UBERON_0003051) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MP defines as epithelial sac, but EHDAA defines as multi-tissue; See https://github.com/obophenotype/uberon/issues/1305" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MP" - -#### Added -- [ear vesicle](http://purl.obolibrary.org/obo/UBERON_0003051) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### early distal convoluted tubule `http://purl.obolibrary.org/obo/UBERON_0005101` -#### Removed -- [early distal convoluted tubule](http://purl.obolibrary.org/obo/UBERON_0005101) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:28393" - -#### Added -- [early distal convoluted tubule](http://purl.obolibrary.org/obo/UBERON_0005101) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) - - -### early pharyngeal endoderm `http://purl.obolibrary.org/obo/UBERON_0007690` -#### Removed -- [early pharyngeal endoderm](http://purl.obolibrary.org/obo/UBERON_0007690) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:32754" - -- [early pharyngeal endoderm](http://purl.obolibrary.org/obo/UBERON_0007690) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:293087" - - - -### early prosencephalic vesicle `http://purl.obolibrary.org/obo/UBERON_0006284` -#### Removed -- [early prosencephalic vesicle](http://purl.obolibrary.org/obo/UBERON_0006284) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The early development of most vertebrate brains is similar (...). The zebrafish neural tube follows the same basic differentiation pattern as the mammalian neural tube (reference 1); The brain develops from three embryonic enlargements of the neural tube, which later differentiate into five regions. A forebrain differentiates into telencephalon and diencephalon. The midbrain, or mesencephalon, remains undivided. The hindbrain divides into the metencephalon and myelencephalon. Cavities within the brain enlarge to form a series of interconnected ventricles (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) p.381-382, ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.500" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000644" - - - -### eccrine sweat gland `http://purl.obolibrary.org/obo/UBERON_0000423` -#### Removed -- [eccrine sweat gland](http://purl.obolibrary.org/obo/UBERON_0000423) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in mice, found only on footpads; in humans, entire body including soles and palms" - - - -### ectocervix `http://purl.obolibrary.org/obo/UBERON_0012249` -#### Removed -- [ectocervix](http://purl.obolibrary.org/obo/UBERON_0012249) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "distinction between two FMA classes not clear - we merge them here" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### ectoderm `http://purl.obolibrary.org/obo/UBERON_0000924` -#### Removed -- [ectoderm](http://purl.obolibrary.org/obo/UBERON_0000924) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000153" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) Limb development and evolution, p.722" - -- [ectoderm](http://purl.obolibrary.org/obo/UBERON_0000924) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000111" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [ectoderm](http://purl.obolibrary.org/obo/UBERON_0000924) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "ectodermal" - -- [ectoderm](http://purl.obolibrary.org/obo/UBERON_0000924) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Primary germ layer that is the outer of the embryonic germ layers and gives rise to epidermis and neural tissue.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000137" - - - -### ectoderm-derived structure `http://purl.obolibrary.org/obo/UBERON_0004121` -#### Removed -- [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Grouping term for query purposes" - - - -### ectodermal placode `http://purl.obolibrary.org/obo/UBERON_0005085` -#### Removed -- [ectodermal placode](http://purl.obolibrary.org/obo/UBERON_0005085) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in GO, covers optic, otic, olfactory, mammary, hair, tooth, sebaceous - and also insect structures" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://github.com/geneontology/go-ontology/issues/12223#issuecomment-215692347" - - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "GO" - -- [ectodermal placode](http://purl.obolibrary.org/obo/UBERON_0005085) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "With the exception of the adenohypophysis, homologues of the nonneurogenic placodes (e.g. placodes giving rise to the teeth, hair follicles and lens), appear to be lacking in invertebrate chordates." - - - -### ectonucleotide pyrophosphatase/phosphodiesterase family member 3 `http://purl.obolibrary.org/obo/PR_000001344` -#### Removed -- [ectonucleotide pyrophosphatase/phosphodiesterase family member 3](http://purl.obolibrary.org/obo/PR_000001344) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [ectonucleotide pyrophosphatase/phosphodiesterase family member 3 (human)](http://purl.obolibrary.org/obo/PR_O14638) - - - -### ectoplacental cone `http://purl.obolibrary.org/obo/UBERON_0004364` -#### Removed -- [ectoplacental cone](http://purl.obolibrary.org/obo/UBERON_0004364) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "derivative of the early postimplantation trophoblast, which probably gives rise to the spongiotrophoblast." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:19829370" - - - -### editor `http://www.geneontology.org/formats/oboInOwl#editor` -#### Removed -- AnnotationProperty: [editor](http://www.geneontology.org/formats/oboInOwl#editor) - - - -### editor note `http://purl.obolibrary.org/obo/IAO_0000116` -#### Removed -- [editor note](http://purl.obolibrary.org/obo/IAO_0000116) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [ready for release](http://purl.obolibrary.org/obo/IAO_0000122) - -- [editor note](http://purl.obolibrary.org/obo/IAO_0000116) [label](http://www.w3.org/2000/01/rdf-schema#label) "editor note" - -- [editor note](http://purl.obolibrary.org/obo/IAO_0000116) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "IAO:0000116" - -- [editor note](http://purl.obolibrary.org/obo/IAO_0000116) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "editor note"@en - -- [editor note](http://purl.obolibrary.org/obo/IAO_0000116) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "PERSON:Daniel Schober"@en - -- [editor note](http://purl.obolibrary.org/obo/IAO_0000116) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "GROUP:OBI:<http://purl.obofoundry.org/obo/obi>"@en - -- [editor note](http://purl.obolibrary.org/obo/IAO_0000116) [is_metadata_tag](http://www.geneontology.org/formats/oboInOwl#is_metadata_tag) true - -- [editor note](http://purl.obolibrary.org/obo/IAO_0000116) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [editor note](http://purl.obolibrary.org/obo/IAO_0000116) [id](http://www.geneontology.org/formats/oboInOwl#id) "editor_note" - -- [editor note](http://purl.obolibrary.org/obo/IAO_0000116) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "editor_note" - - - -### efferent duct `http://purl.obolibrary.org/obo/UBERON_0006946` -#### Removed -- [efferent duct](http://purl.obolibrary.org/obo/UBERON_0006946) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Any of a group ranging from one to twelve (varies in species) small seminal ducts per testis which transport sperm from the testes to the kidney.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010532" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [efferent duct](http://purl.obolibrary.org/obo/UBERON_0006946) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "There are two basic designs for efferent ductule structure: a) multiple entries into the epididymis, as seen in most large mammals. In humans and other large mammals, there are approximately 15-20 efferent ducts, which also occupy nearly one third of the head of the epididymis. b) single entry, as seen in most small animals such as rodents, whereby the 3-6 ductules merge into a single small ductule prior to entering the epididymis" - -- [efferent duct](http://purl.obolibrary.org/obo/UBERON_0006946) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Check EMAPA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EMAPA" - - - -### elastic `http://purl.obolibrary.org/obo/PATO_0001171` -#### Removed -- [elastic](http://purl.obolibrary.org/obo/PATO_0001171) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [PATO_0001172](http://purl.obolibrary.org/obo/PATO_0001172) - - - -### elastic cartilage tissue `http://purl.obolibrary.org/obo/UBERON_0001996` -#### Removed -- [elastic cartilage tissue](http://purl.obolibrary.org/obo/UBERON_0001996) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cartilage (tissue) which consists of chondrocytes and collagen, the intercellular matrix of which consists of elastic fibers[FMA:64785]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:64785" - -- [elastic cartilage tissue](http://purl.obolibrary.org/obo/UBERON_0001996) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cartilage tissue that is flexible and contains abundant elastic fibers.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000091" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - -- [elastic cartilage tissue](http://purl.obolibrary.org/obo/UBERON_0001996) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MA has a distinct class for yellow" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - - - -### elbow `http://purl.obolibrary.org/obo/UBERON_0001461` -#### Removed -- [elbow](http://purl.obolibrary.org/obo/UBERON_0001461) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "Naming conventions for pod terms under discussion within phenoscape group" - -- [elbow](http://purl.obolibrary.org/obo/UBERON_0001461) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "cubital" - - - -### elbow joint `http://purl.obolibrary.org/obo/UBERON_0001490` -#### Removed -- [elbow joint](http://purl.obolibrary.org/obo/UBERON_0001490) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In human anatomy, the elbow joint is a compound joint that actually comprises three separate joints: the joints connecting the upper and lower arm: 1) Articulatio humero-ulnaris and 2) Articulatio humero-radialis as well as the proximal joint connecting the forarm bones: 3) Articulatio radio-ulnaris proximalis" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "HP" - -- [elbow joint](http://purl.obolibrary.org/obo/UBERON_0001490) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [elbow joint primordium](http://purl.obolibrary.org/obo/UBERON_0006224) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [elbow joint](http://purl.obolibrary.org/obo/UBERON_0001490) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [elbow joint primordium](http://purl.obolibrary.org/obo/UBERON_0006224) - - -### embryo `http://purl.obolibrary.org/obo/UBERON_0000922` -#### Removed -- [embryo](http://purl.obolibrary.org/obo/UBERON_0000922) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "IDOMAL:0000646" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) - -- [embryo](http://purl.obolibrary.org/obo/UBERON_0000922) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Obsoleted in ZFA. Note that embryo is not classified as an embryonic structure - an embryonic structure is only the parts of an embryo" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" - -- [embryo](http://purl.obolibrary.org/obo/UBERON_0000922) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000052" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [embryo](http://purl.obolibrary.org/obo/UBERON_0000922) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "embryonic" - - - -### embryonic cloaca `http://purl.obolibrary.org/obo/UBERON_0000163` -#### Removed -- [embryonic cloaca](http://purl.obolibrary.org/obo/UBERON_0000163) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class represents the embryonic form of the cloaca, as found in both mammals and non-mammals." - - - -### embryonic footplate `http://purl.obolibrary.org/obo/UBERON_0006871` -#### Removed -- [embryonic footplate](http://purl.obolibrary.org/obo/UBERON_0006871) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "EHDAA2 does not have a single class for footplate, but includes epithelium, mesenchyme and AER" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" - - - -### embryonic head `http://purl.obolibrary.org/obo/UBERON_0008816` -#### Removed -- [embryonic head](http://purl.obolibrary.org/obo/UBERON_0008816) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000155" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### embryonic nasal process `http://purl.obolibrary.org/obo/UBERON_0009292` -#### Removed -- [embryonic nasal process](http://purl.obolibrary.org/obo/UBERON_0009292) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:293971" - -- [embryonic nasal process](http://purl.obolibrary.org/obo/UBERON_0009292) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "medial or lateral; in EHDAA2 also frontonasal or intermaxillary" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" - - - -### embryonic post-anal tail `http://purl.obolibrary.org/obo/UBERON_0007144` -#### Removed -- [embryonic post-anal tail](http://purl.obolibrary.org/obo/UBERON_0007144) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "By the fourth week a clear tail is seen in the human embryo. It recedes after a few weeks and these tissues form what is commonly known as the tailbone (coccyx)." - - - -### embryonic skin basal layer `http://purl.obolibrary.org/obo/UBERON_0011272` - -#### Added -- [embryonic skin basal layer](http://purl.obolibrary.org/obo/UBERON_0011272) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### embryonic structure `http://purl.obolibrary.org/obo/UBERON_0002050` -#### Removed -- [embryonic structure](http://purl.obolibrary.org/obo/UBERON_0002050) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA embryo is_a embryonic structure" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [embryonic structure](http://purl.obolibrary.org/obo/UBERON_0002050) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004208" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [embryonic structure](http://purl.obolibrary.org/obo/UBERON_0002050) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical structure that is part of the embryo and is comprised of portions of tissue or cells.[VSAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000178" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - -- [embryonic structure](http://purl.obolibrary.org/obo/UBERON_0002050) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical structure that is part of the embryo and is comprised of portions of tissue or cells.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000138" - -- [embryonic structure](http://purl.obolibrary.org/obo/UBERON_0002050) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical structure that is part of the embryo and is comprised of portions of tissue or cells.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001105" - - - -### embryonic tagma `http://purl.obolibrary.org/obo/UBERON_6000137` -#### Removed -- [embryonic tagma](http://purl.obolibrary.org/obo/UBERON_6000137) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000137" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### embryonic urethral groove `http://purl.obolibrary.org/obo/UBERON_0013241` -#### Removed -- [embryonic urethral groove](http://purl.obolibrary.org/obo/UBERON_0013241) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, the urethral groove is a temporary linear indentation on the underside (ventral side) of the male penis during embryonic development. It typically appears around 8 weeks of gestation and becomes closed into a normal male urethra by the 12th week" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Urethral_groove" - - - -### enabled by `http://purl.obolibrary.org/obo/RO_0002333` -#### Removed -- [enabled by](http://purl.obolibrary.org/obo/RO_0002333) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### enables `http://purl.obolibrary.org/obo/RO_0002327` -#### Removed -- [enables](http://purl.obolibrary.org/obo/RO_0002327) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "catalyzes" - -- [enables](http://purl.obolibrary.org/obo/RO_0002327) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "is executing" - -- [enables](http://purl.obolibrary.org/obo/RO_0002327) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [enables](http://purl.obolibrary.org/obo/RO_0002327) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "a particular instances of akt-2 enables some instance of protein kinase activity" - -- [enables](http://purl.obolibrary.org/obo/RO_0002327) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "has" - -- [enables](http://purl.obolibrary.org/obo/RO_0002327) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "is catalyzing" - -- [enables](http://purl.obolibrary.org/obo/RO_0002327) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "This relation differs from the parent relation 'capable of' in that the parent is weaker and only expresses a capability that may not be actually realized, whereas this relation is always realized." - -- [enables](http://purl.obolibrary.org/obo/RO_0002327) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "executes" - - - -### enamel `http://purl.obolibrary.org/obo/UBERON_0001752` -#### Removed -- [enamel](http://purl.obolibrary.org/obo/UBERON_0001752) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "part_of tooth enamel organ in MA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - -- [enamel](http://purl.obolibrary.org/obo/UBERON_0001752) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Skeletal tissue that consists of an avascular, noncollagenous, hypermineralized matrix that is deposited by ameloblasts that are excluded from the matrix. Enamel develops from organic pre-enamel tissue that is replaced by a largely inorganic matrix.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000065" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - -- [enamel](http://purl.obolibrary.org/obo/UBERON_0001752) SubClassOf [composed primarily of](http://purl.obolibrary.org/obo/RO_0002473) some [CHEBI_52255](http://purl.obolibrary.org/obo/CHEBI_52255) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:ENAM" - - - [proportion](http://www.geneontology.org/formats/oboInOwl#proportion) "85" - -#### Added -- [enamel](http://purl.obolibrary.org/obo/UBERON_0001752) SubClassOf [composed primarily of](http://purl.obolibrary.org/obo/RO_0002473) some [CHEBI_52255](http://purl.obolibrary.org/obo/CHEBI_52255) - - -### endocardial cushion `http://purl.obolibrary.org/obo/UBERON_0002062` -#### Removed -- [endocardial cushion](http://purl.obolibrary.org/obo/UBERON_0002062) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(Cardiac valve formation in vertebrates) In response to a myocardial signal, endocardial cells at chamber boundaries take on a mesenchymal character, delaminate and migrate into the cardiac jelly. There, they form an endocardial cushion that is later remodelled into a valve.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1038/35047564 Stainier DYR, Zebrafish genetics and vertebrate heart formation. Nature Reviews Genetics (2001) Figure 3" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000932" - -- [endocardial cushion](http://purl.obolibrary.org/obo/UBERON_0002062) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Swellings of tissue present between the endocardial and myocardial cell layers that will give rise to the interstitial cells of the cardiac valves.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001317" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [endocardial cushion](http://purl.obolibrary.org/obo/UBERON_0002062) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: develops_from endocardial ring (TAO:0005072)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001317" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [endocardial cushion](http://purl.obolibrary.org/obo/UBERON_0002062) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D054089" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### endocardium `http://purl.obolibrary.org/obo/UBERON_0002165` -#### Removed -- [endocardium](http://purl.obolibrary.org/obo/UBERON_0002165) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Layer that lines the lumen of the heart.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001320" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [endocardium](http://purl.obolibrary.org/obo/UBERON_0002165) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the heart comprised of thin serous membrane, composed of endothelial tissue, that lines the interior of the heart.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010408" - -- [endocardium](http://purl.obolibrary.org/obo/UBERON_0002165) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Tunica intima which has as its parts the endothelium of endocardium and the fibroelastic connective tissue that surrounds the cavity of a cardiac chamber." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:7280" - -- [endocardium](http://purl.obolibrary.org/obo/UBERON_0002165) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - - -### endocardium of left ventricle `http://purl.obolibrary.org/obo/UBERON_0009713` -#### Removed -- [endocardium of left ventricle](http://purl.obolibrary.org/obo/UBERON_0009713) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Endocardium of ventricle which is continuous with mitral valve, aortic valve, atrioventricular septum and the tunica intima of the aorta." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:9559" - - - -### endocardium of right ventricle `http://purl.obolibrary.org/obo/UBERON_0009712` -#### Removed -- [endocardium of right ventricle](http://purl.obolibrary.org/obo/UBERON_0009712) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Endocardium of ventricle which is continuous tricuspid valve, pulmonary valve and with the tunica intima of the pulmonary trunk." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:9536" - - - -### endocervical epithelium `http://purl.obolibrary.org/obo/UBERON_0012252` -#### Removed -- [endocervical epithelium](http://purl.obolibrary.org/obo/UBERON_0012252) SubClassOf [glandular epithelium](http://purl.obolibrary.org/obo/UBERON_0006799) - -#### Added -- [endocervical epithelium](http://purl.obolibrary.org/obo/UBERON_0012252) SubClassOf [cervix glandular epithelium](http://purl.obolibrary.org/obo/UBERON_0012250) - - -### endocervix `http://purl.obolibrary.org/obo/UBERON_0000458` - -#### Added -- [endocervix](http://purl.obolibrary.org/obo/UBERON_0000458) SubClassOf [reproductive structure](http://purl.obolibrary.org/obo/UBERON_0005156) - - -### endochondral bone `http://purl.obolibrary.org/obo/UBERON_0002513` -#### Removed -- [endochondral bone](http://purl.obolibrary.org/obo/UBERON_0002513) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Replacement bone that forms within cartilage.[VSAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000145" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - -- [endochondral bone](http://purl.obolibrary.org/obo/UBERON_0002513) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "some structures, e.g. in ZFA are both intramembrane and endochondral" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" - - - -### endochondral bone tissue `http://purl.obolibrary.org/obo/UBERON_0004763` -#### Removed -- [endochondral bone tissue](http://purl.obolibrary.org/obo/UBERON_0004763) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "the distinction between endochondral bone and endochondral bone tissue. Some bones may be a mixture of both tissue types. The MA class most likely refers to a tissue type" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - - - -### endocrine pancreas `http://purl.obolibrary.org/obo/UBERON_0000016` -#### Removed -- [endocrine pancreas](http://purl.obolibrary.org/obo/UBERON_0000016) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The zebrafish endocrine pancreas is composed of small groups of islet cells that are distributed throughout the exocrine pancreas. The islet cells produce insulin, glucagon and somatostatin.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001260" - -- [endocrine pancreas](http://purl.obolibrary.org/obo/UBERON_0000016) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D007515" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -- [endocrine pancreas](http://purl.obolibrary.org/obo/UBERON_0000016) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The part of the pancreas that acts as an endocrine gland, consisting of the islets of Langerhans, which secrete insulin and other hormones. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/Pancreas" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000049" - -- [endocrine pancreas](http://purl.obolibrary.org/obo/UBERON_0000016) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In the hagfish and lampreys (our most primitive vertebrate species of today), the first sign of 'a new organ' is found as collections of endocrine cells around the area of the bile duct connection with the duodenum. These endocrine organs are composed of 99% beta cells and 1% somatostatin-producing delta cells. Compared to the more primitive protochordates (e.g. amphioxus), this represents a stage where all previously scattered insulin-producing cells of the intestinal tissue have now quantitatively migrated to found a new organ involved in sensing blood glucose rather than gut glucose. Only later in evolution, the beta cells are joined by exocrine tissue and alpha cells (exemplified by the rat-, rabbit- and elephant-fishes). Finally, from sharks and onwards in evolution, we have the islet PP-cell entering to complete the pancreas.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/j.crvi.2007.03.006 Madsen OD, Pancreas phylogeny and ontogeny in relation to a 'pancreatic stem cell'. C.R. Biologies (2007)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000049" - -- [endocrine pancreas](http://purl.obolibrary.org/obo/UBERON_0000016) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "endocrine and exocrine pancreas are not co-associated in hagfishes or lampreys" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:20959416" - - - -### endocrine system `http://purl.obolibrary.org/obo/UBERON_0000949` -#### Removed -- [endocrine system](http://purl.obolibrary.org/obo/UBERON_0000949) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "endocrine" - -- [endocrine system](http://purl.obolibrary.org/obo/UBERON_0000949) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical system containing glands which regulates bodily functions though the secretion of hormones.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010279" - -- [endocrine system](http://purl.obolibrary.org/obo/UBERON_0000949) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Multicellular organisms have complex endocrine systems, allowing responses to environmental stimuli, regulation of development, reproduction, and homeostasis. Nuclear receptors (NRs), a metazoan-specific family of ligand-activated transcription factors, play central roles in endocrine responses, as intermediates between signaling molecules and target genes. The NR family includes ligand-bound and orphan receptors, that is, receptors with no known ligand or for which there is no ligand Pocket. Understanding NR evolution has been further improved by comparison of several completed genomes, particularly those of deuterostomes and ecdysozoans. In contrast, evolution of NR ligands is still much debated. One hypothesis proposes that several independent gains and losses of ligand-binding ability in NRs occurred in protostomes and deuterostomes. A second hypothesis, pertaining to the NR3 subfamily (vertebrate steroid hormone receptors and estrogen related receptor), proposes that before the divergence of protostomes and deuterostomes, there was an ancestral steroid receptor (AncSR) that was ligand-activated and that orphan receptors secondarily lost the ability to bind a ligand. (...) Our analysis reveals that steroidogenesis has been independently elaborated in the 3 main bilaterian lineages (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1073/pnas.0812138106 Markov GV, Tavares R, Dauphin-Villemant C, Demeneix BA, Baker ME, Laudet V, Independent elaboration of steroid hormone signaling pathways in metazoans. PNAS (2009)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000098" - -- [endocrine system](http://purl.obolibrary.org/obo/UBERON_0000949) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005068" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### endoderm `http://purl.obolibrary.org/obo/UBERON_0000925` -#### Removed -- [endoderm](http://purl.obolibrary.org/obo/UBERON_0000925) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "endodermal" - -- [endoderm](http://purl.obolibrary.org/obo/UBERON_0000925) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000154" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) Limb development and evolution, p.722" - -- [endoderm](http://purl.obolibrary.org/obo/UBERON_0000925) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000125" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### endoderm-derived structure `http://purl.obolibrary.org/obo/UBERON_0004119` -#### Removed -- [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Grouping term for query purposes" - - - -### endoglin `http://purl.obolibrary.org/obo/PR_000001345` -#### Removed -- [endoglin](http://purl.obolibrary.org/obo/PR_000001345) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [endoglin (human)](http://purl.obolibrary.org/obo/PR_P17813) - - - -### endometrial gland `http://purl.obolibrary.org/obo/UBERON_0002451` -#### Removed -- [endometrial gland](http://purl.obolibrary.org/obo/UBERON_0002451) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "simple or branched tubular" - -- [endometrial gland](http://purl.obolibrary.org/obo/UBERON_0002451) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_71647](http://purl.obolibrary.org/obo/FMA_71647) - -#### Added -- [endometrial gland](http://purl.obolibrary.org/obo/UBERON_0002451) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### endometrium `http://purl.obolibrary.org/obo/UBERON_0001295` -#### Removed -- [endometrium](http://purl.obolibrary.org/obo/UBERON_0001295) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The maternal part of the placenta (of eutherian mammals) is the vascularized and glandular uterine lining, or endometrium.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.144" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001285" - -- [endometrium](http://purl.obolibrary.org/obo/UBERON_0001295) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA this is subdivided into basal and outer" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [endometrium](http://purl.obolibrary.org/obo/UBERON_0001295) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The mucous membrane lining the uterus. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/Endometrium" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001285" - -- [endometrium](http://purl.obolibrary.org/obo/UBERON_0001295) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "endometrial" - -- [endometrium](http://purl.obolibrary.org/obo/UBERON_0001295) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Animals that have estrous cycles reabsorb the endometrium if conception does not occur during that cycle. Animals that have menstrual cycles shed the endometrium through menstruation instead" - - - -### endometrium epithelium `http://purl.obolibrary.org/obo/UBERON_0004811` -#### Removed -- [endometrium epithelium](http://purl.obolibrary.org/obo/UBERON_0004811) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In rodents and primates, the uterine epithelium (the endometrium) is eroded away so that maternal blood comes into direct contact with the trophoblast surface (called haemochorial)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:19829370" - - - -### endometrium luminal epithelium `http://purl.obolibrary.org/obo/UBERON_0011949` - -#### Added -- [endometrium luminal epithelium](http://purl.obolibrary.org/obo/UBERON_0011949) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### endoskeleton `http://purl.obolibrary.org/obo/UBERON_0010362` -#### Removed -- [endoskeleton](http://purl.obolibrary.org/obo/UBERON_0010362) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An endoskeleton is an internal support structure of an animal, composed of mineralized tissue. Endoskeleton develops within the skin or in the deeper body tissues. The vertebrate is basically an endoskeleton made up of two types of tissues (bone and cartilage). During early embryonic development the endoskeleton is composed of notochord and cartilage. The notochord in most vertebrates is replaced by vertebral column and cartilage is replaced by bone in most adults. In three phyla and one subclass of animals, endoskeletons of various complexity are found: Chordata, Echinodermata, Porifera, and Coleoidea. An endoskeleton may function purely for support (as in the case of sponges), but often serves as an attachment site for muscle and a mechanism for transmitting muscular forces. A true endoskeleton is derived from mesodermal tissue. Such a skeleton is present in echinoderms and chordates. The poriferan 'skeleton' consists of microscopic calcareous or siliceous spicules or a spongin network. The Coleoidae do not have a true endoskeleton in the evolutionary sense; here, a mollusk exoskeleton evolved into several sorts of internal structure, the 'cuttlebone' of cuttlefish being the best-known version. Yet they do have cartilaginous tissue in their body, even if it is not mineralized, especially in the head, where it forms a primitive cranium. The endoskeleton gives shape,support and protection to the body and provides a mean of locomotion.[Wikipedia:Endoskeleton]t" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Endoskeleton" - - - -### endosteum `http://purl.obolibrary.org/obo/UBERON_0009859` -#### Removed -- [endosteum](http://purl.obolibrary.org/obo/UBERON_0009859) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "endosteal" - - - -### endothelial transcription factor GATA-2 `http://purl.obolibrary.org/obo/PR_000007858` -#### Removed -- [endothelial transcription factor GATA-2](http://purl.obolibrary.org/obo/PR_000007858) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [endothelial transcription factor GATA-2 (human)](http://purl.obolibrary.org/obo/PR_P23769) - - - -### endothelium `http://purl.obolibrary.org/obo/UBERON_0001986` -#### Removed -- [endothelium](http://purl.obolibrary.org/obo/UBERON_0001986) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "endothelial" - - - -### endothelium of artery `http://purl.obolibrary.org/obo/UBERON_0001917` -#### Removed -- [endothelium of artery](http://purl.obolibrary.org/obo/UBERON_0001917) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Vertebrates and a very few invertebrates such as squids have evolved a secondary epithelium, the endothelium, that lines their blood vessels.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001215" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.207" - -- [endothelium of artery](http://purl.obolibrary.org/obo/UBERON_0001917) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The endothelium is the thin layer of cells that lines the interior surface of blood vessels, forming an interface between circulating blood in the lumen and the rest of the vessel wall.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "XAO:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0011013" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - -### endothelium of vein `http://purl.obolibrary.org/obo/UBERON_0001919` -#### Removed -- [endothelium of vein](http://purl.obolibrary.org/obo/UBERON_0001919) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Vertebrates and a very few invertebrates such as squids have evolved a secondary epithelium, the endothelium, that lines their blood vessels.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001216" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.207" - - - -### ends `http://purl.obolibrary.org/obo/RO_0002229` -#### Removed -- [ends](http://purl.obolibrary.org/obo/RO_0002229) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [ends](http://purl.obolibrary.org/obo/RO_0002229) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [ends](http://purl.obolibrary.org/obo/RO_0002229) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "ends" - -- [ends](http://purl.obolibrary.org/obo/RO_0002229) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [ends](http://purl.obolibrary.org/obo/RO_0002229) [id](http://www.geneontology.org/formats/oboInOwl#id) "ends" - -- [ends](http://purl.obolibrary.org/obo/RO_0002229) [label](http://www.w3.org/2000/01/rdf-schema#label) "ends" - -- [ends](http://purl.obolibrary.org/obo/RO_0002229) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "Chris Mungall" - -- [ends](http://purl.obolibrary.org/obo/RO_0002229) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002229" - - - -### ends after `http://purl.obolibrary.org/obo/RO_0002086` -#### Removed -- [ends after](http://purl.obolibrary.org/obo/RO_0002086) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "David Osumi-Sutherland" - - - -### ends with `http://purl.obolibrary.org/obo/RO_0002230` -#### Removed -- [ends with](http://purl.obolibrary.org/obo/RO_0002230) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "Chris Mungall" - -- [ends with](http://purl.obolibrary.org/obo/RO_0002230) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [ends with](http://purl.obolibrary.org/obo/RO_0002230) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [ends with](http://purl.obolibrary.org/obo/RO_0002230) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [ends with](http://purl.obolibrary.org/obo/RO_0002230) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "finished by" - - - -### enteric nerve `http://purl.obolibrary.org/obo/UBERON_0010380` - -#### Added -- [enteric nerve](http://purl.obolibrary.org/obo/UBERON_0010380) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### enteric nervous system `http://purl.obolibrary.org/obo/UBERON_0002005` -#### Removed -- [enteric nervous system](http://purl.obolibrary.org/obo/UBERON_0002005) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "most sources classify this as autonomic, but in FMA it is placed directly under nervous system." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -#### Added -- [enteric nervous system](http://purl.obolibrary.org/obo/UBERON_0002005) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### enteric plexus `http://purl.obolibrary.org/obo/UBERON_0000429` - -#### Added -- [enteric plexus](http://purl.obolibrary.org/obo/UBERON_0000429) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### entire sense organ system `http://purl.obolibrary.org/obo/UBERON_0004456` -#### Removed -- [entire sense organ system](http://purl.obolibrary.org/obo/UBERON_0004456) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "note the distinct between entire sensory system and individual system. this reconciles is_a and part_of distinctions between ssAOs" - - - -### enveloping layer of ectoderm `http://purl.obolibrary.org/obo/UBERON_0007383` -#### Removed -- [enveloping layer of ectoderm](http://purl.obolibrary.org/obo/UBERON_0007383) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Originally this tissue is one cell layer thick but in most vertebrates it soon becomes a two layered structure. The outer layer gives rise to the periderm." - -- [enveloping layer of ectoderm](http://purl.obolibrary.org/obo/UBERON_0007383) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: develops_from superficial blastomere (TAO:0001484)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000086" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [enveloping layer of ectoderm](http://purl.obolibrary.org/obo/UBERON_0007383) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Outermost monolayer of cells surrounding the embryo that become very flattened in the blastula and give rise to the periderm. Sometimes used synonymously with periderm. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000086" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -#### Added -- [enveloping layer of ectoderm](http://purl.obolibrary.org/obo/UBERON_0007383) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### eosinophil cationic protein `http://purl.obolibrary.org/obo/PR_000014047` -#### Removed -- [eosinophil cationic protein](http://purl.obolibrary.org/obo/PR_000014047) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [eosinophil cationic protein (human)](http://purl.obolibrary.org/obo/PR_P12724) - - - -### eosinophil peroxidase `http://purl.obolibrary.org/obo/PR_000007152` -#### Removed -- [eosinophil peroxidase](http://purl.obolibrary.org/obo/PR_000007152) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [eosinophil peroxidase (human)](http://purl.obolibrary.org/obo/PR_P11678) - - - -### ependyma `http://purl.obolibrary.org/obo/UBERON_0004670` -#### Removed -- [ependyma](http://purl.obolibrary.org/obo/UBERON_0004670) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "unlike other epithelia, there is no basement membrane under the ependymal epithelium[ISBN:0387949542]" - -- [ependyma](http://purl.obolibrary.org/obo/UBERON_0004670) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "ependymal" - -- [ependyma](http://purl.obolibrary.org/obo/UBERON_0004670) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [basement membrane](http://purl.obolibrary.org/obo/GO_0005604) - -- [ependyma](http://purl.obolibrary.org/obo/UBERON_0004670) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA breaks ependyma into ependyma proper (a subdivsion of epithelium) and epithelium of choroid plexus" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### epiblast (generic) `http://purl.obolibrary.org/obo/UBERON_0002532` -#### Removed -- [epiblast (generic)](http://purl.obolibrary.org/obo/UBERON_0002532) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In pregastrula zebrafish embryos, the epiblast is an inverted cup of cells that sits on top of a large yolk cell. (...) In amniote embryos (mammals and birds), gastrulation initiates in an epithelial layer called the epiblast. Cells in the epiblast undergo an epithelial to mesenchymal transition (EMT), migrate through the primitive streak (PS), and incorporate in the middle (mesoderm) or outer (endoderm) layer. The presumptive definitive endoderm (DE) cells invade and displace an outer layer of extraembryonic tissue cells, the hypoblast in chick and the visceral endoderm (VE) in mouse, which form supporting structures such as the yolk sac.[uncertain][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000243" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1146/annurev.cellbio.042308.113344 Zorn AM, Wells JM, Vertebrate endoderm development and organ formation. Annual Review of Cell Developmental Biology (2009)" - - - -### epibranchial ganglion `http://purl.obolibrary.org/obo/UBERON_0009127` -#### Removed -- [epibranchial ganglion](http://purl.obolibrary.org/obo/UBERON_0009127) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0006250" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) - - - -### epibranchial placode `http://purl.obolibrary.org/obo/UBERON_0003078` -#### Removed -- [epibranchial placode](http://purl.obolibrary.org/obo/UBERON_0003078) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Epibranchial placodes-derived neurons innervate internal organs to transmit information such as heart rate, blood pressure, and visceral distension from the periphery to the central nervous system (Baker and Bronner-Fraser, 2001). From rostral to caudal the epibranchial placodes comprise the geniculate, petrosal, and nodose placodes, each associated in sequence with the first, second and third branchial clefts. Each placode contributes sensory neurons to cranial nerves VII (facial nerve), IX (glossopharyngeal nerve), and X (vagal nerve), respectively" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "NCBIBook:NBK53175" - -- [epibranchial placode](http://purl.obolibrary.org/obo/UBERON_0003078) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Focal thickenings of the embryonic ectoderm that form immediately dorsal and caudal of the clefts between the pharyngeal arches and that produce the neuroblasts that migrate and condense to form the distal cranial ganglia. [Graham_A, The_development_and_evolution_of_the_pharyngeal_arches._J_Anat_(2001)_199:_133-141][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000117" - -- [epibranchial placode](http://purl.obolibrary.org/obo/UBERON_0003078) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "These (the epibranchial placodes) are focal thickenings of the embryonic ectoderm that form immediately dorsal and caudal of the clefts between the pharyngeal arches in all vertebrates, and they produce the neuroblasts which migrate and condense to form the distal cranial ganglia: the geniculate, petrosal and nodose ganglia. (...) The one substantial difference between the vertebrate pharyngeal arches and those of the protochordates is the presence of the epibranchial placodes but the evolution of these structures was undoubtedly driven by the endoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910133.x Graham A, The development and evolution of the pharyngeal arches. J Anat (2001)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000117" - -- [epibranchial placode](http://purl.obolibrary.org/obo/UBERON_0003078) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in XAO this develops_from dorsolateral placode, but in NBK53175, this is a separate group" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "XAO" - - - -### epicardial fat `http://purl.obolibrary.org/obo/UBERON_0015129` -#### Removed -- [epicardial fat](http://purl.obolibrary.org/obo/UBERON_0015129) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "SCTID:42267001" - -#### Added -- [epicardial fat](http://purl.obolibrary.org/obo/UBERON_0015129) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### epicardium `http://purl.obolibrary.org/obo/UBERON_0002348` -#### Removed -- [epicardium](http://purl.obolibrary.org/obo/UBERON_0002348) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The inner layer of the pericardium that is in contact with the surface of the heart.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010409" - -- [epicardium](http://purl.obolibrary.org/obo/UBERON_0002348) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "External layer of the heart.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005057" - -- [epicardium](http://purl.obolibrary.org/obo/UBERON_0002348) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "The visceral pericardium apparently produces the pericardial fluid, which lubricates motion between the inner and outer layers of the pericardium. During ventricular contraction, the wave of depolarization moves from endocardial to epicardial surface. [Wikipedia:Epicardium]" - -#### Added -- [epicardium](http://purl.obolibrary.org/obo/UBERON_0002348) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### epicardium of ventricle `http://purl.obolibrary.org/obo/UBERON_0001082` -#### Removed -- [epicardium of ventricle](http://purl.obolibrary.org/obo/UBERON_0001082) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The external layer of the ventricle bounding the ventricular myocardium. It is formed by a single layer of mesothelial cells supported by a basal lamina, and imbricated with collagen, fibroblasts, and vascular structures in the subepicardial space. Hu et al. 2001.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005058" - - - -### epidermal-dermal junction `http://purl.obolibrary.org/obo/UBERON_0008877` - -#### Added -- [epidermal-dermal junction](http://purl.obolibrary.org/obo/UBERON_0008877) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### epidermis suprabasal layer `http://purl.obolibrary.org/obo/UBERON_0010402` - -#### Added -- [epidermis suprabasal layer](http://purl.obolibrary.org/obo/UBERON_0010402) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### epididymis `http://purl.obolibrary.org/obo/UBERON_0001301` -#### Removed -- [epididymis](http://purl.obolibrary.org/obo/UBERON_0001301) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "Typically divided into three main regions. In reptiles, there is an additional canal between the testis and the head of the epididymis, which receives the various efferent ducts. This is, however, absent in all birds and mammals. The epididymis is covered by a two layered pseudostratified epithelium. The epithelium is separated by a basement membrane from the connective tissue wall which has smooth muscle cells." - -- [epididymis](http://purl.obolibrary.org/obo/UBERON_0001301) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "epididymal" - -- [epididymis](http://purl.obolibrary.org/obo/UBERON_0001301) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "A similar, but probably non-homologous, structure is found in cartilaginous fishes" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" - - - -### epididymis epithelium `http://purl.obolibrary.org/obo/UBERON_0004544` - -#### Added -- [epididymis epithelium](http://purl.obolibrary.org/obo/UBERON_0004544) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) - - -### epididymis smooth muscle `http://purl.obolibrary.org/obo/UBERON_0004835` -#### Removed -- [epididymis smooth muscle](http://purl.obolibrary.org/obo/UBERON_0004835) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:30747" - - - -### epidural space `http://purl.obolibrary.org/obo/UBERON_0003691` -#### Removed -- [epidural space](http://purl.obolibrary.org/obo/UBERON_0003691) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans the epidural space contains lymphatics, spinal nerve roots, loose fatty tissue, small arteries, and a network of large, thin-walled blood vessels called the epidural venous plexus" - -- [epidural space](http://purl.obolibrary.org/obo/UBERON_0003691) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "extradural" - -- [epidural space](http://purl.obolibrary.org/obo/UBERON_0003691) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "epidural" - -- [epidural space](http://purl.obolibrary.org/obo/UBERON_0003691) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in the FMA this is treated as a space of the head, but this ontology covers non-humans, where the space may continue into the tail" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### epimysium `http://purl.obolibrary.org/obo/UBERON_0011899` -#### Removed -- [epimysium](http://purl.obolibrary.org/obo/UBERON_0011899) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "The Epimysium also protects muscles from friction against other muscles and bones" - -#### Added -- [epimysium](http://purl.obolibrary.org/obo/UBERON_0011899) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### epineurium `http://purl.obolibrary.org/obo/UBERON_0000124` -#### Removed -- [epineurium](http://purl.obolibrary.org/obo/UBERON_0000124) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "outermost layer of connective tissue surrounding a peripheral nerve. It includes the blood vessels supplying the nerve. It consists of adipose tissue and fibrocollagenous tissues[Wikipedia:Epineurium]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Epineurium" - - - -### epiphysis `http://purl.obolibrary.org/obo/UBERON_0001437` -#### Removed -- [epiphysis](http://purl.obolibrary.org/obo/UBERON_0001437) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "epiphysial" - -- [epiphysis](http://purl.obolibrary.org/obo/UBERON_0001437) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "epiphyseal" - -- [epiphysis](http://purl.obolibrary.org/obo/UBERON_0001437) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cartilaginous expansion at the distal end of an anterior rib or transverse process that serves for the attachment of muscles suspending the pectoral girdle to the vertebral column.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000742" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:Pugener_2002" - -- [epiphysis](http://purl.obolibrary.org/obo/UBERON_0001437) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Subdivision of long bone which forms its expanded proximal or distal articular end; together with other the subdivisions of long bone, it constitutes the long bone. Examples: proximal epiphysis of humerus, distal epiphysis of femur." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:24012" - - - -### epiphysis of femur `http://purl.obolibrary.org/obo/UBERON_0004384` - -#### Added -- [epiphysis of femur](http://purl.obolibrary.org/obo/UBERON_0004384) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### epiphysis of fibula `http://purl.obolibrary.org/obo/UBERON_0004388` - -#### Added -- [epiphysis of fibula](http://purl.obolibrary.org/obo/UBERON_0004388) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### epiphysis of humerus `http://purl.obolibrary.org/obo/UBERON_0004382` - -#### Added -- [epiphysis of humerus](http://purl.obolibrary.org/obo/UBERON_0004382) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### epiphysis of metacarpal bone `http://purl.obolibrary.org/obo/UBERON_0004390` - -#### Added -- [epiphysis of metacarpal bone](http://purl.obolibrary.org/obo/UBERON_0004390) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### epiphysis of metatarsal bone `http://purl.obolibrary.org/obo/UBERON_0004389` - -#### Added -- [epiphysis of metatarsal bone](http://purl.obolibrary.org/obo/UBERON_0004389) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### epiphysis of phalanx `http://purl.obolibrary.org/obo/UBERON_0004446` - -#### Added -- [epiphysis of phalanx](http://purl.obolibrary.org/obo/UBERON_0004446) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### epiphysis of tibia `http://purl.obolibrary.org/obo/UBERON_0004383` - -#### Added -- [epiphysis of tibia](http://purl.obolibrary.org/obo/UBERON_0004383) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### epithalamus `http://purl.obolibrary.org/obo/UBERON_0001899` -#### Removed -- [epithalamus](http://purl.obolibrary.org/obo/UBERON_0001899) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Dorsal segment of the diencephalon containing the habenular ganglia, a choroid plexus, and the pineal organ.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010482" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [epithalamus](http://purl.obolibrary.org/obo/UBERON_0001899) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The roof of the diencephalon lying above the thalamus. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-11, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000178" - -- [epithalamus](http://purl.obolibrary.org/obo/UBERON_0001899) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002736](http://purl.obolibrary.org/obo/UBERON_0002736) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [epithalamus](http://purl.obolibrary.org/obo/UBERON_0001899) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The epithalamus has been historically conceived as a distinct neuroanatomical moiety within the diencephalon of all vertebrates. (...) The evolutionary origins of epithalamic structures are uncertain but asymmetry in this region is likely to have existed at the origin of the vertebrate, perhaps even the chordate, lineage.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910063.x Concha ML and Wilson SW, Asymmetry in the epithalamus of vertebrates. J Anat (2001)" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000178" - -- [epithalamus](http://purl.obolibrary.org/obo/UBERON_0001899) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002733](http://purl.obolibrary.org/obo/UBERON_0002733) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [epithalamus](http://purl.obolibrary.org/obo/UBERON_0001899) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0001903](http://purl.obolibrary.org/obo/UBERON_0001903) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [epithalamus](http://purl.obolibrary.org/obo/UBERON_0001899) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "epithalamic" - - - -### epithelial tube `http://purl.obolibrary.org/obo/UBERON_0003914` -#### Removed -- [epithelial tube](http://purl.obolibrary.org/obo/UBERON_0003914) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007474" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [epithelial tube](http://purl.obolibrary.org/obo/UBERON_0003914) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "contrast with a multi-tissue tube, which has as parts both epithelium, connective tissue, possibly muscle layers" - - - -### epithelium `http://purl.obolibrary.org/obo/UBERON_0000483` -#### Removed -- [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "epithelial" - -- [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The two basic types of metazoan tissue are epithelial and connective. The simplest metazoans, and developmental stages of many primitive invertebrates, consist solely of these two layers. Thus, epithelial and connective tissues may be the primary (original) tissues of metazoans, and both are important in the functional organization of animals.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.59" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000387" - -- [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007005" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### epithelium of carpal region `http://purl.obolibrary.org/obo/UBERON_0003230` - -#### Added -- [epithelium of carpal region](http://purl.obolibrary.org/obo/UBERON_0003230) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### epithelium of crypt of Lieberkuhn `http://purl.obolibrary.org/obo/UBERON_0011184` -#### Removed -- [epithelium of crypt of Lieberkuhn](http://purl.obolibrary.org/obo/UBERON_0011184) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA has classes for subdivisions of this epithelium" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### epithelium of elbow `http://purl.obolibrary.org/obo/UBERON_0003229` -#### Removed -- [epithelium of elbow](http://purl.obolibrary.org/obo/UBERON_0003229) SubClassOf [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) - -#### Added -- [epithelium of elbow](http://purl.obolibrary.org/obo/UBERON_0003229) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### epithelium of esophagus `http://purl.obolibrary.org/obo/UBERON_0001976` -#### Removed -- [epithelium of esophagus](http://purl.obolibrary.org/obo/UBERON_0001976) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Simple columnar epithelium that lines the esophagus. Chen et al, 2007.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001499" - - - -### epithelium of footplate `http://purl.obolibrary.org/obo/UBERON_0003248` - -#### Added -- [epithelium of footplate](http://purl.obolibrary.org/obo/UBERON_0003248) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### epithelium of forearm `http://purl.obolibrary.org/obo/UBERON_0003247` -#### Removed -- [epithelium of forearm](http://purl.obolibrary.org/obo/UBERON_0003247) SubClassOf [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) - -#### Added -- [epithelium of forearm](http://purl.obolibrary.org/obo/UBERON_0003247) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### epithelium of gall bladder `http://purl.obolibrary.org/obo/UBERON_0002029` - -#### Added -- [epithelium of gall bladder](http://purl.obolibrary.org/obo/UBERON_0002029) SubClassOf [endo-epithelium](http://purl.obolibrary.org/obo/UBERON_0005911) - - -### epithelium of handplate `http://purl.obolibrary.org/obo/UBERON_0010332` - -#### Added -- [epithelium of handplate](http://purl.obolibrary.org/obo/UBERON_0010332) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### epithelium of hip `http://purl.obolibrary.org/obo/UBERON_0003231` -#### Removed -- [epithelium of hip](http://purl.obolibrary.org/obo/UBERON_0003231) SubClassOf [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) - -#### Added -- [epithelium of hip](http://purl.obolibrary.org/obo/UBERON_0003231) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### epithelium of knee `http://purl.obolibrary.org/obo/UBERON_0003232` -#### Removed -- [epithelium of knee](http://purl.obolibrary.org/obo/UBERON_0003232) SubClassOf [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) - -#### Added -- [epithelium of knee](http://purl.obolibrary.org/obo/UBERON_0003232) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### epithelium of lens `http://purl.obolibrary.org/obo/UBERON_0001803` -#### Removed -- [epithelium of lens](http://purl.obolibrary.org/obo/UBERON_0001803) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class is the superclass of the anterior epithelium and equatorial epithlium, although the term 'lens epithelium' may refer specifically to the former" - - - -### epithelium of mammary gland `http://purl.obolibrary.org/obo/UBERON_0003244` -#### Removed -- [epithelium of mammary gland](http://purl.obolibrary.org/obo/UBERON_0003244) SubClassOf [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) - -#### Added -- [epithelium of mammary gland](http://purl.obolibrary.org/obo/UBERON_0003244) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### epithelium of otic placode `http://purl.obolibrary.org/obo/UBERON_0003249` - -#### Added -- [epithelium of otic placode](http://purl.obolibrary.org/obo/UBERON_0003249) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### epithelium of shoulder `http://purl.obolibrary.org/obo/UBERON_0003233` -#### Removed -- [epithelium of shoulder](http://purl.obolibrary.org/obo/UBERON_0003233) SubClassOf [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) - -#### Added -- [epithelium of shoulder](http://purl.obolibrary.org/obo/UBERON_0003233) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### epithelium of small intestine `http://purl.obolibrary.org/obo/UBERON_0001902` -#### Removed -- [epithelium of small intestine](http://purl.obolibrary.org/obo/UBERON_0001902) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Intestinal epithelium which lines the lumen of the mid intestine.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005127" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### epithelium of stomach `http://purl.obolibrary.org/obo/UBERON_0001276` -#### Removed -- [epithelium of stomach](http://purl.obolibrary.org/obo/UBERON_0001276) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA this is classified as simple columnar, MA divides this into squamous and glandular" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### epithelium of trachea `http://purl.obolibrary.org/obo/UBERON_0001901` -#### Removed -- [epithelium of trachea](http://purl.obolibrary.org/obo/UBERON_0001901) SubClassOf [endo-epithelium](http://purl.obolibrary.org/obo/UBERON_0005911) - - - -### epithelium of upper jaw `http://purl.obolibrary.org/obo/UBERON_0003235` -#### Removed -- [epithelium of upper jaw](http://purl.obolibrary.org/obo/UBERON_0003235) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17943" - - - -### epithelium of urethra `http://purl.obolibrary.org/obo/UBERON_0002325` - -#### Added -- [epithelium of urethra](http://purl.obolibrary.org/obo/UBERON_0002325) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) - -- [epithelium of urethra](http://purl.obolibrary.org/obo/UBERON_0002325) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) - - -### epithelium of utricle `http://purl.obolibrary.org/obo/UBERON_0003241` -#### Removed -- [epithelium of utricle](http://purl.obolibrary.org/obo/UBERON_0003241) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17820" - -- [epithelium of utricle](http://purl.obolibrary.org/obo/UBERON_0003241) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17301" - -- [epithelium of utricle](http://purl.obolibrary.org/obo/UBERON_0003241) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17298" - -- [epithelium of utricle](http://purl.obolibrary.org/obo/UBERON_0003241) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17823" - - - -### epithelium of vagina `http://purl.obolibrary.org/obo/UBERON_0001344` -#### Removed -- [epithelium of vagina](http://purl.obolibrary.org/obo/UBERON_0001344) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA: nonkeratinizing stratified squamous epithelium; BTO: Vaginal epithelium is stratified squamous epithelium having a thickness of 15-200 microns; MA has single subclass (squamous)" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### epithelium of vomeronasal organ `http://purl.obolibrary.org/obo/UBERON_0003367` -#### Removed -- [epithelium of vomeronasal organ](http://purl.obolibrary.org/obo/UBERON_0003367) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - -#### Added -- [epithelium of vomeronasal organ](http://purl.obolibrary.org/obo/UBERON_0003367) SubClassOf [endo-epithelium](http://purl.obolibrary.org/obo/UBERON_0005911) - - -### erythroid transcription factor `http://purl.obolibrary.org/obo/PR_000007857` -#### Removed -- [erythroid transcription factor](http://purl.obolibrary.org/obo/PR_000007857) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [erythroid transcription factor (human)](http://purl.obolibrary.org/obo/PR_P15976) - - - -### esophagus `http://purl.obolibrary.org/obo/UBERON_0001043` -#### Removed -- [esophagus](http://purl.obolibrary.org/obo/UBERON_0001043) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "esophageal" - -- [esophagus](http://purl.obolibrary.org/obo/UBERON_0001043) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The few structural specializations in (adult lampreys) pharynx include complex valves on the external gill openings that direct the tidal flow, and the division of the ancestral pharynx into an oesophagus and a respiratory pharynx.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000450" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1096-3642.1996.tb01658.x Mallatt J, Ventilation and the origin of jawed vertebrates: a new mouth. Zoological Journal of the Linnean Society (1996)" - -- [esophagus](http://purl.obolibrary.org/obo/UBERON_0001043) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anterior end of the alimentary canal lined with smooth muscle. Bounded anteriorly by a constriction in the pharynx. Bounded posteriorly by and increase in circular and/or longitudinal smooth muscle associated with the stomach.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000145" - -- [esophagus](http://purl.obolibrary.org/obo/UBERON_0001043) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "esophagus NOT part of gut in MA. part of gut in ZFA. part_of gut (via UGIT) in FMA. Consider splitting. Interspecies: The human oesophagus is 25 cm long and has a diameter of ca. 2 cm. Only little information was found on the oesophagus in rat, rabbit and pig. The oesophagus of rat (75 x 2 mm) and rabbit has no mucous glands and the cardia of the stomach has a well-developed sphincter, which prevents them from vomiting (Hebel and Stromberg, 1988; Manning et al., 1994). Morphologically the oesophagus is similar in man and pig; both are omnivores and have a non-keratinised epithelium, submucous glands and similar membrane enzymes. Like in humans, pigs can suffer from reflux oesophagitis and stress ulceration of the oesophagus. The pig oesophagus may therefore be a good model for investigation compared to the human oesophagus (Christie et al., 1995)" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - - - -### esophagus mucosa `http://purl.obolibrary.org/obo/UBERON_0002469` -#### Removed -- [esophagus mucosa](http://purl.obolibrary.org/obo/UBERON_0002469) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D000071041" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### esophagus smooth muscle circular layer `http://purl.obolibrary.org/obo/UBERON_0009960` - -#### Added -- [esophagus smooth muscle circular layer](http://purl.obolibrary.org/obo/UBERON_0009960) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### esophagus squamous epithelium `http://purl.obolibrary.org/obo/UBERON_0006920` -#### Removed -- [esophagus squamous epithelium](http://purl.obolibrary.org/obo/UBERON_0006920) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MA introduces basal and squamous subtypes of esophagus epithelium; consider adding the FMA class 'epithelium of esophagus' here, because it is classified as squamous. BTO also has a singleton subclass" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - - - -### estrogen receptor `http://purl.obolibrary.org/obo/PR_000007204` -#### Removed -- [estrogen receptor](http://purl.obolibrary.org/obo/PR_000007204) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [estrogen receptor (human)](http://purl.obolibrary.org/obo/PR_P03372) - - - -### ethmoid bone `http://purl.obolibrary.org/obo/UBERON_0001679` -#### Removed -- [ethmoid bone](http://purl.obolibrary.org/obo/UBERON_0001679) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A light spongy bone located between the eye sockets, forming part of the walls and septum of the superior nasal cavity, and containing perforations for the passage of olfactory nerve fibers. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/ethmoid+bone" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001317" - -- [ethmoid bone](http://purl.obolibrary.org/obo/UBERON_0001679) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "todo - homology e.g. mesethmoid of teleost" - -- [ethmoid bone](http://purl.obolibrary.org/obo/UBERON_0001679) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Note the WP states the Neurocranium contains the ethmoid bone, both MA and FMA place the ethmoid as part of the viscerocranium. FMA also has it in neurocranium (via basicranium). Ideally we would have non-overlapping divisions of the skull, but for now we follow FMA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - -- [ethmoid bone](http://purl.obolibrary.org/obo/UBERON_0001679) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "ethmoidal" - -- [ethmoid bone](http://purl.obolibrary.org/obo/UBERON_0001679) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The ethmoid region of the chondrocranium and the nasal capsules, which were largely unossified in early tetrapods and ancestral amniotes, are represented in mammals by the ethmoid and turbinates bones, respectively.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001317" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.259" - -- [ethmoid bone](http://purl.obolibrary.org/obo/UBERON_0001679) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [ethmoid bone primordium](http://purl.obolibrary.org/obo/UBERON_0006227) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [ethmoid bone](http://purl.obolibrary.org/obo/UBERON_0001679) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [ethmoid bone primordium](http://purl.obolibrary.org/obo/UBERON_0006227) - - -### ethmoid foramen `http://purl.obolibrary.org/obo/UBERON_0018415` -#### Removed -- [ethmoid foramen](http://purl.obolibrary.org/obo/UBERON_0018415) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "There are usually two Foramina ethmoidalia present on each side in the dog. Sometimes one is situated rostral to the other, but often it is dorsal. They are not homologous with the Foramen ethmoidale anterius and Foramen ethmoidale posterius of man. Therefore they are not listed separately.[NOMINA ANATOMICA VETERINARIA (2005)]" - -#### Added -- [ethmoid foramen](http://purl.obolibrary.org/obo/UBERON_0018415) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### ethmoid region `http://purl.obolibrary.org/obo/UBERON_0011241` -#### Removed -- [ethmoid region](http://purl.obolibrary.org/obo/UBERON_0011241) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "currently this is not restricted to skeletal elements, unlike UBERONREF:0000007" - - - -### evidence `http://www.geneontology.org/formats/oboInOwl#evidence` -#### Removed -- AnnotationProperty: [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) - - - -### evolutionarily related to `http://purl.obolibrary.org/obo/RO_0002320` -#### Removed -- [evolutionarily related to](http://purl.obolibrary.org/obo/RO_0002320) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving the process of evolution." - -- [evolutionarily related to](http://purl.obolibrary.org/obo/RO_0002320) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### example to be eventually removed `http://purl.obolibrary.org/obo/IAO_0000002` -#### Removed -- [example to be eventually removed](http://purl.obolibrary.org/obo/IAO_0000002) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "example to be eventually removed"@en - - - -### exception `http://www.geneontology.org/formats/oboInOwl#exception` -#### Removed -- AnnotationProperty: [exception](http://www.geneontology.org/formats/oboInOwl#exception) - - - -### exceptions `http://www.geneontology.org/formats/oboInOwl#exceptions` -#### Removed -- AnnotationProperty: [exceptions](http://www.geneontology.org/formats/oboInOwl#exceptions) - - - -### exceptions_url `http://www.geneontology.org/formats/oboInOwl#exceptions_url` -#### Removed -- AnnotationProperty: [exceptions_url](http://www.geneontology.org/formats/oboInOwl#exceptions_url) - - - -### excretory duct `http://purl.obolibrary.org/obo/UBERON_0035050` -#### Removed -- [excretory duct](http://purl.obolibrary.org/obo/UBERON_0035050) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0006341" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) - - - -### excretory system `http://purl.obolibrary.org/obo/UBERON_8450002` -#### Removed -- [excretory system](http://purl.obolibrary.org/obo/UBERON_8450002) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0006338" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) - - - -### existence ends during `http://purl.obolibrary.org/obo/RO_0002492` -#### Removed -- [existence ends during](http://purl.obolibrary.org/obo/RO_0002492) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "ceases_to_exist_during" - -- [existence ends during](http://purl.obolibrary.org/obo/RO_0002492) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "existence_ends_during" - -- [existence ends during](http://purl.obolibrary.org/obo/RO_0002492) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [existence ends during](http://purl.obolibrary.org/obo/RO_0002492) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Relation between continuant c and occurrent s, such that every instance of c ceases to exist during some s, if it does not die prematurely." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "https://orcid.org/0000-0002-6601-2165" - -- [existence ends during](http://purl.obolibrary.org/obo/RO_0002492) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [existence ends during](http://purl.obolibrary.org/obo/RO_0002492) [id](http://www.geneontology.org/formats/oboInOwl#id) "existence_ends_during" - -- [existence ends during](http://purl.obolibrary.org/obo/RO_0002492) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002492" - - - -### existence ends during or before `http://purl.obolibrary.org/obo/RO_0002497` -#### Removed -- [existence ends during or before](http://purl.obolibrary.org/obo/RO_0002497) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [existence ends during or before](http://purl.obolibrary.org/obo/RO_0002497) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "existence_ends_during_or_before" - -- [existence ends during or before](http://purl.obolibrary.org/obo/RO_0002497) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [existence ends during or before](http://purl.obolibrary.org/obo/RO_0002497) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002497" - -- [existence ends during or before](http://purl.obolibrary.org/obo/RO_0002497) [id](http://www.geneontology.org/formats/oboInOwl#id) "existence_ends_during_or_before" - - - -### existence ends with `http://purl.obolibrary.org/obo/RO_0002493` -#### Removed -- [existence ends with](http://purl.obolibrary.org/obo/RO_0002493) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "existence_ends_with" - -- [existence ends with](http://purl.obolibrary.org/obo/RO_0002493) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [existence ends with](http://purl.obolibrary.org/obo/RO_0002493) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [existence ends with](http://purl.obolibrary.org/obo/RO_0002493) [id](http://www.geneontology.org/formats/oboInOwl#id) "existence_ends_with" - -- [existence ends with](http://purl.obolibrary.org/obo/RO_0002493) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002493" - - - -### existence overlaps `http://purl.obolibrary.org/obo/RO_0002490` -#### Removed -- [existence overlaps](http://purl.obolibrary.org/obo/RO_0002490) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### existence starts and ends during `http://purl.obolibrary.org/obo/RO_0002491` -#### Removed -- [existence starts and ends during](http://purl.obolibrary.org/obo/RO_0002491) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "existence_starts_and_ends_during" - -- [existence starts and ends during](http://purl.obolibrary.org/obo/RO_0002491) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002491" - -- [existence starts and ends during](http://purl.obolibrary.org/obo/RO_0002491) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [existence starts and ends during](http://purl.obolibrary.org/obo/RO_0002491) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [existence starts and ends during](http://purl.obolibrary.org/obo/RO_0002491) [id](http://www.geneontology.org/formats/oboInOwl#id) "existence_starts_and_ends_during" - - - -### existence starts during `http://purl.obolibrary.org/obo/RO_0002488` -#### Removed -- [existence starts during](http://purl.obolibrary.org/obo/RO_0002488) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002488" - -- [existence starts during](http://purl.obolibrary.org/obo/RO_0002488) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "existence_starts_during" - -- [existence starts during](http://purl.obolibrary.org/obo/RO_0002488) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [existence starts during](http://purl.obolibrary.org/obo/RO_0002488) [id](http://www.geneontology.org/formats/oboInOwl#id) "existence_starts_during" - -- [existence starts during](http://purl.obolibrary.org/obo/RO_0002488) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - - - -### existence starts during or after `http://purl.obolibrary.org/obo/RO_0002496` -#### Removed -- [existence starts during or after](http://purl.obolibrary.org/obo/RO_0002496) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [existence starts during or after](http://purl.obolibrary.org/obo/RO_0002496) [id](http://www.geneontology.org/formats/oboInOwl#id) "existence_starts_during_or_after" - -- [existence starts during or after](http://purl.obolibrary.org/obo/RO_0002496) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "existence_starts_during_or_after" - -- [existence starts during or after](http://purl.obolibrary.org/obo/RO_0002496) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [existence starts during or after](http://purl.obolibrary.org/obo/RO_0002496) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002496" - - - -### existence starts with `http://purl.obolibrary.org/obo/RO_0002489` -#### Removed -- [existence starts with](http://purl.obolibrary.org/obo/RO_0002489) [id](http://www.geneontology.org/formats/oboInOwl#id) "existence_starts_with" - -- [existence starts with](http://purl.obolibrary.org/obo/RO_0002489) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [existence starts with](http://purl.obolibrary.org/obo/RO_0002489) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002489" - -- [existence starts with](http://purl.obolibrary.org/obo/RO_0002489) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "existence_starts_with" - -- [existence starts with](http://purl.obolibrary.org/obo/RO_0002489) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - - - -### exocrine pancreas `http://purl.obolibrary.org/obo/UBERON_0000017` -#### Removed -- [exocrine pancreas](http://purl.obolibrary.org/obo/UBERON_0000017) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The exocrine pancreas is composed of acinar epithelial cells and ductal epithelium that manufacture the proteolytic enzymes and bicarbonate required for digestion.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001249" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [exocrine pancreas](http://purl.obolibrary.org/obo/UBERON_0000017) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D046790" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -- [exocrine pancreas](http://purl.obolibrary.org/obo/UBERON_0000017) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The part of the pancreas that acts as an exocrine gland, consisting of the pancreatic acini, which produce pancreatic juice and secrete it into the intestine to aid in protein digestion. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/Pancreas" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000048" - -- [exocrine pancreas](http://purl.obolibrary.org/obo/UBERON_0000017) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In the hagfish and lampreys (our most primitive vertebrate species of today), the first sign of 'a new organ' is found as collections of endocrine cells around the area of the bile duct connection with the duodenum. These endocrine organs are composed of 99% beta cells and 1% somatostatin-producing delta cells. Compared to the more primitive protochordates (e.g. amphioxus), this represents a stage where all previously scattered insulin-producing cells of the intestinal tissue have now quantitatively migrated to found a new organ involved in sensing blood glucose rather than gut glucose. Only later in evolution, the beta cells are joined by exocrine tissue and alpha cells (exemplified by the rat-, rabbit- and elephant-fishes). Finally, from sharks and onwards in evolution, we have the islet PP-cell entering to complete the pancreas.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/j.crvi.2007.03.006 Madsen OD, Pancreas phylogeny and ontogeny in relation to a 'pancreatic stem cell'. C.R. Biologies (2007)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000048" - -#### Added -- [exocrine pancreas](http://purl.obolibrary.org/obo/UBERON_0000017) SubClassOf [digestive system element](http://purl.obolibrary.org/obo/UBERON_0013765) - - -### exocrine pancreas epithelium `http://purl.obolibrary.org/obo/UBERON_0013697` -#### Removed -- [exocrine pancreas epithelium](http://purl.obolibrary.org/obo/UBERON_0013697) SubClassOf [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) - -#### Added -- [exocrine pancreas epithelium](http://purl.obolibrary.org/obo/UBERON_0013697) SubClassOf [endo-epithelium](http://purl.obolibrary.org/obo/UBERON_0005911) - - -### expand expression to `http://purl.obolibrary.org/obo/IAO_0000424` -#### Removed -- [expand expression to](http://purl.obolibrary.org/obo/IAO_0000424) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "ObjectProperty: RO_0002104 -Label: has plasma membrane part -Annotations: IAO_0000424 "http://purl.obolibrary.org/obo/BFO_0000051 some (http://purl.org/obo/owl/GO#GO_0005886 and http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)" -"@en - -- [expand expression to](http://purl.obolibrary.org/obo/IAO_0000424) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "Chris Mungall"@en - -- [expand expression to](http://purl.obolibrary.org/obo/IAO_0000424) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "expand expression to"@en - - - -### expressed in `http://purl.obolibrary.org/obo/RO_0002206` -#### Removed -- [expressed in](http://purl.obolibrary.org/obo/RO_0002206) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "'neural crest cell' SubClassOf expresses some 'Wnt1 gene'" - -- [expressed in](http://purl.obolibrary.org/obo/RO_0002206) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [expressed in](http://purl.obolibrary.org/obo/RO_0002206) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - - - -### expresses `http://purl.obolibrary.org/obo/RO_0002292` -#### Removed -- [expresses](http://purl.obolibrary.org/obo/RO_0002292) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [expresses](http://purl.obolibrary.org/obo/RO_0002292) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - - - -### extends_fibers_into `http://purl.obolibrary.org/obo/uberon/core#extends_fibers_into` -#### Removed -- [has soma location](http://purl.obolibrary.org/obo/RO_0002100) o [has synaptic IO in region](http://purl.obolibrary.org/obo/RO_0013001) SubPropertyOf: [extends_fibers_into](http://purl.obolibrary.org/obo/uberon/core#extends_fibers_into) - -- Symmetric: [extends_fibers_into](http://purl.obolibrary.org/obo/uberon/core#extends_fibers_into) - - - -### external acoustic meatus `http://purl.obolibrary.org/obo/UBERON_0001352` -#### Removed -- [external acoustic meatus](http://purl.obolibrary.org/obo/UBERON_0001352) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "tympanic ring, which serves as support for the tympanic membrane, directs invagination of the first pharingeal cleft ectoderm to form the external acoustic meatus (EAM), which provides the outer layer of the membrane[PMID 11237469]" - -- [external acoustic meatus](http://purl.obolibrary.org/obo/UBERON_0001352) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "subdivision of head in FMA." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -#### Added -- [external acoustic meatus](http://purl.obolibrary.org/obo/UBERON_0001352) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - -- [external acoustic meatus](http://purl.obolibrary.org/obo/UBERON_0001352) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### external carotid artery `http://purl.obolibrary.org/obo/UBERON_0001070` -#### Removed -- [external carotid artery](http://purl.obolibrary.org/obo/UBERON_0001070) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "not homologous to the external carotid of zebrafish (Goodrich, 1958) - http://zfish.nichd.nih.gov/zfatlas/Intro%20Page/comparative.html; check XAO" - - - -### external cervical os `http://purl.obolibrary.org/obo/UBERON_0013760` -#### Removed -- [external cervical os](http://purl.obolibrary.org/obo/UBERON_0013760) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The external orifice of the uterus (or ostium of uterus, or external os) is a small, depressed, somewhat circular aperture on the rounded extremity of the vaginal portion of the cervix. Through this aperture, the cervical cavity communicates with that of the vagina. The external orifice is bounded by two lips, an anterior and a posterior. The anterior is shorter and thicker, though it projects lower than the posterior because of the slope of the cervix. Normally, both lips are in contact with the posterior vaginal wall. Prior to pregnancy, the external orifice has a rounded shape when viewed through the vaginal canal (as through a speculum). Following parturition, the orifice takes on an appearance more like a transverse slit or is 'H-shaped'[Wikipedia:External_orifice_of_the_uterus]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:External_orifice_of_the_uterus" - - - -### external ear `http://purl.obolibrary.org/obo/UBERON_0001691` -#### Removed -- [external ear](http://purl.obolibrary.org/obo/UBERON_0001691) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The external part of the organ, which consists of an outer portion (external auditory meatus) which leads to the tympanum. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000311" - -- [external ear](http://purl.obolibrary.org/obo/UBERON_0001691) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in XAO this includes and is only the tympanum" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "XAO" - -- [external ear](http://purl.obolibrary.org/obo/UBERON_0001691) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Some species, like Amolops tormotus (Feng et al. 2006), have a cavity in front of the tympanic membrane which is considered to be an ear canal and thus an outer ear. (...) The ancestral lineage of amphibians separated from the mammalian lineage, approximately 350 million years ago, in the paleozoic era. Many of the important developments in the auditory systems emerged after the ancestral paths separated (Manley and Clack 2003). This implies that shared features, like the tympanic middle ear, developed independently in different vertebrate lineages.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000311" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1007/s00359-008-0327-1 Schoffelen RLM, Segenhout JM, Van Dijk P, Mechanics of the exceptional anuran ear. Journal of Comparative Physiology A (2008)" - - - -### external ectoderm `http://purl.obolibrary.org/obo/UBERON_0000076` -#### Removed -- [external ectoderm](http://purl.obolibrary.org/obo/UBERON_0000076) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "(or external ectoderm) forms the following structures: Skin Epithelium of the mouth and nasal cavity saliavary glands, and glands of mouth and nasal cavity Enamel - as a side note dentin and dental pulp are formed from ectomesenchyme which is derived from ectoderm Epithelium of pineal and pituitary glands Lens and cornea of the eye Apical ectodermal ridge inducing development of the limb buds of the embryo. Sensory receptors in epidermis" - -- [external ectoderm](http://purl.obolibrary.org/obo/UBERON_0000076) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [neurectoderm](http://purl.obolibrary.org/obo/UBERON_0002346) - -- [external ectoderm](http://purl.obolibrary.org/obo/UBERON_0000076) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0006242" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) - - - -### external female genitalia `http://purl.obolibrary.org/obo/UBERON_0005056` -#### Removed -- [external female genitalia](http://purl.obolibrary.org/obo/UBERON_0005056) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in eutherians, this is known as the vulva in and composed of the mons pubis, the labia majora and minora, the clitoris, the vestibule of the vagina and its glands, and the opening of the urethra and of the vagina [MP:0003126]" - - - -### external integument structure `http://purl.obolibrary.org/obo/UBERON_3000961` -#### Removed -- [external integument structure](http://purl.obolibrary.org/obo/UBERON_3000961) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (amphibian_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/aao.owl" - - - -### external naris `http://purl.obolibrary.org/obo/UBERON_0005928` -#### Removed -- [external naris](http://purl.obolibrary.org/obo/UBERON_0005928) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Fish have two pairs of external nostrils." - -- [external naris](http://purl.obolibrary.org/obo/UBERON_0005928) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In a tetrapod, the nasal sac has an external naris (homologous with the anterior naris of the fish) (...).[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000544" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.257 and Figure 7.27" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - -- [external naris](http://purl.obolibrary.org/obo/UBERON_0005928) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Hole on the nasal capsule that connects the nasal cavity with the exterior.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000024" - -- [external naris](http://purl.obolibrary.org/obo/UBERON_0005928) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: subclass nasal opening (AAO:0000316)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000024" - -#### Added -- [external naris](http://purl.obolibrary.org/obo/UBERON_0005928) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### external nose `http://purl.obolibrary.org/obo/UBERON_0007827` -#### Removed -- [external nose](http://purl.obolibrary.org/obo/UBERON_0007827) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Subdivision of face, the exterior of the nose, which consists of a root, dorsum, tip, columella, and right and left alae[FMA:59515]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:59515" - -#### Added -- [external nose](http://purl.obolibrary.org/obo/UBERON_0007827) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### external_class `http://www.geneontology.org/formats/oboInOwl#external_class` -#### Removed -- AnnotationProperty: [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) - - - -### external_class_label `http://www.geneontology.org/formats/oboInOwl#external_class_label` -#### Removed -- AnnotationProperty: [external_class_label](http://www.geneontology.org/formats/oboInOwl#external_class_label) - - - -### external_ontology `http://www.geneontology.org/formats/oboInOwl#external_ontology` -#### Removed -- AnnotationProperty: [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) - - - -### extraembryonic membrane `http://purl.obolibrary.org/obo/UBERON_0005631` -#### Removed -- [extraembryonic membrane](http://purl.obolibrary.org/obo/UBERON_0005631) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "stuctures homologous to the four extraembryonic membranes appear in mammals [ISBN:0073040584 (Vertebrates, Kardong)]" - -- [extraembryonic membrane](http://purl.obolibrary.org/obo/UBERON_0005631) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "EHDAA2 is a mereological sum." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" - -- [extraembryonic membrane](http://purl.obolibrary.org/obo/UBERON_0005631) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D005321" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### extraembryonic structure `http://purl.obolibrary.org/obo/UBERON_0000478` -#### Removed -- [extraembryonic structure](http://purl.obolibrary.org/obo/UBERON_0000478) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005835" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### extraglomerular mesangium `http://purl.obolibrary.org/obo/UBERON_0002321` - -#### Added -- [extraglomerular mesangium](http://purl.obolibrary.org/obo/UBERON_0002321) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### extrahepatic bile duct `http://purl.obolibrary.org/obo/UBERON_0003703` -#### Removed -- [extrahepatic bile duct](http://purl.obolibrary.org/obo/UBERON_0003703) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [liver](http://purl.obolibrary.org/obo/UBERON_0002107) - - - -### extrinsic muscle of tongue `http://purl.obolibrary.org/obo/UBERON_0001575` -#### Removed -- [extrinsic muscle of tongue](http://purl.obolibrary.org/obo/UBERON_0001575) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The lamprey head contains another group of muscles, the epi- and hypo-branchial muscles (EBM and HBM), derivatives of anterior trunk myotomes. (...) The origin and the migration pattern of HBM precursors are very similar to that of the gnathostome MPP, especially to that of the tongue muscle precursors. Other evidence of homology of lamprey HBM to the gnathostome tongue muscle is that HBM is innervated by the nerve termed the hypoglossal nerve based on its morphological position associated with the head/trunk interface. (...) The HBM-specific expression of the LampPax3/7 gene is consistent with the homology of this muscle to the gnathostome tongue muscle, or to the hypobranchial series as a whole (including the infrahyoid and possibly the diaphragm in mammals).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1002/dvdy.20587 Kusakabe R, Kuratani S, Evolution and developmental patterning of the vertebrate skeletal muscles: perspectives from the lamprey. Developmental Dynamics (2005)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000825" - -- [extrinsic muscle of tongue](http://purl.obolibrary.org/obo/UBERON_0001575) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "main functions are altering the tongue's position allowing for protrusion, retraction, and side-to-side movement" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" - -- [extrinsic muscle of tongue](http://purl.obolibrary.org/obo/UBERON_0001575) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "All intrinsic and extrinsic muscles of the tongue are supplied by the hypoglossal nerve (CN XII), except for one of the extrinsic muscles, palatoglossus, which is innervated by the Vagus nerve CN X of the pharyngeal plexus." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" - -- [extrinsic muscle of tongue](http://purl.obolibrary.org/obo/UBERON_0001575) SubClassOf [innervated_by](http://purl.obolibrary.org/obo/RO_0002005) some [hypoglossal nerve](http://purl.obolibrary.org/obo/UBERON_0001650) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "check palatoglossus" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia" - -#### Added -- [extrinsic muscle of tongue](http://purl.obolibrary.org/obo/UBERON_0001575) SubClassOf [innervated_by](http://purl.obolibrary.org/obo/RO_0002005) some [hypoglossal nerve](http://purl.obolibrary.org/obo/UBERON_0001650) - - -### eye `http://purl.obolibrary.org/obo/UBERON_0000970` -#### Removed -- [eye](http://purl.obolibrary.org/obo/UBERON_0000970) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "This class encompasses a variety of light-detecting structures from different phyla with no implication of homology, from the compound insect eye to the vertebrate camera-type eye (distinct classes are provided for each)" - -- [eye](http://purl.obolibrary.org/obo/UBERON_0000970) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005162" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [eye](http://purl.obolibrary.org/obo/UBERON_0000970) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "Note that whilst this is classified as an organ, it is in fact more of a unit composed of different structures: in Drosophila, it includes the interommatidial bristle as a part; we consider here the vertebrate eye to include the eyeball/eye proper as a part, with the eye having as parts (when present): eyelids, conjuctiva," - -- [eye](http://purl.obolibrary.org/obo/UBERON_0000970) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "ocular" - -- [eye](http://purl.obolibrary.org/obo/UBERON_0000970) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "optic" - - - -### eye epithelium `http://purl.obolibrary.org/obo/UBERON_0015808` - -#### Added -- [eye epithelium](http://purl.obolibrary.org/obo/UBERON_0015808) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### eye mesenchyme `http://purl.obolibrary.org/obo/UBERON_0003314` - -#### Added -- [eye mesenchyme](http://purl.obolibrary.org/obo/UBERON_0003314) SubClassOf [mesenchyme derived from head neural crest](http://purl.obolibrary.org/obo/UBERON_0007213) - - -### eye muscle `http://purl.obolibrary.org/obo/UBERON_0004277` - -#### Added -- [eye muscle](http://purl.obolibrary.org/obo/UBERON_0004277) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### eye primordium `http://purl.obolibrary.org/obo/UBERON_0003071` -#### Removed -- [eye primordium](http://purl.obolibrary.org/obo/UBERON_0003071) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "TODO - check that GO's optic placode is the same as ZFA's eye primordium; we may want to have separate term for ocular primordium precursor. XAO has both optic field and eye primordium." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "GO" - -#### Added -- [eye primordium](http://purl.obolibrary.org/obo/UBERON_0003071) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### eye trabecular meshwork `http://purl.obolibrary.org/obo/UBERON_0005969` - -#### Added -- [eye trabecular meshwork](http://purl.obolibrary.org/obo/UBERON_0005969) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### eyeball of camera-type eye `http://purl.obolibrary.org/obo/UBERON_0010230` -#### Removed -- [eyeball of camera-type eye](http://purl.obolibrary.org/obo/UBERON_0010230) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_264089](http://purl.obolibrary.org/obo/FMA_264089) - -- [eyeball of camera-type eye](http://purl.obolibrary.org/obo/UBERON_0010230) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "See notes for camera-type eye" - -#### Added -- [eyeball of camera-type eye](http://purl.obolibrary.org/obo/UBERON_0010230) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### eyelid `http://purl.obolibrary.org/obo/UBERON_0001711` -#### Removed -- [eyelid](http://purl.obolibrary.org/obo/UBERON_0001711) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "palpebral" - -- [eyelid](http://purl.obolibrary.org/obo/UBERON_0001711) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans the upper and lower eyelid consists of the following layers, starting anteriorly: (1) skin, (2) a layer of subcutaneous connective tissue, (3) a layer of striated muscle fibres of the orbicularis muscle, (4) a layer of submuscular connective tissue, (5) a fibrous layer, including the tarsal plates, (6) a layer of smooth muscle, (7) the palpebral conjunctiva." - -- [eyelid](http://purl.obolibrary.org/obo/UBERON_0001711) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Consider adding 'eye surface', like MA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - -- [eyelid](http://purl.obolibrary.org/obo/UBERON_0001711) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "blepharic" - -- [eyelid](http://purl.obolibrary.org/obo/UBERON_0001711) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA divides this into skin, fascia, conjunctiva" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [eyelid](http://purl.obolibrary.org/obo/UBERON_0001711) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_75178](http://purl.obolibrary.org/obo/FMA_75178) - -#### Added -- [eyelid](http://purl.obolibrary.org/obo/UBERON_0001711) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### eyelid blood vessel `http://purl.obolibrary.org/obo/UBERON_0003510` - -#### Added -- [eyelid blood vessel](http://purl.obolibrary.org/obo/UBERON_0003510) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### eyelid connective tissue `http://purl.obolibrary.org/obo/UBERON_0003581` - -#### Added -- [eyelid connective tissue](http://purl.obolibrary.org/obo/UBERON_0003581) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### eyelid gland `http://purl.obolibrary.org/obo/UBERON_0013229` - -#### Added -- [eyelid gland](http://purl.obolibrary.org/obo/UBERON_0013229) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### eyelid muscle `http://purl.obolibrary.org/obo/UBERON_0003660` -#### Removed -- [eyelid muscle](http://purl.obolibrary.org/obo/UBERON_0003660) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The muscle in the orbit of the eye that lifts the upper eyelid[ncithesaurus:Eyelid_Muscle]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ncithesaurus:Eyelid_Muscle" - - - -### eyelid subcutaneous connective tissue `http://purl.obolibrary.org/obo/UBERON_0009648` - -#### Added -- [eyelid subcutaneous connective tissue](http://purl.obolibrary.org/obo/UBERON_0009648) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### fMet-Leu-Phe receptor `http://purl.obolibrary.org/obo/PR_000001580` -#### Removed -- [fMet-Leu-Phe receptor](http://purl.obolibrary.org/obo/PR_000001580) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [fMet-Leu-Phe receptor (human)](http://purl.obolibrary.org/obo/PR_P21462) - - - -### face `http://purl.obolibrary.org/obo/UBERON_0001456` -#### Removed -- [face](http://purl.obolibrary.org/obo/UBERON_0001456) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The face develops from outward growth of tissue located rostral to the cranium & pharynx. The lower jaw and most of the upper jaw are formed by growth of the first pharyngeal (branchial) arch. The upper incisor region and the nose and forehead (frontal region) are formed from tissue located rostral to the neural tube (frontonasal prominence)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "vanat.cvm.umn.edu/TFFlectPDFs/LectFaceDevelop.pdf" - -- [face](http://purl.obolibrary.org/obo/UBERON_0001456) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Subdivision of head which consists of the viscerocranium and all layers superficial to it. Examples: There is only one face." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:24728" - -- [face](http://purl.obolibrary.org/obo/UBERON_0001456) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The area that extends from the median ocellus to the oral foramen[HAO]." - - [taxon](http://www.geneontology.org/formats/oboInOwl#taxon) "NCBITaxon:7399" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "HAO:0000316" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://api.hymao.org/api/ref/67791" - -- [face](http://purl.obolibrary.org/obo/UBERON_0001456) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "facial" - - - -### facial bone `http://purl.obolibrary.org/obo/UBERON_0003462` -#### Removed -- [facial bone](http://purl.obolibrary.org/obo/UBERON_0003462) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D005147" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -#### Added -- [facial bone](http://purl.obolibrary.org/obo/UBERON_0003462) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### facial lymph node `http://purl.obolibrary.org/obo/UBERON_0015871` -#### Removed -- [facial lymph node](http://purl.obolibrary.org/obo/UBERON_0015871) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, these comprise three groups: (a) infraorbital or maxillary, scattered over the infraorbital region from the groove between the nose and cheek to the zygomatic arch; (b) buccinator, one or more placed on the Buccinator opposite the angle of the mouth; (c) supramandibular, on the outer surface of the mandible, in front of the Masseter and in contact with the external maxillary artery and anterior facial vein." - - - -### facial nerve `http://purl.obolibrary.org/obo/UBERON_0001647` -#### Removed -- [facial nerve](http://purl.obolibrary.org/obo/UBERON_0001647) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (5) cranial nerves (...) (reference 1); Phylogenetically, the cranial nerves are thought to have evolved from dorsal and ventral nerves of a few anterior spinal nerves that became incorporated into the braincase. Dorsal and ventral nerves fuse in the trunk but not in the head, and they produce two series: dorsal cranial nerves (V, VII, IX, and X) and ventral cranial nerves (III, IV, VI, and XIII) (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43, ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.625" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000706" - -- [facial nerve](http://purl.obolibrary.org/obo/UBERON_0001647) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Slender nerve composed of branchiomotor and visceral efferent fibers innervating the mouth and various muscles within the jaw. Sensory components innervate the bucccal roof and somatomotor components innervate the depressor musculature and muscle interhyoideus.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:DSM" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010472" - - - -### facial nucleus `http://purl.obolibrary.org/obo/UBERON_0000127` -#### Removed -- [facial nucleus](http://purl.obolibrary.org/obo/UBERON_0000127) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA has 3 subclasses - left, right and motor nucleus of facial nerve, but no defs. It's not clear how facial nucleus is distinct from facial motor nucleus." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [facial nucleus](http://purl.obolibrary.org/obo/UBERON_0000127) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - -- [facial nucleus](http://purl.obolibrary.org/obo/UBERON_0000127) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future facial nucleus](http://purl.obolibrary.org/obo/UBERON_0010123) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [facial nucleus](http://purl.obolibrary.org/obo/UBERON_0000127) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future facial nucleus](http://purl.obolibrary.org/obo/UBERON_0010123) - - -### facial suture `http://purl.obolibrary.org/obo/UBERON_0009199` -#### Removed -- [facial suture](http://purl.obolibrary.org/obo/UBERON_0009199) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [facial bone](http://purl.obolibrary.org/obo/UBERON_0003462) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "between two adjacent facial bones" - -#### Added -- [facial suture](http://purl.obolibrary.org/obo/UBERON_0009199) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [facial bone](http://purl.obolibrary.org/obo/UBERON_0003462) - - -### facial vein `http://purl.obolibrary.org/obo/UBERON_0001653` -#### Removed -- [facial vein](http://purl.obolibrary.org/obo/UBERON_0001653) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MA and NCITA also has 'anterior facial vein'" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - -- [facial vein](http://purl.obolibrary.org/obo/UBERON_0001653) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Vein which collects blood from muscles of the head and drains into the external jugular vein.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010513" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - - -### facio-acoustic VII-VIII preganglion complex `http://purl.obolibrary.org/obo/UBERON_0006232` -#### Removed -- [facio-acoustic VII-VIII preganglion complex](http://purl.obolibrary.org/obo/UBERON_0006232) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VHOG:0000715" - - - -### facio-acoustic neural crest `http://purl.obolibrary.org/obo/UBERON_0005565` -#### Removed -- [facio-acoustic neural crest](http://purl.obolibrary.org/obo/UBERON_0005565) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000268" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43" - -- [facio-acoustic neural crest](http://purl.obolibrary.org/obo/UBERON_0005565) SubClassOf [mesenchyme derived from neural crest](http://purl.obolibrary.org/obo/UBERON_0014387) - - - -### failed exploratory term `http://purl.obolibrary.org/obo/IAO_0000103` -#### Removed -- [failed exploratory term](http://purl.obolibrary.org/obo/IAO_0000103) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "failed exploratory term"@en - -- [failed exploratory term](http://purl.obolibrary.org/obo/IAO_0000103) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "Person:Alan Ruttenberg"@en - - - -### falciform ligament `http://purl.obolibrary.org/obo/UBERON_0001247` -#### Removed -- [falciform ligament](http://purl.obolibrary.org/obo/UBERON_0001247) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA this is a subclass of mesentery. In MA it is a subclass of ligament, we infer and assert this is a nonskeletal ligament" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -#### Added -- [falciform ligament](http://purl.obolibrary.org/obo/UBERON_0001247) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) - - -### fallopian tube `http://purl.obolibrary.org/obo/UBERON_0003889` -#### Removed -- [fallopian tube](http://purl.obolibrary.org/obo/UBERON_0003889) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:18984" - -- [fallopian tube](http://purl.obolibrary.org/obo/UBERON_0003889) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Homologous to appendix testis" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Talk:Fallopian_tube#Homology" - - - -### fasciculates with `http://purl.obolibrary.org/obo/RO_0002101` -#### Removed -- [fasciculates with](http://purl.obolibrary.org/obo/RO_0002101) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) - -- [fasciculates with](http://purl.obolibrary.org/obo/RO_0002101) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) - -- [fasciculates with](http://purl.obolibrary.org/obo/RO_0002101) [IAO_0000426](http://purl.obolibrary.org/obo/IAO_0000426) "(forall (?x ?y) - (iff - (fasciculates_with ?x ?y) - (exists (?nps ?npbs) - (and - ("neuron ; CL_0000540" ?x) - ("neuron projection bundle ; CARO_0001001" ?y) - ("neuron projection segment ; CARO_0001502" ?nps) - ("neuron projection bundle segment ; CARO_0001500' " ?npbs) - (part_of ?npbs ?y) - (part_of ?nps ?x) - (part_of ?nps ?npbs) - (forall (?npbss) - (if - (and - ("neuron projection bundle subsegment ; CARO_0001501" ?npbss) - (part_of ?npbss ?npbs) - ) - (overlaps ?nps ?npbss) - ))))))" - -- [fasciculates with](http://purl.obolibrary.org/obo/RO_0002101) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "fasciculates with" - -- [fasciculates with](http://purl.obolibrary.org/obo/RO_0002101) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [fasciculates with](http://purl.obolibrary.org/obo/RO_0002101) [citesAsAuthority](http://purl.org/spar/cito/citesAsAuthority) [22402613](http://www.ncbi.nlm.nih.gov/pubmed/22402613) - - - -### feces `http://purl.obolibrary.org/obo/UBERON_0001988` -#### Removed -- [feces](http://purl.obolibrary.org/obo/UBERON_0001988) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Excretion in semisolid state processed by the intestine.[FMA]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:64183" - -- [feces](http://purl.obolibrary.org/obo/UBERON_0001988) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "fecal" - - - -### female organism `http://purl.obolibrary.org/obo/UBERON_0003100` -#### Removed -- [female organism](http://purl.obolibrary.org/obo/UBERON_0003100) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [male organism](http://purl.obolibrary.org/obo/UBERON_0003101) - -- [female organism](http://purl.obolibrary.org/obo/UBERON_0003100) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007011" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### female reproductive system `http://purl.obolibrary.org/obo/UBERON_0000474` -#### Removed -- [female reproductive system](http://purl.obolibrary.org/obo/UBERON_0000474) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "By far, sexual reproduction is the more common pattern among living vertebrate forms and its widespread occurrence suggests that it is the plesiomorphic, or primitive, reproductive mode among the vertebrates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0792383369 Lombardi J, Comparative vertebrate reproduction (1998) p.43" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000726" - -- [female reproductive system](http://purl.obolibrary.org/obo/UBERON_0000474) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004864" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### female urethral meatus `http://purl.obolibrary.org/obo/UBERON_0006565` -#### Removed -- [female urethral meatus](http://purl.obolibrary.org/obo/UBERON_0006565) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The external urethral orifice (urinary meatus) is the external opening of the urethra, from which urine is ejected during urination. It is placed about 2.5 cm behind the glans clitoridis and immediately in front of that of the vagina; it usually assumes the form of a short, sagittal cleft with slightly raised margins. To its left and right are the openings of the Skene's ducts." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:External_urethral_orifice_(female)" - - - -### femoral artery `http://purl.obolibrary.org/obo/UBERON_0002060` -#### Removed -- [femoral artery](http://purl.obolibrary.org/obo/UBERON_0002060) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Artery which supplies blood via branches to the hindlimbs.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010222" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - - -### femoral vein `http://purl.obolibrary.org/obo/UBERON_0001361` -#### Removed -- [femoral vein](http://purl.obolibrary.org/obo/UBERON_0001361) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Either of the primary veins in the hindlimbs which collect blood from the hindlimb region.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010237" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - - -### femur `http://purl.obolibrary.org/obo/UBERON_0000981` -#### Removed -- [femur](http://purl.obolibrary.org/obo/UBERON_0000981) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Most anatomists now agree that the three proximal bones of the tetrapod limbs are homologous to the two or three proximal elements of the paired fin skeleton of other sarcopterygians, that is the humerus-femur, radius-tibia, and ulna-fibula.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001159" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0198540472 Janvier P, Early vertebrates (1996) p.268" - -- [femur](http://purl.obolibrary.org/obo/UBERON_0000981) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "femoral" - -- [femur](http://purl.obolibrary.org/obo/UBERON_0000981) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Endochondral longbone connecting the pelvic girdle with posterior zeugopodium.[VSAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "VSAO:NI" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000186" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - -- [femur](http://purl.obolibrary.org/obo/UBERON_0000981) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Paired, elongate, cylindrical bones of endochondral origin that form the thighs, extending from the pelvic girdles to the knees.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000889" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [femur](http://purl.obolibrary.org/obo/UBERON_0000981) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [femur cartilage element](http://purl.obolibrary.org/obo/UBERON_0010129) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [femur](http://purl.obolibrary.org/obo/UBERON_0000981) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [femur cartilage element](http://purl.obolibrary.org/obo/UBERON_0010129) - - -### fenestrated capillary `http://purl.obolibrary.org/obo/UBERON_2005260` -#### Removed -- [fenestrated capillary](http://purl.obolibrary.org/obo/UBERON_2005260) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Blood vessel endothelium that has pores that allow passage small molecules and proteins[ZFA]." - - - -### fibroblast growth factor 8 `http://purl.obolibrary.org/obo/PR_000007499` -#### Removed -- [fibroblast growth factor 8](http://purl.obolibrary.org/obo/PR_000007499) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [fibroblast growth factor 8 (human)](http://purl.obolibrary.org/obo/PR_P55075) - - - -### fibroblast neural crest derived `http://purl.obolibrary.org/obo/CL_0000005` -#### Removed -- [fibroblast neural crest derived](http://purl.obolibrary.org/obo/CL_0000005) [label](http://www.w3.org/2000/01/rdf-schema#label) "fibroblast neural crest derived" - -- [fibroblast neural crest derived](http://purl.obolibrary.org/obo/CL_0000005) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any fibroblast that is deriived from the neural crest." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "https://orcid.org/0000-0001-5208-3432" - -#### Added -- [fibroblast neural crest derived](http://purl.obolibrary.org/obo/CL_0000005) [label](http://www.w3.org/2000/01/rdf-schema#label) "neural crest derived fibroblast" - -- [fibroblast neural crest derived](http://purl.obolibrary.org/obo/CL_0000005) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any fibroblast that is derived from the neural crest." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "https://orcid.org/0000-0001-5208-3432" - -- [fibroblast neural crest derived](http://purl.obolibrary.org/obo/CL_0000005) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "fibroblast neural crest derived" - - -### fibrocartilage `http://purl.obolibrary.org/obo/UBERON_0001995` -#### Removed -- [fibrocartilage](http://purl.obolibrary.org/obo/UBERON_0001995) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cartilage tissue intermediate between hyaline cartilage and dense connective tissue; contains of abundant collagen fibers; chondrocytes often arranged in columns.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000103" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - -- [fibrocartilage](http://purl.obolibrary.org/obo/UBERON_0001995) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "fibrocartilaginous" - -- [fibrocartilage](http://purl.obolibrary.org/obo/UBERON_0001995) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cartilage (tissue) which consists of chondrocytes and collagen, the intercellular matrix of which is an amorphous gel without a well-defined perichondrium[FMA:64784]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:64784" - -- [fibrocartilage](http://purl.obolibrary.org/obo/UBERON_0001995) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D051445" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -- [fibrocartilage](http://purl.obolibrary.org/obo/UBERON_0001995) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A mixture of white fibrous tissue and cartilaginous tissue in various proportions. It owes its flexibility and toughness to the former of these constituents, and its elasticity to the latter. It is the only type of cartilage that contains type I collagen in addition to the normal type I[Wikipedia:Fibrocartilage]I" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Fibrocartilage" - - - -### fibrous joint `http://purl.obolibrary.org/obo/UBERON_0002209` -#### Removed -- [fibrous joint](http://purl.obolibrary.org/obo/UBERON_0002209) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A joint where fibrous tissue such as ligament connects two calcified tissues.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005156" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### fibrous pericardium `http://purl.obolibrary.org/obo/UBERON_0002359` -#### Removed -- [fibrous pericardium](http://purl.obolibrary.org/obo/UBERON_0002359) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "most superficial part of pericardium; continuous with the outer adventitial layer of the neighboring great blood vessels. [Wikipedia:Pericardium]" - - - -### fibrous ring of heart `http://purl.obolibrary.org/obo/UBERON_0006008` - -#### Added -- [fibrous ring of heart](http://purl.obolibrary.org/obo/UBERON_0006008) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### fibula `http://purl.obolibrary.org/obo/UBERON_0001446` -#### Removed -- [fibula](http://purl.obolibrary.org/obo/UBERON_0001446) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of the two long bones of endochondral origin of the hind-epipodium; it is a rather more slender bone than the tibia but of about the same length.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000891" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [fibula](http://purl.obolibrary.org/obo/UBERON_0001446) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "fibular" - - - -### flat bone `http://purl.obolibrary.org/obo/UBERON_0010428` -#### Removed -- [flat bone](http://purl.obolibrary.org/obo/UBERON_0010428) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "Flat bones are those bones which are found where the principal requirement is either extensive protection or the provision of broad surfaces for muscular attachment" - -- [flat bone](http://purl.obolibrary.org/obo/UBERON_0010428) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In an adult mammal, most red blood cells are formed in flat bones" - - - -### flexible `http://purl.obolibrary.org/obo/PATO_0001544` -#### Removed -- [flexible](http://purl.obolibrary.org/obo/PATO_0001544) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [PATO_0001545](http://purl.obolibrary.org/obo/PATO_0001545) - - - -### follicular fluid `http://purl.obolibrary.org/obo/UBERON_0000038` -#### Removed -- [follicular fluid](http://purl.obolibrary.org/obo/UBERON_0000038) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Generally, larger species such as ovine, equine, porcine, human, and bovine have larger follicles, with the fluid comprising a substantial proportion of the volume of the follicles at ovulation (estimated at >95% in bovine [3]). Smaller species such as rats and mice have smaller follicles with fractionally less follicular fluid[20164441]" - -- [follicular fluid](http://purl.obolibrary.org/obo/UBERON_0000038) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "The follicular fluid contains sex steroids, glycoprotein hormones, plasma proteins, mucopolysaccharides, and enzymes and is rich in hyaluronic acid." - - - -### food storage organ `http://purl.obolibrary.org/obo/UBERON_0010039` -#### Removed -- [food storage organ](http://purl.obolibrary.org/obo/UBERON_0010039) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "This is a very broad functionally defined grouping class that collects disparate structures from insects to vertebrates" - - - -### foramen magnum `http://purl.obolibrary.org/obo/UBERON_0003687` -#### Removed -- [foramen magnum](http://purl.obolibrary.org/obo/UBERON_0003687) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Foramen in the occipital region of neurocranium to allow passage of spinal cord.[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002045" - -- [foramen magnum](http://purl.obolibrary.org/obo/UBERON_0003687) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0006035" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) - - - -### foramen rotundum `http://purl.obolibrary.org/obo/UBERON_0005446` -#### Removed -- [foramen rotundum](http://purl.obolibrary.org/obo/UBERON_0005446) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A circular hole in the sphenoid bone that connects the middle cranial fossa and the pterygopalatine fossa.vity. [Wikipedia:Foramen_rotundum][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001543" - -- [foramen rotundum](http://purl.obolibrary.org/obo/UBERON_0005446) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "todo - check placement of AAO class" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "AAO" - -- [foramen rotundum](http://purl.obolibrary.org/obo/UBERON_0005446) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "It is suggested that the mammalian lamina ascendens arose from an upgrowth of the root of the quadrate ramus of the epipterygoid in cynodonts, separating foramen rotundum from foramen ovale.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:1018003 Presley R, Steel FLD, On the homology of the alisphenoid. Journal of Anatomy (1976)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001543" - -#### Added -- [foramen rotundum](http://purl.obolibrary.org/obo/UBERON_0005446) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### forebrain `http://purl.obolibrary.org/obo/UBERON_0001890` -#### Removed -- [forebrain](http://purl.obolibrary.org/obo/UBERON_0001890) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In craniate embryos, neural expression of Distal-less-related genes is exclusively in the forebrain (...). Because the major neural expression domain of amphioxus AmphiDll is in the anterior three-fourths of the cerebral vesicle, we suggest that this region of the neural tube is homologous to parts of the craniate forebrain. This conclusion is strongly supported by three-dimensional, computer-assisted reconstruction of the neural tube of amphioxus based on serial transmission electron microscopy. At the neuroanatomical level, a number of detailed homologies are indicated between the anterior three-fourths of the amphioxus cerebral vesicle and the diencephalic region of the craniate forebrain. If one assumes that the amphioxus condition fairly represents the nervous system of the proximate ancestor of the craniates, one can suggest that they evolved from a creature that had the beginnings of a forebrain.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:8787764 Holland ND, Panganiban G, Henyey EL, Holland LZ, Sequence and developmental expression of AmphiDll, an amphioxus Distal-less gene transcribed in the ectoderm, epidermis and nervous system: insights into evolution of craniate forebrain and neural crest. Development (1996)" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000383" - -- [forebrain](http://purl.obolibrary.org/obo/UBERON_0001890) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "prosencephalic" - -- [forebrain](http://purl.obolibrary.org/obo/UBERON_0001890) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Most anterior of the three regions of the brain consisting of the telencephalon and diencephalon.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010147" - -- [forebrain](http://purl.obolibrary.org/obo/UBERON_0001890) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The most anterior region the brain including both the telencephalon and diencephalon. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000109" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [forebrain](http://purl.obolibrary.org/obo/UBERON_0001890) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: develops_from forebrain neural tube (TAO:0007041)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000109" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [forebrain](http://purl.obolibrary.org/obo/UBERON_0001890) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - -- [forebrain](http://purl.obolibrary.org/obo/UBERON_0001890) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future forebrain](http://purl.obolibrary.org/obo/UBERON_0006240) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [forebrain](http://purl.obolibrary.org/obo/UBERON_0001890) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future forebrain](http://purl.obolibrary.org/obo/UBERON_0006240) - - -### forebrain arachnoid mater `http://purl.obolibrary.org/obo/UBERON_0003556` -#### Removed -- [forebrain arachnoid mater](http://purl.obolibrary.org/obo/UBERON_0003556) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17775" - -- [forebrain arachnoid mater](http://purl.obolibrary.org/obo/UBERON_0003556) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17765" - - - -### forebrain dura mater `http://purl.obolibrary.org/obo/UBERON_0003561` -#### Removed -- [forebrain dura mater](http://purl.obolibrary.org/obo/UBERON_0003561) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17766" - - - -### forebrain meninges `http://purl.obolibrary.org/obo/UBERON_0003548` -#### Removed -- [forebrain meninges](http://purl.obolibrary.org/obo/UBERON_0003548) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17764" - -- [forebrain meninges](http://purl.obolibrary.org/obo/UBERON_0003548) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17774" - - - -### forebrain pia mater `http://purl.obolibrary.org/obo/UBERON_0003550` -#### Removed -- [forebrain pia mater](http://purl.obolibrary.org/obo/UBERON_0003550) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17777" - -- [forebrain pia mater](http://purl.obolibrary.org/obo/UBERON_0003550) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17767" - - - -### forebrain-midbrain boundary `http://purl.obolibrary.org/obo/UBERON_0005075` -#### Removed -- [forebrain-midbrain boundary](http://purl.obolibrary.org/obo/UBERON_0005075) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The boundary between the diencephalon and the mesencephalon.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001367" - -- [forebrain-midbrain boundary](http://purl.obolibrary.org/obo/UBERON_0005075) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: develops_from forebrain midbrain boundary neural tube (TAO:0007040)[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001367" - -- [forebrain-midbrain boundary](http://purl.obolibrary.org/obo/UBERON_0005075) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [presumptive forebrain midbrain boundary](http://purl.obolibrary.org/obo/UBERON_0007288) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [forebrain-midbrain boundary](http://purl.obolibrary.org/obo/UBERON_0005075) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - -- [forebrain-midbrain boundary](http://purl.obolibrary.org/obo/UBERON_0005075) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [presumptive forebrain midbrain boundary](http://purl.obolibrary.org/obo/UBERON_0007288) - - -### foregut `http://purl.obolibrary.org/obo/UBERON_0001041` -#### Removed -- [foregut](http://purl.obolibrary.org/obo/UBERON_0001041) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The anterior portion of the primitive digestive tube of the embryo that lies cephalic to the junction of the yolk stalk, consists of endodermal tissue, and gives rise to the the pharynx, lower respiratory system, esophagus, stomach, duodenum proximal to the biliary tract, liver, pancreas, biliary tract, and gall bladder." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0000474" - -- [foregut](http://purl.obolibrary.org/obo/UBERON_0001041) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The bilaterian gut is typically a complete tube that opens to the exterior at both ends. It consists of mouth, foregut, midgut, hindgut, and anus (reference 1); Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000285" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.203, ISBN:978-0521617147 Stevens CE and Hume ID, Comparative physiology of the vertebrate digestive system (2004) p.11" - -- [foregut](http://purl.obolibrary.org/obo/UBERON_0001041) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005379" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### foregut-midgut junction `http://purl.obolibrary.org/obo/UBERON_0006235` -#### Removed -- [foregut-midgut junction](http://purl.obolibrary.org/obo/UBERON_0006235) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0521617147 Stevens CE and Hume ID, Comparative physiology of the vertebrate digestive system (2004) p.11" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000291" - - - -### forelimb `http://purl.obolibrary.org/obo/UBERON_0002102` -#### Removed -- [forelimb](http://purl.obolibrary.org/obo/UBERON_0002102) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Upper limb, which connects the manus with the pectoral girdle.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000205" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [forelimb](http://purl.obolibrary.org/obo/UBERON_0002102) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "note that this corresponds to FMA:'free upper limb' (a limb segment), NOT FMA:'upper limb'. Both MA and FMA consider shoulder (and shoulder bones) part of upper limb" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [forelimb](http://purl.obolibrary.org/obo/UBERON_0002102) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Note distinction between arm and forelimb. hand is part of forelimb, but not part of arm" - -- [forelimb](http://purl.obolibrary.org/obo/UBERON_0002102) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [hindlimb](http://purl.obolibrary.org/obo/UBERON_0002103) - - - -### forelimb joint `http://purl.obolibrary.org/obo/UBERON_0003839` -#### Removed -- [forelimb joint](http://purl.obolibrary.org/obo/UBERON_0003839) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_71344](http://purl.obolibrary.org/obo/FMA_71344) - - - -### forelimb muscle `http://purl.obolibrary.org/obo/UBERON_0003662` -#### Removed -- [forelimb muscle](http://purl.obolibrary.org/obo/UBERON_0003662) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA and MA class actually refer to muscles of entire pectoral complex" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### forelimb skeleton `http://purl.obolibrary.org/obo/UBERON_0001440` -#### Removed -- [forelimb skeleton](http://purl.obolibrary.org/obo/UBERON_0001440) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Most anatomists now agree that the three proximal bones of the tetrapod limbs are homologous to the two or three proximal elements of the paired fin skeleton of other sarcopterygians, that is the humerus-femur, radius-tibia, and ulna-fibula.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0198540472 Janvier P, Early vertebrates (1996) p.268" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001256" - -- [forelimb skeleton](http://purl.obolibrary.org/obo/UBERON_0001440) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: differentiates_from lateral plate mesoderm (AAO:0010574) CHANGED TO: develops_from lateral plate mesoderm (UBERON:0003081)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000202" - -- [forelimb skeleton](http://purl.obolibrary.org/obo/UBERON_0001440) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Skeletal structure of the paired, anterior appendages.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000202" - -- [forelimb skeleton](http://purl.obolibrary.org/obo/UBERON_0001440) [RO_0002475](http://purl.obolibrary.org/obo/RO_0002475) [hindlimb skeleton](http://purl.obolibrary.org/obo/UBERON_0001441) - - - -### forelimb stylopod `http://purl.obolibrary.org/obo/UBERON_0003822` -#### Removed -- [forelimb stylopod](http://purl.obolibrary.org/obo/UBERON_0003822) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Segment of the hindleg corresponding to the humerus.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000887" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [forelimb stylopod](http://purl.obolibrary.org/obo/UBERON_0003822) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "anatomical usage, the term arm refers specifically to the segment between the shoulder and the elbow, while the segment between the elbow and wrist is the forearm. However, in common, literary, and historical usage, arm refers to the entire upper limb from shoulder to wrist. FMA uses the term Arm for this class, so we place it here. Naming conventions for pod terms under discussion within phenoscape group." - -- [forelimb stylopod](http://purl.obolibrary.org/obo/UBERON_0003822) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Most anatomists now agree that the three proximal bones of the tetrapod limbs are homologous to the two or three proximal elements of the paired fin skeleton of other sarcopterygians, that is the humerus-femur, radius-tibia, and ulna-fibula.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000343" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0198540472 Janvier P, Early vertebrates (1996) p.268" - - - -### forelimb stylopod muscle `http://purl.obolibrary.org/obo/UBERON_0004255` -#### Removed -- [forelimb stylopod muscle](http://purl.obolibrary.org/obo/UBERON_0004255) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "See notes on UBERON:0001460 for possible terminological confusion over term 'arm'" - - - -### forelimb zeugopod `http://purl.obolibrary.org/obo/UBERON_0002386` -#### Removed -- [forelimb zeugopod](http://purl.obolibrary.org/obo/UBERON_0002386) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "Naming conventions for pod terms under discussion within phenoscape group. TODO - add distinct term for skeleton and place AAO class here" - -- [forelimb zeugopod](http://purl.obolibrary.org/obo/UBERON_0002386) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Most anatomists now agree that the three proximal bones of the tetrapod limbs are homologous to the two or three proximal elements of the paired fin skeleton of other sarcopterygians, that is the humerus-femur, radius-tibia, and ulna-fibula.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0198540472 Janvier P, Early vertebrates (1996) p.268" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000341" - -- [forelimb zeugopod](http://purl.obolibrary.org/obo/UBERON_0002386) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The middle forelimb region. [Evolution, Fourth_Edition_(2006)_Boston_etc.:_McGraw-Hill, Function, Vertebrates:_Comparative_Anatomy, p.321, see_Kardong_KV][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000341" - - - -### forelimb zeugopod skeleton `http://purl.obolibrary.org/obo/UBERON_0010703` -#### Removed -- [forelimb zeugopod skeleton](http://purl.obolibrary.org/obo/UBERON_0010703) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Segment of the forearm corresponding to the radius and ulna.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000200" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - -### forkhead box protein N1 `http://purl.obolibrary.org/obo/PR_000007636` -#### Removed -- [forkhead box protein N1](http://purl.obolibrary.org/obo/PR_000007636) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [forkhead box protein N1 (human)](http://purl.obolibrary.org/obo/PR_O15353) - - - -### forkhead box protein P3 `http://purl.obolibrary.org/obo/PR_000001350` -#### Removed -- [forkhead box protein P3](http://purl.obolibrary.org/obo/PR_000001350) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [forkhead box protein P3 (human)](http://purl.obolibrary.org/obo/PR_Q9BZS1) - - - -### formed as result of `http://purl.obolibrary.org/obo/RO_0002354` -#### Removed -- [formed as result of](http://purl.obolibrary.org/obo/RO_0002354) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### fornix of brain `http://purl.obolibrary.org/obo/UBERON_0000052` -#### Removed -- [fornix of brain](http://purl.obolibrary.org/obo/UBERON_0000052) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:61965" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "inferred" - - - -### fourth ventricle `http://purl.obolibrary.org/obo/UBERON_0002422` -#### Removed -- [fourth ventricle](http://purl.obolibrary.org/obo/UBERON_0002422) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The fourth ventricle is an irregularly shaped cavity in the rhombencephalon, between the medulla oblongata, the pons, and the isthmus in front, and the cerebellum behind. It is continuous with the central canal of the cord below and with the cerebral aqueduct above, and through its lateral and median apertures it communicates with the subarachnoid space[GO][GO:0021592]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO:0021592" - -- [fourth ventricle](http://purl.obolibrary.org/obo/UBERON_0002422) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Irregularly shaped cavity in the rhombencephalon, between the medulla oblongata, the pons, and the isthmus in front, and the cerebellum behind. It is continuous with the central canal of the cord below and with the cerebral aqueduct above, and through its lateral and median apertures it communicates with the subarachnoid space.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "UBERON:0002422" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0011043" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [fourth ventricle](http://purl.obolibrary.org/obo/UBERON_0002422) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Fluid-filled brain cavity. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000110" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [fourth ventricle](http://purl.obolibrary.org/obo/UBERON_0002422) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The early development of most vertebrate brains is similar (...). The zebrafish neural tube follows the same basic differentiation pattern as the mammalian neural tube (reference 1); The brain develops from three embryonic enlargements of the neural tube, which later differentiate into five regions. A forebrain differentiates into telencephalon and diencephalon. The midbrain, or mesencephalon, remains undivided. The hindbrain divides into the metencephalon and myelencephalon. Cavities within the brain enlarge to form a series of interconnected ventricles (reference 2).[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000006" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) p.381-382, ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.500" - - - -### fourth ventricle aperture `http://purl.obolibrary.org/obo/UBERON_0004668` - -#### Added -- [fourth ventricle aperture](http://purl.obolibrary.org/obo/UBERON_0004668) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### fovea centralis `http://purl.obolibrary.org/obo/UBERON_0001786` -#### Removed -- [fovea centralis](http://purl.obolibrary.org/obo/UBERON_0001786) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "high acuity vision" - -- [fovea centralis](http://purl.obolibrary.org/obo/UBERON_0001786) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The fovea is also a pit in the surface of the retinas of many types of fish, reptiles, and birds. Among mammals, it is found only in simian primates. The retinal fovea takes slightly different forms in different types of animals. For example, in primates, cone photoreceptors line the base of the foveal pit, the cells that elsewhere in the retina form more superficial layers having been displaced away from the foveal region during late fetal and early postnatal life. Other foveae may show only a reduced thickness in the inner cell layers, rather than an almost complete absence" - -- [fovea centralis](http://purl.obolibrary.org/obo/UBERON_0001786) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "foveal" - -- [fovea centralis](http://purl.obolibrary.org/obo/UBERON_0001786) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Definition of fovea centralis should be considered here as 'an area centralis at the visual axis' (reference 1). There is an uncertaincy of the relation, because: 1.-The fovea first appeared in evolution in the temporal retina of fishes. Then, in birds, the nasal fovea and bifoveal system with nasal and temporal foveas developed. The fovea disappeared in primitive mammals, and reappeared in primates. A residue of the fovea is conserved in the visual streak, and the disappearance and reappearance of the fovea, in primitive mammals and primates respectively, correlates with degeneration and restoration of cone pigment genes in photoreceptors (reference 2). 2.-Many retinal features (foveas, trichromacy, midget pathways and associated cell types) appear specific to primates. This has led to investigations in parallel with other mammalian models such as cat or rabbit. Correlation of the results often proves to be difficult, since an evolutionary scenario with transitions between the mammalian models is largely lacking (reference 3).[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1017/S095252380623342X Ahnelt PK, Schubert C, Kübber-Heiss A, Schiviz A, Anger E, Independent variation of retinal S and M cone photoreceptor topographies: A survey of four families of mammals. Visual neuroscience (2006), http://www.ncbi.nlm.nih.gov/pubmed/11193946 Azuma N, Molecular cell biology on morphogenesis of the fovea and evolution of the central vision. Nihon Ganka Gakkai Zasshi (2000), DOI:10.1016/S1350-9462(00)00012-4 Ahnelt PK, Kolb H, The mammalian photoreceptor mosaic-adaptive design. Progress in Retinal and Eye Research (2000)" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001572" - -- [fovea centralis](http://purl.obolibrary.org/obo/UBERON_0001786) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A small pit in the center of the macula lutea, the area of clearest vision, where the retinal layers are spread aside, and light falls directly on the cones. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/fovea" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001572" - -#### Added -- [fovea centralis](http://purl.obolibrary.org/obo/UBERON_0001786) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### frontal cortex `http://purl.obolibrary.org/obo/UBERON_0001870` -#### Removed -- [frontal cortex](http://purl.obolibrary.org/obo/UBERON_0001870) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D005625" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -- [frontal cortex](http://purl.obolibrary.org/obo/UBERON_0001870) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anterior portion of the frontal cortex, lying anterior to the central sulcus. It is bounded by the parietal cortex posteriorly and the temporal cortex laterally." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "NLXANAT:20090601" - - - -### frontal suture `http://purl.obolibrary.org/obo/UBERON_0002490` -#### Removed -- [frontal suture](http://purl.obolibrary.org/obo/UBERON_0002490) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in humans, the frontal suture is a dense connective tissue structure that divides the two halves of the frontal bone of the skull in infants and children. It usually disappears by the age of six, with the two halves of the frontal bone being fused together. If it does not disappear it may be called a 'metopic suture' or 'sutura frontalis persistens. ' If the suture is not present at birth (craniosynostosis) it will cause a keel-shaped deformity of the skull called 'trigonocephaly. ' It is present in a fetal skull so that the skull can bend and is very elastic at the time of birth. The baby's head literally bends when coming out of the mother's womb. The space is filled as the child grows older. [WP,unvetted]" - -- [frontal suture](http://purl.obolibrary.org/obo/UBERON_0002490) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [tetrapod frontal bone](http://purl.obolibrary.org/obo/UBERON_0000209) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "two halves of the frontal bone" - -#### Added -- [frontal suture](http://purl.obolibrary.org/obo/UBERON_0002490) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [tetrapod frontal bone](http://purl.obolibrary.org/obo/UBERON_0000209) - - -### frontonasal process epithelium `http://purl.obolibrary.org/obo/UBERON_0014702` - -#### Added -- [frontonasal process epithelium](http://purl.obolibrary.org/obo/UBERON_0014702) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### function of `http://purl.obolibrary.org/obo/RO_0000079` -#### Removed -- [function of](http://purl.obolibrary.org/obo/RO_0000079) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this catalysis function is a function of this enzyme"@en - -- [function of](http://purl.obolibrary.org/obo/RO_0000079) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "is function of"@en - -- [function of](http://purl.obolibrary.org/obo/RO_0000079) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "function_of"@en - - - -### functionally related to `http://purl.obolibrary.org/obo/RO_0002328` -#### Removed -- [functionally related to](http://purl.obolibrary.org/obo/RO_0002328) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002328" - -- [functionally related to](http://purl.obolibrary.org/obo/RO_0002328) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [functionally related to](http://purl.obolibrary.org/obo/RO_0002328) [id](http://www.geneontology.org/formats/oboInOwl#id) "functionally_related_to" - -- [functionally related to](http://purl.obolibrary.org/obo/RO_0002328) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [functionally related to](http://purl.obolibrary.org/obo/RO_0002328) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "This is a grouping relation that collects relations used for the purpose of connecting structure and function" - -- [functionally related to](http://purl.obolibrary.org/obo/RO_0002328) [label](http://www.w3.org/2000/01/rdf-schema#label) "functionally related to" - -- [functionally related to](http://purl.obolibrary.org/obo/RO_0002328) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "functionally_related_to" - - - -### fundus of stomach `http://purl.obolibrary.org/obo/UBERON_0001160` -#### Removed -- [fundus of stomach](http://purl.obolibrary.org/obo/UBERON_0001160) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0521617147 Stevens CE and Hume ID, Comparative physiology of the vertebrate digestive system (2004) p.11" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000421" - -- [fundus of stomach](http://purl.obolibrary.org/obo/UBERON_0001160) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The greater curvature of the stomach. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000421" - - - -### fundus of urinary bladder `http://purl.obolibrary.org/obo/UBERON_0006082` - -#### Added -- [fundus of urinary bladder](http://purl.obolibrary.org/obo/UBERON_0006082) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### future brain `http://purl.obolibrary.org/obo/UBERON_0006238` -#### Removed -- [future brain](http://purl.obolibrary.org/obo/UBERON_0006238) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The embryonic precursor of the brain and the set of mature brain structures that derive from it (CUMBO)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://neurolex.org/wiki/Cumbo_terms" - - - -### future brain vesicle `http://purl.obolibrary.org/obo/UBERON_0013150` -#### Removed -- [future brain vesicle](http://purl.obolibrary.org/obo/UBERON_0013150) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Note that some sources may treat the term vesicle as the progenitor of the whole brain region; for example 'The retina develops directly from the neural tube as an outpouching from the diencephalic vesicle'" - - - -### future central tendon `http://purl.obolibrary.org/obo/UBERON_0006239` -#### Removed -- [future central tendon](http://purl.obolibrary.org/obo/UBERON_0006239) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The cranial part of the septum transversum gives rise to the central tendon of the diaphragm and is the origin of the myoblasts that invade the pleuroperitoneal folds resulting in the formation of the muscular diaphragm." - -- [future central tendon](http://purl.obolibrary.org/obo/UBERON_0006239) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [septum transversum](http://purl.obolibrary.org/obo/UBERON_0004161) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "mesenchyme" - - - [region](http://www.geneontology.org/formats/oboInOwl#region) "cranial part" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia" - -#### Added -- [future central tendon](http://purl.obolibrary.org/obo/UBERON_0006239) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [septum transversum](http://purl.obolibrary.org/obo/UBERON_0004161) - - -### future hindbrain meninx `http://purl.obolibrary.org/obo/UBERON_0010091` - -#### Added -- [future hindbrain meninx](http://purl.obolibrary.org/obo/UBERON_0010091) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### future meninx `http://purl.obolibrary.org/obo/UBERON_0007645` -#### Removed -- [future meninx](http://purl.obolibrary.org/obo/UBERON_0007645) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "the outermost mesenchymal covering of the developing brain and spinal cord that is composed of tough fibrous connective tissue from which the arachnoid mater, pia mater and dura mater are formed[MP:0009726]d" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0009726" - - - -### future telencephalon `http://purl.obolibrary.org/obo/UBERON_0014371` -#### Removed -- [future telencephalon](http://purl.obolibrary.org/obo/UBERON_0014371) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [telencephalon neural crest](http://purl.obolibrary.org/obo/UBERON_0003850) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [future telencephalon](http://purl.obolibrary.org/obo/UBERON_0014371) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [telencephalon neural crest](http://purl.obolibrary.org/obo/UBERON_0003850) - - -### future upper lip `http://purl.obolibrary.org/obo/UBERON_0011592` -#### Removed -- [future upper lip](http://purl.obolibrary.org/obo/UBERON_0011592) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [medial nasal prominence](http://purl.obolibrary.org/obo/UBERON_0004068) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "fusion" - -- [future upper lip](http://purl.obolibrary.org/obo/UBERON_0011592) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [maxillary prominence](http://purl.obolibrary.org/obo/UBERON_0005868) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "fusion" - -#### Added -- [future upper lip](http://purl.obolibrary.org/obo/UBERON_0011592) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [maxillary prominence](http://purl.obolibrary.org/obo/UBERON_0005868) - -- [future upper lip](http://purl.obolibrary.org/obo/UBERON_0011592) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [medial nasal prominence](http://purl.obolibrary.org/obo/UBERON_0004068) - - -### galectin-1 `http://purl.obolibrary.org/obo/PR_000009766` -#### Removed -- [galectin-1](http://purl.obolibrary.org/obo/PR_000009766) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [galectin-1 (human)](http://purl.obolibrary.org/obo/PR_P09382) - - - -### gallbladder `http://purl.obolibrary.org/obo/UBERON_0002110` -#### Removed -- [gallbladder](http://purl.obolibrary.org/obo/UBERON_0002110) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The presence of a gallbladder appears to be a primitive trait. It is found in most fish and all adult reptiles and amphibians and has been well conserved in mammals, for the most part.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000221" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1002/(SICI)1097-0029(19970915)38:6<571::AID-JEMT3>3.0.CO;2-I Oldham-Ott CK, Gilloteaux J, Comparative morphology of the gallbladder and biliary tract in vertebrates: Variation in structure, homology in function and gallstones. Microscopy research and technique (1997)" - -- [gallbladder](http://purl.obolibrary.org/obo/UBERON_0002110) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: differentiates_from endoderm (AAO:0000139) CHANGED TO: develops_from endoderm (UBERON:0000925)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010114" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [gallbladder](http://purl.obolibrary.org/obo/UBERON_0002110) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organ attached to the liver which stores bile and empties into the duodenum via the bile duct as needed for digestion.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010114" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [gallbladder](http://purl.obolibrary.org/obo/UBERON_0002110) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Membranous muscular sac in which the bile from the liver remains stored until it is required. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000221" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - -- [gallbladder](http://purl.obolibrary.org/obo/UBERON_0002110) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [gallbladder primordium](http://purl.obolibrary.org/obo/UBERON_0006242) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [gallbladder](http://purl.obolibrary.org/obo/UBERON_0002110) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [gallbladder primordium](http://purl.obolibrary.org/obo/UBERON_0006242) - - -### gallbladder lamina propria `http://purl.obolibrary.org/obo/UBERON_0004781` - -#### Added -- [gallbladder lamina propria](http://purl.obolibrary.org/obo/UBERON_0004781) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### gallbladder serosa `http://purl.obolibrary.org/obo/UBERON_0004783` - -#### Added -- [gallbladder serosa](http://purl.obolibrary.org/obo/UBERON_0004783) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) - - -### gallbladder smooth muscle `http://purl.obolibrary.org/obo/UBERON_0004240` - -#### Added -- [gallbladder smooth muscle](http://purl.obolibrary.org/obo/UBERON_0004240) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) - - -### gamma-synuclein `http://purl.obolibrary.org/obo/PR_000015325` -#### Removed -- [gamma-synuclein](http://purl.obolibrary.org/obo/PR_000015325) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [gamma-synuclein (human)](http://purl.obolibrary.org/obo/PR_O76070) - - - -### ganglion `http://purl.obolibrary.org/obo/UBERON_0000045` -#### Removed -- [ganglion](http://purl.obolibrary.org/obo/UBERON_0000045) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of tissue that contains cell bodies of neurons and is located outside the central nervous system.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010426" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [ganglion](http://purl.obolibrary.org/obo/UBERON_0000045) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "ganglionic" - -- [ganglion](http://purl.obolibrary.org/obo/UBERON_0000045) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A ganglion is a cluster of neurons. It is part of a nervous system. It may include glial cells. The neurons are arranged in a specific constellation: neuronal somata are concentrated at the surface, thus forming a cell cortex, and neurites are concentrated in the centre of the ganglion to form the neuropil. A ganglion is a distinct unit but several ganglia may be anterio-posteriorly joined by connectives or transversally by commissures" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:21062451" - -- [ganglion](http://purl.obolibrary.org/obo/UBERON_0000045) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Structures containing a collection of nerve cell bodies. (Source: BioGlossary, www.Biology-Text.com)[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000190" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [ganglion](http://purl.obolibrary.org/obo/UBERON_0000045) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Cranial sensory placodes are focused areas of the head ectoderm of vertebrates that contribute to the development of the cranial sense organs and their associated ganglia. Placodes have long been considered a key character of vertebrates, and their evolution is proposed to have been essential for the evolution of an active predatory lifestyle by early vertebrates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/j.ydbio.2005.02.021 Mazet F, Hutt JA, Milloz J, Millard J, Graham A, Shimeld SM, Molecular evidence from Ciona intestinalis for the evolutionary origin of vertebrate sensory placodes. Developmental Biology (2005)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000156" - -- [ganglion](http://purl.obolibrary.org/obo/UBERON_0000045) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Subdivision of nervous system which primarily consists of cell bodies of neurons located outside the neuraxis (brain and spinal cord. Examples: spinal ganglion, trigeminal ganglion, superior cervical ganglion, celiac ganglion, inferior hypogastric (pelvic) ganglion (adapted from Foundational Model of Anatomy)[NLXANAT:100302]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "NLXANAT:100302" - -- [ganglion](http://purl.obolibrary.org/obo/UBERON_0000045) DisjointWith [basal ganglion](http://purl.obolibrary.org/obo/UBERON_0002420) - - [inconsistent_with](http://www.geneontology.org/formats/oboInOwl#inconsistent_with) "BTO" - - - -### ganglion of central nervous system `http://purl.obolibrary.org/obo/UBERON_0003339` -#### Removed -- [ganglion of central nervous system](http://purl.obolibrary.org/obo/UBERON_0003339) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "this has no subclasses in FMA. In EHDAA2 and EMAPA it has only the cranial ganglia" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -#### Added -- [ganglion of central nervous system](http://purl.obolibrary.org/obo/UBERON_0003339) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### ganglion of peripheral nervous system `http://purl.obolibrary.org/obo/UBERON_0003338` -#### Removed -- [ganglion of peripheral nervous system](http://purl.obolibrary.org/obo/UBERON_0003338) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we follow MA in including separate classes for ganglion and peripheral nervous system, even though for vertebrates gangia are always in the PNS" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - - - -### ganglionic eminence `http://purl.obolibrary.org/obo/UBERON_0004023` -#### Removed -- [ganglionic eminence](http://purl.obolibrary.org/obo/UBERON_0004023) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "contributes significantly in building up the GABAergic cortical cell population[WP]" - - - -### ganglionic layer of retina `http://purl.obolibrary.org/obo/UBERON_0001792` -#### Removed -- [ganglionic layer of retina](http://purl.obolibrary.org/obo/UBERON_0001792) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "a layer of the retina that consists of retinal ganglion cells[WP]. innermost nuclear layer of the retina, which contains neurons that project axons through the optic nerve to the brain[Wikipedia:Ganglion_cell_layer]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Ganglion_cell_layer" - -- [ganglionic layer of retina](http://purl.obolibrary.org/obo/UBERON_0001792) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "NIFSTD class appears to be retired in nlx[http://neurolex.org/wiki/Nlx_anat_1005030]" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "NIF" - -- [ganglionic layer of retina](http://purl.obolibrary.org/obo/UBERON_0001792) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001166" - - - -### gastroesophageal sphincter `http://purl.obolibrary.org/obo/UBERON_0004550` -#### Removed -- [gastroesophageal sphincter](http://purl.obolibrary.org/obo/UBERON_0004550) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D049630" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### gastrula `http://purl.obolibrary.org/obo/UBERON_0004734` -#### Removed -- [gastrula](http://purl.obolibrary.org/obo/UBERON_0004734) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "We explicitly merge the NCITA terms here" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "NCIT" - -- [gastrula](http://purl.obolibrary.org/obo/UBERON_0004734) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005317" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### gene `http://www.geneontology.org/formats/oboInOwl#gene` -#### Removed -- AnnotationProperty: [gene](http://www.geneontology.org/formats/oboInOwl#gene) - - - -### geniculate ganglion `http://purl.obolibrary.org/obo/UBERON_0001700` -#### Removed -- [geniculate ganglion](http://purl.obolibrary.org/obo/UBERON_0001700) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "These (the epibranchial placodes) are focal thickenings of the embryonic ectoderm that form immediately dorsal and caudal of the clefts between the pharyngeal arches in all vertebrates, and they produce the neuroblasts which migrate and condense to form the distal cranial ganglia: the geniculate, petrosal and nodose ganglia. (...) The one substantial difference between the vertebrate pharyngeal arches and those of the protochordates is the presence of the epibranchial placodes but the evolution of these structures was undoubtedly driven by the endoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000707" - - - -### genioglossus muscle `http://purl.obolibrary.org/obo/UBERON_0001571` -#### Removed -- [genioglossus muscle](http://purl.obolibrary.org/obo/UBERON_0001571) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Makes up bulk of tongue in frogs and salamanders; makes up entire tongue in caecilians.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010660" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BMZ" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [genioglossus muscle](http://purl.obolibrary.org/obo/UBERON_0001571) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "see Intrinsic Tongue.[FEED]" - - [url](http://www.geneontology.org/formats/oboInOwl#url) "http://www.feedexp.org" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "FEED" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-07-02" - -- [genioglossus muscle](http://purl.obolibrary.org/obo/UBERON_0001571) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Makes up bulk of tongue in frogs and salamanders; makes up entire tongue in caecilians." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:0010660" - -- [genioglossus muscle](http://purl.obolibrary.org/obo/UBERON_0001571) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The lamprey head contains another group of muscles, the epi- and hypo-branchial muscles (EBM and HBM), derivatives of anterior trunk myotomes. (...) The origin and the migration pattern of HBM precursors are very similar to that of the gnathostome MPP, especially to that of the tongue muscle precursors. Other evidence of homology of lamprey HBM to the gnathostome tongue muscle is that HBM is innervated by the nerve termed the hypoglossal nerve based on its morphological position associated with the head/trunk interface. (...) The HBM-specific expression of the LampPax3/7 gene is consistent with the homology of this muscle to the gnathostome tongue muscle, or to the hypobranchial series as a whole (including the infrahyoid and possibly the diaphragm in mammals).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1002/dvdy.20587, DOI:10.1186/1471-213X-8-24 Table 7" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000847" - -- [genioglossus muscle](http://purl.obolibrary.org/obo/UBERON_0001571) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: subclass hyobranchial muscles (AAO:0000224)[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010660" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [genioglossus muscle](http://purl.obolibrary.org/obo/UBERON_0001571) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Either of a pair of lingual muscles with origin in the mandible, with insertion to the lingual fascia below the mucous membrane and epiglottis, with nerve supply from the hypoglossal nerve, and whose action depresses and protrudes the tongue. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/genioglossus" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000847" - - - -### genitourinary system `http://purl.obolibrary.org/obo/UBERON_0004122` -#### Removed -- [genitourinary system](http://purl.obolibrary.org/obo/UBERON_0004122) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "urogenital" - -- [genitourinary system](http://purl.obolibrary.org/obo/UBERON_0004122) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Kidneys and gonads (of vertebrates) develop from adjacent tissues, and after the excretory or urinary ducts have developed, the reproductive system usually taps into them or their derivatives.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.633" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000286" - -- [genitourinary system](http://purl.obolibrary.org/obo/UBERON_0004122) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: differentiates_from intermediate mesoderm (AAO:0010575) CHANGED TO: develops_from intermediate mesoderm (UBERON:0003064)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000624" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [genitourinary system](http://purl.obolibrary.org/obo/UBERON_0004122) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "genitourinary" - -- [genitourinary system](http://purl.obolibrary.org/obo/UBERON_0004122) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical system that has as its parts the organs concerned with the production and excretion of urine and those concerned with reproduction.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000624" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - -### genomically related to `http://purl.obolibrary.org/obo/RO_0002330` -#### Removed -- [genomically related to](http://purl.obolibrary.org/obo/RO_0002330) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [genomically related to](http://purl.obolibrary.org/obo/RO_0002330) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving the genome of an organism" - - - -### germ layer `http://purl.obolibrary.org/obo/UBERON_0000923` -#### Removed -- [germ layer](http://purl.obolibrary.org/obo/UBERON_0000923) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001223" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) Limb development and evolution, p.722" - -- [germ layer](http://purl.obolibrary.org/obo/UBERON_0000923) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000110" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### germinal center `http://purl.obolibrary.org/obo/UBERON_0010754` -#### Removed -- [germinal center](http://purl.obolibrary.org/obo/UBERON_0010754) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "SCTID:64626006" - - - -### germinal neuroepithelium `http://purl.obolibrary.org/obo/UBERON_0004022` -#### Removed -- [germinal neuroepithelium](http://purl.obolibrary.org/obo/UBERON_0004022) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "As the cells adjacent to the lumen continue to divide, the migrating cells form a second layer around the original neural tube. This layer becomes progressively thicker as more cells are added to it from the germinal neuroepithelium. This new layer is called the mantle (or intermediate) zone, and the germinal epithelium is now called the ventricular zone (and, later, the ependyma)[NCBIBook:NBK10047]" - -#### Added -- [germinal neuroepithelium](http://purl.obolibrary.org/obo/UBERON_0004022) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### gingiva `http://purl.obolibrary.org/obo/UBERON_0001828` -#### Removed -- [gingiva](http://purl.obolibrary.org/obo/UBERON_0001828) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "gingival" - - - -### gingival epithelium `http://purl.obolibrary.org/obo/UBERON_0001949` -#### Removed -- [gingival epithelium](http://purl.obolibrary.org/obo/UBERON_0001949) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans: 15% orthokeratinized, 75% parakeratinized, 10% non-keratinized; diurnal; decreased keratinization with age. Note that in FMA this is classified as keratinized squamous - this perhaps refers to the epithelium of the attached or free gingiva" - - - -### girdle skeleton `http://purl.obolibrary.org/obo/UBERON_0010719` -#### Removed -- [girdle skeleton](http://purl.obolibrary.org/obo/UBERON_0010719) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: subclass skeletal subdivision (VSAO:0000042) CHANGED TO: part_of subdivision of skeleton (UBERON:0010912)[VSAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000302" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - -- [girdle skeleton](http://purl.obolibrary.org/obo/UBERON_0010719) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Skeletal subdivision that is part of the appendage girdle region.[VSAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000302" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - -- [girdle skeleton](http://purl.obolibrary.org/obo/UBERON_0010719) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: subclass skeletal subdivision (VSAO:0000042) CHANGED TO: proximally_connected_to subdivision of skeleton (UBERON:0010912)[VSAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000302" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - - - -### gland `http://purl.obolibrary.org/obo/UBERON_0002530` -#### Removed -- [gland](http://purl.obolibrary.org/obo/UBERON_0002530) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EHDAA:6522" - -- [gland](http://purl.obolibrary.org/obo/UBERON_0002530) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00100317" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [gland](http://purl.obolibrary.org/obo/UBERON_0002530) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "glandular" - -- [gland](http://purl.obolibrary.org/obo/UBERON_0002530) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [skeletal system](http://purl.obolibrary.org/obo/UBERON_0001434) - -- [gland](http://purl.obolibrary.org/obo/UBERON_0002530) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EHDAA:4475" - - - -### gland of anal canal `http://purl.obolibrary.org/obo/UBERON_0004760` -#### Removed -- [gland of anal canal](http://purl.obolibrary.org/obo/UBERON_0004760) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "gland of anal canal" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "OBOL:automatic" - -#### Added -- [gland of anal canal](http://purl.obolibrary.org/obo/UBERON_0004760) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "gland of anal sac" - -- [gland of anal canal](http://purl.obolibrary.org/obo/UBERON_0004760) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### gland of diencephalon `http://purl.obolibrary.org/obo/UBERON_0003296` -#### Removed -- [gland of diencephalon](http://purl.obolibrary.org/obo/UBERON_0003296) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EHDAA:4475" - -#### Added -- [gland of diencephalon](http://purl.obolibrary.org/obo/UBERON_0003296) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### gland of integumental system `http://purl.obolibrary.org/obo/UBERON_0003297` -#### Removed -- [gland of integumental system](http://purl.obolibrary.org/obo/UBERON_0003297) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EHDAA:6522" - - - -### gland of nasal mucosa `http://purl.obolibrary.org/obo/UBERON_0012278` - -#### Added -- [gland of nasal mucosa](http://purl.obolibrary.org/obo/UBERON_0012278) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - -- [gland of nasal mucosa](http://purl.obolibrary.org/obo/UBERON_0012278) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### gland of ocular region `http://purl.obolibrary.org/obo/UBERON_0015152` -#### Removed -- [gland of ocular region](http://purl.obolibrary.org/obo/UBERON_0015152) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "the only orbital gland found in anuran amphibians is the Harderian[PMID:8843648]" - -- [gland of ocular region](http://purl.obolibrary.org/obo/UBERON_0015152) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "the only orbital gland found in anuran amphibians is either the Harderian or the lacrimal; if it is a lacrimal, then a progressive lateral migration of the lacrimal glands must occur through the amniotes[PMID:7559104]" - - - -### glandular acinus `http://purl.obolibrary.org/obo/UBERON_0009842` -#### Removed -- [glandular acinus](http://purl.obolibrary.org/obo/UBERON_0009842) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "acinar" - - - -### glans `http://purl.obolibrary.org/obo/UBERON_0035651` - -#### Added -- [glans](http://purl.obolibrary.org/obo/UBERON_0035651) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### glans clitoris `http://purl.obolibrary.org/obo/UBERON_0006653` -#### Removed -- [glans clitoris](http://purl.obolibrary.org/obo/UBERON_0006653) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:19170" - - - -### glenohumeral joint `http://purl.obolibrary.org/obo/UBERON_0001470` -#### Removed -- [glenohumeral joint](http://purl.obolibrary.org/obo/UBERON_0001470) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA, this is part of the bony pectoral girdle, alongside the skeleton of pectoral girdle" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### glenoid fossa `http://purl.obolibrary.org/obo/UBERON_0006657` -#### Removed -- [glenoid fossa](http://purl.obolibrary.org/obo/UBERON_0006657) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D061165" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -- [glenoid fossa](http://purl.obolibrary.org/obo/UBERON_0006657) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA also has classes for the bony parts around the cavity - these may be more useful than the cavity term itself" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [glenoid fossa](http://purl.obolibrary.org/obo/UBERON_0006657) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of scapular area (AAO:0000935)[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000749" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [glenoid fossa](http://purl.obolibrary.org/obo/UBERON_0006657) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cavity for the articulation of the forelimb formed by the scapula, coracoid, and clavicle.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000749" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [glenoid fossa](http://purl.obolibrary.org/obo/UBERON_0006657) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The glenoid fossa can be associated with the metapterygium in sarcopterygians, or either the meso- or propterygium in basal gnathostomes such as Chondrichthyans" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ad" - -- [glenoid fossa](http://purl.obolibrary.org/obo/UBERON_0006657) SubClassOf [adjacent to](http://purl.obolibrary.org/obo/RO_0002220) some [scapula](http://purl.obolibrary.org/obo/UBERON_0006849) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "to be revised after scapulocoracoid fixes" - -#### Added -- [glenoid fossa](http://purl.obolibrary.org/obo/UBERON_0006657) SubClassOf [adjacent to](http://purl.obolibrary.org/obo/RO_0002220) some [scapula](http://purl.obolibrary.org/obo/UBERON_0006849) - - -### glial blood brain barrier `http://purl.obolibrary.org/obo/UBERON_0000202` -#### Removed -- [glial blood brain barrier](http://purl.obolibrary.org/obo/UBERON_0000202) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007091" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### glial fibrillary acidic protein `http://purl.obolibrary.org/obo/PR_000007939` -#### Removed -- [glial fibrillary acidic protein](http://purl.obolibrary.org/obo/PR_000007939) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [glial fibrillary acidic protein (human)](http://purl.obolibrary.org/obo/PR_P14136) - - - -### glomerular basement membrane `http://purl.obolibrary.org/obo/UBERON_0005777` -#### Removed -- [glomerular basement membrane](http://purl.obolibrary.org/obo/UBERON_0005777) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D050533" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -- [glomerular basement membrane](http://purl.obolibrary.org/obo/UBERON_0005777) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Membrane between the mesonephric podocytes and the renal glomerular capillaries. It is a trilaminar structure composed of the fused basement membranes of the glomerular capillaries and basement membrane of the podocytes. The capillary membranes touch the GBM at contact points that are separated by pores. The membrane is semi-permeable allowing water and small molecules to pass into the renal capsular space.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:ZDB-PUB-000824-1" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005285" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -#### Added -- [glomerular basement membrane](http://purl.obolibrary.org/obo/UBERON_0005777) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### glomerular capillary `http://purl.obolibrary.org/obo/UBERON_0004212` -#### Removed -- [glomerular capillary](http://purl.obolibrary.org/obo/UBERON_0004212) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Capillary that is part of the renal glomerulus. Glomerular capillary endothelial membranes in zebrafish normally have a fenestrated morphology that is visible at the ultrastructural level.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:ZDB-PUB-000824-1" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005284" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### glomerular capsule `http://purl.obolibrary.org/obo/UBERON_0001230` -#### Removed -- [glomerular capsule](http://purl.obolibrary.org/obo/UBERON_0001230) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "One fold of the S-shaped body gives rise to Bowman's capsule[GUDMAP]" - -- [glomerular capsule](http://purl.obolibrary.org/obo/UBERON_0001230) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "Fluids from blood in the glomerulus are collected in the Bowman's capsule and further processed along the nephron to form urine. This process is known as ultrafiltration[WP]." - -- [glomerular capsule](http://purl.obolibrary.org/obo/UBERON_0001230) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical structure found in the kidney consisting of an expanded end of a kidney tubule surrounding a glomerulus and is the major site of filtration.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010526" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - - -### glomerular epithelium `http://purl.obolibrary.org/obo/UBERON_0004188` - -#### Added -- [glomerular epithelium](http://purl.obolibrary.org/obo/UBERON_0004188) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) - - -### glomerular mesangium `http://purl.obolibrary.org/obo/UBERON_0002320` -#### Removed -- [glomerular mesangium](http://purl.obolibrary.org/obo/UBERON_0002320) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:28248" - -#### Added -- [glomerular mesangium](http://purl.obolibrary.org/obo/UBERON_0002320) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### glomerular parietal epithelium `http://purl.obolibrary.org/obo/UBERON_0005750` -#### Removed -- [glomerular parietal epithelium](http://purl.obolibrary.org/obo/UBERON_0005750) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Simple squamous epithelium that lines the capsule of the renal glomerulus.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005253" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### glomerular tuft `http://purl.obolibrary.org/obo/UBERON_0005749` -#### Removed -- [glomerular tuft](http://purl.obolibrary.org/obo/UBERON_0005749) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "...Soon afterwards, endothelial cells invade to make a capillary knot-like outgrowth, the glomerular tuft, which goes on to form the glomerulus" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GudMap" - -- [glomerular tuft](http://purl.obolibrary.org/obo/UBERON_0005749) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "SCTID:362217000" - - - -### glossopharyngeal ganglion `http://purl.obolibrary.org/obo/UBERON_0001701` -#### Removed -- [glossopharyngeal ganglion](http://purl.obolibrary.org/obo/UBERON_0001701) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "These (the epibranchial placodes) are focal thickenings of the embryonic ectoderm that form immediately dorsal and caudal of the clefts between the pharyngeal arches in all vertebrates, and they produce the neuroblasts which migrate and condense to form the distal cranial ganglia: the geniculate, petrosal and nodose ganglia. (...) The one substantial difference between the vertebrate pharyngeal arches and those of the protochordates is the presence of the epibranchial placodes but the evolution of these structures was undoubtedly driven by the endoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000702" - -- [glossopharyngeal ganglion](http://purl.obolibrary.org/obo/UBERON_0001701) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [petrosal placode](http://purl.obolibrary.org/obo/UBERON_0009125) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0471888893" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "ventrolateral" - -- [glossopharyngeal ganglion](http://purl.obolibrary.org/obo/UBERON_0001701) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [glossopharyngeal neural crest](http://purl.obolibrary.org/obo/UBERON_0005491) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0471888893" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "dorsal" - -#### Added -- [glossopharyngeal ganglion](http://purl.obolibrary.org/obo/UBERON_0001701) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [petrosal placode](http://purl.obolibrary.org/obo/UBERON_0009125) - -- [glossopharyngeal ganglion](http://purl.obolibrary.org/obo/UBERON_0001701) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [glossopharyngeal neural crest](http://purl.obolibrary.org/obo/UBERON_0005491) - - -### glossopharyngeal nerve `http://purl.obolibrary.org/obo/UBERON_0001649` -#### Removed -- [glossopharyngeal nerve](http://purl.obolibrary.org/obo/UBERON_0001649) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Small nerve consisting of branchiomotor and visceral efferent and afferent fibers which innervate the m. subarculais rectus I, dorsal buccal mucosa, and the tongue.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010474" - -- [glossopharyngeal nerve](http://purl.obolibrary.org/obo/UBERON_0001649) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (5) cranial nerves (...) (reference 1); Phylogenetically, the cranial nerves are thought to have evolved from dorsal and ventral nerves of a few anterior spinal nerves that became incorporated into the braincase. Dorsal and ventral nerves fuse in the trunk but not in the head, and they produce two series: dorsal cranial nerves (V, VII, IX, and X) and ventral cranial nerves (III, IV, VI, and XIII) (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43, ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.625" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000701" - -- [glossopharyngeal nerve](http://purl.obolibrary.org/obo/UBERON_0001649) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [basal plate metencephalon](http://purl.obolibrary.org/obo/UBERON_0005239) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "motor" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia" - -#### Added -- [glossopharyngeal nerve](http://purl.obolibrary.org/obo/UBERON_0001649) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [basal plate metencephalon](http://purl.obolibrary.org/obo/UBERON_0005239) - - -### glutamate decarboxylase 1 `http://purl.obolibrary.org/obo/PR_000007785` -#### Removed -- [glutamate decarboxylase 1](http://purl.obolibrary.org/obo/PR_000007785) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [glutamate decarboxylase 1 (human)](http://purl.obolibrary.org/obo/PR_Q99259) - - - -### glutamyl aminopeptidase `http://purl.obolibrary.org/obo/PR_000002039` -#### Removed -- [glutamyl aminopeptidase](http://purl.obolibrary.org/obo/PR_000002039) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [glutamyl aminopeptidase (human)](http://purl.obolibrary.org/obo/PR_Q07075) - - - -### glycophorin-A `http://purl.obolibrary.org/obo/PR_000001460` -#### Removed -- [glycophorin-A](http://purl.obolibrary.org/obo/PR_000001460) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [glycophorin-A (human)](http://purl.obolibrary.org/obo/PR_P02724) - - - -### gonad `http://purl.obolibrary.org/obo/UBERON_0000991` -#### Removed -- [gonad](http://purl.obolibrary.org/obo/UBERON_0000991) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004858" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [gonad](http://purl.obolibrary.org/obo/UBERON_0000991) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA xref is a 'general anatomical term'" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [gonad](http://purl.obolibrary.org/obo/UBERON_0000991) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Examination of different vertebrate species shows that the adult gonad is remarkably similar in its morphology across different phylogenetic classes. Surprisingly, however, the cellular and molecular programs employed to create similar organs are not evolutionarily conserved.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1146/annurev.cellbio.042308.13350 DeFalco T, Capel B, Gonad morphogenesis in vertebrates: divergent means to a convergent end. Annual review of cell and developmental biology (2009)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000397" - -- [gonad](http://purl.obolibrary.org/obo/UBERON_0000991) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical structure which produces gametes as well as certain sex hormones controlled by the pituitary gonadotropins.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000213" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [gonad](http://purl.obolibrary.org/obo/UBERON_0000991) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The part of the reproductive system that produces and releases eggs (ovary) or sperm (testis).[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000413" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [gonad](http://purl.obolibrary.org/obo/UBERON_0000991) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "gonadal" - - - -### gonad primordium `http://purl.obolibrary.org/obo/UBERON_0005564` -#### Removed -- [gonad primordium](http://purl.obolibrary.org/obo/UBERON_0005564) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "this is a very broad grouping class" - -- [gonad primordium](http://purl.obolibrary.org/obo/UBERON_0005564) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Immature reproductive tissue that has not undergone final maturation into either testis or ovary.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001262" - - - -### gonadal ridge `http://purl.obolibrary.org/obo/UBERON_0005294` -#### Removed -- [gonadal ridge](http://purl.obolibrary.org/obo/UBERON_0005294) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "in eutherians, SRY transforms the indifferent gonad into testes" - - - -### granular layer of cerebellar cortex `http://purl.obolibrary.org/obo/UBERON_0002956` -#### Removed -- [granular layer of cerebellar cortex](http://purl.obolibrary.org/obo/UBERON_0002956) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [Purkinje cell layer of cerebellar cortex](http://purl.obolibrary.org/obo/UBERON_0002979) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - - - -### granulosa cell layer `http://purl.obolibrary.org/obo/UBERON_0005170` -#### Removed -- [granulosa cell layer](http://purl.obolibrary.org/obo/UBERON_0005170) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "At one part of the mature follicle the cells of the membrana granulosa are collected into a mass which projects into the cavity of the follicle. This is termed the discus proligerus. [Wikipedia:Membrana_granulosa, Wikipedia:Membrana_granulosa]" - -#### Added -- [granulosa cell layer](http://purl.obolibrary.org/obo/UBERON_0005170) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) - - -### granzyme B `http://purl.obolibrary.org/obo/PR_000003499` -#### Removed -- [granzyme B](http://purl.obolibrary.org/obo/PR_000003499) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [granzyme B (human)](http://purl.obolibrary.org/obo/PR_P10144) - - - -### gravid organism `http://purl.obolibrary.org/obo/UBERON_0009097` -#### Removed -- [gravid organism](http://purl.obolibrary.org/obo/UBERON_0009097) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "IDOMAL:0000443" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### gray matter `http://purl.obolibrary.org/obo/UBERON_0002020` -#### Removed -- [gray matter](http://purl.obolibrary.org/obo/UBERON_0002020) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Multi-tissue comprised of neurons, dendrites, axon terminals, glial cells, and capillaries.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002197" - -- [gray matter](http://purl.obolibrary.org/obo/UBERON_0002020) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D066128" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### gustatory organ `http://purl.obolibrary.org/obo/UBERON_0003212` -#### Removed -- [gustatory organ](http://purl.obolibrary.org/obo/UBERON_0003212) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005159" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### gustatory papilla of tongue `http://purl.obolibrary.org/obo/UBERON_0014389` -#### Removed -- [gustatory papilla of tongue](http://purl.obolibrary.org/obo/UBERON_0014389) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:54822" - - - -### gustatory pore `http://purl.obolibrary.org/obo/UBERON_0007691` - -#### Added -- [gustatory pore](http://purl.obolibrary.org/obo/UBERON_0007691) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### gustatory system `http://purl.obolibrary.org/obo/UBERON_0001033` -#### Removed -- [gustatory system](http://purl.obolibrary.org/obo/UBERON_0001033) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in ZFA and MA this is a subtype of sensory system. we should change sensory system to disambiguate parts and wholes" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" - -- [gustatory system](http://purl.obolibrary.org/obo/UBERON_0001033) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The sensory system for the sense of taste[NLXANAT:090803]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "NLXANAT:090803" - -- [gustatory system](http://purl.obolibrary.org/obo/UBERON_0001033) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "gustatory" - -- [gustatory system](http://purl.obolibrary.org/obo/UBERON_0001033) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The sensory system used for the sense of taste.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010577" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - -### gut wall `http://purl.obolibrary.org/obo/UBERON_0000328` -#### Removed -- [gut wall](http://purl.obolibrary.org/obo/UBERON_0000328) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "We model the digestive tract as consisting of two parts: the wall and the lumen." - - - -### gut-associated lymphoid tissue `http://purl.obolibrary.org/obo/UBERON_0001962` -#### Removed -- [gut-associated lymphoid tissue](http://purl.obolibrary.org/obo/UBERON_0001962) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "guts of jawless fish contains cells with lymphocyte-like morphology (Mayer 2002)." - - - -### gyrus `http://purl.obolibrary.org/obo/UBERON_0000200` -#### Removed -- [gyrus](http://purl.obolibrary.org/obo/UBERON_0000200) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_72015](http://purl.obolibrary.org/obo/FMA_72015) - -- [gyrus](http://purl.obolibrary.org/obo/UBERON_0000200) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [Mus ](http://purl.obolibrary.org/obo/NCBITaxon_10088) - -#### Added -- [gyrus](http://purl.obolibrary.org/obo/UBERON_0000200) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### hair canal `http://purl.obolibrary.org/obo/UBERON_0035610` - -#### Added -- [hair canal](http://purl.obolibrary.org/obo/UBERON_0035610) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### hair follicle `http://purl.obolibrary.org/obo/UBERON_0002073` -#### Removed -- [hair follicle](http://purl.obolibrary.org/obo/UBERON_0002073) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The earliest reliable record of hair is found in a fossil of the Paleocene period, in which the structure of hair cuticles is preserved. Its appearance suggests that the complicated structure of the hair follicle, closely similar to that of present-day mammals, had already appeared at this time.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-4431998051 Morioka K, Hair follicle: differentiation under the electron microscope, An atlas (2005) p.3" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001268" - - - -### hair follicle matrix region `http://purl.obolibrary.org/obo/UBERON_0006004` - -#### Added -- [hair follicle matrix region](http://purl.obolibrary.org/obo/UBERON_0006004) SubClassOf [structure with developmental contribution from neural crest](http://purl.obolibrary.org/obo/UBERON_0010314) - - -### hair follicle placode `http://purl.obolibrary.org/obo/UBERON_0005086` -#### Removed -- [hair follicle placode](http://purl.obolibrary.org/obo/UBERON_0005086) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An hair follicle placode is a thickening of the ectoderm that will give rise to the hair follicle bud[GO]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO:0060789" - - - -### hair medulla `http://purl.obolibrary.org/obo/UBERON_0005184` - -#### Added -- [hair medulla](http://purl.obolibrary.org/obo/UBERON_0005184) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### hair root sheath `http://purl.obolibrary.org/obo/UBERON_0005933` - -#### Added -- [hair root sheath](http://purl.obolibrary.org/obo/UBERON_0005933) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### hair shaft `http://purl.obolibrary.org/obo/UBERON_0002074` - -#### Added -- [hair shaft](http://purl.obolibrary.org/obo/UBERON_0002074) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### has 2D boundary `http://purl.obolibrary.org/obo/RO_0002002` -#### Removed -- [has 2D boundary](http://purl.obolibrary.org/obo/RO_0002002) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002002" - -- [has 2D boundary](http://purl.obolibrary.org/obo/RO_0002002) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [has 2D boundary](http://purl.obolibrary.org/obo/RO_0002002) [label](http://www.w3.org/2000/01/rdf-schema#label) "has 2D boundary" - -- [has 2D boundary](http://purl.obolibrary.org/obo/RO_0002002) [id](http://www.geneontology.org/formats/oboInOwl#id) "has_boundary" - -- [has 2D boundary](http://purl.obolibrary.org/obo/RO_0002002) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) - -- [has 2D boundary](http://purl.obolibrary.org/obo/RO_0002002) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) - -- [has 2D boundary](http://purl.obolibrary.org/obo/RO_0002002) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "has boundary"@en - -- [has 2D boundary](http://purl.obolibrary.org/obo/RO_0002002) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "has_2D_boundary"@en - -- [has 2D boundary](http://purl.obolibrary.org/obo/RO_0002002) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "my body has 2D boundary the surface of my skin"@en - -- [has 2D boundary](http://purl.obolibrary.org/obo/RO_0002002) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "has_boundary" - - - -### has branching part `http://purl.obolibrary.org/obo/RO_0002569` -#### Removed -- [has branching part](http://purl.obolibrary.org/obo/RO_0002569) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "has_branching_part" - -- [has branching part](http://purl.obolibrary.org/obo/RO_0002569) [id](http://www.geneontology.org/formats/oboInOwl#id) "has_branching_part" - -- [has branching part](http://purl.obolibrary.org/obo/RO_0002569) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [has branching part](http://purl.obolibrary.org/obo/RO_0002569) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [has branching part](http://purl.obolibrary.org/obo/RO_0002569) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002569" - - - -### has component `http://purl.obolibrary.org/obo/RO_0002180` -#### Removed -- [has component](http://purl.obolibrary.org/obo/RO_0002180) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [has component](http://purl.obolibrary.org/obo/RO_0002180) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [has component](http://purl.obolibrary.org/obo/RO_0002180) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) - -- [has component](http://purl.obolibrary.org/obo/RO_0002180) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "For use in recording has_part with a cardinality constraint, because OWL does not permit cardinality constraints to be used in combination with transitive object properties. In situations where you would want to say something like 'has part exactly 5 digit, you would instead use has_component exactly 5 digit."@en - - - -### has connecting branch `http://purl.obolibrary.org/obo/RO_0002253` -#### Removed -- [has connecting branch](http://purl.obolibrary.org/obo/RO_0002253) [RO_0004036](http://purl.obolibrary.org/obo/RO_0004036) [has part](http://purl.obolibrary.org/obo/BFO_0000051) - - - -### has dendrite location `http://purl.obolibrary.org/obo/RO_0002360` -#### Removed -- [has dendrite location](http://purl.obolibrary.org/obo/RO_0002360) [source](http://purl.org/dc/terms/source) "http://neurolex.org/wiki/Property:DendriteLocation"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - -- [has dendrite location](http://purl.obolibrary.org/obo/RO_0002360) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### has developmental contribution from `http://purl.obolibrary.org/obo/RO_0002254` -#### Removed -- [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "has_developmental_contribution_from" - -- [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) [id](http://www.geneontology.org/formats/oboInOwl#id) "has_developmental_contribution_from" - -- [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002254" - -- [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) [label](http://www.w3.org/2000/01/rdf-schema#label) "has developmental contribution from" - -- [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "Mammalian thymus has developmental contribution from some pharyngeal pouch 3; Mammalian thymus has developmental contribution from some pharyngeal pouch 4 [Kardong]" - - - -### has developmental potential involving `http://purl.obolibrary.org/obo/RO_0002384` -#### Removed -- [has developmental potential involving](http://purl.obolibrary.org/obo/RO_0002384) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [has developmental potential involving](http://purl.obolibrary.org/obo/RO_0002384) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [requires discussion](http://purl.obolibrary.org/obo/IAO_0000428) - - - -### has end location `http://purl.obolibrary.org/obo/RO_0002232` -#### Removed -- [has end location](http://purl.obolibrary.org/obo/RO_0002232) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [has end location](http://purl.obolibrary.org/obo/RO_0002232) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [has end location](http://purl.obolibrary.org/obo/RO_0002232) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "ends with process that occurs in" - - - -### has exact synonym `http://www.geneontology.org/formats/oboInOwl#hasExactSynonym` -#### Removed -- [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0001-5208-3432](http://orcid.org/0000-0001-5208-3432) - - - -### has fasciculating neuron projection `http://purl.obolibrary.org/obo/RO_0002132` -#### Removed -- [has fasciculating neuron projection](http://purl.obolibrary.org/obo/RO_0002132) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [has fasciculating neuron projection](http://purl.obolibrary.org/obo/RO_0002132) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) - -- [has fasciculating neuron projection](http://purl.obolibrary.org/obo/RO_0002132) [citesAsAuthority](http://purl.org/spar/cito/citesAsAuthority) [22402613](http://www.ncbi.nlm.nih.gov/pubmed/22402613) - -- [has fasciculating neuron projection](http://purl.obolibrary.org/obo/RO_0002132) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "has fasciculating component"@en - -- [has fasciculating neuron projection](http://purl.obolibrary.org/obo/RO_0002132) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) - -- [has fasciculating neuron projection](http://purl.obolibrary.org/obo/RO_0002132) [IAO_0000426](http://purl.obolibrary.org/obo/IAO_0000426) "(forall (?x ?y) - (iff - (has_fasciculating_neuron_projection ?x ?y) - (exists (?nps ?npbs) - (and - ("neuron projection bundle ; CARO_0001001" ?x) - ("neuron projection ; GO0043005" ?y) - ("neuron projection segment ; CARO_0001502" ?nps) - ("neuron projection bundle segment ; CARO_0001500" ?npbs) - (part_of ?nps ?y) - (part_of ?npbs ?x) - (part_of ?nps ?npbs) - (forall (?npbss) - (if - (and - ("neuron projection bundle subsegment ; CARO_0001501" ?npbss) - (part_of ?npbss ?npbs) - ) - (overlaps ?nps ?npbss) - )))))) - - -" - - - -### has function `http://purl.obolibrary.org/obo/RO_0000085` -#### Removed -- [has function](http://purl.obolibrary.org/obo/RO_0000085) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "has_function"@en - -- [has function](http://purl.obolibrary.org/obo/RO_0000085) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this enzyme has function this catalysis function (more colloquially: this enzyme has this catalysis function)"@en - - - -### has high plasma membrane amount `http://purl.obolibrary.org/obo/RO_0015015` -#### Removed -- [has high plasma membrane amount](http://purl.obolibrary.org/obo/RO_0015015) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "'Ly-76 high positive erythrocyte' equivalent to 'enucleate erythrocyte' and (has_high_plasma_membrane_amount some 'lymphocyte antigen 76 (mouse)')" - - - -### has input `http://purl.obolibrary.org/obo/RO_0002233` -#### Removed -- [has input](http://purl.obolibrary.org/obo/RO_0002233) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "consumes" - -- [has input](http://purl.obolibrary.org/obo/RO_0002233) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [has input](http://purl.obolibrary.org/obo/RO_0002233) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### has low plasma membrane amount `http://purl.obolibrary.org/obo/RO_0015016` -#### Removed -- [has low plasma membrane amount](http://purl.obolibrary.org/obo/RO_0015016) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "'DN2b thymocyte' equivalent to 'DN2 thymocyte' and (has_low_plasma_membrane_amount some 'mast/stem cell growth factor receptor')" - - - -### has member `http://purl.obolibrary.org/obo/RO_0002351` -#### Removed -- [has member](http://purl.obolibrary.org/obo/RO_0002351) [label](http://www.w3.org/2000/01/rdf-schema#label) "has member" - -- [has member](http://purl.obolibrary.org/obo/RO_0002351) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "SIO" - -- [has member](http://purl.obolibrary.org/obo/RO_0002351) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "has_member" - -- [has member](http://purl.obolibrary.org/obo/RO_0002351) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002351" - -- [has member](http://purl.obolibrary.org/obo/RO_0002351) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) - -- [has member](http://purl.obolibrary.org/obo/RO_0002351) [id](http://www.geneontology.org/formats/oboInOwl#id) "has_member" - -- [has member](http://purl.obolibrary.org/obo/RO_0002351) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - - - -### has muscle antagonist `http://purl.obolibrary.org/obo/RO_0002568` -#### Removed -- [has muscle antagonist](http://purl.obolibrary.org/obo/RO_0002568) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002568" - -- [has muscle antagonist](http://purl.obolibrary.org/obo/RO_0002568) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "Wikipedia:Antagonist_(muscle)" - -- [has muscle antagonist](http://purl.obolibrary.org/obo/RO_0002568) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [has muscle antagonist](http://purl.obolibrary.org/obo/RO_0002568) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [has muscle antagonist](http://purl.obolibrary.org/obo/RO_0002568) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "has_muscle_antagonist" - -- [has muscle antagonist](http://purl.obolibrary.org/obo/RO_0002568) [id](http://www.geneontology.org/formats/oboInOwl#id) "has_muscle_antagonist" - - - -### has muscle insertion `http://purl.obolibrary.org/obo/RO_0002373` -#### Removed -- [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "has_muscle_insertion" - -- [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002373" - -- [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) [label](http://www.w3.org/2000/01/rdf-schema#label) "has muscle insertion" - -- [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "Wikipedia:Insertion_(anatomy)"@en - -- [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) [id](http://www.geneontology.org/formats/oboInOwl#id) "has_muscle_insertion" - -- [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### has muscle origin `http://purl.obolibrary.org/obo/RO_0002372` -#### Removed -- [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) [label](http://www.w3.org/2000/01/rdf-schema#label) "has muscle origin" - -- [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) [id](http://www.geneontology.org/formats/oboInOwl#id) "has_muscle_origin" - -- [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "has_muscle_origin" - -- [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "Wikipedia:Insertion_(anatomy)"@en - -- [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002372" - - - -### has narrow synonym `http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym` -#### Removed -- [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0001-5208-3432](http://orcid.org/0000-0001-5208-3432) - - - -### has obsolescence reason `http://purl.obolibrary.org/obo/IAO_0000231` -#### Removed -- [has obsolescence reason](http://purl.obolibrary.org/obo/IAO_0000231) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "PERSON:Alan Ruttenberg"@en - -- [has obsolescence reason](http://purl.obolibrary.org/obo/IAO_0000231) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "has obsolescence reason"@en - -- [has obsolescence reason](http://purl.obolibrary.org/obo/IAO_0000231) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "PERSON:Melanie Courtot"@en - - - -### has ontology root term `http://purl.obolibrary.org/obo/IAO_0000700` -#### Removed -- [has ontology root term](http://purl.obolibrary.org/obo/IAO_0000700) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "Nicolas Matentzoglu"@en - -- [has ontology root term](http://purl.obolibrary.org/obo/IAO_0000700) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "has ontology root term"@en - -- [has ontology root term](http://purl.obolibrary.org/obo/IAO_0000700) [is_class_level](http://www.geneontology.org/formats/oboInOwl#is_class_level) true - -- [has ontology root term](http://purl.obolibrary.org/obo/IAO_0000700) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - - - -### has output `http://purl.obolibrary.org/obo/RO_0002234` -#### Removed -- [has output](http://purl.obolibrary.org/obo/RO_0002234) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [has output](http://purl.obolibrary.org/obo/RO_0002234) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [has output](http://purl.obolibrary.org/obo/RO_0002234) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "produces" - - - -### has part `http://purl.obolibrary.org/obo/BFO_0000051` -#### Removed -- [has part](http://purl.obolibrary.org/obo/BFO_0000051) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [has part](http://purl.obolibrary.org/obo/BFO_0000051) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this year has part this day (occurrent parthood)"@en - -- [has part](http://purl.obolibrary.org/obo/BFO_0000051) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "my stomach has part my stomach cavity (continuant parthood, material entity has part immaterial entity)"@en - -- [has part](http://purl.obolibrary.org/obo/BFO_0000051) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "has part"@en - -- [has part](http://purl.obolibrary.org/obo/BFO_0000051) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) - -- [has part](http://purl.obolibrary.org/obo/BFO_0000051) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "has_part"@en - -- [has part](http://purl.obolibrary.org/obo/BFO_0000051) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "my body has part my brain (continuant parthood, two material entities)"@en - - - -### has part structure that is capable of `http://purl.obolibrary.org/obo/RO_0002584` -#### Removed -- [has part structure that is capable of](http://purl.obolibrary.org/obo/RO_0002584) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "gland SubClassOf 'has part structure that is capable of' some 'secretion by cell'" - -- [has part structure that is capable of](http://purl.obolibrary.org/obo/RO_0002584) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### has part that occurs in `http://purl.obolibrary.org/obo/RO_0002479` -#### Removed -- [has part that occurs in](http://purl.obolibrary.org/obo/RO_0002479) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [has part](http://purl.obolibrary.org/obo/BFO_0000051) o [occurs in](http://purl.obolibrary.org/obo/BFO_0000066) SubPropertyOf: [has part that occurs in](http://purl.obolibrary.org/obo/RO_0002479) - - [is a defining property chain axiom](http://purl.obolibrary.org/obo/RO_0002581) true - - - -### has participant `http://purl.obolibrary.org/obo/RO_0000057` -#### Removed -- [has participant](http://purl.obolibrary.org/obo/RO_0000057) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this investigation has participant this investigator"@en - -- [has participant](http://purl.obolibrary.org/obo/RO_0000057) [source](http://purl.org/dc/terms/source) "http://www.obofoundry.org/ro/#OBO_REL:has_participant" - -- [has participant](http://purl.obolibrary.org/obo/RO_0000057) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "has participant"@en - -- [has participant](http://purl.obolibrary.org/obo/RO_0000057) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this process has participant this input material (or this output material)"@en - -- [has participant](http://purl.obolibrary.org/obo/RO_0000057) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this blood coagulation has participant this blood clot"@en - -- [has participant](http://purl.obolibrary.org/obo/RO_0000057) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "has_participant"@en - - - -### has plasma membrane part `http://purl.obolibrary.org/obo/RO_0002104` -#### Removed -- [has plasma membrane part](http://purl.obolibrary.org/obo/RO_0002104) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0003-1617-8244](https://orcid.org/0000-0003-1617-8244) - -- [has plasma membrane part](http://purl.obolibrary.org/obo/RO_0002104) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [has plasma membrane part](http://purl.obolibrary.org/obo/RO_0002104) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "Every B cell[CL_0000236] has plasma membrane part some immunoglobulin complex[GO_0019814]"@en - -- [has plasma membrane part](http://purl.obolibrary.org/obo/RO_0002104) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [19243617](http://www.ncbi.nlm.nih.gov/pubmed/19243617) - -- [has plasma membrane part](http://purl.obolibrary.org/obo/RO_0002104) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) - -- [has plasma membrane part](http://purl.obolibrary.org/obo/RO_0002104) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [has plasma membrane part](http://purl.obolibrary.org/obo/RO_0002104) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0001-9990-8331](https://orcid.org/0000-0001-9990-8331) - - - -### has postsynaptic terminal in `http://purl.obolibrary.org/obo/RO_0002110` -#### Removed -- [has postsynaptic terminal in](http://purl.obolibrary.org/obo/RO_0002110) [citesAsAuthority](http://purl.org/spar/cito/citesAsAuthority) [22402613](http://www.ncbi.nlm.nih.gov/pubmed/22402613) - -- [has postsynaptic terminal in](http://purl.obolibrary.org/obo/RO_0002110) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [has postsynaptic terminal in](http://purl.obolibrary.org/obo/RO_0002110) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) - -- [has postsynaptic terminal in](http://purl.obolibrary.org/obo/RO_0002110) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "synapsed in"@en - -- [has postsynaptic terminal in](http://purl.obolibrary.org/obo/RO_0002110) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) - -- [has postsynaptic terminal in](http://purl.obolibrary.org/obo/RO_0002110) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### has potential to develop into `http://purl.obolibrary.org/obo/RO_0002387` -#### Removed -- [has potential to develop into](http://purl.obolibrary.org/obo/RO_0002387) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [has potential to develop into](http://purl.obolibrary.org/obo/RO_0002387) [label](http://www.w3.org/2000/01/rdf-schema#label) "has potential to develop into" - -- [has potential to develop into](http://purl.obolibrary.org/obo/RO_0002387) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "has_potential_to_develop_into" - -- [has potential to develop into](http://purl.obolibrary.org/obo/RO_0002387) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002387" - -- [has potential to develop into](http://purl.obolibrary.org/obo/RO_0002387) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [has potential to develop into](http://purl.obolibrary.org/obo/RO_0002387) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [requires discussion](http://purl.obolibrary.org/obo/IAO_0000428) - -- [has potential to develop into](http://purl.obolibrary.org/obo/RO_0002387) [id](http://www.geneontology.org/formats/oboInOwl#id) "has_potential_to_develop_into" - - - -### has potential to developmentally contribute to `http://purl.obolibrary.org/obo/RO_0002385` -#### Removed -- [has potential to developmentally contribute to](http://purl.obolibrary.org/obo/RO_0002385) [id](http://www.geneontology.org/formats/oboInOwl#id) "has_potential_to_developmentally_contribute_to" - -- [has potential to developmentally contribute to](http://purl.obolibrary.org/obo/RO_0002385) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [requires discussion](http://purl.obolibrary.org/obo/IAO_0000428) - -- [has potential to developmentally contribute to](http://purl.obolibrary.org/obo/RO_0002385) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "has_potential_to_developmentally_contribute_to" - -- [has potential to developmentally contribute to](http://purl.obolibrary.org/obo/RO_0002385) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002385" - -- [has potential to developmentally contribute to](http://purl.obolibrary.org/obo/RO_0002385) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [has potential to developmentally contribute to](http://purl.obolibrary.org/obo/RO_0002385) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [has potential to developmentally contribute to](http://purl.obolibrary.org/obo/RO_0002385) [label](http://www.w3.org/2000/01/rdf-schema#label) "has potential to developmentally contribute to" - - - -### has potential to developmentally induce `http://purl.obolibrary.org/obo/RO_0002386` -#### Removed -- [has potential to developmentally induce](http://purl.obolibrary.org/obo/RO_0002386) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [requires discussion](http://purl.obolibrary.org/obo/IAO_0000428) - -- [has potential to developmentally induce](http://purl.obolibrary.org/obo/RO_0002386) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### has potential to directly develop into `http://purl.obolibrary.org/obo/RO_0002388` -#### Removed -- [has potential to directly develop into](http://purl.obolibrary.org/obo/RO_0002388) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [requires discussion](http://purl.obolibrary.org/obo/IAO_0000428) - -- [has potential to directly develop into](http://purl.obolibrary.org/obo/RO_0002388) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### has presynaptic terminal in `http://purl.obolibrary.org/obo/RO_0002113` -#### Removed -- [has presynaptic terminal in](http://purl.obolibrary.org/obo/RO_0002113) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "synapses in"@en - -- [has presynaptic terminal in](http://purl.obolibrary.org/obo/RO_0002113) [citesAsAuthority](http://purl.org/spar/cito/citesAsAuthority) [22402613](http://www.ncbi.nlm.nih.gov/pubmed/22402613) - -- [has presynaptic terminal in](http://purl.obolibrary.org/obo/RO_0002113) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [has presynaptic terminal in](http://purl.obolibrary.org/obo/RO_0002113) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) - - - -### has quality `http://purl.obolibrary.org/obo/RO_0000086` -#### Removed -- [has quality](http://purl.obolibrary.org/obo/RO_0000086) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "has_quality"@en - -- [has quality](http://purl.obolibrary.org/obo/RO_0000086) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0000086" - -- [has quality](http://purl.obolibrary.org/obo/RO_0000086) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this apple has quality this red color"@en - -- [has quality](http://purl.obolibrary.org/obo/RO_0000086) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [has quality](http://purl.obolibrary.org/obo/RO_0000086) [label](http://www.w3.org/2000/01/rdf-schema#label) "has quality" - -- [has quality](http://purl.obolibrary.org/obo/RO_0000086) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "has_quality" - -- [has quality](http://purl.obolibrary.org/obo/RO_0000086) [id](http://www.geneontology.org/formats/oboInOwl#id) "has_quality" - - - -### has role `http://purl.obolibrary.org/obo/RO_0000087` -#### Removed -- [has role](http://purl.obolibrary.org/obo/RO_0000087) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this person has role this investigator role (more colloquially: this person has this role of investigator)"@en - -- [has role](http://purl.obolibrary.org/obo/RO_0000087) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "has_role"@en - - - -### has skeleton `http://purl.obolibrary.org/obo/RO_0002551` -#### Removed -- [has skeleton](http://purl.obolibrary.org/obo/RO_0002551) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "Forelimb SubClassOf has_skeleton some 'Forelimb skeleton'" - -- [has skeleton](http://purl.obolibrary.org/obo/RO_0002551) [id](http://www.geneontology.org/formats/oboInOwl#id) "has_skeleton" - -- [has skeleton](http://purl.obolibrary.org/obo/RO_0002551) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [has skeleton](http://purl.obolibrary.org/obo/RO_0002551) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "has supporting framework" - -- [has skeleton](http://purl.obolibrary.org/obo/RO_0002551) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002551" - -- [has skeleton](http://purl.obolibrary.org/obo/RO_0002551) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "The skeleton of a structure may be a true skeleton (for example, the bony skeleton of a hand) or any kind of support framework (the hydrostatic skeleton of a sea star, the exoskeleton of an insect, the cytoskeleton of a cell)." - -- [has skeleton](http://purl.obolibrary.org/obo/RO_0002551) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "has_skeleton" - -- [has skeleton](http://purl.obolibrary.org/obo/RO_0002551) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [has skeleton](http://purl.obolibrary.org/obo/RO_0002551) Domain [organism subdivision](http://purl.obolibrary.org/obo/UBERON_0000475) - -- [has skeleton](http://purl.obolibrary.org/obo/RO_0002551) Range [subdivision of skeleton](http://purl.obolibrary.org/obo/UBERON_0010912) - - - -### has soma location `http://purl.obolibrary.org/obo/RO_0002100` -#### Removed -- [has soma location](http://purl.obolibrary.org/obo/RO_0002100) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) - -- [has soma location](http://purl.obolibrary.org/obo/RO_0002100) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) - -- [has soma location](http://purl.obolibrary.org/obo/RO_0002100) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - - - -### has start location `http://purl.obolibrary.org/obo/RO_0002231` -#### Removed -- [has start location](http://purl.obolibrary.org/obo/RO_0002231) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [has start location](http://purl.obolibrary.org/obo/RO_0002231) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "starts with process that occurs in" - -- [has start location](http://purl.obolibrary.org/obo/RO_0002231) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### has synaptic terminal in `http://purl.obolibrary.org/obo/RO_0002130` -#### Removed -- [has synaptic terminal in](http://purl.obolibrary.org/obo/RO_0002130) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) - -- [has synaptic terminal in](http://purl.obolibrary.org/obo/RO_0002130) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "has synapse in" - -- [has synaptic terminal in](http://purl.obolibrary.org/obo/RO_0002130) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) - -- [has synaptic terminal in](http://purl.obolibrary.org/obo/RO_0002130) [citesAsAuthority](http://purl.org/spar/cito/citesAsAuthority) [22402613](http://www.ncbi.nlm.nih.gov/pubmed/22402613) - -- [has synaptic terminal in](http://purl.obolibrary.org/obo/RO_0002130) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - - - -### has synaptic terminal of `http://purl.obolibrary.org/obo/RO_0002006` -#### Removed -- [has synaptic terminal of](http://purl.obolibrary.org/obo/RO_0002006) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) - -- [has synaptic terminal of](http://purl.obolibrary.org/obo/RO_0002006) [citesAsAuthority](http://purl.org/spar/cito/citesAsAuthority) [22402613](http://www.ncbi.nlm.nih.gov/pubmed/22402613) - - - -### has target end location `http://purl.obolibrary.org/obo/RO_0002339` -#### Removed -- [has target end location](http://purl.obolibrary.org/obo/RO_0002339) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### has target start location `http://purl.obolibrary.org/obo/RO_0002338` -#### Removed -- [has target start location](http://purl.obolibrary.org/obo/RO_0002338) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### hasScope `http://www.geneontology.org/formats/oboInOwl#hasScope` -#### Removed -- AnnotationProperty: [hasScope](http://www.geneontology.org/formats/oboInOwl#hasScope) - - - -### has_broad_synonym `http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym` -#### Removed -- [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0001-5208-3432](http://orcid.org/0000-0001-5208-3432) - - - -### has_rank `http://purl.obolibrary.org/obo/ncbitaxon#has_rank` -#### Removed -- AnnotationProperty: [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) - - - -### has_related_synonym `http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym` -#### Removed -- [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0001-5208-3432](http://orcid.org/0000-0001-5208-3432) - - - -### head `http://purl.obolibrary.org/obo/UBERON_0000033` -#### Removed -- [head](http://purl.obolibrary.org/obo/UBERON_0000033) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organism subdivision that is the part of the body consisting of the cranial and pharyngeal regions.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010335" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [head](http://purl.obolibrary.org/obo/UBERON_0000033) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organism subdivision which is the part of the body which consists of the cranial and pharygeal regions.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001114" - -- [head](http://purl.obolibrary.org/obo/UBERON_0000033) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Vertebrate evolution has been characterized by a fresh and vast array of cranial structures that collectively form the head.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.82" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001644" - -- [head](http://purl.obolibrary.org/obo/UBERON_0000033) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [heart](http://purl.obolibrary.org/obo/UBERON_0000948) - - - -### head connective tissue `http://purl.obolibrary.org/obo/UBERON_0003566` -#### Removed -- [head connective tissue](http://purl.obolibrary.org/obo/UBERON_0003566) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:16098" - - - -### head external integument structure `http://purl.obolibrary.org/obo/UBERON_3000972` -#### Removed -- [head external integument structure](http://purl.obolibrary.org/obo/UBERON_3000972) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (amphibian_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/aao.owl" - - - -### head mesenchyme `http://purl.obolibrary.org/obo/UBERON_0005253` -#### Removed -- [head mesenchyme](http://purl.obolibrary.org/obo/UBERON_0005253) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Mesoderm that will give rise, along with cranial neural crest cells, to connective tissue, bone and musculature in the head. (Source: BioGlossary, www.Biology-Text.com)[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000113" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### head paraxial mesoderm `http://purl.obolibrary.org/obo/UBERON_0009617` -#### Removed -- [head paraxial mesoderm](http://purl.obolibrary.org/obo/UBERON_0009617) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "A major contributor to neurocranium [PMID:16313393]" - - - -### head sensillum `http://purl.obolibrary.org/obo/UBERON_0000963` -#### Removed -- [head sensillum](http://purl.obolibrary.org/obo/UBERON_0000963) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004114" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### head somite `http://purl.obolibrary.org/obo/UBERON_0005594` -#### Removed -- [head somite](http://purl.obolibrary.org/obo/UBERON_0005594) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in humans this includes somites 1-4" - -- [head somite](http://purl.obolibrary.org/obo/UBERON_0005594) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "EHDAA2 has both 'head somite' and 'head somite group', with part_of and develops_from for latter" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" - -- [head somite](http://purl.obolibrary.org/obo/UBERON_0005594) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "They provide the epaxial and hypaxial muscles of the neck, the pharyngeal and laryngeal muscles that develop in the caudal branchial arches and the musculature of the tongue. Despite their localisation in the head, myogenic precursors from occipital somites essentially follow the trunk programmes (E. H. Walters and S. D., unpublished). during evolution, have been secondarily incorporated into the head (Gans and Northcutt, 1983)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:11830559" - - - -### head taste bud `http://purl.obolibrary.org/obo/UBERON_0034720` - -#### Added -- [head taste bud](http://purl.obolibrary.org/obo/UBERON_0034720) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### heart `http://purl.obolibrary.org/obo/UBERON_0000948` -#### Removed -- [heart](http://purl.obolibrary.org/obo/UBERON_0000948) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: differentiates_from lateral plate mesoderm (AAO:0010574) CHANGED TO: develops_from lateral plate mesoderm (UBERON:0003081)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010210" - -- [heart](http://purl.obolibrary.org/obo/UBERON_0000948) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Blood pumping organ composed of four chambers: sinus venosus, atrium, cardiac ventricle and bulbus arteriosus.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000114" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [heart](http://purl.obolibrary.org/obo/UBERON_0000948) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "As noted, the hearts of birds and mammals have four chambers that arises from the two chambers (atrium and ventricle) of the fish heart.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000276" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.481" - -- [heart](http://purl.obolibrary.org/obo/UBERON_0000948) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "cardiac" - -- [heart](http://purl.obolibrary.org/obo/UBERON_0000948) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the circulatory system responsible for pumping blood; composed of three chambers--two atria and one ventricle.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010210" - - - -### heart elastic tissue `http://purl.obolibrary.org/obo/UBERON_0003610` - -#### Added -- [heart elastic tissue](http://purl.obolibrary.org/obo/UBERON_0003610) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### heart endothelium `http://purl.obolibrary.org/obo/UBERON_0008307` -#### Removed -- [heart endothelium](http://purl.obolibrary.org/obo/UBERON_0008307) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class includes any endothelia that are part of the heart. This might include the endocardial epithelia, as well as endothelia of vessels that are considered strictly part of the heart (e.g. outflow tract). As a grouping class, this may lack utility, and pending review this class may be obsoleted. For annotation consider a more specific class." - - - -### heart layer `http://purl.obolibrary.org/obo/UBERON_0005983` - -#### Added -- [heart layer](http://purl.obolibrary.org/obo/UBERON_0005983) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### heart left ventricle `http://purl.obolibrary.org/obo/UBERON_0002084` -#### Removed -- [heart left ventricle](http://purl.obolibrary.org/obo/UBERON_0002084) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - -- [heart left ventricle](http://purl.obolibrary.org/obo/UBERON_0002084) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Thick-walled muscular chamber constituting the left border and apex of the heart. It receives oxygenated blood from the left atrium through the mitral orifice and send it off into the aorta. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000718" - -- [heart left ventricle](http://purl.obolibrary.org/obo/UBERON_0002084) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The vertebrate heart initially forms as a tube from a population of precursor cells termed the first heart field (FHF). Cells from the adjacent second heart field (SHF) are then progressively added to the developing heart. In avian and mammalian hearts, the FHF contributes mainly to the left ventricle, whereas the SHF gives rise to the outflow tract and large portions of the right ventricle and atria. Both fields arise from common mesodermal progenitors, although the detailed lineage relationships between FHF and SHF remain uncertain.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000718" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1126/science.1190181 Stolfi A, Gainous TB, Young JJ, Mori A, Levine M, Christiaen L, Early chordate origins of the vertebrate second heart field. Science (2010)" - -- [heart left ventricle](http://purl.obolibrary.org/obo/UBERON_0002084) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In mammals continuous with aorta" - - - -### heart primordium `http://purl.obolibrary.org/obo/UBERON_0003084` -#### Removed -- [heart primordium](http://purl.obolibrary.org/obo/UBERON_0003084) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Bilateral groups of cells consisting of three rows: one row of endocardial precursors medially and two rows of myocardical precursors laterally. The two populations fuse at the midline between 21 and 26 somites to form the heart rudiment or cone. Stainier 2001.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000028" - -- [heart primordium](http://purl.obolibrary.org/obo/UBERON_0003084) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The fused aspects of ventral mesoderm, which have migrated from either side of the prechordal plate, and fused ventrally, just behind the cement gland. They will give rise to the endocardium at NF stage 27&28.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "XAO:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0011044" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [heart primordium](http://purl.obolibrary.org/obo/UBERON_0003084) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: develops_from lateral mesoderm (TAO:0001065)[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000028" - - - -### heart right ventricle `http://purl.obolibrary.org/obo/UBERON_0002080` -#### Removed -- [heart right ventricle](http://purl.obolibrary.org/obo/UBERON_0002080) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - -- [heart right ventricle](http://purl.obolibrary.org/obo/UBERON_0002080) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The muscular chamber on the right and in front of the left ventricle. It generally receives venous blood from the right atrium and conveys it into the pulmonary artery. [(1988)_Dorian_AF, Amsterdam, Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B._Anatomy, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier's_Encyclopaedic_Dictionary_of_Medicine][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000717" - -- [heart right ventricle](http://purl.obolibrary.org/obo/UBERON_0002080) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In mammals continuous with the pulmonary arteries" - - - -### heart rudiment `http://purl.obolibrary.org/obo/UBERON_0004291` -#### Removed -- [heart rudiment](http://purl.obolibrary.org/obo/UBERON_0004291) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The migrating myocardial precursors of the heart rudiment form a cone like structure between 19.5hpf and 22hpf, and eventually telescope out into the primitive heart tube at 24hpf. Stainier 2001.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000115" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### heart tube `http://purl.obolibrary.org/obo/UBERON_0004141` -#### Removed -- [heart tube](http://purl.obolibrary.org/obo/UBERON_0004141) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "the paired, longitudinal, endothelial-lined channels formed from the cardiogenic mesoderm in embryonic development; angiogenic cell clusters (aka angioblastic cords) located in a horse-shoe shape configuration in the cardiogenic plate coalesce to form the right and left endocardial heart tubes which then fuse in cephalo-caudal direction to form a single primitive heart tube." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0012700" - - - -### helper property (not for use in curation) `http://purl.obolibrary.org/obo/RO_0002464` -#### Removed -- [helper property (not for use in curation)](http://purl.obolibrary.org/obo/RO_0002464) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [helper property (not for use in curation)](http://purl.obolibrary.org/obo/RO_0002464) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "This property or its subproperties is not to be used directly. These properties exist as helper properties that are used to support OWL reasoning." - - - -### hematopoietic system `http://purl.obolibrary.org/obo/UBERON_0002390` -#### Removed -- [hematopoietic system](http://purl.obolibrary.org/obo/UBERON_0002390) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans this is primarily the bone marrow, spleen, tonsils, and lymph nodes" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" - -- [hematopoietic system](http://purl.obolibrary.org/obo/UBERON_0002390) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical system that consists of the blood and blood forming tissues.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0011002" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [hematopoietic system](http://purl.obolibrary.org/obo/UBERON_0002390) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Zebrafish developmental hematopoiesis shows close correspondence to the development of the mammalian hematopoietic system and is regulated by conserved molecular pathways.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001624" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/j.coph.2010.05.004 Ellett F, Lieschke GJ, Zebrafish as a model for vertebrate hematopoiesis. Current Opinion in Pharmacology (2010)" - -- [hematopoietic system](http://purl.obolibrary.org/obo/UBERON_0002390) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "hematopoietic" - -- [hematopoietic system](http://purl.obolibrary.org/obo/UBERON_0002390) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [blood island](http://purl.obolibrary.org/obo/UBERON_0003061) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [hematopoietic system](http://purl.obolibrary.org/obo/UBERON_0002390) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [blood island](http://purl.obolibrary.org/obo/UBERON_0003061) - - -### hematopoietic tissue `http://purl.obolibrary.org/obo/UBERON_0012429` -#### Removed -- [hematopoietic tissue](http://purl.obolibrary.org/obo/UBERON_0012429) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Bone marrow in humans, kidney interstitium in Danio, within a stroma of reticuloendothelial tissue" - -#### Added -- [hematopoietic tissue](http://purl.obolibrary.org/obo/UBERON_0012429) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### hemoglobin subunit zeta `http://purl.obolibrary.org/obo/PR_000008467` -#### Removed -- [hemoglobin subunit zeta](http://purl.obolibrary.org/obo/PR_000008467) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [hemoglobin subunit zeta (human)](http://purl.obolibrary.org/obo/PR_P02008) - - - -### hemopoietic organ `http://purl.obolibrary.org/obo/UBERON_0004177` -#### Removed -- [hemopoietic organ](http://purl.obolibrary.org/obo/UBERON_0004177) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "the FMA class 'lymphoid organ' is a general anatomical term" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [hemopoietic organ](http://purl.obolibrary.org/obo/UBERON_0004177) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "the organs in which the formed elements of the blood and lymph are produced[http://encyclopedia2.thefreedictionary.com/Hematopoietic+Organs]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://encyclopedia2.thefreedictionary.com/Hematopoietic+Organs" - -#### Added -- [hemopoietic organ](http://purl.obolibrary.org/obo/UBERON_0004177) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### hepatic acinus `http://purl.obolibrary.org/obo/UBERON_0001172` - -#### Added -- [hepatic acinus](http://purl.obolibrary.org/obo/UBERON_0001172) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### hepatic artery `http://purl.obolibrary.org/obo/UBERON_0001193` -#### Removed -- [hepatic artery](http://purl.obolibrary.org/obo/UBERON_0001193) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Artery that supplies blood to the liver.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005161" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [hepatic artery](http://purl.obolibrary.org/obo/UBERON_0001193) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "currently defined in a generic fashion." - - - -### hepatic diverticulum `http://purl.obolibrary.org/obo/UBERON_0008835` -#### Removed -- [hepatic diverticulum](http://purl.obolibrary.org/obo/UBERON_0008835) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in mice, the hepatic diverticulum forms by E9 and expands into an obvious liver bud by E10" - -- [hepatic diverticulum](http://purl.obolibrary.org/obo/UBERON_0008835) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The caudal part of the septum transversum is invaded by the hepatic diverticulum which divides within it to form the liver and thus gives rise to the ventral mesentery of the foregut." - -- [hepatic diverticulum](http://purl.obolibrary.org/obo/UBERON_0008835) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [septum transversum](http://purl.obolibrary.org/obo/UBERON_0004161) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "caudal part" - -#### Added -- [hepatic diverticulum](http://purl.obolibrary.org/obo/UBERON_0008835) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [septum transversum](http://purl.obolibrary.org/obo/UBERON_0004161) - - -### hepatic duct `http://purl.obolibrary.org/obo/UBERON_0005171` -#### Removed -- [hepatic duct](http://purl.obolibrary.org/obo/UBERON_0005171) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A duct that carries bile from the liver to the small intestine.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001100" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [hepatic duct](http://purl.obolibrary.org/obo/UBERON_0005171) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The excretory duct of the liver or one of its branches in the lobes of the liver. [TFD][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000219" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/hepatic+duct" - -- [hepatic duct](http://purl.obolibrary.org/obo/UBERON_0005171) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The hepatic duct is the duct that leads from the liver to the bile duct[GO]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO:0061011" - - - -### hepatic duct smooth muscle `http://purl.obolibrary.org/obo/UBERON_0004834` - -#### Added -- [hepatic duct smooth muscle](http://purl.obolibrary.org/obo/UBERON_0004834) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) - - -### hepatic portal system `http://purl.obolibrary.org/obo/UBERON_0010194` -#### Removed -- [hepatic portal system](http://purl.obolibrary.org/obo/UBERON_0010194) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the circulatory system which includes the ventral abdominal vein, pelvic veins, and portal vein and collects blood from the pelvic region, liver, gall bladder and stomach.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010225" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - - -### hepatic portal vein `http://purl.obolibrary.org/obo/UBERON_0001639` -#### Removed -- [hepatic portal vein](http://purl.obolibrary.org/obo/UBERON_0001639) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Adults of all vertebrates lose the vitelline veins and establish a single large hepatic portal vein (...) by the selective retention of parts of the left and right subintestinals and of several anastomoses that occur between them within and just posterior to the liver.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000642" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0471090588 Hildebrand M, Analysis of vertebrate structure (1983) p.265" - -- [hepatic portal vein](http://purl.obolibrary.org/obo/UBERON_0001639) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans A vein in the abdominal cavity that drains blood from the gastrointestinal tract and spleen. It is usually formed by the confluence of the superior mesenteric and splenic veins, and also receives blood from the inferior mesenteric, gastric, and cystic veins. The hepatic portal vein is a major component of the hepatic portal system, one of the main portal venous systems in the body. Conditions involving the hepatic portal vein cause considerable illness and death. An important example of such a condition is elevated blood pressure in the hepatic portal vein. This condition, called portal hypertension, is a major complication of cirrhosis worldwide. [WP,unvetted]" - - - -### hepatic sinusoid `http://purl.obolibrary.org/obo/UBERON_0001281` -#### Removed -- [hepatic sinusoid](http://purl.obolibrary.org/obo/UBERON_0001281) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) the amphibian liver has characteristics in common with both fish and terrestrial vertebrates. (...) The histological structure of the liver is similar to that in other vertebrates, with hepatocytes arranged in clusters and cords separated by a meshwork of sinusoids and the presence of the traditional triad of portal venule, hepatic arteriole, and bile duct.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1053/ax.2000.7133 Crawshaw GJ, Weinkle TK, Clinical and pathological aspects of the amphibian liver. Seminars in Avian and Exotic Pet Medicine (2000)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000708" - -#### Added -- [hepatic sinusoid](http://purl.obolibrary.org/obo/UBERON_0001281) SubClassOf [endo-epithelium](http://purl.obolibrary.org/obo/UBERON_0005911) - - -### hepatobiliary system `http://purl.obolibrary.org/obo/UBERON_0002423` -#### Removed -- [hepatobiliary system](http://purl.obolibrary.org/obo/UBERON_0002423) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "System responsible for the production and movement of bile[ZFIN:curator]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - -- [hepatobiliary system](http://purl.obolibrary.org/obo/UBERON_0002423) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "The hepaticobiliary system is responsible for metabolic and catabolic processing of small molecules absorbed from the blood or gut, hormones and serum proteins, detoxification, storage of glycogen, triglycerides, metals and lipid soluble vitamins and excretion of bile. Included are the synthesis of albumin, blood coagulation factors, complement, and specific binding proteins. The parts are: liver, bile duct, gall bladder and hepatic duct [GO:0061008]" - - - -### hepatopancreatic ampulla `http://purl.obolibrary.org/obo/UBERON_0004913` -#### Removed -- [hepatopancreatic ampulla](http://purl.obolibrary.org/obo/UBERON_0004913) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Ampulla formed by the union of the pancreatic duct and the common bile duct where they enter the intestine.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:ZDB-PUB-080414-12" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005167" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:ZDB-PUB-070212-11" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### hexose transmembrane transporter activity `http://purl.obolibrary.org/obo/GO_0015149` -#### Removed -- [hexose transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015149) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [hexose transmembrane transport](http://purl.obolibrary.org/obo/GO_0008645) - - [source](http://www.geneontology.org/formats/oboInOwl#http://purl.org/dc/terms/source) "GO_REF:0000090" - -#### Added -- [hexose transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015149) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [hexose transmembrane transport](http://purl.obolibrary.org/obo/GO_0008645) - - -### high affinity immunoglobulin epsilon receptor subunit alpha `http://purl.obolibrary.org/obo/PR_000007431` -#### Removed -- [high affinity immunoglobulin epsilon receptor subunit alpha](http://purl.obolibrary.org/obo/PR_000007431) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [high affinity immunoglobulin epsilon receptor subunit alpha (human)](http://purl.obolibrary.org/obo/PR_P12319) - - - -### high affinity immunoglobulin gamma Fc receptor I `http://purl.obolibrary.org/obo/PR_000001465` -#### Removed -- [high affinity immunoglobulin gamma Fc receptor I](http://purl.obolibrary.org/obo/PR_000001465) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [high affinity immunoglobulin gamma Fc receptor I (human)](http://purl.obolibrary.org/obo/PR_P12314) - - - -### hindbrain `http://purl.obolibrary.org/obo/UBERON_0002028` -#### Removed -- [hindbrain](http://purl.obolibrary.org/obo/UBERON_0002028) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The most posterior of the three principal regions of the brain, forming the rhombencephalon and all or most of the metencephalon. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000029" - -- [hindbrain](http://purl.obolibrary.org/obo/UBERON_0002028) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in MA, brainstem and hindbrain and part-of siblings under brain, consistent with FMA and NIF. See also notes for cerebellum. We weaken the relation in ABA to overlaps" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - -- [hindbrain](http://purl.obolibrary.org/obo/UBERON_0002028) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [diencephalon](http://purl.obolibrary.org/obo/UBERON_0001894) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [hindbrain](http://purl.obolibrary.org/obo/UBERON_0002028) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: develops_from hindbrain neural tube (TAO:0007043)[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000029" - -- [hindbrain](http://purl.obolibrary.org/obo/UBERON_0002028) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [midbrain](http://purl.obolibrary.org/obo/UBERON_0001891) - - [exceptions](http://www.geneontology.org/formats/oboInOwl#exceptions) "ZFA" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://github.com/obophenotype/uberon/issues/378" - - - [status](http://www.geneontology.org/formats/oboInOwl#status) "pending" - -- [hindbrain](http://purl.obolibrary.org/obo/UBERON_0002028) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Posterior part of the brain consisting of the cerebellum and medulla oblongata.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010150" - -- [hindbrain](http://purl.obolibrary.org/obo/UBERON_0002028) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Fine structural, computerized three-dimensional (3D) mapping of cell connectivity in the amphioxus nervous system and comparative molecular genetic studies of amphioxus and tunicates have provided recent insights into the phylogenetic origin of the vertebrate nervous system. The results suggest that several of the genetic mechanisms for establishing and patterning the vertebrate nervous system already operated in the ancestral chordate and that the nerve cord of the proximate invertebrate ancestor of the vertebrates included a diencephalon, midbrain, hindbrain, and spinal cord.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/S0959-4388(99)00003-3 Holland LZ and Holland ND, Chordate origins of the vertebrate central nervous system. Current Opinion in Neurobiology (1999)" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000070" - -- [hindbrain](http://purl.obolibrary.org/obo/UBERON_0002028) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "rhombencephalic" - -- [hindbrain](http://purl.obolibrary.org/obo/UBERON_0002028) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - -- [hindbrain](http://purl.obolibrary.org/obo/UBERON_0002028) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [brainstem](http://purl.obolibrary.org/obo/UBERON_0002298) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "modified-source-relation" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -#### Added -- [hindbrain](http://purl.obolibrary.org/obo/UBERON_0002028) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [brainstem](http://purl.obolibrary.org/obo/UBERON_0002298) - - -### hindbrain arachnoid mater `http://purl.obolibrary.org/obo/UBERON_0003559` -#### Removed -- [hindbrain arachnoid mater](http://purl.obolibrary.org/obo/UBERON_0003559) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000236" - -- [hindbrain arachnoid mater](http://purl.obolibrary.org/obo/UBERON_0003559) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Arachnoid mater that is part of the hindbrain. [Bgee_curator][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000236" - - - -### hindbrain dura mater `http://purl.obolibrary.org/obo/UBERON_0003565` -#### Removed -- [hindbrain dura mater](http://purl.obolibrary.org/obo/UBERON_0003565) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Dura mater that is part of the hindbrain. [Bgee_curator][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000409" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - -- [hindbrain dura mater](http://purl.obolibrary.org/obo/UBERON_0003565) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000409" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - -### hindbrain pia mater `http://purl.obolibrary.org/obo/UBERON_0003554` -#### Removed -- [hindbrain pia mater](http://purl.obolibrary.org/obo/UBERON_0003554) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000466" - -- [hindbrain pia mater](http://purl.obolibrary.org/obo/UBERON_0003554) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Pia mater that is part of the hindbrain. [Bgee_curator][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000466" - - - -### hindbrain subarachnoid space `http://purl.obolibrary.org/obo/UBERON_0005219` -#### Removed -- [hindbrain subarachnoid space](http://purl.obolibrary.org/obo/UBERON_0005219) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Subarachnoid space that is part of the hindbrain. [Bgee_curator][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001303" - - - -### hindbrain venous system `http://purl.obolibrary.org/obo/UBERON_0005720` - -#### Added -- [hindbrain venous system](http://purl.obolibrary.org/obo/UBERON_0005720) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### hindbrain-spinal cord boundary `http://purl.obolibrary.org/obo/UBERON_0005076` - -#### Added -- [hindbrain-spinal cord boundary](http://purl.obolibrary.org/obo/UBERON_0005076) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### hindgut `http://purl.obolibrary.org/obo/UBERON_0001046` -#### Removed -- [hindgut](http://purl.obolibrary.org/obo/UBERON_0001046) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "the caudal portion of the primitive digestive tube of the embryo" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0008786" - -- [hindgut](http://purl.obolibrary.org/obo/UBERON_0001046) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The bilaterian gut is typically a complete tube that opens to the exterior at both ends. It consists of mouth, foregut, midgut, hindgut, and anus (reference 1); Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut (reference 2).[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000459" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.203, ISBN:978-0521617147 Stevens CE and Hume ID, Comparative physiology of the vertebrate digestive system (2004) p.11" - -- [hindgut](http://purl.obolibrary.org/obo/UBERON_0001046) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005384" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [hindgut](http://purl.obolibrary.org/obo/UBERON_0001046) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA this class has no children. In MA it has a single child hindgut epithelium" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### hindlimb `http://purl.obolibrary.org/obo/UBERON_0002103` -#### Removed -- [hindlimb](http://purl.obolibrary.org/obo/UBERON_0002103) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "crural" - -- [hindlimb](http://purl.obolibrary.org/obo/UBERON_0002103) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Lower limb, which connects the pes with the pelvic girdle.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000219" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [hindlimb](http://purl.obolibrary.org/obo/UBERON_0002103) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Most anatomists now agree that the three proximal bones of the tetrapod limbs are homologous to the two or three proximal elements of the paired fin skeleton of other sarcopterygians, that is the humerus-femur, radius-tibia, and ulna-fibula.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000337" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0198540472 Janvier P, Early vertebrates (1996) p.268" - -- [hindlimb](http://purl.obolibrary.org/obo/UBERON_0002103) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "note that this corresponds to FMA:'free lower limb' (a limb segment), NOT 'lower limb'. Both MA and FMA consider shoulder (and shoulder bones) part of upper limb. Note that AAO class probably refers to skeleton" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### hindlimb bone `http://purl.obolibrary.org/obo/UBERON_0003464` -#### Removed -- [hindlimb bone](http://purl.obolibrary.org/obo/UBERON_0003464) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "the MA class is actually bone of pelvic complex; in contrast the NCIT class excludes ilium etc" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - - - -### hindlimb bud `http://purl.obolibrary.org/obo/UBERON_0005418` -#### Removed -- [hindlimb bud](http://purl.obolibrary.org/obo/UBERON_0005418) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The bilateral thickening of the ectoderm in the region of the first noticeable at NF stage 47, and innervated by NF stage 51. The hind limb buds develop before the forelimb buds.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "XAO:curator" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010382" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - -### hindlimb joint `http://purl.obolibrary.org/obo/UBERON_0003840` -#### Removed -- [hindlimb joint](http://purl.obolibrary.org/obo/UBERON_0003840) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_71348](http://purl.obolibrary.org/obo/FMA_71348) - - - -### hindlimb skeleton `http://purl.obolibrary.org/obo/UBERON_0001441` -#### Removed -- [hindlimb skeleton](http://purl.obolibrary.org/obo/UBERON_0001441) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Skeletal structure of the paired, posterior appendages.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000217" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [hindlimb skeleton](http://purl.obolibrary.org/obo/UBERON_0001441) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Most anatomists now agree that the three proximal bones of the tetrapod limbs are homologous to the two or three proximal elements of the paired fin skeleton of other sarcopterygians, that is the humerus-femur, radius-tibia, and ulna-fibula.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0198540472 Janvier P, Early vertebrates (1996) p.268" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001255" - -- [hindlimb skeleton](http://purl.obolibrary.org/obo/UBERON_0001441) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: differentiates_from lateral plate mesoderm (AAO:0010574) CHANGED TO: develops_from lateral plate mesoderm (UBERON:0003081)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000217" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - -### hindlimb stylopod `http://purl.obolibrary.org/obo/UBERON_0000376` -#### Removed -- [hindlimb stylopod](http://purl.obolibrary.org/obo/UBERON_0000376) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "Naming conventions for pod terms under discussion within phenoscape group." - - [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "https://github.com/obophenotype/uberon/issues/61" - -- [hindlimb stylopod](http://purl.obolibrary.org/obo/UBERON_0000376) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Most anatomists now agree that the three proximal bones of the tetrapod limbs are homologous to the two or three proximal elements of the paired fin skeleton of other sarcopterygians, that is the humerus-femur, radius-tibia, and ulna-fibula.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000349" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0198540472 Janvier P, Early vertebrates (1996) p.268" - - - -### hindlimb zeugopod `http://purl.obolibrary.org/obo/UBERON_0003823` -#### Removed -- [hindlimb zeugopod](http://purl.obolibrary.org/obo/UBERON_0003823) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "Naming conventions for pod terms under discussion within phenoscape group. TODO - add distinct term for skeleton and place AAO class here" - -- [hindlimb zeugopod](http://purl.obolibrary.org/obo/UBERON_0003823) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA:24979 denotes the middle segment (zeugopod), its placement here is correct. See obo-anatomy archives for discussion" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [hindlimb zeugopod](http://purl.obolibrary.org/obo/UBERON_0003823) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "sural" - -- [hindlimb zeugopod](http://purl.obolibrary.org/obo/UBERON_0003823) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Most anatomists now agree that the three proximal bones of the tetrapod limbs are homologous to the two or three proximal elements of the paired fin skeleton of other sarcopterygians, that is the humerus-femur, radius-tibia, and ulna-fibula.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000348" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0198540472 Janvier P, Early vertebrates (1996) p.268" - -- [hindlimb zeugopod](http://purl.obolibrary.org/obo/UBERON_0003823) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VO:0010971" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) - - - -### hindlimb zeugopod bone `http://purl.obolibrary.org/obo/UBERON_0004251` -#### Removed -- [hindlimb zeugopod bone](http://purl.obolibrary.org/obo/UBERON_0004251) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Skeleton-partonomy-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - - -### hindlimb zeugopod muscle `http://purl.obolibrary.org/obo/UBERON_0004256` -#### Removed -- [hindlimb zeugopod muscle](http://purl.obolibrary.org/obo/UBERON_0004256) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "See notes on UBERON:0000978 for possible terminological confusion over term 'leg'" - - - -### hindlimb zeugopod skeleton `http://purl.obolibrary.org/obo/UBERON_0010720` -#### Removed -- [hindlimb zeugopod skeleton](http://purl.obolibrary.org/obo/UBERON_0010720) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Segment of the leg corresponding to the tibia and fibula.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000216" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - -### hip `http://purl.obolibrary.org/obo/UBERON_0001464` -#### Removed -- [hip](http://purl.obolibrary.org/obo/UBERON_0001464) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The pelvic girdle is never joined by contributions of dermal bone. From its first appearance in placoderms, the pelvic girdle is exclusively endoskeletal. It arose from pterygiophores, perhaps several times, in support of the fin.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.333" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000346" - -- [hip](http://purl.obolibrary.org/obo/UBERON_0001464) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "See notes for shoulder. in BTO this is part of the abdomen - this creates an inconsistency if limb and abdomen are spatially disjoint" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "BTO" - -- [hip](http://purl.obolibrary.org/obo/UBERON_0001464) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "coxal" - - - -### hippocampal formation `http://purl.obolibrary.org/obo/UBERON_0002421` -#### Removed -- [hippocampal formation](http://purl.obolibrary.org/obo/UBERON_0002421) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "BTO:0000601 is placed here since it includes the DG. GO also includes dentate gyrus development as part of hippocampus development, so we assume when GO says 'hippocampus' it means 'hippocampal formation'. In ABA HPF = (.. subiculum) + HIP, HIP = DG + AH." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "BTO" - -- [hippocampal formation](http://purl.obolibrary.org/obo/UBERON_0002421) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [olfactory bulb](http://purl.obolibrary.org/obo/UBERON_0002264) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [hippocampal formation](http://purl.obolibrary.org/obo/UBERON_0002421) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "The term hippocampus is often used synonymously with hippocampal formation which consists of the hippocampus proper or Cornu Ammonis, the dentate gyrus and the subiculum" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "NIF" - - - -### hippocampus fimbria `http://purl.obolibrary.org/obo/UBERON_0002310` -#### Removed -- [hippocampus fimbria](http://purl.obolibrary.org/obo/UBERON_0002310) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [fornix of brain](http://purl.obolibrary.org/obo/UBERON_0000052) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "Need to determine whether the fimbria is part of the fornix. Sometimes the language suggests it isn't always thought of that way, but I see no useful reason why it should be separate; it all forms one continuous white matter tract. Neuronames and others include this as part of the hippocampal formation (MM)" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "NIFSTD" - -#### Added -- [hippocampus fimbria](http://purl.obolibrary.org/obo/UBERON_0002310) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [fornix of brain](http://purl.obolibrary.org/obo/UBERON_0000052) - - -### hippocampus stratum lucidum `http://purl.obolibrary.org/obo/UBERON_0007637` -#### Removed -- [hippocampus stratum lucidum](http://purl.obolibrary.org/obo/UBERON_0007637) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "NCIT:C33629" - -- [hippocampus stratum lucidum](http://purl.obolibrary.org/obo/UBERON_0007637) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "SCTID:419156002" - - - -### hippocampus stratum radiatum `http://purl.obolibrary.org/obo/UBERON_0005372` -#### Removed -- [hippocampus stratum radiatum](http://purl.obolibrary.org/obo/UBERON_0005372) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "contains septal and commissural fibers. It also contains Schaffer collateral fibers, which are the projection forward from CA3 to CA1. Some interneurons that can be found in more superficial layers can also be found here, including basket cells, bistratified cells, and radial trilaminar cells" - - - -### homeobox protein Meis2 `http://purl.obolibrary.org/obo/PR_000010317` -#### Removed -- [homeobox protein Meis2](http://purl.obolibrary.org/obo/PR_000010317) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [homeobox protein Meis2 (human)](http://purl.obolibrary.org/obo/PR_O14770) - - - -### humerus `http://purl.obolibrary.org/obo/UBERON_0000976` -#### Removed -- [humerus](http://purl.obolibrary.org/obo/UBERON_0000976) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "humeral" - -- [humerus](http://purl.obolibrary.org/obo/UBERON_0000976) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Most anatomists now agree that the three proximal bones of the tetrapod limbs are homologous to the two or three proximal elements of the paired fin skeleton of other sarcopterygians, that is the humerus-femur, radius-tibia, and ulna-fibula.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001158" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0198540472 Janvier P, Early vertebrates (1996) p.268" - -- [humerus](http://purl.obolibrary.org/obo/UBERON_0000976) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Paired, elongate, cylindrical bones of endochondral origin that extend from the pectoral girdle to the elbows.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000679" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [humerus](http://purl.obolibrary.org/obo/UBERON_0000976) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [humerus cartilage element](http://purl.obolibrary.org/obo/UBERON_0006245) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [humerus](http://purl.obolibrary.org/obo/UBERON_0000976) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [humerus cartilage element](http://purl.obolibrary.org/obo/UBERON_0006245) - - -### humerus diaphysis `http://purl.obolibrary.org/obo/UBERON_0004652` - -#### Added -- [humerus diaphysis](http://purl.obolibrary.org/obo/UBERON_0004652) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### hyaline cartilage tissue `http://purl.obolibrary.org/obo/UBERON_0001994` -#### Removed -- [hyaline cartilage tissue](http://purl.obolibrary.org/obo/UBERON_0001994) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cartilage tissue primarily composed of type II collagen (thin fibrils) and a glassy appearance.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000094" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - -- [hyaline cartilage tissue](http://purl.obolibrary.org/obo/UBERON_0001994) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cartilage (tissue) which consists of chondrocytes and collagen, the intercellular matrix of which is an amorphous gel with a perichondrium[FMA:64783]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:64783" - - - -### hyaloid cavity `http://purl.obolibrary.org/obo/UBERON_0005606` -#### Removed -- [hyaloid cavity](http://purl.obolibrary.org/obo/UBERON_0005606) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A depression in the front of the vitreous body, lodging the lens. [adapted_from_the_definition_of_the_hyaloid_fossa]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001477" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/hyaloid+fossa" - - - -### hyoglossus muscle `http://purl.obolibrary.org/obo/UBERON_0001572` -#### Removed -- [hyoglossus muscle](http://purl.obolibrary.org/obo/UBERON_0001572) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The hyoglossus is a muscle that attaches to the hyoid and tongue and is innervated by Cranial Nerve XII.[FEED]" - - [url](http://www.geneontology.org/formats/oboInOwl#url) "http://www.feedexp.org" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "FEED" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-07-02" - -- [hyoglossus muscle](http://purl.obolibrary.org/obo/UBERON_0001572) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: subclass hyobranchial muscles (AAO:0000224)[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010663" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [hyoglossus muscle](http://purl.obolibrary.org/obo/UBERON_0001572) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Makes up part of the tongue in frogs and salamanders.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BMZ" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010663" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [hyoglossus muscle](http://purl.obolibrary.org/obo/UBERON_0001572) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [hyoid bone](http://purl.obolibrary.org/obo/UBERON_0001685) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "lingual process in horse" - -#### Added -- [hyoglossus muscle](http://purl.obolibrary.org/obo/UBERON_0001572) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [hyoid bone](http://purl.obolibrary.org/obo/UBERON_0001685) - - -### hyoid apparatus `http://purl.obolibrary.org/obo/UBERON_0010272` -#### Removed -- [hyoid apparatus](http://purl.obolibrary.org/obo/UBERON_0010272) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of hyolaryngeal complex (AAO:0000226)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000225" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [hyoid apparatus](http://purl.obolibrary.org/obo/UBERON_0010272) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In most mammals, including humans, the hyoid apparatus is shaped like a horseshoe. However, in humans, some of the bones of the hyoid apparatus are fused into a single bone called os hyoideum. In other animals such as frogs, the hyoid apparatus has a hyoid body that is chiefly comprised of hyaline cartilage and two pairs of processes (i.e. alary process and the posteriolateral process)." - -- [hyoid apparatus](http://purl.obolibrary.org/obo/UBERON_0010272) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Apparatus located in the floor of the mouth, under the mandibular arcade. The apparatus consists of a central corpus and four pairs of processes. This apparatus serves as the site of insertion for a variety of muscles associated with movements of the tongue and as the origin of the m. hyoglossus.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000225" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - -### hyoid arch skeleton `http://purl.obolibrary.org/obo/UBERON_0005884` -#### Removed -- [hyoid arch skeleton](http://purl.obolibrary.org/obo/UBERON_0005884) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "it's not clear where AAO:'hyobranchial skeleton' belongs" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "AAO" - - - -### hyoid bone `http://purl.obolibrary.org/obo/UBERON_0001685` -#### Removed -- [hyoid bone](http://purl.obolibrary.org/obo/UBERON_0001685) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The hyoid bone is derived from the lower half of the second gill arch in fish, which separates the first gill slit from the spiracle. In many animals, it also incorporates elements of other gill arches, and has a correspondingly greater number of cornua. Amphibians and reptiles may have many cornua, while mammals (including humans) have two pairs, and birds only one. In birds, and some reptiles, the body of the hyoid is greatly extended forward, creating a solid bony support for the tongue. The howler monkey Alouatta has a pneumatized hyoid bone, one of the few cases of postcranial pneumatization of bones outside Saurischia." - - [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "https://github.com/obophenotype/uberon/issues/548" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" - -- [hyoid bone](http://purl.obolibrary.org/obo/UBERON_0001685) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of hyoid plate (AAO:0000664)[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000684" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [hyoid bone](http://purl.obolibrary.org/obo/UBERON_0001685) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Paired processes that extend posterolaterally from the posterior margin of the hyoid plate. These processes are the ossified posteromedial processes and invest the laryngeal apparatus.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000684" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - -### hypodermis `http://purl.obolibrary.org/obo/UBERON_0002072` -#### Removed -- [hypodermis](http://purl.obolibrary.org/obo/UBERON_0002072) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "hypodermal" - -- [hypodermis](http://purl.obolibrary.org/obo/UBERON_0002072) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D040521" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -- [hypodermis](http://purl.obolibrary.org/obo/UBERON_0002072) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "BTO has 'subcutis', as part of dermis. We follow FMA in having distinct classes for hypodermis and superficial fascia, and including these as part of the non-skin intgeument." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "BTO" - -- [hypodermis](http://purl.obolibrary.org/obo/UBERON_0002072) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A layer separating the inner face of the dermis from the subjacent muscle cells. It is covered on both sides by a basement membrane. It contains pigment cells. Le Guellec et al, 2004.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001136" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [hypodermis](http://purl.obolibrary.org/obo/UBERON_0002072) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A layer separating the inner face of the dermis from the subjacent muscle cells. It is covered on both sides by a basement membrane. It contains pigment cells[FMA:70544]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:70544" - -- [hypodermis](http://purl.obolibrary.org/obo/UBERON_0002072) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "subcutaneus" - -- [hypodermis](http://purl.obolibrary.org/obo/UBERON_0002072) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "subcutaneous" - - - -### hypodermis skeletal muscle layer `http://purl.obolibrary.org/obo/UBERON_0008876` - -#### Added -- [hypodermis skeletal muscle layer](http://purl.obolibrary.org/obo/UBERON_0008876) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### hypoglossal nerve `http://purl.obolibrary.org/obo/UBERON_0001650` -#### Removed -- [hypoglossal nerve](http://purl.obolibrary.org/obo/UBERON_0001650) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "In amphibians, represents the hypoglossal nerve in amniotes. Innverates mm. geniohyoideus, genioglossus, hyoglossus, rectus cervicis" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:080184780X" - -- [hypoglossal nerve](http://purl.obolibrary.org/obo/UBERON_0001650) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we use a broad definition of this cranial nerve that encompasses the amphibian predecessor of true amniote hypoglossal nerves" - -- [hypoglossal nerve](http://purl.obolibrary.org/obo/UBERON_0001650) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Nerve which innervates the muscles associated with the tongue including mm geniohyoideus, genioglossus, hyoglossus and rectus cervicis.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010477" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [hypoglossal nerve](http://purl.obolibrary.org/obo/UBERON_0001650) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [NCBITaxon_8292](http://purl.obolibrary.org/obo/NCBITaxon_8292) - -- [hypoglossal nerve](http://purl.obolibrary.org/obo/UBERON_0001650) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Cranial nerves XI and XII evolved in the common ancestor to amniotes (non-amphibian tetrapods) thus totalling twelve pairs.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000693" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Cranial_nerves" - -- [hypoglossal nerve](http://purl.obolibrary.org/obo/UBERON_0001650) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cranial nerve that innervates muscles in the tongue. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-14, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000693" - - - -### hypoglossal nucleus `http://purl.obolibrary.org/obo/UBERON_0002871` -#### Removed -- [hypoglossal nucleus](http://purl.obolibrary.org/obo/UBERON_0002871) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002872](http://purl.obolibrary.org/obo/UBERON_0002872) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [hypoglossal nucleus](http://purl.obolibrary.org/obo/UBERON_0002871) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002877](http://purl.obolibrary.org/obo/UBERON_0002877) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [hypoglossal nucleus](http://purl.obolibrary.org/obo/UBERON_0002871) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0001719](http://purl.obolibrary.org/obo/UBERON_0001719) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [hypoglossal nucleus](http://purl.obolibrary.org/obo/UBERON_0002871) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002559](http://purl.obolibrary.org/obo/UBERON_0002559) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [hypoglossal nucleus](http://purl.obolibrary.org/obo/UBERON_0002871) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002870](http://purl.obolibrary.org/obo/UBERON_0002870) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [hypoglossal nucleus](http://purl.obolibrary.org/obo/UBERON_0002871) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002127](http://purl.obolibrary.org/obo/UBERON_0002127) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [hypoglossal nucleus](http://purl.obolibrary.org/obo/UBERON_0002871) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002673](http://purl.obolibrary.org/obo/UBERON_0002673) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [hypoglossal nucleus](http://purl.obolibrary.org/obo/UBERON_0002871) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002155](http://purl.obolibrary.org/obo/UBERON_0002155) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [hypoglossal nucleus](http://purl.obolibrary.org/obo/UBERON_0002871) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002154](http://purl.obolibrary.org/obo/UBERON_0002154) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - - - -### hypothalamus `http://purl.obolibrary.org/obo/UBERON_0001898` -#### Removed -- [hypothalamus](http://purl.obolibrary.org/obo/UBERON_0001898) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "For instance, the vertebrate ventral diencephalon generates the hypothalamus which functions as a major endocrine center in cooperation with the hypophysis, the anterior part of the pituitary gland, located just ventral to the hypothalamus. In the amphioxus brain, the presence of a hypothalamus-like structure has been reported associated with the ventrally located Hatschek's pit, the hypothetical hypophysial homologue. It is thus conceivable that a hypothalamus-like structure originally involved in endocrine functions may have already been present before the establishment of vertebrates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/j.ydbio.2005.02.008 Murakami Y, Uchida K, Rijli FM and Kuratani S, Evolution of the brain developmental plan: Insights from agnathans. Developmental Biology (2005)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000179" - -- [hypothalamus](http://purl.obolibrary.org/obo/UBERON_0001898) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [dorsal plus ventral thalamus](http://purl.obolibrary.org/obo/UBERON_0001897) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [hypothalamus](http://purl.obolibrary.org/obo/UBERON_0001898) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "hypothalamic" - -- [hypothalamus](http://purl.obolibrary.org/obo/UBERON_0001898) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A specialized brain region of the ventral diencephalon arising near the end of the segmentation period; the embryonic hypothalamic region will give rise to the posterior pituitary gland as well as a number of brain nuclei. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000032" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [hypothalamus](http://purl.obolibrary.org/obo/UBERON_0001898) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the diencephalon ventral to the thalamus consisting of connecting fibers and is a center for control of the autonomous nervous system.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010484" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [hypothalamus](http://purl.obolibrary.org/obo/UBERON_0001898) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "all vertebrates contain a hypothalamus" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" - -- [hypothalamus](http://purl.obolibrary.org/obo/UBERON_0001898) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [NCBITaxon_7737](http://purl.obolibrary.org/obo/NCBITaxon_7737) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "Lancelets possess a region similar to the hypothalamus (Murakami, 2005)" - -- [hypothalamus](http://purl.obolibrary.org/obo/UBERON_0001898) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [thalamic complex](http://purl.obolibrary.org/obo/UBERON_0010225) - - [missing_from](http://www.geneontology.org/formats/oboInOwl#missing_from) "FMA" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia" - -#### Added -- [hypothalamus](http://purl.obolibrary.org/obo/UBERON_0001898) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [thalamic complex](http://purl.obolibrary.org/obo/UBERON_0010225) - - -### ileum `http://purl.obolibrary.org/obo/UBERON_0002116` -#### Removed -- [ileum](http://purl.obolibrary.org/obo/UBERON_0002116) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "ileal" - -- [ileum](http://purl.obolibrary.org/obo/UBERON_0002116) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The ileum is the final section of the small intestine in most higher vertebrates, including mammals, reptiles, and birds. In fish, the divisions of the small intestine are not as clear and the terms posterior intestine or distal intestine may be used instead of ileum.[Wikipedia:Ileum]" - -- [ileum](http://purl.obolibrary.org/obo/UBERON_0002116) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0521617147 Stevens CE and Hume ID, Comparative physiology of the vertebrate digestive system (2004) p.11" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000647" - -- [ileum](http://purl.obolibrary.org/obo/UBERON_0002116) SubClassOf [subdivision of digestive tract](http://purl.obolibrary.org/obo/UBERON_0004921) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "cjm" - - - [order](http://www.geneontology.org/formats/oboInOwl#order) "3" - -#### Added -- [ileum](http://purl.obolibrary.org/obo/UBERON_0002116) SubClassOf [subdivision of digestive tract](http://purl.obolibrary.org/obo/UBERON_0004921) - - -### iliac artery `http://purl.obolibrary.org/obo/UBERON_0005609` -#### Removed -- [iliac artery](http://purl.obolibrary.org/obo/UBERON_0005609) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we place the XAO structure here for now. In terms of analagy, it is more closely related to common iliac, but the relationships currently attached to this class are mammal specific" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "XAO" - -- [iliac artery](http://purl.obolibrary.org/obo/UBERON_0005609) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this is an extremely loose and flexible grouping class that is the superclass of the mammalian common iliac and its main brahces, together with analagous structures in other tetrapods" - - - -### iliac endochondral element `http://purl.obolibrary.org/obo/UBERON_0015054` - -#### Added -- [iliac endochondral element](http://purl.obolibrary.org/obo/UBERON_0015054) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### iliac pre-cartilage condensation `http://purl.obolibrary.org/obo/UBERON_0006247` - -#### Added -- [iliac pre-cartilage condensation](http://purl.obolibrary.org/obo/UBERON_0006247) SubClassOf [mesenchyme from somatopleure](http://purl.obolibrary.org/obo/UBERON_0010377) - - -### ilioischiadic foramen `http://purl.obolibrary.org/obo/UBERON_0018326` - -#### Added -- [ilioischiadic foramen](http://purl.obolibrary.org/obo/UBERON_0018326) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### ilium `http://purl.obolibrary.org/obo/UBERON_0001273` -#### Removed -- [ilium](http://purl.obolibrary.org/obo/UBERON_0001273) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [NCBITaxon_8570](http://purl.obolibrary.org/obo/NCBITaxon_8570) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia" - -- [ilium](http://purl.obolibrary.org/obo/UBERON_0001273) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "All reptiles have an ilium except snakes, although some snake species have a tiny bone which is considered to be an ilium" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" - -- [ilium](http://purl.obolibrary.org/obo/UBERON_0001273) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "this is_a hip bone in MA." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - -- [ilium](http://purl.obolibrary.org/obo/UBERON_0001273) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Paired, rodlike endochondral bones that constitute the anterior pelvic girdle.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000772" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [ilium](http://purl.obolibrary.org/obo/UBERON_0001273) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "iliac" - - - -### imaginal disc `http://purl.obolibrary.org/obo/UBERON_0000939` -#### Removed -- [imaginal disc](http://purl.obolibrary.org/obo/UBERON_0000939) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001761" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [imaginal disc](http://purl.obolibrary.org/obo/UBERON_0000939) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D060227" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### immaterial anatomical entity `http://purl.obolibrary.org/obo/UBERON_0000466` -#### Removed -- [immaterial anatomical entity](http://purl.obolibrary.org/obo/UBERON_0000466) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007015" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### immature `http://purl.obolibrary.org/obo/PATO_0001501` -#### Removed -- [immature](http://purl.obolibrary.org/obo/PATO_0001501) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [PATO_0001701](http://purl.obolibrary.org/obo/PATO_0001701) - - - -### immature eye `http://purl.obolibrary.org/obo/UBERON_0010312` -#### Removed -- [immature eye](http://purl.obolibrary.org/obo/UBERON_0010312) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Multi-tissue structure that consists of the structures that develop into the retina and lens.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002201" - -- [immature eye](http://purl.obolibrary.org/obo/UBERON_0010312) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [eye primordium](http://purl.obolibrary.org/obo/UBERON_0003071) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [immature eye](http://purl.obolibrary.org/obo/UBERON_0010312) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [eye primordium](http://purl.obolibrary.org/obo/UBERON_0003071) - - -### immediate transformation of `http://purl.obolibrary.org/obo/RO_0002495` -#### Removed -- [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "immediate_transformation_of" - -- [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002495" - -- [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) [id](http://www.geneontology.org/formats/oboInOwl#id) "immediate_transformation_of" - -- [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) [RO_0002575](http://purl.obolibrary.org/obo/RO_0002575) [transformation of](http://purl.obolibrary.org/obo/RO_0002494) - - - -### immediately causally downstream of `http://purl.obolibrary.org/obo/RO_0002405` -#### Removed -- [immediately causally downstream of](http://purl.obolibrary.org/obo/RO_0002405) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [requires discussion](http://purl.obolibrary.org/obo/IAO_0000428) - -- [immediately causally downstream of](http://purl.obolibrary.org/obo/RO_0002405) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### immediately causally upstream of `http://purl.obolibrary.org/obo/RO_0002412` -#### Removed -- [immediately causally upstream of](http://purl.obolibrary.org/obo/RO_0002412) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [immediately causally upstream of](http://purl.obolibrary.org/obo/RO_0002412) [RO_0002575](http://purl.obolibrary.org/obo/RO_0002575) [causally upstream of](http://purl.obolibrary.org/obo/RO_0002411) - - - -### immediately deep to `http://purl.obolibrary.org/obo/BSPO_0001107` -#### Removed -- [immediately deep to](http://purl.obolibrary.org/obo/BSPO_0001107) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "immediately_deep_to" - -- [immediately deep to](http://purl.obolibrary.org/obo/BSPO_0001107) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0001107" - -- [immediately deep to](http://purl.obolibrary.org/obo/BSPO_0001107) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [immediately deep to](http://purl.obolibrary.org/obo/BSPO_0001107) [id](http://www.geneontology.org/formats/oboInOwl#id) "immediately_deep_to" - -- [immediately deep to](http://purl.obolibrary.org/obo/BSPO_0001107) [label](http://www.w3.org/2000/01/rdf-schema#label) "immediately deep to" - - - -### immediately preceded by `http://purl.obolibrary.org/obo/RO_0002087` -#### Removed -- [immediately preceded by](http://purl.obolibrary.org/obo/RO_0002087) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [immediately preceded by](http://purl.obolibrary.org/obo/RO_0002087) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "starts_at_end_of" - -- [immediately preceded by](http://purl.obolibrary.org/obo/RO_0002087) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "David Osumi-Sutherland" - - - -### immediately precedes `http://purl.obolibrary.org/obo/RO_0002090` -#### Removed -- [immediately precedes](http://purl.obolibrary.org/obo/RO_0002090) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "meets" - -- [immediately precedes](http://purl.obolibrary.org/obo/RO_0002090) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) - -- [immediately precedes](http://purl.obolibrary.org/obo/RO_0002090) [RO_0002575](http://purl.obolibrary.org/obo/RO_0002575) [precedes](http://purl.obolibrary.org/obo/BFO_0000063) - -- [immediately precedes](http://purl.obolibrary.org/obo/RO_0002090) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "ends_at_start_of" - -- [immediately precedes](http://purl.obolibrary.org/obo/RO_0002090) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "David Osumi-Sutherland" - - - -### immediately superficial to `http://purl.obolibrary.org/obo/BSPO_0015014` -#### Removed -- [immediately superficial to](http://purl.obolibrary.org/obo/BSPO_0015014) [label](http://www.w3.org/2000/01/rdf-schema#label) "immediately superficial to" - -- [immediately superficial to](http://purl.obolibrary.org/obo/BSPO_0015014) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [immediately superficial to](http://purl.obolibrary.org/obo/BSPO_0015014) [id](http://www.geneontology.org/formats/oboInOwl#id) "immediately_superficial_to" - -- [immediately superficial to](http://purl.obolibrary.org/obo/BSPO_0015014) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "immediately_superficial_to" - -- [immediately superficial to](http://purl.obolibrary.org/obo/BSPO_0015014) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0015014" - - - -### immune system `http://purl.obolibrary.org/obo/UBERON_0002405` -#### Removed -- [immune system](http://purl.obolibrary.org/obo/UBERON_0002405) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The antibody-based immune system defined by the presence of the major histocompatibility complex (MHC), T cell receptor (TCR), B cell receptor (BCR) or recombination activating genes (RAGs) is known beginning from jawed fishes.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:21046016 Dzik JM, The ancestry and cumulative evolution of immune reactions. Acta biochimica Polonica (2010)" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001247" - - - -### immunoglobulin iota chain `http://purl.obolibrary.org/obo/PR_000001858` -#### Removed -- [immunoglobulin iota chain](http://purl.obolibrary.org/obo/PR_000001858) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [immunoglobulin iota chain (human)](http://purl.obolibrary.org/obo/PR_P12018) - - - -### immunoglobulin lambda-like polypeptide 1 `http://purl.obolibrary.org/obo/PR_000001859` -#### Removed -- [immunoglobulin lambda-like polypeptide 1](http://purl.obolibrary.org/obo/PR_000001859) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [immunoglobulin lambda-like polypeptide 1 (human)](http://purl.obolibrary.org/obo/PR_P15814) - - - -### in anterior side of `http://purl.obolibrary.org/obo/BSPO_0000123` -#### Removed -- [in anterior side of](http://purl.obolibrary.org/obo/BSPO_0000123) [id](http://www.geneontology.org/formats/oboInOwl#id) "in_anterior_side_of" - -- [in anterior side of](http://purl.obolibrary.org/obo/BSPO_0000123) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "in_anterior_side_of" - -- [in anterior side of](http://purl.obolibrary.org/obo/BSPO_0000123) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0000123" - -- [in anterior side of](http://purl.obolibrary.org/obo/BSPO_0000123) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [in anterior side of](http://purl.obolibrary.org/obo/BSPO_0000123) [label](http://www.w3.org/2000/01/rdf-schema#label) "in anterior side of" - - - -### in branching relationship with `http://purl.obolibrary.org/obo/RO_0002375` -#### Removed -- [in branching relationship with](http://purl.obolibrary.org/obo/RO_0002375) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving branching relationships" - -- [in branching relationship with](http://purl.obolibrary.org/obo/RO_0002375) [RO_0004036](http://purl.obolibrary.org/obo/RO_0004036) [part_of](http://purl.obolibrary.org/obo/BFO_0000050) - -- [in branching relationship with](http://purl.obolibrary.org/obo/RO_0002375) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [in branching relationship with](http://purl.obolibrary.org/obo/RO_0002375) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [requires discussion](http://purl.obolibrary.org/obo/IAO_0000428) - -- [in branching relationship with](http://purl.obolibrary.org/obo/RO_0002375) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "This relation can be used for geographic features (e.g. rivers) as well as anatomical structures (plant branches and roots, leaf veins, animal veins, arteries, nerves)" - - - -### in deep part of `http://purl.obolibrary.org/obo/BSPO_0001101` -#### Removed -- [in deep part of](http://purl.obolibrary.org/obo/BSPO_0001101) [id](http://www.geneontology.org/formats/oboInOwl#id) "in_deep_part_of" - -- [in deep part of](http://purl.obolibrary.org/obo/BSPO_0001101) [label](http://www.w3.org/2000/01/rdf-schema#label) "in deep part of" - -- [in deep part of](http://purl.obolibrary.org/obo/BSPO_0001101) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [in deep part of](http://purl.obolibrary.org/obo/BSPO_0001101) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0001101" - -- [in deep part of](http://purl.obolibrary.org/obo/BSPO_0001101) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "in_deep_part_of" - - - -### in dorsal side of `http://purl.obolibrary.org/obo/BSPO_0015101` -#### Removed -- [in dorsal side of](http://purl.obolibrary.org/obo/BSPO_0015101) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [in dorsal side of](http://purl.obolibrary.org/obo/BSPO_0015101) [id](http://www.geneontology.org/formats/oboInOwl#id) "in_dorsal_side_of" - -- [in dorsal side of](http://purl.obolibrary.org/obo/BSPO_0015101) [label](http://www.w3.org/2000/01/rdf-schema#label) "in dorsal side of" - -- [in dorsal side of](http://purl.obolibrary.org/obo/BSPO_0015101) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "in_dorsal_side_of" - -- [in dorsal side of](http://purl.obolibrary.org/obo/BSPO_0015101) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0015101" - - - -### in lateral side of `http://purl.obolibrary.org/obo/BSPO_0000126` -#### Removed -- [in lateral side of](http://purl.obolibrary.org/obo/BSPO_0000126) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "in_lateral_side_of" - -- [in lateral side of](http://purl.obolibrary.org/obo/BSPO_0000126) [label](http://www.w3.org/2000/01/rdf-schema#label) "in lateral side of" - -- [in lateral side of](http://purl.obolibrary.org/obo/BSPO_0000126) [id](http://www.geneontology.org/formats/oboInOwl#id) "in_lateral_side_of" - -- [in lateral side of](http://purl.obolibrary.org/obo/BSPO_0000126) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [in lateral side of](http://purl.obolibrary.org/obo/BSPO_0000126) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0000126" - - - -### in left side of `http://purl.obolibrary.org/obo/BSPO_0000120` -#### Removed -- [in left side of](http://purl.obolibrary.org/obo/BSPO_0000120) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0000120" - -- [in left side of](http://purl.obolibrary.org/obo/BSPO_0000120) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "in_left_side_of" - -- [in left side of](http://purl.obolibrary.org/obo/BSPO_0000120) [id](http://www.geneontology.org/formats/oboInOwl#id) "in_left_side_of" - -- [in left side of](http://purl.obolibrary.org/obo/BSPO_0000120) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [in left side of](http://purl.obolibrary.org/obo/BSPO_0000120) [label](http://www.w3.org/2000/01/rdf-schema#label) "in left side of" - - - -### in posterior side of `http://purl.obolibrary.org/obo/BSPO_0000122` -#### Removed -- [in posterior side of](http://purl.obolibrary.org/obo/BSPO_0000122) [label](http://www.w3.org/2000/01/rdf-schema#label) "in posterior side of" - -- [in posterior side of](http://purl.obolibrary.org/obo/BSPO_0000122) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [in posterior side of](http://purl.obolibrary.org/obo/BSPO_0000122) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0000122" - -- [in posterior side of](http://purl.obolibrary.org/obo/BSPO_0000122) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "in_posterior_side_of" - -- [in posterior side of](http://purl.obolibrary.org/obo/BSPO_0000122) [id](http://www.geneontology.org/formats/oboInOwl#id) "in_posterior_side_of" - - - -### in proximal side of `http://purl.obolibrary.org/obo/BSPO_0000124` -#### Removed -- [in proximal side of](http://purl.obolibrary.org/obo/BSPO_0000124) [id](http://www.geneontology.org/formats/oboInOwl#id) "in_proximal_side_of" - -- [in proximal side of](http://purl.obolibrary.org/obo/BSPO_0000124) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [in proximal side of](http://purl.obolibrary.org/obo/BSPO_0000124) [label](http://www.w3.org/2000/01/rdf-schema#label) "in proximal side of" - -- [in proximal side of](http://purl.obolibrary.org/obo/BSPO_0000124) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0000124" - -- [in proximal side of](http://purl.obolibrary.org/obo/BSPO_0000124) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "in_proximal_side_of" - - - -### in right side of `http://purl.obolibrary.org/obo/BSPO_0000121` -#### Removed -- [in right side of](http://purl.obolibrary.org/obo/BSPO_0000121) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [in right side of](http://purl.obolibrary.org/obo/BSPO_0000121) [id](http://www.geneontology.org/formats/oboInOwl#id) "in_right_side_of" - -- [in right side of](http://purl.obolibrary.org/obo/BSPO_0000121) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0000121" - -- [in right side of](http://purl.obolibrary.org/obo/BSPO_0000121) [label](http://www.w3.org/2000/01/rdf-schema#label) "in right side of" - -- [in right side of](http://purl.obolibrary.org/obo/BSPO_0000121) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "in_right_side_of" - - - -### in superficial part of `http://purl.obolibrary.org/obo/BSPO_0001100` -#### Removed -- [in superficial part of](http://purl.obolibrary.org/obo/BSPO_0001100) [label](http://www.w3.org/2000/01/rdf-schema#label) "in superficial part of" - -- [in superficial part of](http://purl.obolibrary.org/obo/BSPO_0001100) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0001100" - -- [in superficial part of](http://purl.obolibrary.org/obo/BSPO_0001100) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [in superficial part of](http://purl.obolibrary.org/obo/BSPO_0001100) [id](http://www.geneontology.org/formats/oboInOwl#id) "in_superficial_part_of" - -- [in superficial part of](http://purl.obolibrary.org/obo/BSPO_0001100) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "in_superficial_part_of" - - - -### in taxon `http://purl.obolibrary.org/obo/RO_0002162` -#### Removed -- [in taxon](http://purl.obolibrary.org/obo/RO_0002162) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [in taxon](http://purl.obolibrary.org/obo/RO_0002162) [id](http://www.geneontology.org/formats/oboInOwl#id) "in_taxon" - -- [in taxon](http://purl.obolibrary.org/obo/RO_0002162) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [20973947](http://www.ncbi.nlm.nih.gov/pubmed/20973947) - -- [in taxon](http://purl.obolibrary.org/obo/RO_0002162) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "in_taxon" - -- [in taxon](http://purl.obolibrary.org/obo/RO_0002162) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [17921072](http://www.ncbi.nlm.nih.gov/pubmed/17921072) - -- [in taxon](http://purl.obolibrary.org/obo/RO_0002162) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002162" - -- [in taxon](http://purl.obolibrary.org/obo/RO_0002162) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [in taxon](http://purl.obolibrary.org/obo/RO_0002162) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [in taxon](http://purl.obolibrary.org/obo/RO_0002162) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [X](https://orcid.org/0000-0001-9227-417X) - -- [existence ends during](http://purl.obolibrary.org/obo/RO_0002492) o [in taxon](http://purl.obolibrary.org/obo/RO_0002162) SubPropertyOf: [in taxon](http://purl.obolibrary.org/obo/RO_0002162) - -- [connected to](http://purl.obolibrary.org/obo/RO_0002170) o [in taxon](http://purl.obolibrary.org/obo/RO_0002162) SubPropertyOf: [in taxon](http://purl.obolibrary.org/obo/RO_0002162) - -- [produces](http://purl.obolibrary.org/obo/RO_0003000) o [in taxon](http://purl.obolibrary.org/obo/RO_0002162) SubPropertyOf: [in taxon](http://purl.obolibrary.org/obo/RO_0002162) - -- [continuous with](http://purl.obolibrary.org/obo/RO_0002150) o [in taxon](http://purl.obolibrary.org/obo/RO_0002162) SubPropertyOf: [in taxon](http://purl.obolibrary.org/obo/RO_0002162) - -- [produced by](http://purl.obolibrary.org/obo/RO_0003001) o [in taxon](http://purl.obolibrary.org/obo/RO_0002162) SubPropertyOf: [in taxon](http://purl.obolibrary.org/obo/RO_0002162) - -- [connects](http://purl.obolibrary.org/obo/RO_0002176) o [in taxon](http://purl.obolibrary.org/obo/RO_0002162) SubPropertyOf: [in taxon](http://purl.obolibrary.org/obo/RO_0002162) - -- [supplies](http://purl.obolibrary.org/obo/RO_0002178) o [in taxon](http://purl.obolibrary.org/obo/RO_0002162) SubPropertyOf: [in taxon](http://purl.obolibrary.org/obo/RO_0002162) - -- [existence starts during](http://purl.obolibrary.org/obo/RO_0002488) o [in taxon](http://purl.obolibrary.org/obo/RO_0002162) SubPropertyOf: [in taxon](http://purl.obolibrary.org/obo/RO_0002162) - -- [attached to](http://purl.obolibrary.org/obo/RO_0002371) o [in taxon](http://purl.obolibrary.org/obo/RO_0002162) SubPropertyOf: [in taxon](http://purl.obolibrary.org/obo/RO_0002162) - -- [developmentally induced by](http://purl.obolibrary.org/obo/RO_0002256) o [in taxon](http://purl.obolibrary.org/obo/RO_0002162) SubPropertyOf: [in taxon](http://purl.obolibrary.org/obo/RO_0002162) - -- [overlaps](http://purl.obolibrary.org/obo/RO_0002131) o [in taxon](http://purl.obolibrary.org/obo/RO_0002162) SubPropertyOf: [in taxon](http://purl.obolibrary.org/obo/RO_0002162) - -- [has potential to develop into](http://purl.obolibrary.org/obo/RO_0002387) o [in taxon](http://purl.obolibrary.org/obo/RO_0002162) SubPropertyOf: [in taxon](http://purl.obolibrary.org/obo/RO_0002162) - -- [innervated_by](http://purl.obolibrary.org/obo/RO_0002005) o [in taxon](http://purl.obolibrary.org/obo/RO_0002162) SubPropertyOf: [in taxon](http://purl.obolibrary.org/obo/RO_0002162) - - - -### inconsistent_with `http://www.geneontology.org/formats/oboInOwl#inconsistent_with` -#### Removed -- AnnotationProperty: [inconsistent_with](http://www.geneontology.org/formats/oboInOwl#inconsistent_with) - - - -### increased coiling `http://purl.obolibrary.org/obo/PATO_0001795` -#### Removed -- [increased coiling](http://purl.obolibrary.org/obo/PATO_0001795) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [decreased coiling](http://purl.obolibrary.org/obo/PATO_0001796) - - - -### increased contractility `http://purl.obolibrary.org/obo/PATO_0001580` -#### Removed -- [increased contractility](http://purl.obolibrary.org/obo/PATO_0001580) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [decreased contractility](http://purl.obolibrary.org/obo/PATO_0001581) - - - -### increased elasticity `http://purl.obolibrary.org/obo/PATO_0002287` -#### Removed -- [increased elasticity](http://purl.obolibrary.org/obo/PATO_0002287) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [decreased elasticity](http://purl.obolibrary.org/obo/PATO_0002288) - - - -### increased flexibility `http://purl.obolibrary.org/obo/PATO_0001776` -#### Removed -- [increased flexibility](http://purl.obolibrary.org/obo/PATO_0001776) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [decreased flexibility](http://purl.obolibrary.org/obo/PATO_0001777) - - - -### increased life span `http://purl.obolibrary.org/obo/PATO_0001603` -#### Removed -- [increased life span](http://purl.obolibrary.org/obo/PATO_0001603) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [decreased life span](http://purl.obolibrary.org/obo/PATO_0001604) - - - -### increased object quality `http://purl.obolibrary.org/obo/PATO_0002305` -#### Removed -- [increased object quality](http://purl.obolibrary.org/obo/PATO_0002305) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [decreased object quality](http://purl.obolibrary.org/obo/PATO_0002303) - - - -### increased quality `http://purl.obolibrary.org/obo/PATO_0002300` -#### Removed -- [increased quality](http://purl.obolibrary.org/obo/PATO_0002300) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [decreased quality](http://purl.obolibrary.org/obo/PATO_0002301) - - - -### increased size `http://purl.obolibrary.org/obo/PATO_0000586` -#### Removed -- [increased size](http://purl.obolibrary.org/obo/PATO_0000586) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [decreased size](http://purl.obolibrary.org/obo/PATO_0000587) - - - -### increased viscosity `http://purl.obolibrary.org/obo/PATO_0001693` -#### Removed -- [increased viscosity](http://purl.obolibrary.org/obo/PATO_0001693) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [decreased viscosity](http://purl.obolibrary.org/obo/PATO_0001694) - - - -### indirectly negatively regulates `http://purl.obolibrary.org/obo/RO_0002409` -#### Removed -- [indirectly negatively regulates](http://purl.obolibrary.org/obo/RO_0002409) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [indirectly negatively regulates](http://purl.obolibrary.org/obo/RO_0002409) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "indirectly inhibits" - -- [indirectly negatively regulates](http://purl.obolibrary.org/obo/RO_0002409) [RO_0002579](http://purl.obolibrary.org/obo/RO_0002579) [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) - - - -### indirectly positively regulates `http://purl.obolibrary.org/obo/RO_0002407` -#### Removed -- [indirectly positively regulates](http://purl.obolibrary.org/obo/RO_0002407) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [indirectly positively regulates](http://purl.obolibrary.org/obo/RO_0002407) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "indirectly activates" - -- [indirectly positively regulates](http://purl.obolibrary.org/obo/RO_0002407) [RO_0002579](http://purl.obolibrary.org/obo/RO_0002579) [positively regulates](http://purl.obolibrary.org/obo/RO_0002213) - - - -### indirectly_supplies `http://purl.obolibrary.org/obo/uberon/core#indirectly_supplies` -#### Removed -- [has branching part](http://purl.obolibrary.org/obo/RO_0002569) o [supplies](http://purl.obolibrary.org/obo/RO_0002178) SubPropertyOf: [indirectly_supplies](http://purl.obolibrary.org/obo/uberon/core#indirectly_supplies) - -- Transitive: [indirectly_supplies](http://purl.obolibrary.org/obo/uberon/core#indirectly_supplies) - - - -### individual digit of digitopodial skeleton `http://purl.obolibrary.org/obo/UBERON_5102544` -#### Removed -- [individual digit of digitopodial skeleton](http://purl.obolibrary.org/obo/UBERON_5102544) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class represents a series of phalanges plus a metapodial element. In comparative anatomy terminology we would call this a 'digit', but the label 'digit' is sometimes used to exclude metapodials and to include soft tissue. This series of elements is hypothesized to be homologous to radials." - -#### Added -- [individual digit of digitopodial skeleton](http://purl.obolibrary.org/obo/UBERON_5102544) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### inducible T-cell costimulator `http://purl.obolibrary.org/obo/PR_000001860` -#### Removed -- [inducible T-cell costimulator](http://purl.obolibrary.org/obo/PR_000001860) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [inducible T-cell costimulator (human)](http://purl.obolibrary.org/obo/PR_Q9Y6W8) - - - -### inferred_by `http://www.geneontology.org/formats/oboInOwl#inferred_by` -#### Removed -- AnnotationProperty: [inferred_by](http://www.geneontology.org/formats/oboInOwl#inferred_by) - - - -### information content entity `http://purl.obolibrary.org/obo/IAO_0000030` -#### Removed -- [information content entity](http://purl.obolibrary.org/obo/IAO_0000030) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "information content entity"@en - - - -### inner cell mass `http://purl.obolibrary.org/obo/UBERON_0000087` -#### Removed -- [inner cell mass](http://purl.obolibrary.org/obo/UBERON_0000087) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "This structure forms in the earliest steps of development, before implantation into the endometrium of the uterus has occurred.The ICM lies within the blastocyst cavity and is entirely surrounded by the single layer of cells called trophoblast. [Wikipedia:Inner_cell_mass]" - -- [inner cell mass](http://purl.obolibrary.org/obo/UBERON_0000087) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "A small sphere of cells known as the inner cell mass lies within the trophoblast (of all eutherian mammals).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.144" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000742" - -- [inner cell mass](http://purl.obolibrary.org/obo/UBERON_0000087) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A group of cells found in the mammalian blastocyst that give rise to the embryo. [Biology_Online][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000742" - - - -### inner ear epithelium `http://purl.obolibrary.org/obo/UBERON_0006937` - -#### Added -- [inner ear epithelium](http://purl.obolibrary.org/obo/UBERON_0006937) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### inner epithelial layer of tympanic membrane `http://purl.obolibrary.org/obo/UBERON_0005042` -#### Removed -- [inner epithelial layer of tympanic membrane](http://purl.obolibrary.org/obo/UBERON_0005042) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA this is classified as a mucosa" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -#### Added -- [inner epithelial layer of tympanic membrane](http://purl.obolibrary.org/obo/UBERON_0005042) SubClassOf [endo-epithelium](http://purl.obolibrary.org/obo/UBERON_0005911) - - -### inner limiting layer of retina `http://purl.obolibrary.org/obo/UBERON_0001794` -#### Removed -- [inner limiting layer of retina](http://purl.obolibrary.org/obo/UBERON_0001794) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Membrane on the apical surface of the retina. The retinal vasculature becomes adhered to the apical surface of the ILM by 30dpf[ZFIN:ZDB-PUB-071023-7, ZFIN:ZDB-PUB-120529-3]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:ZDB-PUB-071023-7, ZFIN:ZDB-PUB-120529-3" - -#### Added -- [inner limiting layer of retina](http://purl.obolibrary.org/obo/UBERON_0001794) SubClassOf [structure with developmental contribution from neural crest](http://purl.obolibrary.org/obo/UBERON_0010314) - - -### inner medulla of kidney `http://purl.obolibrary.org/obo/UBERON_0001294` -#### Removed -- [inner medulla of kidney](http://purl.obolibrary.org/obo/UBERON_0001294) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "unique to mammals" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO:0072053" - - - -### inner medulla vasa recta ascending limb `http://purl.obolibrary.org/obo/UBERON_0009092` -#### Removed -- [inner medulla vasa recta ascending limb](http://purl.obolibrary.org/obo/UBERON_0009092) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "This class was created in order to align KUPO with CL. The original class was undefined, and the intended meaning is not clear, may be obsoleted in future. The vasa recta is parallel to the loop of Henles, this may refer to the portion of the vasa recta in the inner medulla parallel to the ascending limb" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "CL" - -#### Added -- [inner medulla vasa recta ascending limb](http://purl.obolibrary.org/obo/UBERON_0009092) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### inner medulla vasa recta descending limb `http://purl.obolibrary.org/obo/UBERON_0009089` -#### Removed -- [inner medulla vasa recta descending limb](http://purl.obolibrary.org/obo/UBERON_0009089) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "This class was created in order to align KUPO with CL. The original class was undefined, and the intended meaning is not clear, may be obsoleted in future. The vasa recta is parallel to the loop of Henles, this may refer to the portion of the vasa recta in the inner medullar parallel to the descending limb" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "CL" - -#### Added -- [inner medulla vasa recta descending limb](http://purl.obolibrary.org/obo/UBERON_0009089) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### inner nuclear layer of retina `http://purl.obolibrary.org/obo/UBERON_0001791` -#### Removed -- [inner nuclear layer of retina](http://purl.obolibrary.org/obo/UBERON_0001791) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001167" - -- [inner nuclear layer of retina](http://purl.obolibrary.org/obo/UBERON_0001791) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The layer of the retina composed of the cell bodies of bipolar cells, horizontal cells, and some of the cell bodies of amacrine cells[BTO:0003176]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "BTO:0003176" - - - -### inner plexiform layer of retina `http://purl.obolibrary.org/obo/UBERON_0001795` -#### Removed -- [inner plexiform layer of retina](http://purl.obolibrary.org/obo/UBERON_0001795) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001168" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - -- [inner plexiform layer of retina](http://purl.obolibrary.org/obo/UBERON_0001795) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The layer within the retina where the bipolar cells synapse with the dendrites of the ganglion cells.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001329" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [inner plexiform layer of retina](http://purl.obolibrary.org/obo/UBERON_0001795) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The inner plexiform layer (IPL) is positioned between the INL and the ganglion cell layer and contains the dendrites of RGCs and processes of bipolar and amacrine cells[GO][GO:0010842]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO:0010842" - -- [inner plexiform layer of retina](http://purl.obolibrary.org/obo/UBERON_0001795) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "http://neurolex.org/wiki/Nlx_anat_1005032 appears to be retired" - - - -### innervated_by `http://purl.obolibrary.org/obo/RO_0002005` -#### Removed -- [innervated_by](http://purl.obolibrary.org/obo/RO_0002005) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "innervated_by" - -- [innervated_by](http://purl.obolibrary.org/obo/RO_0002005) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [innervated_by](http://purl.obolibrary.org/obo/RO_0002005) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) - -- [innervated_by](http://purl.obolibrary.org/obo/RO_0002005) [label](http://www.w3.org/2000/01/rdf-schema#label) "innervated_by" - -- [innervated_by](http://purl.obolibrary.org/obo/RO_0002005) [citesAsAuthority](http://purl.org/spar/cito/citesAsAuthority) "http://www.ncbi.nlm.nih.gov/pubmed/22402613"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - -- [innervated_by](http://purl.obolibrary.org/obo/RO_0002005) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002005" - -- [innervated_by](http://purl.obolibrary.org/obo/RO_0002005) [id](http://www.geneontology.org/formats/oboInOwl#id) "innervated_by" - -- [innervated_by](http://purl.obolibrary.org/obo/RO_0002005) o [branching part of](http://purl.obolibrary.org/obo/RO_0002380) SubPropertyOf: [innervated_by](http://purl.obolibrary.org/obo/RO_0002005) - - - -### innervates `http://purl.obolibrary.org/obo/RO_0002134` -#### Removed -- [innervates](http://purl.obolibrary.org/obo/RO_0002134) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) - -- [innervates](http://purl.obolibrary.org/obo/RO_0002134) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "innervates" - -- [innervates](http://purl.obolibrary.org/obo/RO_0002134) [id](http://www.geneontology.org/formats/oboInOwl#id) "innervates" - -- [innervates](http://purl.obolibrary.org/obo/RO_0002134) [citesAsAuthority](http://purl.org/spar/cito/citesAsAuthority) [22402613](http://www.ncbi.nlm.nih.gov/pubmed/22402613) - -- [innervates](http://purl.obolibrary.org/obo/RO_0002134) [label](http://www.w3.org/2000/01/rdf-schema#label) "innervates" - -- [innervates](http://purl.obolibrary.org/obo/RO_0002134) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002134" - -- [innervates](http://purl.obolibrary.org/obo/RO_0002134) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) - -- [innervates](http://purl.obolibrary.org/obo/RO_0002134) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [innervates](http://purl.obolibrary.org/obo/RO_0002134) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - - - -### innominate bone `http://purl.obolibrary.org/obo/UBERON_0001272` -#### Removed -- [innominate bone](http://purl.obolibrary.org/obo/UBERON_0001272) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA this is a paired structure. NCITA has 'pelvic bone' but this is the *superclass* of ilium/ischium/pubis. The MA class 'pelvis bone' is actually a superclass of 'pelvic girdle bone' and caudal/sacral vertebra." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [innominate bone](http://purl.obolibrary.org/obo/UBERON_0001272) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The hip/pelvic bone/basipterygium first appears in fishes, where it consists of a simple, usually triangular bone, to which the pelvic fin articulates. The hip bones on each side usually connect with each other at the forward end, and are even solidly fused in lungfishes and sharks, but they never attach to the vertebral column" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" - - - -### input of `http://purl.obolibrary.org/obo/RO_0002352` -#### Removed -- [input of](http://purl.obolibrary.org/obo/RO_0002352) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [input of](http://purl.obolibrary.org/obo/RO_0002352) [label](http://www.w3.org/2000/01/rdf-schema#label) "input of" - -- [input of](http://purl.obolibrary.org/obo/RO_0002352) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "input_of" - -- [input of](http://purl.obolibrary.org/obo/RO_0002352) [id](http://www.geneontology.org/formats/oboInOwl#id) "input_of" - -- [input of](http://purl.obolibrary.org/obo/RO_0002352) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [input of](http://purl.obolibrary.org/obo/RO_0002352) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002352" - - - -### insect adult head `http://purl.obolibrary.org/obo/UBERON_6003007` -#### Removed -- [insect adult head](http://purl.obolibrary.org/obo/UBERON_6003007) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00003007" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### insect adult tagma `http://purl.obolibrary.org/obo/UBERON_6003005` -#### Removed -- [insect adult tagma](http://purl.obolibrary.org/obo/UBERON_6003005) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00003005" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### insect embryonic/larval head sense organ `http://purl.obolibrary.org/obo/UBERON_6007280` -#### Removed -- [insect embryonic/larval head sense organ](http://purl.obolibrary.org/obo/UBERON_6007280) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007280" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### insect embryonic/larval head sensillum `http://purl.obolibrary.org/obo/UBERON_6007242` -#### Removed -- [insect embryonic/larval head sensillum](http://purl.obolibrary.org/obo/UBERON_6007242) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007242" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### insect embryonic/larval sensillum `http://purl.obolibrary.org/obo/UBERON_6007240` -#### Removed -- [insect embryonic/larval sensillum](http://purl.obolibrary.org/obo/UBERON_6007240) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007240" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### insect larval head `http://purl.obolibrary.org/obo/UBERON_6001730` -#### Removed -- [insect larval head](http://purl.obolibrary.org/obo/UBERON_6001730) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001730" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### insect larval sense organ `http://purl.obolibrary.org/obo/UBERON_6002639` -#### Removed -- [insect larval sense organ](http://purl.obolibrary.org/obo/UBERON_6002639) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00002639" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### insect larval tagma `http://purl.obolibrary.org/obo/UBERON_6001728` -#### Removed -- [insect larval tagma](http://purl.obolibrary.org/obo/UBERON_6001728) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001728" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### insulin gene translation product `http://purl.obolibrary.org/obo/PR_000009054` -#### Removed -- [insulin gene translation product](http://purl.obolibrary.org/obo/PR_000009054) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [insulin gene translation product (human)](http://purl.obolibrary.org/obo/PR_P01308) - - - -### integrin alpha-2 `http://purl.obolibrary.org/obo/PR_000001008` -#### Removed -- [integrin alpha-2](http://purl.obolibrary.org/obo/PR_000001008) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [integrin alpha-2 (human)](http://purl.obolibrary.org/obo/PR_P17301) - - - -### integrin alpha-4 `http://purl.obolibrary.org/obo/PR_000009129` -#### Removed -- [integrin alpha-4](http://purl.obolibrary.org/obo/PR_000009129) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [integrin alpha-4 (human)](http://purl.obolibrary.org/obo/PR_P13612) - - - -### integrin alpha-E `http://purl.obolibrary.org/obo/PR_000001010` -#### Removed -- [integrin alpha-E](http://purl.obolibrary.org/obo/PR_000001010) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [integrin alpha-E (human)](http://purl.obolibrary.org/obo/PR_P38570) - - - -### integrin alpha-IIb `http://purl.obolibrary.org/obo/PR_000009127` -#### Removed -- [integrin alpha-IIb](http://purl.obolibrary.org/obo/PR_000009127) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [integrin alpha-IIb (human)](http://purl.obolibrary.org/obo/PR_P08514) - - - -### integrin alpha-M `http://purl.obolibrary.org/obo/PR_000001012` -#### Removed -- [integrin alpha-M](http://purl.obolibrary.org/obo/PR_000001012) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [integrin alpha-M (human)](http://purl.obolibrary.org/obo/PR_P11215) - - - -### integrin alpha-X `http://purl.obolibrary.org/obo/PR_000001013` -#### Removed -- [integrin alpha-X](http://purl.obolibrary.org/obo/PR_000001013) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [integrin alpha-X (human)](http://purl.obolibrary.org/obo/PR_P20702) - - - -### integrin beta-7 `http://purl.obolibrary.org/obo/PR_000009143` -#### Removed -- [integrin beta-7](http://purl.obolibrary.org/obo/PR_000009143) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [integrin beta-7 (human)](http://purl.obolibrary.org/obo/PR_P26010) - - - -### integument `http://purl.obolibrary.org/obo/UBERON_0002199` -#### Removed -- [integument](http://purl.obolibrary.org/obo/UBERON_0002199) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Surface structure that is the outer protective covering of the body.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000029" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" - -- [integument](http://purl.obolibrary.org/obo/UBERON_0002199) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical system that protects the body from damage, comprising the skin and its appendages.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000239" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [integument](http://purl.obolibrary.org/obo/UBERON_0002199) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "integumental" - -- [integument](http://purl.obolibrary.org/obo/UBERON_0002199) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "integumentary" - -- [integument](http://purl.obolibrary.org/obo/UBERON_0002199) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "in FMA intergument = skin+superficial fascia(hypodermis), skin=dermis+epidermis+hair_nail. Note that the definition provided here excludes the more general sense of the term 'integument' used in invertebrates; consider 'integumental system'. Note that the VSAO class appears to include adnexa by its definition." - -- [integument](http://purl.obolibrary.org/obo/UBERON_0002199) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The outer protective barrier that separates the animal from its aquatic environment. Le Guellec et al, 2004.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000368" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### integumental system `http://purl.obolibrary.org/obo/UBERON_0002416` -#### Removed -- [integumental system](http://purl.obolibrary.org/obo/UBERON_0002416) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004969" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [integumental system](http://purl.obolibrary.org/obo/UBERON_0002416) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) the integument of many tetrapods is reinforced by a morphologically and structurally diverse assemblage of skeletal elements. These elements are widely understood to be derivatives of the once all-encompassing dermal skeleton of stem-gnathostomes (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000403" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1469-7580.2008.01043.x Vickaryous MK, Sire JY, The integumentary skeleton of tetrapods: origin, evolution, and development. J Anat (2009)" - - - -### integumentary adnexa `http://purl.obolibrary.org/obo/UBERON_0006003` -#### Removed -- [integumentary adnexa](http://purl.obolibrary.org/obo/UBERON_0006003) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "the tissue or structures associated with or embedded in the skin such as hair and hair follicles, sweat glands, sebaceous glands and claws or nails[MP:0010678]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0010678" - - - -### interaction relation helper property `http://purl.obolibrary.org/obo/RO_0002563` -#### Removed -- [interaction relation helper property](http://purl.obolibrary.org/obo/RO_0002563) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### interacts with `http://purl.obolibrary.org/obo/RO_0002434` -#### Removed -- [interacts with](http://purl.obolibrary.org/obo/RO_0002434) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [interacts with](http://purl.obolibrary.org/obo/RO_0002434) [closeMatch](http://www.w3.org/2004/02/skos/core#closeMatch) "http://purl.obolibrary.org/obo/MI_0914"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - -- [interacts with](http://purl.obolibrary.org/obo/RO_0002434) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Note that this relationship type, and sub-relationship types may be redundant with process terms from other ontologies. For example, the symbiotic relationship hierarchy parallels GO. The relations are provided as a convenient shortcut. Consider using the more expressive processual form to capture your data. In the future, these relations will be linked to their cognate processes through rules." - - - -### interalveolar septum `http://purl.obolibrary.org/obo/UBERON_0004893` - -#### Added -- [interalveolar septum](http://purl.obolibrary.org/obo/UBERON_0004893) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### interatrial septum `http://purl.obolibrary.org/obo/UBERON_0002085` -#### Removed -- [interatrial septum](http://purl.obolibrary.org/obo/UBERON_0002085) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The partition separating the right and left atria of the heart. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/interatrial+septum" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000385" - -- [interatrial septum](http://purl.obolibrary.org/obo/UBERON_0002085) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The tetrapod clade develops a complete atrial septum and loses the fifth aortic arch altogether.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000385" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620" - - - -### intercarpal joint `http://purl.obolibrary.org/obo/UBERON_0011132` -#### Removed -- [intercarpal joint](http://purl.obolibrary.org/obo/UBERON_0011132) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D050824" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -- [intercarpal joint](http://purl.obolibrary.org/obo/UBERON_0011132) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [carpal bone](http://purl.obolibrary.org/obo/UBERON_0001435) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "two adjacent carpals" - -#### Added -- [intercarpal joint](http://purl.obolibrary.org/obo/UBERON_0011132) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [carpal bone](http://purl.obolibrary.org/obo/UBERON_0001435) - - -### interleukin-1 receptor-like 1 `http://purl.obolibrary.org/obo/PR_000008994` -#### Removed -- [interleukin-1 receptor-like 1](http://purl.obolibrary.org/obo/PR_000008994) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [interleukin-1 receptor-like 1 (human)](http://purl.obolibrary.org/obo/PR_Q01638) - - - -### interleukin-17 receptor B `http://purl.obolibrary.org/obo/PR_000008982` -#### Removed -- [interleukin-17 receptor B](http://purl.obolibrary.org/obo/PR_000008982) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [interleukin-17 receptor B (human)](http://purl.obolibrary.org/obo/PR_Q9NRM6) - - - -### interleukin-2 receptor subunit alpha `http://purl.obolibrary.org/obo/PR_000001380` -#### Removed -- [interleukin-2 receptor subunit alpha](http://purl.obolibrary.org/obo/PR_000001380) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [interleukin-2 receptor subunit alpha (human)](http://purl.obolibrary.org/obo/PR_P01589) - - - -### interleukin-2 receptor subunit beta `http://purl.obolibrary.org/obo/PR_000001381` -#### Removed -- [interleukin-2 receptor subunit beta](http://purl.obolibrary.org/obo/PR_000001381) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [interleukin-2 receptor subunit beta (human)](http://purl.obolibrary.org/obo/PR_P14784) - - - -### interleukin-5 receptor subunit alpha `http://purl.obolibrary.org/obo/PR_000001867` -#### Removed -- [interleukin-5 receptor subunit alpha](http://purl.obolibrary.org/obo/PR_000001867) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [interleukin-5 receptor subunit alpha (human)](http://purl.obolibrary.org/obo/PR_Q01344) - - - -### interleukin-7 receptor subunit alpha `http://purl.obolibrary.org/obo/PR_000001869` -#### Removed -- [interleukin-7 receptor subunit alpha](http://purl.obolibrary.org/obo/PR_000001869) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [interleukin-7 receptor subunit alpha (human)](http://purl.obolibrary.org/obo/PR_P16871) - - - -### interlobar artery `http://purl.obolibrary.org/obo/UBERON_0009885` -#### Removed -- [interlobar artery](http://purl.obolibrary.org/obo/UBERON_0009885) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA only has the set term" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### interlobar vein `http://purl.obolibrary.org/obo/UBERON_0009887` -#### Removed -- [interlobar vein](http://purl.obolibrary.org/obo/UBERON_0009887) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA only has the set term" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### intermaxillary process `http://purl.obolibrary.org/obo/UBERON_0009714` -#### Removed -- [intermaxillary process](http://purl.obolibrary.org/obo/UBERON_0009714) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [lateral nasal prominence](http://purl.obolibrary.org/obo/UBERON_0004067) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "inconsistent" - -#### Added -- [intermaxillary process](http://purl.obolibrary.org/obo/UBERON_0009714) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [lateral nasal prominence](http://purl.obolibrary.org/obo/UBERON_0004067) - - -### intermediate hypothalamic region `http://purl.obolibrary.org/obo/UBERON_0002555` -#### Removed -- [intermediate hypothalamic region](http://purl.obolibrary.org/obo/UBERON_0002555) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans it contains the following nuclei: dorsal nucleus [TA] (nucleus dorsalis hypothalami [TA]), parts of the dorsomedial nucleus [TA] (nucleus dorsomedialis [TA]), arcuate nucleus [TA] (nucleus arcuatus [TA]), posterior periventricular nucleus [TA] (nucleus periventricularis posterior [TA]), retrochiasmatic area [TA] (area retrochiasmatica [TA]), lateral tuberal nuclei [TA] (nuclei tuberales laterales [TA]), and ventromedial nucleus [TA] (nucleus ventromedialis hypothalami" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TA" - -- [intermediate hypothalamic region](http://purl.obolibrary.org/obo/UBERON_0002555) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "See notes for pars intermedia of adenohypophysis." - -- [intermediate hypothalamic region](http://purl.obolibrary.org/obo/UBERON_0002555) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Brain structure that lies perpendicular to the longitudinal axis of the embryonic neural tube, is continuous with the rostral hypothalamic proliferation and whose most lateral extent is deflected dorsally within the inferior lobe.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:ZDB-PUB-081114-19" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:ZDB-PUB-001018-1" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:ZDB-PUB-020730-6" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0006000" - - - -### intermediate layer of tympanic membrane `http://purl.obolibrary.org/obo/UBERON_0010070` -#### Removed -- [intermediate layer of tympanic membrane](http://purl.obolibrary.org/obo/UBERON_0010070) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "check MA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - - - -### intermediate mesoderm `http://purl.obolibrary.org/obo/UBERON_0003064` -#### Removed -- [intermediate mesoderm](http://purl.obolibrary.org/obo/UBERON_0003064) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Mesoderm between somite and lateral plate. Traditionally thought to give rise to the urogenital system.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010575" - -- [intermediate mesoderm](http://purl.obolibrary.org/obo/UBERON_0003064) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "all AOs differ in the relationship between this structure and the mesoderm; in ZFA it is a subclass (and this is implied by the GO definition and GO relationships), in AAO it is part of, and in EHDAA2 it develops from the mesoderm (but in EHDAA2 the naming convention is to use 'paraxial mesenchyme', rather than 'paraxial mesoderm')." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" - -- [intermediate mesoderm](http://purl.obolibrary.org/obo/UBERON_0003064) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...)the mesoderm of a developing vertebrate transitionally differentiates into the following sub-types: Chordamesoderm (also known as axial mesoderm) which later on gives rise to notochord in all chordates, Paraxial mesoderm, Intermediate mesoderm, Lateral plate mesoderm (reference 1); The mesoderm is present in Bilateria, therefore they are sometimes called triploblasts. Ectoderm and endoderm are usually organized as epithelial layers, while mesoderm can be epithelial or a compact, three-dimensional tissue.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000087" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Mesoderm, ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.43" - - - -### intermetacarpal joint `http://purl.obolibrary.org/obo/UBERON_0011131` -#### Removed -- [intermetacarpal joint](http://purl.obolibrary.org/obo/UBERON_0011131) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [metacarpal bone](http://purl.obolibrary.org/obo/UBERON_0002374) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "two adjacent metacarpals" - -#### Added -- [intermetacarpal joint](http://purl.obolibrary.org/obo/UBERON_0011131) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [metacarpal bone](http://purl.obolibrary.org/obo/UBERON_0002374) - - -### intermetatarsal joint `http://purl.obolibrary.org/obo/UBERON_0011133` -#### Removed -- [intermetatarsal joint](http://purl.obolibrary.org/obo/UBERON_0011133) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans: The base of the first metatarsal is not connected with that of the second by any ligaments; in this respect the great toe resembles the thumb" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" - -- [intermetatarsal joint](http://purl.obolibrary.org/obo/UBERON_0011133) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [metatarsal bone](http://purl.obolibrary.org/obo/UBERON_0001448) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "two adjacent metatarsals" - -#### Added -- [intermetatarsal joint](http://purl.obolibrary.org/obo/UBERON_0011133) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [metatarsal bone](http://purl.obolibrary.org/obo/UBERON_0001448) - - -### internal carotid artery `http://purl.obolibrary.org/obo/UBERON_0001532` -#### Removed -- [internal carotid artery](http://purl.obolibrary.org/obo/UBERON_0001532) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of the major arteries of the head, it is the as the cranial continuation of the aortic arches and the dorsal aorta. It curves ventrally before resuming a dorsal course as it enters the head proper, and it lies ventral to the internal jugular vein. The internal carotid artery gives off palatine, ophthalmic, and cerebral branches by stage NF stage 41.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0011054" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:12606281" - -- [internal carotid artery](http://purl.obolibrary.org/obo/UBERON_0001532) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Each of two arteries starting at the bifurcation of the common carotid arteries through which blood circulates to many structures and organs in the head. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000267" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/Internal+carotid+artery" - - - -### internal ear `http://purl.obolibrary.org/obo/UBERON_0001846` -#### Removed -- [internal ear](http://purl.obolibrary.org/obo/UBERON_0001846) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The auditory (hearing) and vestibular (balance) organ of the fish, equivalent to the inner ear of amniotes. (See Anatomical Atlas entry for ear by T. Whitfield.)[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000217" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [internal ear](http://purl.obolibrary.org/obo/UBERON_0001846) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The labyrinth, or inner ear, evolved very early in vertebrate history and, with many variations in configuration but none of basic design and function, has been retained by all vertebrates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000284" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0471090588 Hildebrand M, Analysis of vertebrate structure (1983) p.366" - -- [internal ear](http://purl.obolibrary.org/obo/UBERON_0001846) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [ear vesicle](http://purl.obolibrary.org/obo/UBERON_0003051) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [internal ear](http://purl.obolibrary.org/obo/UBERON_0001846) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - -- [internal ear](http://purl.obolibrary.org/obo/UBERON_0001846) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [ear vesicle](http://purl.obolibrary.org/obo/UBERON_0003051) - - -### internal jugular vein `http://purl.obolibrary.org/obo/UBERON_0001586` -#### Removed -- [internal jugular vein](http://purl.obolibrary.org/obo/UBERON_0001586) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Vein which receives many veins draining the palate, brain, and the orbital, nasal, and auditory regions.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010236" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - - -### internal naris `http://purl.obolibrary.org/obo/UBERON_0010425` -#### Removed -- [internal naris](http://purl.obolibrary.org/obo/UBERON_0010425) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_76585](http://purl.obolibrary.org/obo/FMA_76585) - -- [internal naris](http://purl.obolibrary.org/obo/UBERON_0010425) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans the only internal naris is the posterior nasal aperture, which connects to the nasopharynx" - -- [internal naris](http://purl.obolibrary.org/obo/UBERON_0010425) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "choanal" - - - -### internal pudendal vein `http://purl.obolibrary.org/obo/UBERON_0018252` -#### Removed -- [internal pudendal vein](http://purl.obolibrary.org/obo/UBERON_0018252) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, they begin in the deep veins of the penis which issue from the corpus cavernosum penis, accompany the internal pudendal artery, and unite to form a single vessel, which ends in the internal iliac vein. They receive the veins from the urethral bulb, and the perineal and inferior hemorrhoidal veins" - - - -### internal thoracic artery `http://purl.obolibrary.org/obo/UBERON_0002456` -#### Removed -- [internal thoracic artery](http://purl.obolibrary.org/obo/UBERON_0002456) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MA has both mammary and thoracic" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - - - -### internal urethral orifice `http://purl.obolibrary.org/obo/UBERON_0012242` - -#### Added -- [internal urethral orifice](http://purl.obolibrary.org/obo/UBERON_0012242) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### internodal tract `http://purl.obolibrary.org/obo/UBERON_0009966` -#### Removed -- [internodal tract](http://purl.obolibrary.org/obo/UBERON_0009966) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "evidence is sparse [http://www.gpnotebook.co.uk/simplepage.cfm?ID=-483065798] There is some functional evidence for the existence of specialized conducting pathways within the atria (termed internodal tracts), although this is controversial" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://www.cvphysiology.com/Arrhythmias/A003.htm" - - - -### interphalangeal joint `http://purl.obolibrary.org/obo/UBERON_0006658` -#### Removed -- [interphalangeal joint](http://purl.obolibrary.org/obo/UBERON_0006658) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Hinge joints between the phalanges of the hand or foot[ncithesaurus:Interphalangeal_Joint]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ncithesaurus:Interphalangeal_Joint" - -- [interphalangeal joint](http://purl.obolibrary.org/obo/UBERON_0006658) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [phalanx](http://purl.obolibrary.org/obo/UBERON_0003221) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "two phalanges in series" - -#### Added -- [interphalangeal joint](http://purl.obolibrary.org/obo/UBERON_0006658) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [phalanx](http://purl.obolibrary.org/obo/UBERON_0003221) - - -### interphalangeal joint of manus `http://purl.obolibrary.org/obo/UBERON_0007722` -#### Removed -- [interphalangeal joint of manus](http://purl.obolibrary.org/obo/UBERON_0007722) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [phalanx of manus](http://purl.obolibrary.org/obo/UBERON_0001436) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "two in series" - -#### Added -- [interphalangeal joint of manus](http://purl.obolibrary.org/obo/UBERON_0007722) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [phalanx of manus](http://purl.obolibrary.org/obo/UBERON_0001436) - - -### interphalangeal joint of pes `http://purl.obolibrary.org/obo/UBERON_0007721` -#### Removed -- [interphalangeal joint of pes](http://purl.obolibrary.org/obo/UBERON_0007721) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [phalanx of pes](http://purl.obolibrary.org/obo/UBERON_0001449) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "two in series" - -#### Added -- [interphalangeal joint of pes](http://purl.obolibrary.org/obo/UBERON_0007721) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [phalanx of pes](http://purl.obolibrary.org/obo/UBERON_0001449) - - -### intersects midsagittal plane of `http://purl.obolibrary.org/obo/BSPO_0005001` -#### Removed -- [intersects midsagittal plane of](http://purl.obolibrary.org/obo/BSPO_0005001) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [intersects midsagittal plane of](http://purl.obolibrary.org/obo/BSPO_0005001) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0005001" - -- [intersects midsagittal plane of](http://purl.obolibrary.org/obo/BSPO_0005001) [id](http://www.geneontology.org/formats/oboInOwl#id) "intersects_midsagittal_plane_of" - -- [intersects midsagittal plane of](http://purl.obolibrary.org/obo/BSPO_0005001) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "intersects_midsagittal_plane_of" - -- [intersects midsagittal plane of](http://purl.obolibrary.org/obo/BSPO_0005001) [label](http://www.w3.org/2000/01/rdf-schema#label) "intersects midsagittal plane of" - - - -### intersomitic artery `http://purl.obolibrary.org/obo/UBERON_0002457` -#### Removed -- [intersomitic artery](http://purl.obolibrary.org/obo/UBERON_0002457) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Arteries that connect the dorsal aorta and the dorsal longitudinal anastomotic vessel. They run along the vertical myotomal boundaries. At early stages these vessels don't have venous or arteriproperty_value external_definitionmarkers. They form from the primary sprouts from the dorsal aorta[ZFA:0001061]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA:0001061" - -- [intersomitic artery](http://purl.obolibrary.org/obo/UBERON_0002457) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Few changes of evolutionary significance occur in the branching pattern of the dorsal aorta. All vertebrates have (...) paired intersegmental arteries to the trunk, tail, and paired appendages.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.612" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000225" - - - -### intersomitic vessel `http://purl.obolibrary.org/obo/UBERON_0014907` -#### Removed -- [intersomitic vessel](http://purl.obolibrary.org/obo/UBERON_0014907) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Blood vessels that connect the dorsal aorta or the posterior cardinal vein and the dorsal longitudinal anastomotic vessel. They run along the vertical myotomal boundaries. At early stages these don't have venous or arterial markers[ZFA:0001285, ZFIN:ZDB-PUB-030908-4]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA:0001285, ZFIN:ZDB-PUB-030908-4" - -- [intersomitic vessel](http://purl.obolibrary.org/obo/UBERON_0014907) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - - -### interstitial fluid `http://purl.obolibrary.org/obo/UBERON_0000913` -#### Removed -- [interstitial fluid](http://purl.obolibrary.org/obo/UBERON_0000913) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [blood plasma](http://purl.obolibrary.org/obo/UBERON_0001969) - - - -### interstitial tissue `http://purl.obolibrary.org/obo/UBERON_0005169` -#### Removed -- [interstitial tissue](http://purl.obolibrary.org/obo/UBERON_0005169) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "interstital" - - - -### intertarsal joint `http://purl.obolibrary.org/obo/UBERON_0008447` -#### Removed -- [intertarsal joint](http://purl.obolibrary.org/obo/UBERON_0008447) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [tarsal bone](http://purl.obolibrary.org/obo/UBERON_0001447) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "two adjacent tarsals" - -#### Added -- [intertarsal joint](http://purl.obolibrary.org/obo/UBERON_0008447) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [tarsal bone](http://purl.obolibrary.org/obo/UBERON_0001447) - - -### intertarsal sesamoid `http://purl.obolibrary.org/obo/UBERON_0017261` - -#### Added -- [intertarsal sesamoid](http://purl.obolibrary.org/obo/UBERON_0017261) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### interventricular septum `http://purl.obolibrary.org/obo/UBERON_0002094` -#### Removed -- [interventricular septum](http://purl.obolibrary.org/obo/UBERON_0002094) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The partition separating the right and left ventricles of the heart. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/interventricular+septum" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000386" - -- [interventricular septum](http://purl.obolibrary.org/obo/UBERON_0002094) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "involves the recruitment of myocardial cells as well as of non- muscular mesenchymal cells (Kaufman and Bard, 1999)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0124020607" - -- [interventricular septum](http://purl.obolibrary.org/obo/UBERON_0002094) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The two most progressive vertebrate classes, the birds and mammals, have completed the ventricular septum and at long last have completely separated the two blood streams along the length of the major heart chambers. This development has obviously been brought about independently in the two cases, since mammals and birds have evolved independently from primitive reptiles.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0721676678 Romer AS, Vertebrate body (1970) p.430" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000386" - - - -### interventricular septum membranous part `http://purl.obolibrary.org/obo/UBERON_0004666` -#### Removed -- [interventricular septum membranous part](http://purl.obolibrary.org/obo/UBERON_0004666) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The membranous septum is the upper part of ventricular septum[GO:0003149]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO:0003149" - -#### Added -- [interventricular septum membranous part](http://purl.obolibrary.org/obo/UBERON_0004666) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### interventricular septum muscular part `http://purl.obolibrary.org/obo/UBERON_0004667` -#### Removed -- [interventricular septum muscular part](http://purl.obolibrary.org/obo/UBERON_0004667) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The muscular septum is the lower part of the ventricular septum[GO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO:0003150" - - - -### intervertebral cartilage `http://purl.obolibrary.org/obo/UBERON_0011135` -#### Removed -- [intervertebral cartilage](http://purl.obolibrary.org/obo/UBERON_0011135) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Block of cartilage, which usually ossifies, that lies between successive vertebral centra.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000795" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:Trueb_1973" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [intervertebral cartilage](http://purl.obolibrary.org/obo/UBERON_0011135) SubClassOf [adjacent to](http://purl.obolibrary.org/obo/RO_0002220) some [bony vertebral centrum](http://purl.obolibrary.org/obo/UBERON_0001075) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "between two centra" - -#### Added -- [intervertebral cartilage](http://purl.obolibrary.org/obo/UBERON_0011135) SubClassOf [adjacent to](http://purl.obolibrary.org/obo/RO_0002220) some [bony vertebral centrum](http://purl.obolibrary.org/obo/UBERON_0001075) - - -### intervertebral disk `http://purl.obolibrary.org/obo/UBERON_0001066` -#### Removed -- [intervertebral disk](http://purl.obolibrary.org/obo/UBERON_0001066) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "strictly speaking the term intervertebral disk [applies to intervertebral cartilage]" - - - -### intervertebral joint `http://purl.obolibrary.org/obo/UBERON_0001468` -#### Removed -- [intervertebral joint](http://purl.obolibrary.org/obo/UBERON_0001468) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA has 'intervertebral joint' as a GAT, and has two distinct classes 'intervertebral symphysis' and 'intervertebral syndesmosis', but note that the latter do not connect the centra" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [intervertebral joint](http://purl.obolibrary.org/obo/UBERON_0001468) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [bony vertebral centrum](http://purl.obolibrary.org/obo/UBERON_0001075) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "connects successive pairs of centra" - -#### Added -- [intervertebral joint](http://purl.obolibrary.org/obo/UBERON_0001468) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [bony vertebral centrum](http://purl.obolibrary.org/obo/UBERON_0001075) - - -### intestinal epithelium `http://purl.obolibrary.org/obo/UBERON_0001277` -#### Removed -- [intestinal epithelium](http://purl.obolibrary.org/obo/UBERON_0001277) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Simple columnar epithelium that lines the intestine, sometimes pseudostratified, with absorptive brush-border cells and mucous goblet cells clearly visible. Crosnier et al. 2005[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005124" - - - -### intestinal gland `http://purl.obolibrary.org/obo/UBERON_0000333` -#### Removed -- [intestinal gland](http://purl.obolibrary.org/obo/UBERON_0000333) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Note that some sources treat 'intestinal gland' as synonymous with crypts" - - - -### intestinal villus `http://purl.obolibrary.org/obo/UBERON_0001213` -#### Removed -- [intestinal villus](http://purl.obolibrary.org/obo/UBERON_0001213) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The entire digestive tract is lined by well developed villi, which are longest in the intestinal bulb and decrease progressively in size towards the caudal end of the intestine. No crypts are present, but, the regions between the villi, the intervillus pockets, have a crypt-like function. Cells are produced in the intervillus pockets and shed from the villus tips. Crosnier et al. 2005[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005125" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [intestinal villus](http://purl.obolibrary.org/obo/UBERON_0001213) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "the BTO class refers to a generic villous" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "BTO" - - - -### intestine `http://purl.obolibrary.org/obo/UBERON_0000160` -#### Removed -- [intestine](http://purl.obolibrary.org/obo/UBERON_0000160) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The tract of the alimentary canal. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000056" - -- [intestine](http://purl.obolibrary.org/obo/UBERON_0000160) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of the alimentary canal bounded anteriorly by the pyloric sphincter and posteriorly by the cloacal sphincter.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000246" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [intestine](http://purl.obolibrary.org/obo/UBERON_0000160) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "intestinal" - -- [intestine](http://purl.obolibrary.org/obo/UBERON_0000160) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In zebrafish, No stomach, small intestine, or large intestine can be distinguished. However, differences can be found in the morphology of the mucosa columnar epithelial cells and the number of goblet cells, suggesting functional differentiation. The intestine has numerous folds that become progressively shorter in a rostral-to-caudal direction. Proportionally, these folds are significantly larger than the finger-like intestinal villi of mammals and other amniotes (Wallace et al. 2005). Columnar-shaped absorptive enterocytes are the most numerous in the zebrafish intestinal epithelium. Goblet cells are the second most populous epithelial cell type." - - - -### intestine smooth muscle `http://purl.obolibrary.org/obo/UBERON_0004221` -#### Removed -- [intestine smooth muscle](http://purl.obolibrary.org/obo/UBERON_0004221) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MA class may specifically mean muscle layer, but we treat as the sum of smooth muscle in both muscle layer and muscularis mucosa" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - -- [intestine smooth muscle](http://purl.obolibrary.org/obo/UBERON_0004221) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [muscle layer of intestine](http://purl.obolibrary.org/obo/UBERON_0012367) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "consider merging" - -#### Added -- [intestine smooth muscle](http://purl.obolibrary.org/obo/UBERON_0004221) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [muscle layer of intestine](http://purl.obolibrary.org/obo/UBERON_0012367) - - -### intra-ocular muscle `http://purl.obolibrary.org/obo/UBERON_0011222` -#### Removed -- [intra-ocular muscle](http://purl.obolibrary.org/obo/UBERON_0011222) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Muscles within the eye (bulbus oculi).[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010038" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -#### Added -- [intra-ocular muscle](http://purl.obolibrary.org/obo/UBERON_0011222) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### intraembryonic coelom `http://purl.obolibrary.org/obo/UBERON_0003887` -#### Removed -- [intraembryonic coelom](http://purl.obolibrary.org/obo/UBERON_0003887) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) I regard it unlikely that coeloms of all bilaterian animals are comparable and evolved very early. Considering all these questions, few convincing characters concerning the evolution of body cavities remain to be named. (...) A segmental coelom appears to have evolved at least two times, in Annelida and in Myomerata (Acrania and Craniota).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.166" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000316" - - - -### intrahepatic bile duct `http://purl.obolibrary.org/obo/UBERON_0003704` -#### Removed -- [intrahepatic bile duct](http://purl.obolibrary.org/obo/UBERON_0003704) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Duct that collects bile from the bile ductules and connects to the extrahepatic bile duct.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005169" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### intramembranous bone `http://purl.obolibrary.org/obo/UBERON_0002514` -#### Removed -- [intramembranous bone](http://purl.obolibrary.org/obo/UBERON_0002514) [UBPROP_0000005](http://purl.obolibrary.org/obo/UBPROP_0000005) "[In TAO], This term was made obsolete because it is considered a synonym of membrane bone (VSAO:0000023).[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-06" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001644" - -- [intramembranous bone](http://purl.obolibrary.org/obo/UBERON_0002514) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Bone that forms directly within mesenchyme, and does not replace other tissues.[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001644" - - - -### intramembranous bone tissue `http://purl.obolibrary.org/obo/UBERON_0004764` -#### Removed -- [intramembranous bone tissue](http://purl.obolibrary.org/obo/UBERON_0004764) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "note the distinction between intramembranous bone and intramembranous bone tissue. Some bones may be a mixture of both tissue types. The MA class most likely refers to a tissue type (it is under bone tissue and connective tissue; there are no child classes)" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - - - -### intrinsic muscle of tongue `http://purl.obolibrary.org/obo/UBERON_0001576` -#### Removed -- [intrinsic muscle of tongue](http://purl.obolibrary.org/obo/UBERON_0001576) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The intrinsic tongue muscles are an integral part of the tongue that are innervated by Cranial Nerve XII.[FEED]" - - [url](http://www.geneontology.org/formats/oboInOwl#url) "http://www.feedexp.org" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "FEED" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-07-02" - -- [intrinsic muscle of tongue](http://purl.obolibrary.org/obo/UBERON_0001576) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The lamprey head contains another group of muscles, the epi- and hypo-branchial muscles (EBM and HBM), derivatives of anterior trunk myotomes. (...) The origin and the migration pattern of HBM precursors are very similar to that of the gnathostome MPP, especially to that of the tongue muscle precursors. Other evidence of homology of lamprey HBM to the gnathostome tongue muscle is that HBM is innervated by the nerve termed the hypoglossal nerve based on its morphological position associated with the head/trunk interface. (...) The HBM-specific expression of the LampPax3/7 gene is consistent with the homology of this muscle to the gnathostome tongue muscle, or to the hypobranchial series as a whole (including the infrahyoid and possibly the diaphragm in mammals).[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000748" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1002/dvdy.20587 Kusakabe R, Kuratani S, Evolution and developmental patterning of the vertebrate skeletal muscles: perspectives from the lamprey. Developmental Dynamics (2005)" - -- [intrinsic muscle of tongue](http://purl.obolibrary.org/obo/UBERON_0001576) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "The main function of the intrinsic muscles is to provide shape. They are not involved with changing the position of the tongue and are not attached to bone" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" - - - -### intromittent organ `http://purl.obolibrary.org/obo/UBERON_0008811` -#### Removed -- [intromittent organ](http://purl.obolibrary.org/obo/UBERON_0008811) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Surface structure that is an external structure of a male organism through which sperm is transferred to a female organism during mating.[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002036" - -- [intromittent organ](http://purl.obolibrary.org/obo/UBERON_0008811) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this is a broad grouping class connecting a number of different analagous organs by their function. We place the insect aedeagus here rather than penis, although this is somewhat arbitrary given the broadness of the current definition" - -- [intromittent organ](http://purl.obolibrary.org/obo/UBERON_0008811) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004850" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - -### involved in `http://purl.obolibrary.org/obo/RO_0002331` -#### Removed -- [involved in](http://purl.obolibrary.org/obo/RO_0002331) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "actively involved in" - -- [involved in](http://purl.obolibrary.org/obo/RO_0002331) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "enables part of" - -- [involved in](http://purl.obolibrary.org/obo/RO_0002331) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### involved in negative regulation of `http://purl.obolibrary.org/obo/RO_0002430` -#### Removed -- [involved in negative regulation of](http://purl.obolibrary.org/obo/RO_0002430) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### involved in or involved in regulation of `http://purl.obolibrary.org/obo/RO_0002431` -#### Removed -- [involved in or involved in regulation of](http://purl.obolibrary.org/obo/RO_0002431) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [involved in or involved in regulation of](http://purl.obolibrary.org/obo/RO_0002431) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "involved in or reguates" - - - -### involved in positive regulation of `http://purl.obolibrary.org/obo/RO_0002429` -#### Removed -- [involved in positive regulation of](http://purl.obolibrary.org/obo/RO_0002429) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [involved in positive regulation of](http://purl.obolibrary.org/obo/RO_0002429) [RO_0004049](http://purl.obolibrary.org/obo/RO_0004049) [involved in regulation of](http://purl.obolibrary.org/obo/RO_0002428) - - - -### involved in regulation of `http://purl.obolibrary.org/obo/RO_0002428` -#### Removed -- [involved in regulation of](http://purl.obolibrary.org/obo/RO_0002428) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### iris `http://purl.obolibrary.org/obo/UBERON_0001769` -#### Removed -- [iris](http://purl.obolibrary.org/obo/UBERON_0001769) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The opaque muscular contractile diaphragm suspended in the aqueous humour in front of the lens of the eye. The organ is perforated by the pupil and continues peripherally with the ciliary body. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000101" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - -- [iris](http://purl.obolibrary.org/obo/UBERON_0001769) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The avian iris and ciliary body undergoes a transition from smooth-to-striated muscle during embryonic development [DOI:dx.doi.org/10.1006/dbio.1998.9019]" - -- [iris](http://purl.obolibrary.org/obo/UBERON_0001769) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007)" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000101" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - -- [iris](http://purl.obolibrary.org/obo/UBERON_0001769) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "iridial" - - - -### iris blood vessel `http://purl.obolibrary.org/obo/UBERON_0003511` -#### Removed -- [iris blood vessel](http://purl.obolibrary.org/obo/UBERON_0003511) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005568" - -#### Added -- [iris blood vessel](http://purl.obolibrary.org/obo/UBERON_0003511) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### iris stroma `http://purl.obolibrary.org/obo/UBERON_0001779` - -#### Added -- [iris stroma](http://purl.obolibrary.org/obo/UBERON_0001779) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### is a defining property chain axiom `http://purl.obolibrary.org/obo/RO_0002581` -#### Removed -- [is a defining property chain axiom](http://purl.obolibrary.org/obo/RO_0002581) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "If R <- P o Q is a defining property chain axiom, then it also holds that R -> P o Q. Note that this cannot be expressed directly in OWL" - -- [is a defining property chain axiom](http://purl.obolibrary.org/obo/RO_0002581) [label](http://www.w3.org/2000/01/rdf-schema#label) "is a defining property chain axiom" - -- AnnotationProperty: [is a defining property chain axiom](http://purl.obolibrary.org/obo/RO_0002581) - - - -### is a defining property chain axiom where second argument is reflexive `http://purl.obolibrary.org/obo/RO_0002582` -#### Removed -- [is a defining property chain axiom where second argument is reflexive](http://purl.obolibrary.org/obo/RO_0002582) [label](http://www.w3.org/2000/01/rdf-schema#label) "is a defining property chain axiom where second argument is reflexive" - -- [is a defining property chain axiom where second argument is reflexive](http://purl.obolibrary.org/obo/RO_0002582) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "If R <- P o Q is a defining property chain axiom, then (1) R -> P o Q holds and (2) Q is either reflexive or locally reflexive. A corollary of this is that P SubPropertyOf R." - -- AnnotationProperty: [is a defining property chain axiom where second argument is reflexive](http://purl.obolibrary.org/obo/RO_0002582) - - - -### is active in `http://purl.obolibrary.org/obo/RO_0002432` -#### Removed -- [is active in](http://purl.obolibrary.org/obo/RO_0002432) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "executes activity in" - -- [is active in](http://purl.obolibrary.org/obo/RO_0002432) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "A protein that enables activity in a cytosol." - -- [is active in](http://purl.obolibrary.org/obo/RO_0002432) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [enables](http://purl.obolibrary.org/obo/RO_0002327) o [occurs in](http://purl.obolibrary.org/obo/BFO_0000066) SubPropertyOf: [is active in](http://purl.obolibrary.org/obo/RO_0002432) - - [is a defining property chain axiom](http://purl.obolibrary.org/obo/RO_0002581) true - - - -### is kinase activity `http://purl.obolibrary.org/obo/RO_0002481` -#### Removed -- [is kinase activity](http://purl.obolibrary.org/obo/RO_0002481) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - - -### isRuleEnabled `http://swrl.stanford.edu/ontologies/3.3/swrla.owl#isRuleEnabled` -#### Removed -- AnnotationProperty: [isRuleEnabled](http://swrl.stanford.edu/ontologies/3.3/swrla.owl#isRuleEnabled) - - - -### is_class_level `http://www.geneontology.org/formats/oboInOwl#is_class_level` -#### Removed -- AnnotationProperty: [is_class_level](http://www.geneontology.org/formats/oboInOwl#is_class_level) - - - -### is_entailed `http://www.geneontology.org/formats/oboInOwl#is_entailed` -#### Removed -- AnnotationProperty: [is_entailed](http://www.geneontology.org/formats/oboInOwl#is_entailed) - - - -### is_redundant `http://www.geneontology.org/formats/oboInOwl#is_redundant` -#### Removed -- AnnotationProperty: [is_redundant](http://www.geneontology.org/formats/oboInOwl#is_redundant) - - - -### ischial endochondral element `http://purl.obolibrary.org/obo/UBERON_0015056` - -#### Added -- [ischial endochondral element](http://purl.obolibrary.org/obo/UBERON_0015056) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### ischial pre-cartilage condensation `http://purl.obolibrary.org/obo/UBERON_0006255` - -#### Added -- [ischial pre-cartilage condensation](http://purl.obolibrary.org/obo/UBERON_0006255) SubClassOf [mesenchyme from somatopleure](http://purl.obolibrary.org/obo/UBERON_0010377) - - -### ischium `http://purl.obolibrary.org/obo/UBERON_0001274` -#### Removed -- [ischium](http://purl.obolibrary.org/obo/UBERON_0001274) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "this is_a hip bone in MA; in FMA it is a zone of bone organ." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - -- [ischium](http://purl.obolibrary.org/obo/UBERON_0001274) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Paired bones of endochondral origin that constitute the posterior elements of the pelvic girdle. They are synostotically fused to each other and form the posterior part of the acetabulum.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000860" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [ischium](http://purl.obolibrary.org/obo/UBERON_0001274) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "ischial" - - - -### island of Calleja `http://purl.obolibrary.org/obo/UBERON_0001881` -#### Removed -- [island of Calleja](http://purl.obolibrary.org/obo/UBERON_0001881) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The islands of Calleja are located within the olfactory tubercle in most species; however, in primates these islands are located within the nucleus accumbens, since the olfactory tubercle is absent or extremely rudimentary in the brains of primates" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0010010" - - - -### islet of Langerhans `http://purl.obolibrary.org/obo/UBERON_0000006` -#### Removed -- [islet of Langerhans](http://purl.obolibrary.org/obo/UBERON_0000006) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_76489](http://purl.obolibrary.org/obo/FMA_76489) - -- [islet of Langerhans](http://purl.obolibrary.org/obo/UBERON_0000006) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical structure which consists of glands developed from pancreatic ducts in the larvae and secrete insulin.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010406" - -- [islet of Langerhans](http://purl.obolibrary.org/obo/UBERON_0000006) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Mammals, birds, reptiles and amphibians have a pancreas with similar histology and mode of development, while in some fish, the islet cells are segregated as Brockmann bodies.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000646" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:7600975 Slack JMW, Developmental biology of the pancreas. Development (1995)" - -- [islet of Langerhans](http://purl.obolibrary.org/obo/UBERON_0000006) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "A primitive exocrine pancreas can be found in holocephalan cartilaginous fish; a pancreatic duct directly ending in the gut lumen is connected to a glandular structure made of exocrine cells and associated with cell islets, which comprises three different hormone-producing cell types: insulin, somatostatin and glucagon (Yui and Fujita, 1986)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:16417468" - -#### Added -- [islet of Langerhans](http://purl.obolibrary.org/obo/UBERON_0000006) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### jaw region `http://purl.obolibrary.org/obo/UBERON_0011595` - -#### Added -- [jaw region](http://purl.obolibrary.org/obo/UBERON_0011595) SubClassOf [structure with developmental contribution from neural crest](http://purl.obolibrary.org/obo/UBERON_0010314) - - -### jaw skeleton `http://purl.obolibrary.org/obo/UBERON_0001708` -#### Removed -- [jaw skeleton](http://purl.obolibrary.org/obo/UBERON_0001708) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "There are cellular contributions from all three embryonic germ layers: pharyngeal mesoderm, endoderm and neural crest that migrates out of the ectoderm (Noden, 1983)." - -- [jaw skeleton](http://purl.obolibrary.org/obo/UBERON_0001708) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Skeletal and cartilage elements of the first pharyngeal arch.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001227" - -- [jaw skeleton](http://purl.obolibrary.org/obo/UBERON_0001708) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA, the jaw is an organism subdivision cluster, and includes mucosal tissue such as the gingiva as parts. It appears to be skeletal in MA (and has teeth as parts). It is reasonable to assume that ZFA and XAO consider the upper and lower jaws to be skeletal elements or clusters. EHDAA2 also considers these clusters. TODO - follow EHDAA2 model. These arbitrary differences in terminology and classification have to be reconciled with the genuine well-known biological differences in the skeletal elements across vertebrates" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [jaw skeleton](http://purl.obolibrary.org/obo/UBERON_0001708) SubClassOf [structure with developmental contribution from neural crest](http://purl.obolibrary.org/obo/UBERON_0010314) - -#### Added -- [jaw skeleton](http://purl.obolibrary.org/obo/UBERON_0001708) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### jejunum `http://purl.obolibrary.org/obo/UBERON_0002115` -#### Removed -- [jejunum](http://purl.obolibrary.org/obo/UBERON_0002115) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The jejunum is the middle section of the small intestine in most higher vertebrates, including mammals, reptiles, and birds. In fish, the divisions of the small intestine are not as clear and the terms middle intestine or mid-gut may be used instead of jejunum.[Wikipedia:Jejunum]" - -- [jejunum](http://purl.obolibrary.org/obo/UBERON_0002115) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The first two fifth of the small intestine beyond the duodenum. It extends from the end of the duodenum to the ileum. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000053" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - -- [jejunum](http://purl.obolibrary.org/obo/UBERON_0002115) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "jejunal" - -- [jejunum](http://purl.obolibrary.org/obo/UBERON_0002115) SubClassOf [subdivision of digestive tract](http://purl.obolibrary.org/obo/UBERON_0004921) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "cjm" - - - [order](http://www.geneontology.org/formats/oboInOwl#order) "3" - -#### Added -- [jejunum](http://purl.obolibrary.org/obo/UBERON_0002115) SubClassOf [subdivision of digestive tract](http://purl.obolibrary.org/obo/UBERON_0004921) - - -### joint connecting upper and lower jaws `http://purl.obolibrary.org/obo/UBERON_0011171` -#### Removed -- [joint connecting upper and lower jaws](http://purl.obolibrary.org/obo/UBERON_0011171) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "NCIT:C32888" - -- [joint connecting upper and lower jaws](http://purl.obolibrary.org/obo/UBERON_0011171) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Some synapsids retained two pairs of jaw joints - quadrate-articular and tempero-mandibular, but this unusual paired condition did not last long" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://evolution.berkeley.edu" - - - -### jugular foramen `http://purl.obolibrary.org/obo/UBERON_0005456` -#### Removed -- [jugular foramen](http://purl.obolibrary.org/obo/UBERON_0005456) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of a pair of openings between the lateral part of the occipital bone and the petrous part of the temporal bones in the skull. The foramen contains the inferior petrosal sinus; the transverse sinus; some meningeal branches of the occipital and ascending pharyngeal arteries; and the glossopharyngeal, vagus, and accessory nerves. [Free_Online_Medical_Dictionary]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001113" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/jugular+foramen" - -- [jugular foramen](http://purl.obolibrary.org/obo/UBERON_0005456) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: subclass braincase and otic capsule opening (AAO:0000051)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000249" - -- [jugular foramen](http://purl.obolibrary.org/obo/UBERON_0005456) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D000080869" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -- [jugular foramen](http://purl.obolibrary.org/obo/UBERON_0005456) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Large foramen that houses the glossopharyngeal and vagus nerves and is located inside the condyloid fossa.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000249" - - - -### kidney `http://purl.obolibrary.org/obo/UBERON_0002113` -#### Removed -- [kidney](http://purl.obolibrary.org/obo/UBERON_0002113) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_264815](http://purl.obolibrary.org/obo/FMA_264815) - -- [kidney](http://purl.obolibrary.org/obo/UBERON_0002113) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [intestine](http://purl.obolibrary.org/obo/UBERON_0000160) - -- [kidney](http://purl.obolibrary.org/obo/UBERON_0002113) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of either of a pair of structures lying on either side of the dorsal aorta in which fluid balance is regulated and waste is excreted out in the form of urine.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000250" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [kidney](http://purl.obolibrary.org/obo/UBERON_0002113) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A paired organ of the urinary tract which has the production of urine as its primary function." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "http://anatomy.uams.edu/anatomyhtml/kidney.html" - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Wikipedia:Kidney" - -- [kidney](http://purl.obolibrary.org/obo/UBERON_0002113) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "NCIT:C12415" - -- [kidney](http://purl.obolibrary.org/obo/UBERON_0002113) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17373" - -- [kidney](http://purl.obolibrary.org/obo/UBERON_0002113) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:7203" - -- [kidney](http://purl.obolibrary.org/obo/UBERON_0002113) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MA:0000368" - -- [kidney](http://purl.obolibrary.org/obo/UBERON_0002113) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EV:0100096" - -- [kidney](http://purl.obolibrary.org/obo/UBERON_0002113) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "renal" - -- [kidney](http://purl.obolibrary.org/obo/UBERON_0002113) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EFO:0000929" - -- [kidney](http://purl.obolibrary.org/obo/UBERON_0002113) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "SCTID:181414000" - -- [kidney](http://purl.obolibrary.org/obo/UBERON_0002113) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [kidney mesenchyme](http://purl.obolibrary.org/obo/UBERON_0003918) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [kidney](http://purl.obolibrary.org/obo/UBERON_0002113) [contributor](http://purl.org/dc/terms/contributor) [0000-0001-7655-4833](https://orcid.org/0000-0001-7655-4833) - -- [kidney](http://purl.obolibrary.org/obo/UBERON_0002113) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A paired organ of the urinary tract that produces urine and maintains bodily fluid homeostasis, blood pressure, pH levels, red blood cell production and skeleton mineralization." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "http://anatomy.uams.edu/anatomyhtml/kidney.html" - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "https://www.kidney.org/kidneydisease/top-5-jobs-kidneys-do" - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:25140012" - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:35003210" - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Wikipedia:Kidney" - -- [kidney](http://purl.obolibrary.org/obo/UBERON_0002113) [contributor](http://purl.org/dc/terms/contributor) [X](https://orcid.org/0000-0003-2804-127X) - -- [kidney](http://purl.obolibrary.org/obo/UBERON_0002113) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [kidney mesenchyme](http://purl.obolibrary.org/obo/UBERON_0003918) - - -### kidney arcuate vein `http://purl.obolibrary.org/obo/UBERON_0004719` -#### Removed -- [kidney arcuate vein](http://purl.obolibrary.org/obo/UBERON_0004719) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_71632](http://purl.obolibrary.org/obo/FMA_71632) - - - -### kidney blood vessel `http://purl.obolibrary.org/obo/UBERON_0003517` -#### Removed -- [kidney blood vessel](http://purl.obolibrary.org/obo/UBERON_0003517) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:28457" - - - -### kidney blood vessel cell `http://purl.obolibrary.org/obo/CL_1000854` -#### Removed -- [kidney blood vessel cell](http://purl.obolibrary.org/obo/CL_1000854) EquivalentTo [kidney medulla cell](http://purl.obolibrary.org/obo/CL_1000504) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [kidney blood vessel](http://purl.obolibrary.org/obo/UBERON_0003517)) - -#### Added -- [kidney blood vessel cell](http://purl.obolibrary.org/obo/CL_1000854) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A blood vessel cell that is part of a kidney." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34843404" - -- [kidney blood vessel cell](http://purl.obolibrary.org/obo/CL_1000854) EquivalentTo [cell](http://purl.obolibrary.org/obo/CL_0000000) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [kidney blood vessel](http://purl.obolibrary.org/obo/UBERON_0003517)) - - -### kidney capsule `http://purl.obolibrary.org/obo/UBERON_0002015` -#### Removed -- [kidney capsule](http://purl.obolibrary.org/obo/UBERON_0002015) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "The renal capsule relates to the other layers in the following order (moving from innermost to outermost): renal medulla renal cortex renal capsule perinephric fat (or 'perirenal fat') renal fascia paranephric fat (or 'pararenal fat') peritoneum (anteriorly), and transversalis fascia (posteriorly).[Wikipedia:Kidney_capsule]" - -- [kidney capsule](http://purl.obolibrary.org/obo/UBERON_0002015) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "provides some protection from trauma and damage." - - - -### kidney collecting duct epithelium `http://purl.obolibrary.org/obo/UBERON_0014388` -#### Removed -- [kidney collecting duct epithelium](http://purl.obolibrary.org/obo/UBERON_0014388) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In mouse, the mature and differentiated CD epithelium comprises two unique cells types with principal cells responsible for vasopressin-regulated water reabsorption, and intercalated cells regulating acid-base homeostasis; injury to the epithelium is believed to cause epithelial cells to acquire mesenchymal characteristics via epithelial-mesenchymal transition (EMT), a process through which tubular epithelial cells may transform into interstitial fibroblasts and promote renal fibrosis" - - - -### kidney cortex interstitial cell `http://purl.obolibrary.org/obo/CL_1000681` - -#### Added -- [kidney cortex interstitial cell](http://purl.obolibrary.org/obo/CL_1000681) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A cell that is part of an interstitial compartment of a renal cortex." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:18575881" - - -### kidney inner medulla interstitial cell `http://purl.obolibrary.org/obo/CL_1000803` - -#### Added -- [kidney inner medulla interstitial cell](http://purl.obolibrary.org/obo/CL_1000803) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A cell that is part of an interstitial compartment of an inner renal medulla." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:21359760" - - -### kidney interstitial fibroblast `http://purl.obolibrary.org/obo/CL_1000692` - -#### Added -- [kidney interstitial fibroblast](http://purl.obolibrary.org/obo/CL_1000692) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A fibroblast that is part of an interstitial compartment of a kidney." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:10559635" - - -### kidney interstitium `http://purl.obolibrary.org/obo/UBERON_0005215` -#### Removed -- [kidney interstitium](http://purl.obolibrary.org/obo/UBERON_0005215) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "The interstitium is necessarily involved in all intrarenal exchange processes since the reabsorption and secretion of fluid and solutes implicates a transit across the interstitial compartment." - -- [kidney interstitium](http://purl.obolibrary.org/obo/UBERON_0005215) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "The fibroblasts in the interstitium provide the 'skeleton' of the tissue and maintain the three-dimensional architecture of the tissue." - - - -### kidney medulla cell `http://purl.obolibrary.org/obo/CL_1000504` -#### Removed -- [kidney medulla cell](http://purl.obolibrary.org/obo/CL_1000504) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A cell that is part of a renal medulla." - -#### Added -- [kidney medulla cell](http://purl.obolibrary.org/obo/CL_1000504) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A cell that is part of a renal medulla." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:22343825" - - -### kidney medulla interstitial cell `http://purl.obolibrary.org/obo/CL_1000682` - -#### Added -- [kidney medulla interstitial cell](http://purl.obolibrary.org/obo/CL_1000682) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A cell that is part of an interstitum of a renal medulla." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:21359760" - - -### kidney outer medulla interstitial cell `http://purl.obolibrary.org/obo/CL_1000804` - -#### Added -- [kidney outer medulla interstitial cell](http://purl.obolibrary.org/obo/CL_1000804) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A kidney cell that is part of an interstitial compartment of an outer renal medulla." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:8694267" - - -### kidney pyramid `http://purl.obolibrary.org/obo/UBERON_0004200` -#### Removed -- [kidney pyramid](http://purl.obolibrary.org/obo/UBERON_0004200) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_74268](http://purl.obolibrary.org/obo/FMA_74268) - -- [kidney pyramid](http://purl.obolibrary.org/obo/UBERON_0004200) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "not the same as FMA:50609 Pyramid (which is a volume / dimensional entity)" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### kidney resident dendritic cell `http://purl.obolibrary.org/obo/CL_1000699` - -#### Added -- [kidney resident dendritic cell](http://purl.obolibrary.org/obo/CL_1000699) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A resident-dendritic cell that is part of a kidney." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:25266210" - - -### killer cell lectin-like receptor subfamily B member 1 `http://purl.obolibrary.org/obo/PR_000025670` -#### Removed -- [killer cell lectin-like receptor subfamily B member 1](http://purl.obolibrary.org/obo/PR_000025670) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [killer cell lectin-like receptor subfamily B member 1 (human)](http://purl.obolibrary.org/obo/PR_Q12918) - - - -### killer cell lectin-like receptor subfamily G member 1 `http://purl.obolibrary.org/obo/PR_000009426` -#### Removed -- [killer cell lectin-like receptor subfamily G member 1](http://purl.obolibrary.org/obo/PR_000009426) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [killer cell lectin-like receptor subfamily G member 1 (human)](http://purl.obolibrary.org/obo/PR_Q96E93) - - - -### knee joint `http://purl.obolibrary.org/obo/UBERON_0001485` -#### Removed -- [knee joint](http://purl.obolibrary.org/obo/UBERON_0001485) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [knee joint primordium](http://purl.obolibrary.org/obo/UBERON_0006256) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" - -#### Added -- [knee joint](http://purl.obolibrary.org/obo/UBERON_0001485) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [knee joint primordium](http://purl.obolibrary.org/obo/UBERON_0006256) - - -### lacrimal apparatus `http://purl.obolibrary.org/obo/UBERON_0001750` -#### Removed -- [lacrimal apparatus](http://purl.obolibrary.org/obo/UBERON_0001750) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "this is an eye appendage in ncit, along with eyelid and eyebrow. in MA, part of eye surface part_of eye" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ncit" - -#### Added -- [lacrimal apparatus](http://purl.obolibrary.org/obo/UBERON_0001750) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### lacrimal canaliculus `http://purl.obolibrary.org/obo/UBERON_0001770` - -#### Added -- [lacrimal canaliculus](http://purl.obolibrary.org/obo/UBERON_0001770) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### lacrimal drainage system `http://purl.obolibrary.org/obo/UBERON_0001850` -#### Removed -- [lacrimal drainage system](http://purl.obolibrary.org/obo/UBERON_0001850) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "chelonians lack a lacrimal duct, and lacrimal/harderian secretions remain in or spill from the conjunctival sac[PMID:7559104]" - -#### Added -- [lacrimal drainage system](http://purl.obolibrary.org/obo/UBERON_0001850) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### lacrimal gland `http://purl.obolibrary.org/obo/UBERON_0001817` -#### Removed -- [lacrimal gland](http://purl.obolibrary.org/obo/UBERON_0001817) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The preorbital gland is a paired exocrine gland found in many species of hoofed animals, which is homologous to the lacrimal gland found in humans. These glands are trenchlike slits of dark blue to black, nearly bare skin extending from the medial canthus of each eye. They are lined by a combination of sebaceous and sudoriferous glands, and they produce secretions which contain pheromones and other semiochemical compounds. Ungulates frequently deposit these secretions on twigs and grass as a means of communication with other animals. The preorbital gland serves different roles in different species. Pheromone-containing secretions from the preorbital gland may serve to establish an animal's dominance (especially in preparation for breeding), mark its territory, or simply to produce a pleasurable sensation to the animal. Because of its critical role in scent marking, the preorbital gland is usually considered as a type of scent gland. A further function of these glands may be to produce antimicrobial compounds against skin pathogens. Antimicrobial compounds found in these glands may be biosynthesized by the animal itself, or by microorganisms that live in these glands[Wikipedia:Preorbital_gland]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Preorbital_gland" - -- [lacrimal gland](http://purl.obolibrary.org/obo/UBERON_0001817) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, they are situated in the upper, outer portion of each orbit" - -- [lacrimal gland](http://purl.obolibrary.org/obo/UBERON_0001817) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - -- [lacrimal gland](http://purl.obolibrary.org/obo/UBERON_0001817) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Lobular organ the parenchyma of which consists of glandular acini which communicate the lacrimal sac. Examples: There only two instances, right lacrimal and left lacrimal glands." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:59101" - -- [lacrimal gland](http://purl.obolibrary.org/obo/UBERON_0001817) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Innervation is highly complex and species-specific" - -#### Added -- [lacrimal gland](http://purl.obolibrary.org/obo/UBERON_0001817) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### lacrimal gland bud `http://purl.obolibrary.org/obo/UBERON_0022284` -#### Removed -- [lacrimal gland bud](http://purl.obolibrary.org/obo/UBERON_0022284) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in mouse, the primary bud arises around E13.5 and extends caudally into the surrounding neural-crest derived periocular mesenchyme; between E15.5 and E16.5 the bud undergoes branching morphogenesis, forming both a major extra-orbital lobe and a minor intraorbital lobe" - - - -### lacrimal nerve `http://purl.obolibrary.org/obo/UBERON_0011096` -#### Removed -- [lacrimal nerve](http://purl.obolibrary.org/obo/UBERON_0011096) SubClassOf [nerve](http://purl.obolibrary.org/obo/UBERON_0001021) - -#### Added -- [lacrimal nerve](http://purl.obolibrary.org/obo/UBERON_0011096) SubClassOf [nerve of head region](http://purl.obolibrary.org/obo/UBERON_0011779) - -- [lacrimal nerve](http://purl.obolibrary.org/obo/UBERON_0011096) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### lacrimal punctum `http://purl.obolibrary.org/obo/UBERON_0010284` -#### Removed -- [lacrimal punctum](http://purl.obolibrary.org/obo/UBERON_0010284) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "collect tears produced by the lacrimal glands" - -#### Added -- [lacrimal punctum](http://purl.obolibrary.org/obo/UBERON_0010284) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### lacrimal sac `http://purl.obolibrary.org/obo/UBERON_0001351` - -#### Added -- [lacrimal sac](http://purl.obolibrary.org/obo/UBERON_0001351) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### lactosylceramide 4-alpha-galactosyltransferase `http://purl.obolibrary.org/obo/PR_000003516` -#### Removed -- [lactosylceramide 4-alpha-galactosyltransferase](http://purl.obolibrary.org/obo/PR_000003516) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [lactosylceramide 4-alpha-galactosyltransferase (human)](http://purl.obolibrary.org/obo/PR_Q9NPC4) - - - -### lactotransferrin `http://purl.obolibrary.org/obo/PR_000009978` -#### Removed -- [lactotransferrin](http://purl.obolibrary.org/obo/PR_000009978) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [lactotransferrin (human)](http://purl.obolibrary.org/obo/PR_P02788) - - - -### lamina `http://purl.obolibrary.org/obo/UBERON_0000957` -#### Removed -- [lamina](http://purl.obolibrary.org/obo/UBERON_0000957) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "laminar" - - - -### lamina densa of glomerular basement membrane `http://purl.obolibrary.org/obo/UBERON_0005787` - -#### Added -- [lamina densa of glomerular basement membrane](http://purl.obolibrary.org/obo/UBERON_0005787) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### lamina of spiral limbus `http://purl.obolibrary.org/obo/UBERON_0002276` - -#### Added -- [lamina of spiral limbus](http://purl.obolibrary.org/obo/UBERON_0002276) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### lamina propria of bronchus `http://purl.obolibrary.org/obo/UBERON_0002338` - -#### Added -- [lamina propria of bronchus](http://purl.obolibrary.org/obo/UBERON_0002338) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### lamina propria of ureter `http://purl.obolibrary.org/obo/UBERON_0001253` - -#### Added -- [lamina propria of ureter](http://purl.obolibrary.org/obo/UBERON_0001253) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### lamina propria of urethra `http://purl.obolibrary.org/obo/UBERON_0002326` - -#### Added -- [lamina propria of urethra](http://purl.obolibrary.org/obo/UBERON_0002326) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### lamina propria of urinary bladder `http://purl.obolibrary.org/obo/UBERON_0001261` -#### Removed -- [lamina propria of urinary bladder](http://purl.obolibrary.org/obo/UBERON_0001261) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "Contains loose to dense connective tissue, variably sized blood vessels that may be close to epithelium, lymphatics, variable adipose tissue" - -#### Added -- [lamina propria of urinary bladder](http://purl.obolibrary.org/obo/UBERON_0001261) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### lamina propria of vagina `http://purl.obolibrary.org/obo/UBERON_0005205` - -#### Added -- [lamina propria of vagina](http://purl.obolibrary.org/obo/UBERON_0005205) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### lamina rara externa `http://purl.obolibrary.org/obo/UBERON_0005789` - -#### Added -- [lamina rara externa](http://purl.obolibrary.org/obo/UBERON_0005789) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### lamina rara interna `http://purl.obolibrary.org/obo/UBERON_0005788` - -#### Added -- [lamina rara interna](http://purl.obolibrary.org/obo/UBERON_0005788) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### large intestine `http://purl.obolibrary.org/obo/UBERON_0000059` -#### Removed -- [large intestine](http://purl.obolibrary.org/obo/UBERON_0000059) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Intestinal surface area also is increased in amphibians and reptiles by internal folds and occasionally by a few villi. The intestine can be divided into a small intestine and a slightly wider large intestine.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000054" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.566" - - - -### large intestine smooth muscle `http://purl.obolibrary.org/obo/UBERON_0004220` -#### Removed -- [large intestine smooth muscle](http://purl.obolibrary.org/obo/UBERON_0004220) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MA class may specifically mean muscle layer, but we treat as the sum of smooth muscle in both muscle layer and muscularis mucosa" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - -- [large intestine smooth muscle](http://purl.obolibrary.org/obo/UBERON_0004220) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [muscle layer of large intestine](http://purl.obolibrary.org/obo/UBERON_0011198) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "consider merging" - -#### Added -- [large intestine smooth muscle](http://purl.obolibrary.org/obo/UBERON_0004220) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [muscle layer of large intestine](http://purl.obolibrary.org/obo/UBERON_0011198) - - -### large intestine smooth muscle circular layer `http://purl.obolibrary.org/obo/UBERON_0012398` - -#### Added -- [large intestine smooth muscle circular layer](http://purl.obolibrary.org/obo/UBERON_0012398) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### large intestine smooth muscle longitudinal layer `http://purl.obolibrary.org/obo/UBERON_0012399` - -#### Added -- [large intestine smooth muscle longitudinal layer](http://purl.obolibrary.org/obo/UBERON_0012399) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### larva `http://purl.obolibrary.org/obo/UBERON_0002548` -#### Removed -- [larva](http://purl.obolibrary.org/obo/UBERON_0002548) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001727" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [larva](http://purl.obolibrary.org/obo/UBERON_0002548) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Whole organism that is premetamorphic or a very immature individual.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002048" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" - -- [larva](http://purl.obolibrary.org/obo/UBERON_0002548) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "larval" - -- [larva](http://purl.obolibrary.org/obo/UBERON_0002548) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D007814" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### larval stage `http://purl.obolibrary.org/obo/UBERON_0000069` -#### Removed -- [larval stage](http://purl.obolibrary.org/obo/UBERON_0000069) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "It is a misunderstanding that the larval form always reflects the group's evolutionary history. It could be the case, but often the larval stage has evolved secondarily, as in insects. In these cases the larval form might differ more from the group's common origin than the adult form" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" - -- [larval stage](http://purl.obolibrary.org/obo/UBERON_0000069) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBdv:00005336" - -- [larval stage](http://purl.obolibrary.org/obo/UBERON_0000069) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Uberon includes clade-specific subclasses, e.g. nematod larva" - - - -### laryngeal apparatus `http://purl.obolibrary.org/obo/UBERON_0010212` - -#### Added -- [laryngeal apparatus](http://purl.obolibrary.org/obo/UBERON_0010212) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### laryngeal associated mesenchyme `http://purl.obolibrary.org/obo/UBERON_0010221` - -#### Added -- [laryngeal associated mesenchyme](http://purl.obolibrary.org/obo/UBERON_0010221) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### laryngeal cartilage `http://purl.obolibrary.org/obo/UBERON_0001739` -#### Removed -- [laryngeal cartilage](http://purl.obolibrary.org/obo/UBERON_0001739) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_64159](http://purl.obolibrary.org/obo/FMA_64159) - -- [laryngeal cartilage](http://purl.obolibrary.org/obo/UBERON_0001739) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(In anura) a dorsal pair of arytenoid cartilages (...), which support vocal cords, and a ventral pair (often fused) of cricoid cartilage (...). These cartilages are regarded as derivatives of posterior visceral arches of ancestors. Together they constitute the larynx, a structure characteristic of tetrapods. (...) (In mammals) Paired arytenoid cartilages help support and control the vocal cords. The cricoid cartilage is single. Two additional cartilages are present that are lacking in other vertebrates: a large ventral thyroid cartilage (...) and a cartilage in the epiglottis.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0471090588 Hildebrand M, Analysis of vertebrate structure (1983) p.239-241" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001550" - -#### Added -- [laryngeal cartilage](http://purl.obolibrary.org/obo/UBERON_0001739) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### laryngeal pre-cartilage condensation `http://purl.obolibrary.org/obo/UBERON_0010213` - -#### Added -- [laryngeal pre-cartilage condensation](http://purl.obolibrary.org/obo/UBERON_0010213) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### larynx `http://purl.obolibrary.org/obo/UBERON_0001737` -#### Removed -- [larynx](http://purl.obolibrary.org/obo/UBERON_0001737) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An anatomical cluster consisting of the epiglottus, the arytenoid cartilages, the thyroid cartilage, the cricoid cartilage and the muscles, membranes, and ligaments connecting them, and also of the mucosal covering these structures.[FEED]" - - [url](http://www.geneontology.org/formats/oboInOwl#url) "http://www.feedexp.org" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "FEED" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-07-02" - -- [larynx](http://purl.obolibrary.org/obo/UBERON_0001737) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical structure consisting of a narrowly triangular chamber supported by a series of semicircular cartilages in which part of the sound-production system is located.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000268" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [larynx](http://purl.obolibrary.org/obo/UBERON_0001737) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(In anura) a dorsal pair of arytenoid cartilages (...), which support vocal cords, and a ventral pair (often fused) of cricoid cartilage (...). These cartilages are regarded as derivatives of posterior visceral arches of ancestors. Together they constitute the larynx, a structure characteristic of tetrapods. (...) (In mammals) Paired arytenoid cartilages help support and control the vocal cords. The cricoid cartilage is single. Two additional cartilages are present that are lacking in other vertebrates: a large ventral thyroid cartilage (...) and a cartilage in the epiglottis.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0471090588 Hildebrand M, Analysis of vertebrate structure (1983) p.239-241" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001279" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - -- [larynx](http://purl.obolibrary.org/obo/UBERON_0001737) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "laryngeal" - - - -### larynx connective tissue `http://purl.obolibrary.org/obo/UBERON_0003583` - -#### Added -- [larynx connective tissue](http://purl.obolibrary.org/obo/UBERON_0003583) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### larynx epithelium `http://purl.obolibrary.org/obo/UBERON_0004816` -#### Removed -- [larynx epithelium](http://purl.obolibrary.org/obo/UBERON_0004816) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "composed of squamous epithelium in the upper larynx and ciliated columnar epithelium in the lower larynx [ISBN:0-397-51047-0]" - - - -### larynx mucous gland `http://purl.obolibrary.org/obo/UBERON_0004789` - -#### Added -- [larynx mucous gland](http://purl.obolibrary.org/obo/UBERON_0004789) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### larynx submucosa `http://purl.obolibrary.org/obo/UBERON_0004778` - -#### Added -- [larynx submucosa](http://purl.obolibrary.org/obo/UBERON_0004778) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### larynx submucosa gland `http://purl.obolibrary.org/obo/UBERON_0005204` - -#### Added -- [larynx submucosa gland](http://purl.obolibrary.org/obo/UBERON_0005204) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### late distal convoluted tubule `http://purl.obolibrary.org/obo/UBERON_0005102` -#### Removed -- [late distal convoluted tubule](http://purl.obolibrary.org/obo/UBERON_0005102) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:28393" - -#### Added -- [late distal convoluted tubule](http://purl.obolibrary.org/obo/UBERON_0005102) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) - - -### late embryo `http://purl.obolibrary.org/obo/UBERON_0000323` -#### Removed -- [late embryo](http://purl.obolibrary.org/obo/UBERON_0000323) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005333" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [late embryo](http://purl.obolibrary.org/obo/UBERON_0000323) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Fetal structure, which is a developmental form of a vertebrate animal at any given time point from 8 weeks of gestation to birth (or hatching). Examples: There is only one fetus[FMA:63919]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:63919" - - - -### lateral geniculate body `http://purl.obolibrary.org/obo/UBERON_0001926` -#### Removed -- [lateral geniculate body](http://purl.obolibrary.org/obo/UBERON_0001926) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "BTO has distinct classes for body and nucleus, but other sources treat as identical" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "BTO" - - - -### lateral gland of orbital region `http://purl.obolibrary.org/obo/UBERON_0015154` -#### Removed -- [lateral gland of orbital region](http://purl.obolibrary.org/obo/UBERON_0015154) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "The class name or definition should not be taken to mean strictly in the lateral ocular region. We place the extraocular lacrimal glands, even though they are as the name suggests outside the ocular region. The class exists as the division between lateral vs medial (Harderian, nictitans) glands is standard, e.g. http://www.ncbi.nlm.nih.gov/pubmed/7559104" - - - -### lateral line nerve `http://purl.obolibrary.org/obo/UBERON_0008906` -#### Removed -- [lateral line nerve](http://purl.obolibrary.org/obo/UBERON_0008906) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Any of the sensory nerves that innervate mechano- and electroreceptors of the lateral line system. The lateral line nerves may be separated in two components, anterior and posterior, in relation to the position of its roots with respect to the otic capsule. These nerves develop from lateral line placodes.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010077" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:SIQ" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [lateral line nerve](http://purl.obolibrary.org/obo/UBERON_0008906) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: part_of_proxy lateral line system (AAO:0000975) CHANGED TO: part_of lateral line system (UBERON:0002540)[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010077" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [lateral line nerve](http://purl.obolibrary.org/obo/UBERON_0008906) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: innervates lateral line receptor organ (AAO:0001001)[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010077" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - -### lateral line nucleus `http://purl.obolibrary.org/obo/UBERON_3010706` -#### Removed -- [lateral line nucleus](http://purl.obolibrary.org/obo/UBERON_3010706) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (amphibian_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/aao.owl" - - - -### lateral line placode `http://purl.obolibrary.org/obo/UBERON_0009128` -#### Removed -- [lateral line placode](http://purl.obolibrary.org/obo/UBERON_0009128) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Specialized series of dorsolateral ectodermal placodes.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010718" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:SIQ" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - -### lateral line primordium `http://purl.obolibrary.org/obo/UBERON_2000228` -#### Removed -- [lateral line primordium](http://purl.obolibrary.org/obo/UBERON_2000228) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (teleost_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/tao.owl" - - - -### lateral line system `http://purl.obolibrary.org/obo/UBERON_0002540` -#### Removed -- [lateral line system](http://purl.obolibrary.org/obo/UBERON_0002540) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: is_formed_by lateral line receptor organ (AAO:0001001)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000975" - -- [lateral line system](http://purl.obolibrary.org/obo/UBERON_0002540) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Sensory system which develops from a specialized series of dorsolateral ectodermal placodes named lateral line placodes.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000975" - -- [lateral line system](http://purl.obolibrary.org/obo/UBERON_0002540) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The mechanosensory lateral line system is widely distributed in aquatic anamniotes. It was apparently present in the earliest vertebrates, as it has been identified in agnathans, cartilaginous fishes, bony fishes, lungfishes, the crossopterygian Latimeria, and aquatic amphibians.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0471210054 Butler AB and Hodos W, Comparative vertebrate neuroanatomy: Evolution and Adaptation (2005) p.195" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001243" - -- [lateral line system](http://purl.obolibrary.org/obo/UBERON_0002540) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D053403" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -- [lateral line system](http://purl.obolibrary.org/obo/UBERON_0002540) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A sensory system on the surface of the fish, consisting of small sensory patches (neuromasts) distributed in discrete lines over the body surface. The lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance. (See Anatomical Atlas entry for lateral line by T. Whitfield.)[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000034" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### lateral lingual swelling `http://purl.obolibrary.org/obo/UBERON_0006757` -#### Removed -- [lateral lingual swelling](http://purl.obolibrary.org/obo/UBERON_0006757) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Most adult amphibians have a tongue, as do all known reptiles, birds and mammals. Thus it is likely that the tongue appeared with the establishment of tetrapods and this structure seems to be related, to some extant, to the terrestrial lifestyle.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2002.00073.x Iwasaki S, Evolution of the structure and function of the vertebrate tongue. J Anat (2002)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000731" - -- [lateral lingual swelling](http://purl.obolibrary.org/obo/UBERON_0006757) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "paired" - - - -### lateral olfactory stria `http://purl.obolibrary.org/obo/UBERON_0001888` -#### Removed -- [lateral olfactory stria](http://purl.obolibrary.org/obo/UBERON_0001888) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In mammals the fibers of the dorsal lateral olfactory tract either pass under the accessory olfactory formation, or they penetrate through it separating the internal granule cells from the output cells." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:7437895" - - - -### lateral plate mesoderm `http://purl.obolibrary.org/obo/UBERON_0003081` -#### Removed -- [lateral plate mesoderm](http://purl.obolibrary.org/obo/UBERON_0003081) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The portion of the mesoderm of the trunk of vertebrate embryos lying lateral to the intermediate mesoderm. [...] [It] subdivides into two plates: one dorsal, called the somatopleure, and one ventral, called the splanchnopleure. [Gastrulation:_From_cells_to_embryo_(2004)_Cold_Spring_Harbor, Glossary_XV, New_York:_Cold_Spring_Harbor_Laboratory_Press, Stern_CD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000118" - -- [lateral plate mesoderm](http://purl.obolibrary.org/obo/UBERON_0003081) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "A ventrolateral zone of amphioxus mesoderm grows down to surround the gut. Homology of this zone to the lateral plate mesoderm of vertebrates is supported by site of origin and fate.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1073/pnas.97.9.4449 Shimeld SM and Holland PW. Vertebrate innovations. PNAS (2000)" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000118" - -- [lateral plate mesoderm](http://purl.obolibrary.org/obo/UBERON_0003081) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "subclass of mesoderm in ZFA." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" - -- [lateral plate mesoderm](http://purl.obolibrary.org/obo/UBERON_0003081) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of mesoderm traditionally thought to give rise to limb bones and parts of the girdles.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010574" - - - -### lateral structure `http://purl.obolibrary.org/obo/UBERON_0015212` -#### Removed -- [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "This class is primarily to implement taxon constraints. It may be removed in the future." - - - -### lateral wall of nasopharynx `http://purl.obolibrary.org/obo/UBERON_0035383` - -#### Added -- [lateral wall of nasopharynx](http://purl.obolibrary.org/obo/UBERON_0035383) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### latissimus dorsi muscle `http://purl.obolibrary.org/obo/UBERON_0001112` -#### Removed -- [latissimus dorsi muscle](http://purl.obolibrary.org/obo/UBERON_0001112) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans it inserts along a roughened line deep in the groove. In other mammals (most, I believe) it is an actual projection, the latissimus dorsi process [FEED:rd] [https://github.com/obophenotype/uberon/issues/1192]" - -- [latissimus dorsi muscle](http://purl.obolibrary.org/obo/UBERON_0001112) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [inferior angle of scapula](http://purl.obolibrary.org/obo/UBERON_0007175) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "spinous processes of thoracic T7-T12 thoracolumbar fascia iliac crest and inferior 3 or 4 ribs inferior angle of scapula" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" - -- [latissimus dorsi muscle](http://purl.obolibrary.org/obo/UBERON_0001112) SubClassOf [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) some [humerus](http://purl.obolibrary.org/obo/UBERON_0000976) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "floor of intertubercular groove of the humerus" - -#### Added -- [latissimus dorsi muscle](http://purl.obolibrary.org/obo/UBERON_0001112) SubClassOf [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) some [humerus](http://purl.obolibrary.org/obo/UBERON_0000976) - -- [latissimus dorsi muscle](http://purl.obolibrary.org/obo/UBERON_0001112) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - -- [latissimus dorsi muscle](http://purl.obolibrary.org/obo/UBERON_0001112) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [inferior angle of scapula](http://purl.obolibrary.org/obo/UBERON_0007175) - - -### latissimus dorsi pre-muscle mass `http://purl.obolibrary.org/obo/UBERON_0010982` - -#### Added -- [latissimus dorsi pre-muscle mass](http://purl.obolibrary.org/obo/UBERON_0010982) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### layer of dentate gyrus `http://purl.obolibrary.org/obo/UBERON_0002304` -#### Removed -- [layer of dentate gyrus](http://purl.obolibrary.org/obo/UBERON_0002304) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "the basic trilaminar structure of the dentate gyrus is common across all species studied, with relatively minimal phylogenetic variation[PMC2492885]" - - - -### layer of developing cerebral cortex `http://purl.obolibrary.org/obo/UBERON_0014950` -#### Removed -- [layer of developing cerebral cortex](http://purl.obolibrary.org/obo/UBERON_0014950) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "these layers primarily refer to the mammalian future neocortex" - - - -### layer of microvilli `http://purl.obolibrary.org/obo/UBERON_0012423` -#### Removed -- [layer of microvilli](http://purl.obolibrary.org/obo/UBERON_0012423) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA class represents an individual microvillus." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [layer of microvilli](http://purl.obolibrary.org/obo/UBERON_0012423) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "a wide variety of physiological and cellular functions including absorption, secretion, cellular adhesion, and mechanotransduction" - -- [layer of microvilli](http://purl.obolibrary.org/obo/UBERON_0012423) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "increases the surface area of a cell lining whilst minimizing increase in volume" - - - -### layer of muscle tissue `http://purl.obolibrary.org/obo/UBERON_0018260` -#### Removed -- [layer of muscle tissue](http://purl.obolibrary.org/obo/UBERON_0018260) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "NCITA class may refer to smooth muscle only" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "NCIT" - - - -### layer of retina `http://purl.obolibrary.org/obo/UBERON_0001781` -#### Removed -- [layer of retina](http://purl.obolibrary.org/obo/UBERON_0001781) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MA does not treat internal/external limiting memranes as layers - these are classified as laminae. Here we follow other ontologies in grouping with other layers. MA also treats retinal pigment epithelium and neural retina epithelium as distinct from the layers. We follow ontologies such as FMA and ZFA in first dividing into pigmented and neural layers - these are also classified as layers, giving us over the usual 10 layers" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - -#### Added -- [layer of retina](http://purl.obolibrary.org/obo/UBERON_0001781) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### layer of sclera `http://purl.obolibrary.org/obo/UBERON_0010291` - -#### Added -- [layer of sclera](http://purl.obolibrary.org/obo/UBERON_0010291) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### layer of tympanic membrane `http://purl.obolibrary.org/obo/UBERON_0010071` -#### Removed -- [layer of tympanic membrane](http://purl.obolibrary.org/obo/UBERON_0010071) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In mammals, this class groups together the two epithelial layers plus the intermediate fibrous layer" - - - -### left adrenal gland `http://purl.obolibrary.org/obo/UBERON_0001234` -#### Removed -- [left adrenal gland](http://purl.obolibrary.org/obo/UBERON_0001234) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - -- [left adrenal gland](http://purl.obolibrary.org/obo/UBERON_0001234) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, the left adrenal gland is semilunar shaped" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" - - - -### left atrium endocardium `http://purl.obolibrary.org/obo/UBERON_0034903` -#### Removed -- [left atrium endocardium](http://purl.obolibrary.org/obo/UBERON_0034903) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Endocardium of atrium which is continuous with the tunica intima of the trunk of pulmonary vein." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:7286" - - - -### left bundle branch `http://purl.obolibrary.org/obo/UBERON_0005986` - -#### Added -- [left bundle branch](http://purl.obolibrary.org/obo/UBERON_0005986) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - - -### left cardiac atrium `http://purl.obolibrary.org/obo/UBERON_0002079` -#### Removed -- [left cardiac atrium](http://purl.obolibrary.org/obo/UBERON_0002079) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The tetrapod clade develops a complete atrial septum and loses the fifth aortic arch altogether.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000369" - -- [left cardiac atrium](http://purl.obolibrary.org/obo/UBERON_0002079) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Left cardiac chamber which is continuous with the pulmonary venous trunk.[FMA]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:7097" - -- [left cardiac atrium](http://purl.obolibrary.org/obo/UBERON_0002079) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The chamber of the heart that receives blood from the lungs[XAO:EJS]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "XAO:EJS" - -- [left cardiac atrium](http://purl.obolibrary.org/obo/UBERON_0002079) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - - -### left cardiac chamber `http://purl.obolibrary.org/obo/UBERON_0035553` - -#### Added -- [left cardiac chamber](http://purl.obolibrary.org/obo/UBERON_0035553) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - - -### left cerebral hemisphere `http://purl.obolibrary.org/obo/UBERON_0002812` -#### Removed -- [left cerebral hemisphere](http://purl.obolibrary.org/obo/UBERON_0002812) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - - -### left clavicle `http://purl.obolibrary.org/obo/UBERON_0008256` -#### Removed -- [left clavicle](http://purl.obolibrary.org/obo/UBERON_0008256) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - - -### left common carotid artery plus branches `http://purl.obolibrary.org/obo/UBERON_0001536` -#### Removed -- [left common carotid artery plus branches](http://purl.obolibrary.org/obo/UBERON_0001536) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "placement of the MA class here is not strictly correct, as the MA class does not include the branches" - - - -### left common iliac artery `http://purl.obolibrary.org/obo/UBERON_0035529` - -#### Added -- [left common iliac artery](http://purl.obolibrary.org/obo/UBERON_0035529) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - - -### left crus of diaphragm `http://purl.obolibrary.org/obo/UBERON_0014767` -#### Removed -- [left crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014767) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "crus sinistrum diaphragmatis" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [OMO_0003011](http://purl.obolibrary.org/obo/OMO_0003011) - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:58287" - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:TA" - -- [left crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014767) [id](http://www.geneontology.org/formats/oboInOwl#id) "UBERON:0014767" - -- [left crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014767) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "left crus of diaphragm" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:58287" - -- [left crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014767) [label](http://www.w3.org/2000/01/rdf-schema#label) "left crus of diaphragm" - -- [left crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014767) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "crus sinistrum (Diaphragma)" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [OMO_0003011](http://purl.obolibrary.org/obo/OMO_0003011) - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:58287" - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:TA" - -- [left crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014767) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - -- [left crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014767) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:58287" - -- [left crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014767) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A crus of diaphragm that is in_the_left_side_of a diaphragm." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "OBOL:automatic" - -- [left crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014767) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "left crus of lumbar part of diaphragm" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:58287" - -- [left crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014767) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "SCTID:244937004" - -- [left crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014767) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- Class: [left crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014767) - -- [left crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014767) EquivalentTo [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) and ([in left side of](http://purl.obolibrary.org/obo/BSPO_0000120) some [diaphragm](http://purl.obolibrary.org/obo/UBERON_0001103)) - -- [left crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014767) SubClassOf [in left side of](http://purl.obolibrary.org/obo/BSPO_0000120) some [diaphragm](http://purl.obolibrary.org/obo/UBERON_0001103) - -- [left crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014767) SubClassOf [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) - - - -### left dorsal aorta `http://purl.obolibrary.org/obo/UBERON_0005613` -#### Removed -- [left dorsal aorta](http://purl.obolibrary.org/obo/UBERON_0005613) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "A study of embryos shows that in all vertebrates six arterial arches link the ventral aorta with a pair of lateral dorsal aortae on each side of the body. The latter unite posteriorly to form a single median dorsal aorta wich takes blood to the body.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000484" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0174480198 Roberts MBV, Biology: a functional approach (1986) p.572" - -- [left dorsal aorta](http://purl.obolibrary.org/obo/UBERON_0005613) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Contributes to the arch of aorta in humans" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://emedicine.medscape.com/article/899609-overview" - - - -### left dorsal thalamus `http://purl.obolibrary.org/obo/UBERON_0013683` -#### Removed -- [left dorsal thalamus](http://purl.obolibrary.org/obo/UBERON_0013683) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - -#### Added -- [left dorsal thalamus](http://purl.obolibrary.org/obo/UBERON_0013683) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - - -### left ear `http://purl.obolibrary.org/obo/UBERON_0035295` - -#### Added -- [left ear](http://purl.obolibrary.org/obo/UBERON_0035295) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - - -### left external ear `http://purl.obolibrary.org/obo/UBERON_0006617` -#### Removed -- [left external ear](http://purl.obolibrary.org/obo/UBERON_0006617) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - - -### left eye `http://purl.obolibrary.org/obo/UBERON_0004548` -#### Removed -- [left eye](http://purl.obolibrary.org/obo/UBERON_0004548) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - -#### Added -- [left eye](http://purl.obolibrary.org/obo/UBERON_0004548) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - - -### left forelimb `http://purl.obolibrary.org/obo/UBERON_8300002` -#### Removed -- [left forelimb](http://purl.obolibrary.org/obo/UBERON_8300002) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - -#### Added -- [left forelimb](http://purl.obolibrary.org/obo/UBERON_8300002) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - - -### left frontal lobe `http://purl.obolibrary.org/obo/UBERON_0002811` -#### Removed -- [left frontal lobe](http://purl.obolibrary.org/obo/UBERON_0002811) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [right frontal lobe](http://purl.obolibrary.org/obo/UBERON_0002810) - - - -### left hepatic duct `http://purl.obolibrary.org/obo/UBERON_0001177` -#### Removed -- [left hepatic duct](http://purl.obolibrary.org/obo/UBERON_0001177) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The duct which drains bile from the left half of the liver and unites with the right hepatic duct to form the common hepatic duct. [adapted_from_http://www.medterms.com/script/main/art.asp?articlekey=26032][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000218" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - -### left hindlimb `http://purl.obolibrary.org/obo/UBERON_8300004` -#### Removed -- [left hindlimb](http://purl.obolibrary.org/obo/UBERON_8300004) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - -#### Added -- [left hindlimb](http://purl.obolibrary.org/obo/UBERON_8300004) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - - -### left kidney `http://purl.obolibrary.org/obo/UBERON_0004538` -#### Removed -- [left kidney](http://purl.obolibrary.org/obo/UBERON_0004538) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - - -### left lateral ventricle `http://purl.obolibrary.org/obo/UBERON_0013161` -#### Removed -- [left lateral ventricle](http://purl.obolibrary.org/obo/UBERON_0013161) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - -#### Added -- [left lateral ventricle](http://purl.obolibrary.org/obo/UBERON_0013161) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - - -### left lobe of liver `http://purl.obolibrary.org/obo/UBERON_0001115` -#### Removed -- [left lobe of liver](http://purl.obolibrary.org/obo/UBERON_0001115) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of the liver which develops on the fish's left side.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005172" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - -### left lobe of thyroid gland `http://purl.obolibrary.org/obo/UBERON_0001120` -#### Removed -- [left lobe of thyroid gland](http://purl.obolibrary.org/obo/UBERON_0001120) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Thus, a thyroid capable of forming iodotyrosines and iodothyronines is present in all vertebrates. (...) Certain morphologic changes occur after the biochemical evolution of the thyroid has ceased. In the adult lamprey and in most bony fishes, the gland is not encapsulated. (...) In cartilaginous fish, the thyroid is encapsulated. In the higher vertebrate forms, the thyroid is a one- or two-lobed encapsulated structure.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000734" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://www.thyroidmanager.org/Chapter1/chapter01.htm" - -- [left lobe of thyroid gland](http://purl.obolibrary.org/obo/UBERON_0001120) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - - -### left lung `http://purl.obolibrary.org/obo/UBERON_0002168` -#### Removed -- [left lung](http://purl.obolibrary.org/obo/UBERON_0002168) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Lungs had already developed as paired ventral pockets from the intestine in the ancestor of Osteognathostomata.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.210" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000618" - -- [left lung](http://purl.obolibrary.org/obo/UBERON_0002168) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - - -### left lung alveolar system `http://purl.obolibrary.org/obo/UBERON_0006525` - -#### Added -- [left lung alveolar system](http://purl.obolibrary.org/obo/UBERON_0006525) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### left lung endothelium `http://purl.obolibrary.org/obo/UBERON_0005673` - -#### Added -- [left lung endothelium](http://purl.obolibrary.org/obo/UBERON_0005673) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) - - -### left lung lobe `http://purl.obolibrary.org/obo/UBERON_0008951` -#### Removed -- [left lung lobe](http://purl.obolibrary.org/obo/UBERON_0008951) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "1 in mice, divided into 2 in human by a single interlobar fissure, the oblqiue fissure" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0123813611" - - - -### left nipple `http://purl.obolibrary.org/obo/UBERON_0013772` -#### Removed -- [left nipple](http://purl.obolibrary.org/obo/UBERON_0013772) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - -#### Added -- [left nipple](http://purl.obolibrary.org/obo/UBERON_0013772) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - - -### left ovary `http://purl.obolibrary.org/obo/UBERON_0002119` -#### Removed -- [left ovary](http://purl.obolibrary.org/obo/UBERON_0002119) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In some elasmobranchs, the left ovary does not mature, with only the right ovary fully developing. In the primitive jawless fish, and some teleosts, there is only one ovary, formed by the fusion of the paired organs in the embryo" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Ovary#In_other_animals" - -- [left ovary](http://purl.obolibrary.org/obo/UBERON_0002119) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - -#### Added -- [left ovary](http://purl.obolibrary.org/obo/UBERON_0002119) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - - -### left parietal lobe `http://purl.obolibrary.org/obo/UBERON_0002802` -#### Removed -- [left parietal lobe](http://purl.obolibrary.org/obo/UBERON_0002802) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [right parietal lobe](http://purl.obolibrary.org/obo/UBERON_0002803) - - - -### left pelvic girdle region `http://purl.obolibrary.org/obo/UBERON_0011093` -#### Removed -- [left pelvic girdle region](http://purl.obolibrary.org/obo/UBERON_0011093) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - - -### left pulmonary vein `http://purl.obolibrary.org/obo/UBERON_0009030` -#### Removed -- [left pulmonary vein](http://purl.obolibrary.org/obo/UBERON_0009030) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A vein that returns oxygenated blood from the left lung to the left atrium of the heart[ncithesaurus:Left_Pulmonary_Vein]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ncithesaurus:Left_Pulmonary_Vein" - - - -### left recurrent laryngeal nerve `http://purl.obolibrary.org/obo/UBERON_0011766` -#### Removed -- [left recurrent laryngeal nerve](http://purl.obolibrary.org/obo/UBERON_0011766) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The left nerve is longer than the right, because it crosses under the arch of the aorta at the ligamentum arteriosum.[WP]" - -#### Added -- [left recurrent laryngeal nerve](http://purl.obolibrary.org/obo/UBERON_0011766) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - - -### left renal pelvis `http://purl.obolibrary.org/obo/UBERON_0018115` - -#### Added -- [left renal pelvis](http://purl.obolibrary.org/obo/UBERON_0018115) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### left renal vein `http://purl.obolibrary.org/obo/UBERON_0001142` -#### Removed -- [left renal vein](http://purl.obolibrary.org/obo/UBERON_0001142) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A vein that drains blood from the left kidney into the inferior vena cava[ncithesaurus]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ncithesaurus:Left_Renal_Vein" - - - -### left side of back `http://purl.obolibrary.org/obo/UBERON_8000006` - -#### Added -- [left side of back](http://purl.obolibrary.org/obo/UBERON_8000006) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - - -### left subclavian artery `http://purl.obolibrary.org/obo/UBERON_0001584` -#### Removed -- [left subclavian artery](http://purl.obolibrary.org/obo/UBERON_0001584) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in humans, branches off the arch of aorta" - -- [left subclavian artery](http://purl.obolibrary.org/obo/UBERON_0001584) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "arises from left intersegmental 6th artery in the region of the 6th -7th cervical segment in humans" - -#### Added -- [left subclavian artery](http://purl.obolibrary.org/obo/UBERON_0001584) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - - -### left suprarenal vein `http://purl.obolibrary.org/obo/UBERON_0035483` - -#### Added -- [left suprarenal vein](http://purl.obolibrary.org/obo/UBERON_0035483) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - - -### left testis `http://purl.obolibrary.org/obo/UBERON_0004533` -#### Removed -- [left testis](http://purl.obolibrary.org/obo/UBERON_0004533) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - -#### Added -- [left testis](http://purl.obolibrary.org/obo/UBERON_0004533) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - - -### left thymus lobe `http://purl.obolibrary.org/obo/UBERON_0005457` -#### Removed -- [left thymus lobe](http://purl.obolibrary.org/obo/UBERON_0005457) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - - -### left umbilical artery `http://purl.obolibrary.org/obo/UBERON_0005458` -#### Removed -- [left umbilical artery](http://purl.obolibrary.org/obo/UBERON_0005458) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [left dorsal aorta](http://purl.obolibrary.org/obo/UBERON_0005613) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "check this" - -- [left umbilical artery](http://purl.obolibrary.org/obo/UBERON_0005458) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [left extraembryonic umbilical artery](http://purl.obolibrary.org/obo/UBERON_0011696) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "check this" - -#### Added -- [left umbilical artery](http://purl.obolibrary.org/obo/UBERON_0005458) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [left extraembryonic umbilical artery](http://purl.obolibrary.org/obo/UBERON_0011696) - -- [left umbilical artery](http://purl.obolibrary.org/obo/UBERON_0005458) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [left dorsal aorta](http://purl.obolibrary.org/obo/UBERON_0005613) - - -### left umbilical vein `http://purl.obolibrary.org/obo/UBERON_0005459` -#### Removed -- [left umbilical vein](http://purl.obolibrary.org/obo/UBERON_0005459) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - -#### Added -- [left umbilical vein](http://purl.obolibrary.org/obo/UBERON_0005459) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - - -### left ureter `http://purl.obolibrary.org/obo/UBERON_0001223` -#### Removed -- [left ureter](http://purl.obolibrary.org/obo/UBERON_0001223) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - - -### left uterine tube `http://purl.obolibrary.org/obo/UBERON_0001303` -#### Removed -- [left uterine tube](http://purl.obolibrary.org/obo/UBERON_0001303) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - - -### left vagus X nerve trunk `http://purl.obolibrary.org/obo/UBERON_0035020` - -#### Added -- [left vagus X nerve trunk](http://purl.obolibrary.org/obo/UBERON_0035020) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - - -### left ventricle myocardium `http://purl.obolibrary.org/obo/UBERON_0006566` -#### Removed -- [left ventricle myocardium](http://purl.obolibrary.org/obo/UBERON_0006566) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17339" - -- [left ventricle myocardium](http://purl.obolibrary.org/obo/UBERON_0006566) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Myocardium of ventricle which is continuous with the tunica media of aorta." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:9558" - - - -### left vitelline vein `http://purl.obolibrary.org/obo/UBERON_0005460` -#### Removed -- [left vitelline vein](http://purl.obolibrary.org/obo/UBERON_0005460) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - -#### Added -- [left vitelline vein](http://purl.obolibrary.org/obo/UBERON_0005460) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - - -### leg `http://purl.obolibrary.org/obo/UBERON_0000978` -#### Removed -- [leg](http://purl.obolibrary.org/obo/UBERON_0000978) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "The term leg can mean: [1] an appendage on which an animal walks [2] the entire hindlimb of a tetrapod [3] the segment of a human leg between knee and ankle (cf FMA) [4] the region of a hindlimb include the stylopod and zeugopod, but excluding the autopod. We define this class as [4], and thus 'leg' is compltely analagous to 'arm'. For [1], see the class 'locomotive weight-bearing appendage'. For [2] we use 'hindlimb'. For" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "3" - -- [leg](http://purl.obolibrary.org/obo/UBERON_0000978) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Most anatomists now agree that the three proximal bones of the tetrapod limbs are homologous to the two or three proximal elements of the paired fin skeleton of other sarcopterygians, that is the humerus-femur, radius-tibia, and ulna-fibula.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000345" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0198540472 Janvier P, Early vertebrates (1996) p.268" - - - -### lens anterior epithelium `http://purl.obolibrary.org/obo/UBERON_0005614` -#### Removed -- [lens anterior epithelium](http://purl.obolibrary.org/obo/UBERON_0005614) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "Cells of the subcapsular epithelium (or anterior lens cells) are mitotically active. In adult individuals they only cover the anterior 'hemisphere' of the lens. As they divide, cells gradually move towards the equator of the lens where they tranform into lens fibres. The apical part of the gradually elongating cell extends between the subcapsular epithelium and adjacent lens fibres towards the anterior pole of the lens. The basal part extends towards the posterior pole. The nucleus remains close to the equatorial plane of the lens - http://www.lab.anhb.uwa.edu.au/mb140/corepages/eye/eye.htm" - -- [lens anterior epithelium](http://purl.obolibrary.org/obo/UBERON_0005614) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - - -### lens fiber `http://purl.obolibrary.org/obo/UBERON_0002444` -#### Removed -- [lens fiber](http://purl.obolibrary.org/obo/UBERON_0002444) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) the line, or Y, or star sutures common to mammalian lenses, including those of primates. In the case of line or Y sutures, the overlapping of lens fibers in each successive shell is coincident and results in the formation of four or six three-dimensional suture planes that extend from the lens nucleus to the periphery.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000444" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1167/iovs.03-0466 Sivak JG, Through the lens clearly: phylogeny and development, The Proctor lecture. Investigative ophthalmology and visual science (2004)" - -- [lens fiber](http://purl.obolibrary.org/obo/UBERON_0002444) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Fibres resembling a ribbon and arranged in very thin plates in the lens. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000444" - -#### Added -- [lens fiber](http://purl.obolibrary.org/obo/UBERON_0002444) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### lens of camera-type eye `http://purl.obolibrary.org/obo/UBERON_0000965` -#### Removed -- [lens of camera-type eye](http://purl.obolibrary.org/obo/UBERON_0000965) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007)" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000169" - -- [lens of camera-type eye](http://purl.obolibrary.org/obo/UBERON_0000965) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "This class excludes compound eye corneal lenses." - -- [lens of camera-type eye](http://purl.obolibrary.org/obo/UBERON_0000965) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [vasculature](http://purl.obolibrary.org/obo/UBERON_0002049) - -#### Added -- [lens of camera-type eye](http://purl.obolibrary.org/obo/UBERON_0000965) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### lens placode `http://purl.obolibrary.org/obo/UBERON_0003073` -#### Removed -- [lens placode](http://purl.obolibrary.org/obo/UBERON_0003073) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Classical transplantation experiments using amphibian embryos suggested that the optic vesicle is the source of lens-inducing signals sufficient to generate lens tissues in competent ectoderm (reviewed in Grainger et al., 1996). More recent findings suggest a multistep model for lens induction. There is now good evidence that lens specification occurs at the neurula stage, before the optic vesicle contact the surface ectoderm, and that neural crest cell migration in the frontonasal region is required to restrict the position of the lens placode (Bailey et al., 2006)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "NCBIBook:NBK53175" - -- [lens placode](http://purl.obolibrary.org/obo/UBERON_0003073) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Ectodermal primordium of the lens of the eye. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000122" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [lens placode](http://purl.obolibrary.org/obo/UBERON_0003073) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The optic cup induces the overlying surface ectoderm first to thicken as a lens placode and then to invaginate and form a lens vesicle that differentiates into the lens.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000166" - -#### Added -- [lens placode](http://purl.obolibrary.org/obo/UBERON_0003073) SubClassOf [immature eye](http://purl.obolibrary.org/obo/UBERON_0010312) - - -### lens vesicle `http://purl.obolibrary.org/obo/UBERON_0005426` -#### Removed -- [lens vesicle](http://purl.obolibrary.org/obo/UBERON_0005426) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "the lens of zebrafish (and other teleosts) forms from delamination of cells from the lens placode; thus, there is no formation of a hollow lens vesicle, in contrast to the situation in mammals and birds (Glass and Dahm, 2004) [PMID:16496288] The lens of the zebrafish forms by delamination of lens placodal cells and not through invagination. This results in a solid spherical mass as opposed to a hollow lens vesicle. Detachment of the solid lens vesicle of zebrafish at 24b26 hpf is accomplished in part by apoptosis, similar to mammals" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA" - -- [lens vesicle](http://purl.obolibrary.org/obo/UBERON_0005426) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The optic cup induces the overlying surface ectoderm first to thicken as a lens placode and then to invaginate and form a lens vesicle that differentiates into the lens.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001163" - -- [lens vesicle](http://purl.obolibrary.org/obo/UBERON_0005426) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A vesicle formed from the lens pit of the embryo, developing into the crystalline lens. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001163" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/lens+vesicle" - -#### Added -- [lens vesicle](http://purl.obolibrary.org/obo/UBERON_0005426) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### lens vesicle cavity `http://purl.obolibrary.org/obo/UBERON_0005688` -#### Removed -- [lens vesicle cavity](http://purl.obolibrary.org/obo/UBERON_0005688) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The optic cup induces the overlying surface ectoderm first to thicken as a lens placode and then to invaginate and form a lens vesicle that differentiates into the lens.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000531" - - - -### lens vesicle epithelium `http://purl.obolibrary.org/obo/UBERON_0005656` -#### Removed -- [lens vesicle epithelium](http://purl.obolibrary.org/obo/UBERON_0005656) SubClassOf [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) - -#### Added -- [lens vesicle epithelium](http://purl.obolibrary.org/obo/UBERON_0005656) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - -### leptomeninx `http://purl.obolibrary.org/obo/UBERON_0000391` -#### Removed -- [leptomeninx](http://purl.obolibrary.org/obo/UBERON_0000391) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA/NIF this is a superclass of PM/AM - in BTO it is the mereological sum. We go with superclass here, as we are naming the class in the singular" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -#### Added -- [leptomeninx](http://purl.obolibrary.org/obo/UBERON_0000391) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - - -### leukocyte immunoglobulin-like receptor subfamily A member 4 `http://purl.obolibrary.org/obo/PR_000001398` -#### Removed -- [leukocyte immunoglobulin-like receptor subfamily A member 4](http://purl.obolibrary.org/obo/PR_000001398) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [leukocyte immunoglobulin-like receptor subfamily A member 4 (human)](http://purl.obolibrary.org/obo/PR_P59901) - - - -### leukosialin `http://purl.obolibrary.org/obo/PR_000001879` -#### Removed -- [leukosialin](http://purl.obolibrary.org/obo/PR_000001879) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [leukosialin (human)](http://purl.obolibrary.org/obo/PR_P16150) - - - -### levator scapulae muscle `http://purl.obolibrary.org/obo/UBERON_0005461` -#### Removed -- [levator scapulae muscle](http://purl.obolibrary.org/obo/UBERON_0005461) SubClassOf [axial muscle](http://purl.obolibrary.org/obo/UBERON_0003897) - -- [levator scapulae muscle](http://purl.obolibrary.org/obo/UBERON_0005461) SubClassOf [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) some [medial border of scapula](http://purl.obolibrary.org/obo/UBERON_0007174) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "Superior part of medial border of scapula" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" - -- [levator scapulae muscle](http://purl.obolibrary.org/obo/UBERON_0005461) SubClassOf [innervated_by](http://purl.obolibrary.org/obo/RO_0002005) some [nerve of cervical vertebra](http://purl.obolibrary.org/obo/UBERON_0000962) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "cervical nerve and dorsal scapular nerve" - -- [levator scapulae muscle](http://purl.obolibrary.org/obo/UBERON_0005461) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [transverse process of vertebra](http://purl.obolibrary.org/obo/UBERON_0001077) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "Posterior tubercles of transverse processes of C1 - C4 vertebrae" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" - -#### Added -- [levator scapulae muscle](http://purl.obolibrary.org/obo/UBERON_0005461) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [transverse process of vertebra](http://purl.obolibrary.org/obo/UBERON_0001077) - -- [levator scapulae muscle](http://purl.obolibrary.org/obo/UBERON_0005461) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [axial musculature](http://purl.obolibrary.org/obo/UBERON_0013700) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Kardong" - -- [levator scapulae muscle](http://purl.obolibrary.org/obo/UBERON_0005461) SubClassOf [innervated_by](http://purl.obolibrary.org/obo/RO_0002005) some [nerve of cervical vertebra](http://purl.obolibrary.org/obo/UBERON_0000962) - -- [levator scapulae muscle](http://purl.obolibrary.org/obo/UBERON_0005461) SubClassOf [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) some [medial border of scapula](http://purl.obolibrary.org/obo/UBERON_0007174) - -- [levator scapulae muscle](http://purl.obolibrary.org/obo/UBERON_0005461) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### levator scapulae pre-muscle mass `http://purl.obolibrary.org/obo/UBERON_0010983` - -#### Added -- [levator scapulae pre-muscle mass](http://purl.obolibrary.org/obo/UBERON_0010983) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### license `http://purl.org/dc/terms/license` -#### Removed -- [license](http://purl.org/dc/terms/license) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [license](http://purl.org/dc/terms/license) [is_metadata_tag](http://www.geneontology.org/formats/oboInOwl#is_metadata_tag) true - -- [license](http://purl.org/dc/terms/license) [label](http://www.w3.org/2000/01/rdf-schema#label) "license" - -- [license](http://purl.org/dc/terms/license) [id](http://www.geneontology.org/formats/oboInOwl#id) "dcterms-license" - -- [license](http://purl.org/dc/terms/license) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "http://purl.org/dc/terms/license" - -- [license](http://purl.org/dc/terms/license) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "dcterms-license" - - - -### life cycle stage `http://purl.obolibrary.org/obo/UBERON_0000105` -#### Removed -- [life cycle stage](http://purl.obolibrary.org/obo/UBERON_0000105) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "the WBls class 'all stages' belongs here as it is the superclass of other WBls stages" - -- [life cycle stage](http://purl.obolibrary.org/obo/UBERON_0000105) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we map the ZFS unknown stage here as it is logically equivalent to saying *some* life cycle stage" - - - -### ligament `http://purl.obolibrary.org/obo/UBERON_0000211` -#### Removed -- [ligament](http://purl.obolibrary.org/obo/UBERON_0000211) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Compared with their Ediacarian predecessor, Cambrian animals in general were characterized by their much stouter bodies. The stoutness of the body is likely due to the formation of ligaments and tendons, which in turn requires the crosslinking of collagen triple helices.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:8710894 Ohno S, The notion of the Cambrian pananimalia genome. PNAS (1996)" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001272" - -- [ligament](http://purl.obolibrary.org/obo/UBERON_0000211) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of connective tissue that connects bone or cartilage.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001682" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" - -- [ligament](http://purl.obolibrary.org/obo/UBERON_0000211) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "this groups both skeletal and non-skeletal ligaments. What is called a 'ligament' in many AOs is actually a skeletal ligament" - -- [ligament](http://purl.obolibrary.org/obo/UBERON_0000211) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Nonparenchymatous organ that primarily consists of dense connective tissue aggregated into fasciculi by connective tissue. Examples: sutural ligament, radiate sternocostal ligament, ligament of liver, ovarian ligament[FMA][FMA:21496]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:21496" - - - -### ligament of larynx `http://purl.obolibrary.org/obo/UBERON_0001743` - -#### Added -- [ligament of larynx](http://purl.obolibrary.org/obo/UBERON_0001743) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### ligament of liver `http://purl.obolibrary.org/obo/UBERON_0013139` - -#### Added -- [ligament of liver](http://purl.obolibrary.org/obo/UBERON_0013139) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### limb `http://purl.obolibrary.org/obo/UBERON_0002101` -#### Removed -- [limb](http://purl.obolibrary.org/obo/UBERON_0002101) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D005121" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - -- [limb](http://purl.obolibrary.org/obo/UBERON_0002101) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organism subdivision that has as its parts the jointed appendages used for locomotion and manipulation.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010336" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [limb](http://purl.obolibrary.org/obo/UBERON_0002101) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Most anatomists now agree that the three proximal bones of the tetrapod limbs are homologous to the two or three proximal elements of the paired fin skeleton of other sarcopterygians, that is the humerus-femur, radius-tibia, and ulna-fibula.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000336" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0198540472 Janvier P, Early vertebrates (1996) p.268" - -- [limb](http://purl.obolibrary.org/obo/UBERON_0002101) SubClassOf [paired limb/fin](http://purl.obolibrary.org/obo/UBERON_0004708) - - [specialization_within](http://www.geneontology.org/formats/oboInOwl#specialization_within) "Sarcopterygians" - -#### Added -- [limb](http://purl.obolibrary.org/obo/UBERON_0002101) SubClassOf [paired limb/fin](http://purl.obolibrary.org/obo/UBERON_0004708) - - -### limb bone `http://purl.obolibrary.org/obo/UBERON_0002428` -#### Removed -- [limb bone](http://purl.obolibrary.org/obo/UBERON_0002428) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "NCITA includes clavicle. MA:'limb bone' is actually a bone of limb or girdle" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "NCIT" - -- [limb bone](http://purl.obolibrary.org/obo/UBERON_0002428) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "the formal definition is very inclusive, and includes sesamoids" - - - -### limb bud `http://purl.obolibrary.org/obo/UBERON_0004347` -#### Removed -- [limb bud](http://purl.obolibrary.org/obo/UBERON_0004347) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Early outgrowth of presumptive limb.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010375" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - -### limb endochondral element `http://purl.obolibrary.org/obo/UBERON_0015061` - -#### Added -- [limb endochondral element](http://purl.obolibrary.org/obo/UBERON_0015061) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### limb external integument structure `http://purl.obolibrary.org/obo/UBERON_3000981` -#### Removed -- [limb external integument structure](http://purl.obolibrary.org/obo/UBERON_3000981) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (amphibian_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/aao.owl" - - - -### limb mesenchyme `http://purl.obolibrary.org/obo/UBERON_0009749` -#### Removed -- [limb mesenchyme](http://purl.obolibrary.org/obo/UBERON_0009749) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "EMAPA mapping from TH" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EMAPA" - - - -### limb muscle `http://purl.obolibrary.org/obo/UBERON_0003661` -#### Removed -- [limb muscle](http://purl.obolibrary.org/obo/UBERON_0003661) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:32700" - - - -### limb segment `http://purl.obolibrary.org/obo/UBERON_0002529` -#### Removed -- [limb segment](http://purl.obolibrary.org/obo/UBERON_0002529) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA has both limb segment and free limb segment, the former includes the girdles. Note that MA uses the term more generally and includes A,S,Z,S+Z(arm/leg), whereas FMA is just A,S,Z" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - - - -### limbic lobe `http://purl.obolibrary.org/obo/UBERON_0002600` -#### Removed -- [limbic lobe](http://purl.obolibrary.org/obo/UBERON_0002600) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D065726" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - -### limbic system `http://purl.obolibrary.org/obo/UBERON_0000349` - -#### Added -- [limbic system](http://purl.obolibrary.org/obo/UBERON_0000349) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - - -### limiting membrane of retina `http://purl.obolibrary.org/obo/UBERON_0007619` -#### Removed -- [limiting membrane of retina](http://purl.obolibrary.org/obo/UBERON_0007619) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MA does treat internal/external limiting membranes as layers - these are classified as laminae. We do not follow this convention. However, we do following MA is grouping these terms together" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - - - -### lingual artery `http://purl.obolibrary.org/obo/UBERON_0001610` -#### Removed -- [lingual artery](http://purl.obolibrary.org/obo/UBERON_0001610) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of external carotid (AAO:0010218)[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010492" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - -- [lingual artery](http://purl.obolibrary.org/obo/UBERON_0001610) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the external carotid which supplies blood to the tongue.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010492" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - - -### lingual nerve `http://purl.obolibrary.org/obo/UBERON_0003721` -#### Removed -- [lingual nerve](http://purl.obolibrary.org/obo/UBERON_0003721) SubClassOf [nerve](http://purl.obolibrary.org/obo/UBERON_0001021) - -#### Added -- [lingual nerve](http://purl.obolibrary.org/obo/UBERON_0003721) SubClassOf [nerve of head region](http://purl.obolibrary.org/obo/UBERON_0011779) - - -### lingual swellings `http://purl.obolibrary.org/obo/UBERON_0006260` -#### Removed -- [lingual swellings](http://purl.obolibrary.org/obo/UBERON_0006260) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Most adult amphibians have a tongue, as do all known reptiles, birds and mammals. Thus it is likely that the tongue appeared with the establishment of tetrapods and this structure seems to be related, to some extant, to the terrestrial lifestyle.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### MHC class Ib receptor activity `http://purl.obolibrary.org/obo/GO_0032394` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2002.00073.x Iwasaki S, Evolution of the structure and function of the vertebrate tongue. J Anat (2002)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000449" - -- [lingual swellings](http://purl.obolibrary.org/obo/UBERON_0006260) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Primordium of the tongue; the median swelling and the distal and proximal swellings arise from the ventral aspect of the stomodeum. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [MHC class Ib receptor activity](http://purl.obolibrary.org/obo/GO_0032394) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/lingual+swellings" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000449" +### Malpighian tubule `http://purl.obolibrary.org/obo/UBERON_0001054` +#### Added +- [Malpighian tubule](http://purl.obolibrary.org/obo/UBERON_0001054) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005786" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### lip `http://purl.obolibrary.org/obo/UBERON_0001833` +### Malpighian tubule stellate cell `http://purl.obolibrary.org/obo/CL_1000155` #### Removed -- [lip](http://purl.obolibrary.org/obo/UBERON_0001833) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "labial" +- [Malpighian tubule stellate cell](http://purl.obolibrary.org/obo/CL_1000155) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005797" + +#### Added +- [Malpighian tubule stellate cell](http://purl.obolibrary.org/obo/CL_1000155) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005797" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [lip](http://purl.obolibrary.org/obo/UBERON_0001833) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Surface structure that is one of the two fleshy folds surrounding the opening of the mouth.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0007006" +### Mauthner neuron `http://purl.obolibrary.org/obo/CL_0000246` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [Mauthner neuron](http://purl.obolibrary.org/obo/CL_0000246) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009149" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http//:www.medterms.com/script/main/art.asp?articlekey=9458" +### Merkel cell `http://purl.obolibrary.org/obo/CL_0000242` +#### Added +- [Merkel cell](http://purl.obolibrary.org/obo/CL_0000242) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009146" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### lip epithelium `http://purl.obolibrary.org/obo/UBERON_0006913` -#### Removed -- [lip epithelium](http://purl.obolibrary.org/obo/UBERON_0006913) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The thick, high squamous-stratified epithelium that covers the lips. It contains abundant melanocytes, many mucous cells and has well differentiated taste buds.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005334" +### Mueller cell `http://purl.obolibrary.org/obo/CL_0000636` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [Mueller cell](http://purl.obolibrary.org/obo/CL_0000636) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009280" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:ZDB-PUB-060921-12" +### OFF-bipolar cell `http://purl.obolibrary.org/obo/CL_0000750` +#### Added +- [OFF-bipolar cell](http://purl.obolibrary.org/obo/CL_0000750) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009320" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### lipid transporter activity `http://purl.obolibrary.org/obo/GO_0005319` -#### Removed -- [lipid transporter activity](http://purl.obolibrary.org/obo/GO_0005319) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [lipid transport](http://purl.obolibrary.org/obo/GO_0006869) - - [source](http://www.geneontology.org/formats/oboInOwl#http://purl.org/dc/terms/source) "GO_REF:0000090" +### OFFx cell `http://purl.obolibrary.org/obo/CL_4033036` #### Added -- [lipid transporter activity](http://purl.obolibrary.org/obo/GO_0005319) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [lipid transport](http://purl.obolibrary.org/obo/GO_0006869) +- [OFFx cell](http://purl.obolibrary.org/obo/CL_4033036) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### liver `http://purl.obolibrary.org/obo/UBERON_0002107` -#### Removed -- [liver](http://purl.obolibrary.org/obo/UBERON_0002107) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The liver is found in all vertebrates, and is typically the largest visceral organ. Its form varies considerably in different species, and is largely determined by the shape and arrangement of the surrounding organs. Nonetheless, in most species it is divided into right and left lobes; exceptions to this general rule include snakes, where the shape of the body necessitates a simple cigar-like form. The internal structure of the liver is broadly similar in all vertebrates." - -- [liver](http://purl.obolibrary.org/obo/UBERON_0002107) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "All vertebrates possess a liver (reference 1); Later in craniate evolution, an anterior gill arch was transformed into jaws, and many new types of feeding subsequently evolved.(...) A liver evolved that, among its many functions, stores considerable energy as glycogen or lipid (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### ON-bipolar cell `http://purl.obolibrary.org/obo/CL_0000749` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [ON-bipolar cell](http://purl.obolibrary.org/obo/CL_0000749) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009319" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000257" +### Purkinje cell `http://purl.obolibrary.org/obo/CL_0000121` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.526, ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43" +#### Added +- [Purkinje cell](http://purl.obolibrary.org/obo/CL_0000121) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009071" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [liver](http://purl.obolibrary.org/obo/UBERON_0002107) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Only ZFA considers this part_of immune system - we weaken this to an overlaps relation, as in general it's only a subset of cells that have clear immune function." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" -- [liver](http://purl.obolibrary.org/obo/UBERON_0002107) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organ which secretes bile and participates in formation of certain blood proteins.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### R1 photoreceptor cell `http://purl.obolibrary.org/obo/CL_0000687` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010111" +#### Added +- [R1 photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000687) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004213" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +### R2 photoreceptor cell `http://purl.obolibrary.org/obo/CL_0000690` -- [liver](http://purl.obolibrary.org/obo/UBERON_0002107) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "An organ sometimes referred to as a liver is found associated with the digestive tract of the primitive chordate Amphioxus. However, this is an enzyme secreting gland, not a metabolic organ, and it is unclear how truly homologous it is to the vertebrate liver. The zebrafish liver differs from the mammalian liver in that the hepatocytes are not clearly organized in cords or lobules and the typical portal triads are not apparent. In addition, the zebrafish liver does not have Kuppfer cells. Furthermore, a clear distinction can be made between the male and female liver in the adult zebrafish. The female hepatocytes are very basophilic (Figure 15c) as a result of the production of vitellogenin (Van der Ven et al. 2003)." +#### Added +- [R2 photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000690) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004215" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [liver](http://purl.obolibrary.org/obo/UBERON_0002107) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: differentiates_from endoderm (AAO:0000139) CHANGED TO: develops_from endoderm (UBERON:0000925)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010111" +### R3 photoreceptor cell `http://purl.obolibrary.org/obo/CL_0000694` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [R3 photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000694) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004217" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [liver](http://purl.obolibrary.org/obo/UBERON_0002107) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "hepatic" -- [liver](http://purl.obolibrary.org/obo/UBERON_0002107) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "secretes bile and functions in metabolism of protein and carbohydrate and fat, synthesizes substances involved in the clotting of the blood, synthesizes vitamin A, detoxifies poisonous substances, stores glycogen, and breaks down worn-out erythrocytes[GO]." +### R4 photoreceptor cell `http://purl.obolibrary.org/obo/CL_0000697` +#### Added +- [R4 photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000697) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004219" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### liver blood vessel `http://purl.obolibrary.org/obo/UBERON_0015796` +### R5 photoreceptor cell `http://purl.obolibrary.org/obo/CL_0000702` #### Added -- [liver blood vessel](http://purl.obolibrary.org/obo/UBERON_0015796) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [R5 photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000702) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004221" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### liver lobule `http://purl.obolibrary.org/obo/UBERON_0004647` -#### Removed -- [liver lobule](http://purl.obolibrary.org/obo/UBERON_0004647) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "should not be confused with the anatomic lobes of the liver (caudate lobe, quadrate lobe, left lobe, and right lobe), or any of the functional lobe classification systems.[WP]" +### R6 photoreceptor cell `http://purl.obolibrary.org/obo/CL_0000705` #### Added -- [liver lobule](http://purl.obolibrary.org/obo/UBERON_0004647) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [R6 photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000705) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004223" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### liver parenchyma `http://purl.obolibrary.org/obo/UBERON_0001280` +### R7 photoreceptor cell `http://purl.obolibrary.org/obo/CL_0000707` #### Removed -- [liver parenchyma](http://purl.obolibrary.org/obo/UBERON_0001280) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "the (liver) tubular structure (dual layered parenchyma) appears to be conserved among all embryonic vertebrates (...) it is not unlikely that all vertebrate livers share the same fundamental functional unit.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [R7 photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000707) SubClassOf [eye photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000287) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [R7 photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000707) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004225" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [R7 photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000707) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [ommatidium](http://purl.obolibrary.org/obo/UBERON_0000971) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000539" +- [R7 photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000707) SubClassOf [compound eye photoreceptor cell](http://purl.obolibrary.org/obo/CL_2000019) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1002/ar.20524 Hardman RC, Volz DC, Kullman SW, Hinton DE, An in vivo look at vertebrate liver architecture: three-dimensional reconstruction from Medaka (Oryzias latipes). The Anatomical Record (2007)" +### R8 photoreceptor cell `http://purl.obolibrary.org/obo/CL_0000709` +#### Added +- [R8 photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000709) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004227" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### liver primordium `http://purl.obolibrary.org/obo/UBERON_0003894` -#### Removed -- [liver primordium](http://purl.obolibrary.org/obo/UBERON_0003894) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [foregut](http://purl.obolibrary.org/obo/UBERON_0001041) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Zaret 1996" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "ventral foregut endoderm" +### RNA binding `http://purl.obolibrary.org/obo/GO_0003723` #### Added -- [liver primordium](http://purl.obolibrary.org/obo/UBERON_0003894) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [foregut](http://purl.obolibrary.org/obo/UBERON_0001041) +- [RNA binding](http://purl.obolibrary.org/obo/GO_0003723) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) +- [RNA binding](http://purl.obolibrary.org/obo/GO_0003723) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) -### liver serosa `http://purl.obolibrary.org/obo/UBERON_8400021` - -#### Added -- [liver serosa](http://purl.obolibrary.org/obo/UBERON_8400021) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [RNA binding](http://purl.obolibrary.org/obo/GO_0003723) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -### liver stroma `http://purl.obolibrary.org/obo/UBERON_0016478` +### RNA metabolic process `http://purl.obolibrary.org/obo/GO_0016070` #### Added -- [liver stroma](http://purl.obolibrary.org/obo/UBERON_0016478) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [RNA metabolic process](http://purl.obolibrary.org/obo/GO_0016070) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) +- [RNA metabolic process](http://purl.obolibrary.org/obo/GO_0016070) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### liver subserosa `http://purl.obolibrary.org/obo/UBERON_8400023` -#### Added -- [liver subserosa](http://purl.obolibrary.org/obo/UBERON_8400023) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +### RNA polymerase II transcription regulatory region sequence-specific DNA binding `http://purl.obolibrary.org/obo/GO_0000977` +#### Added +- [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0000977" -### liver trabecula `http://purl.obolibrary.org/obo/UBERON_0010183` +- [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/19312"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -#### Added -- [liver trabecula](http://purl.obolibrary.org/obo/UBERON_0010183) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "To minimize ambiguity in the use of the word "promoter" in GO, we have chosen the phrase "transcription regulatory region" to refer to all of the regulatory regions. Regulatory regions in the DNA which control initiation may include the "core promoter" where the basal transcription machinery binds, the "core promoter proximal region" where regulatory factors other than the basal machinery bind. There are also additional regulatory regions, in both the DNA and the RNA transcript, which regulate elongation or termination of transcription." +- [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Binding to a specific sequence of DNA that is part of a regulatory region that controls the transcription of a gene or cistron by RNA polymerase II." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH" -### lobar bronchus `http://purl.obolibrary.org/obo/UBERON_0002183` -#### Removed -- [lobar bronchus](http://purl.obolibrary.org/obo/UBERON_0002183) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "They have relatively large lumens that are lined by respiratory epithelium. There is a smooth muscle layer below the epithelium arranged as two ribbons of muscle that spiral in opposite directions. This smooth muscle layer contains seromucous glands. Irregularly arranged plates of hyaline cartilage surround the smooth muscle. These plates give structural support to the bronchus and maintain the patency of the lumen." +- [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "molecular_function" +- [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "krc" +- [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "RNA polymerase II regulatory region DNA binding" -### lobe of cerebral hemisphere `http://purl.obolibrary.org/obo/UBERON_0016526` -#### Removed -- [lobe of cerebral hemisphere](http://purl.obolibrary.org/obo/UBERON_0016526) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_77800](http://purl.obolibrary.org/obo/FMA_77800) +- [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2010-08-10T11:05:36Z" -#### Added -- [lobe of cerebral hemisphere](http://purl.obolibrary.org/obo/UBERON_0016526) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977) [label](http://www.w3.org/2000/01/rdf-schema#label) "RNA polymerase II transcription regulatory region sequence-specific DNA binding" +- [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001012" -### lobe of liver `http://purl.obolibrary.org/obo/UBERON_0001113` +- Class: [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977) -#### Added -- [lobe of liver](http://purl.obolibrary.org/obo/UBERON_0001113) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977) SubClassOf [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) -### lobe of lung `http://purl.obolibrary.org/obo/UBERON_0000101` +### RNA transport `http://purl.obolibrary.org/obo/GO_0050658` #### Added -- [lobe of lung](http://purl.obolibrary.org/obo/UBERON_0000101) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - +- [RNA transport](http://purl.obolibrary.org/obo/GO_0050658) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### lobe of prostate `http://purl.obolibrary.org/obo/UBERON_0001328` -#### Removed -- [lobe of prostate](http://purl.obolibrary.org/obo/UBERON_0001328) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Anatomically, the human prostate gland is located between the base of the bladder and the rectum, and it completely surrounds the proximal urethra (Fig. 1A). It is a single alobular structure with central (CZ), peripheral (PZ) and transitional (TZ) zones. In contrast, the mouse prostate is not merged into one compact anatomical structure. It comprises four paired lobes situated circumferentially around the urethra, immediately caudal to the urinary bladder-namely, anterior (AP), dorsal (DP), lateral (LP), and ventral (VP) prostate (Fig. 1B). Often, the dorsal and the lateral lobes are thought of in combination and referred to as the dorsolateral (DLP) lobe as they share a ductal system. The mouse AP is considered analogous to the human CZ, which is rarely a site of neoplastic transformation in humans. The mouse DLP is considered most similar to the human PZ, which is the zone in which most carcinomas arise (Xue et al. 1997). These analogies, however, are limited as they are based solely on descriptive data and need to be re-evaluated using molecular techniques before the relationship between specific mouse prostate lobes and the human prostate zones is definitively asserted (Abate-Shen & Shen 2000). The mouse VP does not have a human homologue, and the human TZ does not have a murine homologue" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://github.com/obophenotype/uberon/issues/665" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:15163300" +### RXFP1-positive interface island D1-medium spiny neuron `http://purl.obolibrary.org/obo/CL_4030054` #### Added -- [lobe of prostate](http://purl.obolibrary.org/obo/UBERON_0001328) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [RXFP1-positive interface island D1-medium spiny neuron](http://purl.obolibrary.org/obo/CL_4030054) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### lobe of thyroid gland `http://purl.obolibrary.org/obo/UBERON_0001118` +### Reissner's fiber `http://purl.obolibrary.org/obo/UBERON_0011357` #### Removed -- [lobe of thyroid gland](http://purl.obolibrary.org/obo/UBERON_0001118) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Thus, a thyroid capable of forming iodotyrosines and iodothyronines is present in all vertebrates. (...) Certain morphologic changes occur after the biochemical evolution of the thyroid has ceased. In the adult lamprey and in most bony fishes, the gland is not encapsulated. (...) In cartilaginous fish, the thyroid is encapsulated. In the higher vertebrate forms, the thyroid is a one- or two-lobed encapsulated structure.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [Reissner's fiber](http://purl.obolibrary.org/obo/UBERON_0011357) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://www.thyroidmanager.org/Chapter1/chapter01.htm" +### Rohon-Beard neuron `http://purl.obolibrary.org/obo/CL_0000247` +#### Removed +- [Rohon-Beard neuron](http://purl.obolibrary.org/obo/CL_0000247) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009150" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000732" +#### Added +- [Rohon-Beard neuron](http://purl.obolibrary.org/obo/CL_0000247) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009150" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [lobe of thyroid gland](http://purl.obolibrary.org/obo/UBERON_0001118) SubClassOf [thymus subunit](http://purl.obolibrary.org/obo/UBERON_0035075) -#### Added -- [lobe of thyroid gland](http://purl.obolibrary.org/obo/UBERON_0001118) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [thyroid gland](http://purl.obolibrary.org/obo/UBERON_0002046) +### Rules +#### Removed +- [negatively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019002)(?y, ?z), [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212)(?x, ?y) -> [positively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019001)(?x, ?z) -- [lobe of thyroid gland](http://purl.obolibrary.org/obo/UBERON_0001118) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [causally downstream of](http://purl.obolibrary.org/obo/RO_0002404)(?x, ?y), [overlaps](http://purl.obolibrary.org/obo/RO_0002131)(?x, ?y) -> [Nothing](http://www.w3.org/2002/07/owl#Nothing)(?x), [Nothing](http://www.w3.org/2002/07/owl#Nothing)(?y) + - [label](http://www.w3.org/2000/01/rdf-schema#label) "'causally downstream of' and 'overlaps' should be disjoint properties (a SWRL rule is required because these are non-simple properties)." +- [function](http://purl.obolibrary.org/obo/BFO_0000034)(?d), [bearer of](http://purl.obolibrary.org/obo/RO_0000053)(?e, ?d) -> [has function](http://purl.obolibrary.org/obo/RO_0000085)(?e, ?d) -### lobule of mammary gland `http://purl.obolibrary.org/obo/UBERON_0001912` +- [causally upstream of](http://purl.obolibrary.org/obo/RO_0002411)(?q, ?u), [causally upstream of](http://purl.obolibrary.org/obo/RO_0002411)(?p, ?q) -> [indirectly causally upstream of](http://purl.obolibrary.org/obo/RO_0012011)(?p, ?u) -#### Added -- [lobule of mammary gland](http://purl.obolibrary.org/obo/UBERON_0001912) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629)(?mf, ?mf2), [has effector activity](http://purl.obolibrary.org/obo/RO_0002025)(?mf, ?eff) -> [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629)(?eff, ?mf2) + - [comment](http://www.w3.org/2000/01/rdf-schema#comment) "if effector directly positively regulates X, its parent MF directly positively regulates X" +- [has component](http://purl.obolibrary.org/obo/RO_0002180)(?w, ?p), [process](http://purl.obolibrary.org/obo/BFO_0000015)(?w), [process](http://purl.obolibrary.org/obo/BFO_0000015)(?p) -> [has component process](http://purl.obolibrary.org/obo/RO_0002018)(?w, ?p) -### located in `http://purl.obolibrary.org/obo/RO_0001025` -#### Removed -- [located in](http://purl.obolibrary.org/obo/RO_0001025) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "located_in"@en +- [positively regulates](http://purl.obolibrary.org/obo/RO_0002213)(?y, ?z), [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212)(?x, ?y) -> [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212)(?x, ?z) -- [located in](http://purl.obolibrary.org/obo/RO_0001025) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) +- [positively regulates](http://purl.obolibrary.org/obo/RO_0002213)(?x, ?y), [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212)(?y, ?z) -> [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212)(?x, ?z) -- [located in](http://purl.obolibrary.org/obo/RO_0001025) [label](http://www.w3.org/2000/01/rdf-schema#label) "located in" +- [role](http://purl.obolibrary.org/obo/BFO_0000023)(?d), [bearer of](http://purl.obolibrary.org/obo/RO_0000053)(?e, ?d) -> [has role](http://purl.obolibrary.org/obo/RO_0000087)(?e, ?d) -- [located in](http://purl.obolibrary.org/obo/RO_0001025) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this rat is located in this cage"@en +- [input of](http://purl.obolibrary.org/obo/RO_0002352)(?B, ?C), [enabled by](http://purl.obolibrary.org/obo/RO_0002333)(?A, ?B), [has regulatory component activity](http://purl.obolibrary.org/obo/RO_0002013)(?D, ?C) -> [directly regulates](http://purl.obolibrary.org/obo/RO_0002578)(?A, ?D) + - [label](http://www.w3.org/2000/01/rdf-schema#label) "inferring direct reg edge from input to regulatory subfunction" -- [located in](http://purl.obolibrary.org/obo/RO_0001025) [source](http://purl.org/dc/terms/source) "http://www.obofoundry.org/ro/#OBO_REL:located_in" + - [comment](http://www.w3.org/2000/01/rdf-schema#comment) "If a molecular function (X) has a regulatory subfunction, then any gene product which is an input to that subfunction has an activity that directly_regulates X. Note: this is intended for cases where the regaultory subfunction is protein binding, so it could be tightened with an additional clause to specify this." -- [located in](http://purl.obolibrary.org/obo/RO_0001025) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0001025" +- [input of](http://purl.obolibrary.org/obo/RO_0002352)(?B, ?C), [enabled by](http://purl.obolibrary.org/obo/RO_0002333)(?A, ?B), [has negative regulatory component activity](http://purl.obolibrary.org/obo/RO_0002014)(?D, ?C) -> [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630)(?A, ?D) + - [label](http://www.w3.org/2000/01/rdf-schema#label) "inferring direct neg reg edge from input to regulatory subfunction" -- [located in](http://purl.obolibrary.org/obo/RO_0001025) [id](http://www.geneontology.org/formats/oboInOwl#id) "located_in" +- [has effector activity](http://purl.obolibrary.org/obo/RO_0002025)(?mf, ?eff), [directly regulates](http://purl.obolibrary.org/obo/RO_0002578)(?mf, ?mf2) -> [directly regulates](http://purl.obolibrary.org/obo/RO_0002578)(?eff, ?mf2) + - [comment](http://www.w3.org/2000/01/rdf-schema#comment) "if effector directly regulates X, its parent MF directly regulates X" -- [located in](http://purl.obolibrary.org/obo/RO_0001025) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "my brain is located in my head"@en +- [indirectly causally upstream of](http://purl.obolibrary.org/obo/RO_0012011)(?p, ?q), [regulates](http://purl.obolibrary.org/obo/RO_0002211)(?p, ?q) -> [indirectly regulates](http://purl.obolibrary.org/obo/RO_0012012)(?p, ?q) -- [located in](http://purl.obolibrary.org/obo/RO_0001025) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "located in"@en +- [molecular_function](http://purl.obolibrary.org/obo/GO_0003674)(?y), [enables](http://purl.obolibrary.org/obo/RO_0002327)(?x, ?y), [has part](http://purl.obolibrary.org/obo/BFO_0000051)(?y, ?z) -> [enables](http://purl.obolibrary.org/obo/RO_0002327)(?x, ?z) + - [label](http://www.w3.org/2000/01/rdf-schema#label) "enabling an MF enables its parts" -- [located in](http://purl.obolibrary.org/obo/RO_0001025) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "located_in" + - [comment](http://www.w3.org/2000/01/rdf-schema#comment) "GP(X)-enables->MF(Y)-has_part->MF(Z) => GP(X) enables MF(Z), +e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase coupled transporter activity' has_part 'ATPase activity' then GP(X) enables 'ATPase activity'" -- [located in](http://purl.obolibrary.org/obo/RO_0001025) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +- [quality](http://purl.obolibrary.org/obo/BFO_0000019)(?d), [bearer of](http://purl.obolibrary.org/obo/RO_0000053)(?e, ?d) -> [has quality](http://purl.obolibrary.org/obo/RO_0000086)(?e, ?d) +- [acts upstream of or within](http://purl.obolibrary.org/obo/RO_0002264)(?x, ?y), [causally upstream of](http://purl.obolibrary.org/obo/RO_0002411)(?y, ?z) -> [acts upstream of](http://purl.obolibrary.org/obo/RO_0002263)(?x, ?z) +- [causally upstream of](http://purl.obolibrary.org/obo/RO_0002411)(?x, ?y), [overlaps](http://purl.obolibrary.org/obo/RO_0002131)(?x, ?y) -> [Nothing](http://www.w3.org/2002/07/owl#Nothing)(?x), [Nothing](http://www.w3.org/2002/07/owl#Nothing)(?y) + - [label](http://www.w3.org/2000/01/rdf-schema#label) "'causally upstream of' and 'overlaps' should be disjoint properties (a SWRL rule is required because these are non-simple properties)." -### location of `http://purl.obolibrary.org/obo/RO_0001015` -#### Removed -- [location of](http://purl.obolibrary.org/obo/RO_0001015) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +- [directly regulates](http://purl.obolibrary.org/obo/RO_0002578)(?a1, ?a2), [kinase activity](http://purl.obolibrary.org/obo/GO_0016301)(?a1), [enabled by](http://purl.obolibrary.org/obo/RO_0002333)(?a1, ?g1), [enabled by](http://purl.obolibrary.org/obo/RO_0002333)(?a2, ?g2) -> [phosphorylates](http://purl.obolibrary.org/obo/RO_0002447)(?g1, ?g2) -- [location of](http://purl.obolibrary.org/obo/RO_0001015) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "location_of" +- [input of](http://purl.obolibrary.org/obo/RO_0002352)(?B, ?C), [enabled by](http://purl.obolibrary.org/obo/RO_0002333)(?A, ?B), [has positive regulatory component activity](http://purl.obolibrary.org/obo/RO_0002015)(?D, ?C) -> [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629)(?A, ?D) + - [label](http://www.w3.org/2000/01/rdf-schema#label) "inferring direct positive reg edge from input to regulatory subfunction" -- [location of](http://purl.obolibrary.org/obo/RO_0001015) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0001015" +- [disposition](http://purl.obolibrary.org/obo/BFO_0000016)(?d), [bearer of](http://purl.obolibrary.org/obo/RO_0000053)(?e, ?d) -> [has disposition](http://purl.obolibrary.org/obo/RO_0000091)(?e, ?d) -- [location of](http://purl.obolibrary.org/obo/RO_0001015) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) +- [has input](http://purl.obolibrary.org/obo/RO_0002233)(?eff, ?in), [has effector activity](http://purl.obolibrary.org/obo/RO_0002025)(?mf, ?eff) -> [has input](http://purl.obolibrary.org/obo/RO_0002233)(?mf, ?in) + - [label](http://www.w3.org/2000/01/rdf-schema#label) "effector input is compound function input" -- [location of](http://purl.obolibrary.org/obo/RO_0001015) [label](http://www.w3.org/2000/01/rdf-schema#label) "location of" +- [has effector activity](http://purl.obolibrary.org/obo/RO_0002025)(?mf, ?eff), [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630)(?mf, ?mf2) -> [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630)(?eff, ?mf2) + - [label](http://www.w3.org/2000/01/rdf-schema#label) "if effector directly negatively regulates X, its parent MF directly negatively regulates X" -- [location of](http://purl.obolibrary.org/obo/RO_0001015) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "my head is the location of my brain"@en +- [has input](http://purl.obolibrary.org/obo/RO_0002233)(?mf, ?in), [has effector activity](http://purl.obolibrary.org/obo/RO_0002025)(?mf, ?eff) -> [has input](http://purl.obolibrary.org/obo/RO_0002233)(?eff, ?in) + - [label](http://www.w3.org/2000/01/rdf-schema#label) "Input of effector is input of its parent MF" -- [location of](http://purl.obolibrary.org/obo/RO_0001015) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this cage is the location of this rat"@en -- [location of](http://purl.obolibrary.org/obo/RO_0001015) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "is location of"@en -- [location of](http://purl.obolibrary.org/obo/RO_0001015) [id](http://www.geneontology.org/formats/oboInOwl#id) "location_of" +### S-shaped body `http://purl.obolibrary.org/obo/UBERON_0004199` -- [location of](http://purl.obolibrary.org/obo/RO_0001015) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "location_of"@en +#### Added +- [S-shaped body](http://purl.obolibrary.org/obo/UBERON_0004199) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +### S-shaped body morphogenesis `http://purl.obolibrary.org/obo/GO_0072050` -### locus ceruleus `http://purl.obolibrary.org/obo/UBERON_0002148` -#### Removed -- [locus ceruleus](http://purl.obolibrary.org/obo/UBERON_0002148) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0003004](http://purl.obolibrary.org/obo/UBERON_0003004) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +#### Added +- [S-shaped body morphogenesis](http://purl.obolibrary.org/obo/GO_0072050) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [locus ceruleus](http://purl.obolibrary.org/obo/UBERON_0002148) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [pontine raphe nucleus](http://purl.obolibrary.org/obo/UBERON_0002047) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" -- [locus ceruleus](http://purl.obolibrary.org/obo/UBERON_0002148) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002587](http://purl.obolibrary.org/obo/UBERON_0002587) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +### Saccharomyces cerevisiae `http://purl.obolibrary.org/obo/NCBITaxon_4932` -- [locus ceruleus](http://purl.obolibrary.org/obo/UBERON_0002148) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002267](http://purl.obolibrary.org/obo/UBERON_0002267) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +#### Added +- [Saccharomyces cerevisiae](http://purl.obolibrary.org/obo/NCBITaxon_4932) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "NCBITaxon:2898199" -- [locus ceruleus](http://purl.obolibrary.org/obo/UBERON_0002148) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [pontine tegmentum](http://purl.obolibrary.org/obo/UBERON_0003023) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "check ZFA" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "NIFSTD" +### Sertoli cell `http://purl.obolibrary.org/obo/CL_0000216` #### Added -- [locus ceruleus](http://purl.obolibrary.org/obo/UBERON_0002148) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [pontine tegmentum](http://purl.obolibrary.org/obo/UBERON_0003023) +- [Sertoli cell](http://purl.obolibrary.org/obo/CL_0000216) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009133" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### long-wave-sensitive opsin 1 `http://purl.obolibrary.org/obo/PR_000001244` +### Sertoli cell proliferation `http://purl.obolibrary.org/obo/GO_0060011` #### Removed -- [long-wave-sensitive opsin 1](http://purl.obolibrary.org/obo/PR_000001244) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [long-wave-sensitive opsin 1 (human)](http://purl.obolibrary.org/obo/PR_P04000) - +- [Sertoli cell proliferation](http://purl.obolibrary.org/obo/GO_0060011) SubClassOf [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) -### loop of Henle `http://purl.obolibrary.org/obo/UBERON_0001288` -#### Removed -- [loop of Henle](http://purl.obolibrary.org/obo/UBERON_0001288) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The structure differs considerably between species; there is a definite physical loop of Henle in the mammalian and avian renal systems but this seems to be absent in Xenopus. However, homologs of some, but not all, molecular markers (e.g. cldn8 and clcnk) of the mammalian loop of Henle were found to be present in the pronephros of the frog larva ." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1371/journal.pone.0099864" -- [loop of Henle](http://purl.obolibrary.org/obo/UBERON_0001288) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "The loop of Henle plays an important role in creating a concentration gradient in the medulla of the kidney. It is involved in reabsorption of filtered water and ions including sodium, potassium and calcium, and independently regulates both the volume and osmolarity of body fluids." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1371/journal.pone.0099864" +### T cell `http://purl.obolibrary.org/obo/CL_0000084` -- [loop of Henle](http://purl.obolibrary.org/obo/UBERON_0001288) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [NCBITaxon_8353](http://purl.obolibrary.org/obo/NCBITaxon_8353) +#### Added +- [T cell](http://purl.obolibrary.org/obo/CL_0000084) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009046" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [loop of Henle](http://purl.obolibrary.org/obo/UBERON_0001288) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A highly specialized segment of the mammalian kidney tubules, that dips into the medulla. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Grande_L, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF, p.648, see_Liem_KF][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### T cell antigen processing and presentation `http://purl.obolibrary.org/obo/GO_0002457` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [T cell antigen processing and presentation](http://purl.obolibrary.org/obo/GO_0002457) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001270" +### T cell selection `http://purl.obolibrary.org/obo/GO_0045058` +#### Added +- [T cell selection](http://purl.obolibrary.org/obo/GO_0045058) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### low affinity immunoglobulin epsilon Fc receptor `http://purl.obolibrary.org/obo/PR_000001880` -#### Removed -- [low affinity immunoglobulin epsilon Fc receptor](http://purl.obolibrary.org/obo/PR_000001880) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [low affinity immunoglobulin epsilon Fc receptor (human)](http://purl.obolibrary.org/obo/PR_P06734) +### T cell tolerance induction `http://purl.obolibrary.org/obo/GO_0002517` +#### Added +- [T cell tolerance induction](http://purl.obolibrary.org/obo/GO_0002517) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### low affinity immunoglobulin gamma Fc region receptor II-b `http://purl.obolibrary.org/obo/PR_000001481` -#### Removed -- [low affinity immunoglobulin gamma Fc region receptor II-b](http://purl.obolibrary.org/obo/PR_000001481) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [low affinity immunoglobulin gamma Fc region receptor II-b (human)](http://purl.obolibrary.org/obo/PR_P31994) +### T-helper 1 type immune response `http://purl.obolibrary.org/obo/GO_0042088` +#### Added +- [T-helper 1 type immune response](http://purl.obolibrary.org/obo/GO_0042088) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### lower digestive tract `http://purl.obolibrary.org/obo/UBERON_0004907` -#### Removed -- [lower digestive tract](http://purl.obolibrary.org/obo/UBERON_0004907) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "WP: small intestine, large intestine, anus. Anal canal not part of LGIT according to FMA, but anus is considered part of LGIT according to WP. Duodenum overlaps both U/L" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" -- [lower digestive tract](http://purl.obolibrary.org/obo/UBERON_0004907) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MA class was moved from here. See https://github.com/obophenotype/uberon/issues/509" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +### T-helper 17 type immune response `http://purl.obolibrary.org/obo/GO_0072538` +#### Added +- [T-helper 17 type immune response](http://purl.obolibrary.org/obo/GO_0072538) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### lower jaw region `http://purl.obolibrary.org/obo/UBERON_0001710` +### TAC3-positive medium spiny neuron `http://purl.obolibrary.org/obo/CL_4042002` #### Removed -- [lower jaw region](http://purl.obolibrary.org/obo/UBERON_0001710) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Inferior mandibular arch located on the anterior and lateral sides of the skull.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [TAC3-positive medium spiny neuron](http://purl.obolibrary.org/obo/CL_4042002) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000272" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" -- [lower jaw region](http://purl.obolibrary.org/obo/UBERON_0001710) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Note isa/partof difference MA/FMA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +### TAC3-positive striatal interneuron `http://purl.obolibrary.org/obo/CL_4042001` +#### Removed +- [TAC3-positive striatal interneuron](http://purl.obolibrary.org/obo/CL_4042001) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [lower jaw region](http://purl.obolibrary.org/obo/UBERON_0001710) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Subsequent vertebrate evolution has also involved major alterations to the pharynx; perhaps the most notable occurred with the evolution of the gnathostomes. This involved substantial modifications to the most anterior pharyngeal segments, with the jaw forming from the first, anterior, pharyngeal segment, while the second formed its supporting apparatus, the hyoid.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### TCR-positive macrophage `http://purl.obolibrary.org/obo/CL_4030058` +#### Removed +- [TCR-positive macrophage](http://purl.obolibrary.org/obo/CL_4030058) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000453" -- [lower jaw region](http://purl.obolibrary.org/obo/UBERON_0001710) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [upper jaw region](http://purl.obolibrary.org/obo/UBERON_0001709) +### UV sensitive photoreceptor cell `http://purl.obolibrary.org/obo/CL_0000494` #### Added -- [lower jaw region](http://purl.obolibrary.org/obo/UBERON_0001710) SubClassOf [structure with developmental contribution from neural crest](http://purl.obolibrary.org/obo/UBERON_0010314) +- [UV sensitive photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000494) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009221" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### lower leg epithelium `http://purl.obolibrary.org/obo/UBERON_0005229` -#### Removed -- [lower leg epithelium](http://purl.obolibrary.org/obo/UBERON_0005229) SubClassOf [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) +### absorptive cell `http://purl.obolibrary.org/obo/CL_0000212` #### Added -- [lower leg epithelium](http://purl.obolibrary.org/obo/UBERON_0005229) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - +- [absorptive cell](http://purl.obolibrary.org/obo/CL_0000212) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009129" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### lower lip `http://purl.obolibrary.org/obo/UBERON_0001835` -#### Removed -- [lower lip](http://purl.obolibrary.org/obo/UBERON_0001835) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EHDAA2:0001020" -- [lower lip](http://purl.obolibrary.org/obo/UBERON_0001835) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Lip that covers the lower portion of the mouth.[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### acellular anatomical structure `http://purl.obolibrary.org/obo/UBERON_0000476` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [acellular anatomical structure](http://purl.obolibrary.org/obo/UBERON_0000476) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007013" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002060" +### acetylcholine binding `http://purl.obolibrary.org/obo/GO_0042166` +#### Added +- [acetylcholine binding](http://purl.obolibrary.org/obo/GO_0042166) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### lower respiratory tract cartilage `http://purl.obolibrary.org/obo/UBERON_0003603` +### acetylcholine metabolic process `http://purl.obolibrary.org/obo/GO_0008291` #### Added -- [lower respiratory tract cartilage](http://purl.obolibrary.org/obo/UBERON_0003603) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [acetylcholine metabolic process](http://purl.obolibrary.org/obo/GO_0008291) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### lower respiratory tract connective tissue `http://purl.obolibrary.org/obo/UBERON_0003580` +### acetylcholine transport `http://purl.obolibrary.org/obo/GO_0015870` #### Added -- [lower respiratory tract connective tissue](http://purl.obolibrary.org/obo/UBERON_0003580) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [acetylcholine transport](http://purl.obolibrary.org/obo/GO_0015870) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### lower respiratory tract smooth muscle `http://purl.obolibrary.org/obo/UBERON_0004233` +### acinar cell `http://purl.obolibrary.org/obo/CL_0000622` #### Added -- [lower respiratory tract smooth muscle](http://purl.obolibrary.org/obo/UBERON_0004233) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [acinar cell](http://purl.obolibrary.org/obo/CL_0000622) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009277" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### lumen of `http://purl.obolibrary.org/obo/RO_0002571` +### acts upstream of `http://purl.obolibrary.org/obo/RO_0002263` #### Removed -- [lumen of](http://purl.obolibrary.org/obo/RO_0002571) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [lumen of](http://purl.obolibrary.org/obo/RO_0002571) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [lumen of](http://purl.obolibrary.org/obo/RO_0002571) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002571" - -- [lumen of](http://purl.obolibrary.org/obo/RO_0002571) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [lumen of](http://purl.obolibrary.org/obo/RO_0002571) [id](http://www.geneontology.org/formats/oboInOwl#id) "lumen_of" +- [enables](http://purl.obolibrary.org/obo/RO_0002327) o [causally upstream of](http://purl.obolibrary.org/obo/RO_0002411) SubPropertyOf: [acts upstream of](http://purl.obolibrary.org/obo/RO_0002263) -- [lumen of](http://purl.obolibrary.org/obo/RO_0002571) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "lumen_of" - -### lumen of open tracheal system trachea `http://purl.obolibrary.org/obo/UBERON_0006832` +### acts upstream of or within `http://purl.obolibrary.org/obo/RO_0002264` #### Removed -- [lumen of open tracheal system trachea](http://purl.obolibrary.org/obo/UBERON_0006832) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007410" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [enables](http://purl.obolibrary.org/obo/RO_0002327) o [causally upstream of or within](http://purl.obolibrary.org/obo/RO_0002418) SubPropertyOf: [acts upstream of or within](http://purl.obolibrary.org/obo/RO_0002264) -### lumen of terminal part of digestive tract `http://purl.obolibrary.org/obo/UBERON_0012465` +### acts upstream of or within, negative effect `http://purl.obolibrary.org/obo/RO_0004033` #### Removed -- [lumen of terminal part of digestive tract](http://purl.obolibrary.org/obo/UBERON_0012465) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "includes the cloacal lumen, in species where this is present" - +- [acts upstream of or within, negative effect](http://purl.obolibrary.org/obo/RO_0004033) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [valid_for_go_gp2term](http://purl.obolibrary.org/obo/valid_for_go_gp2term) +- [acts upstream of or within, negative effect](http://purl.obolibrary.org/obo/RO_0004033) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) -### lumican `http://purl.obolibrary.org/obo/PR_000009981` -#### Removed -- [lumican](http://purl.obolibrary.org/obo/PR_000009981) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [lumican (human)](http://purl.obolibrary.org/obo/PR_P51884) - +- [acts upstream of or within, negative effect](http://purl.obolibrary.org/obo/RO_0004033) [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [acts upstream of or within, negative effect](http://purl.obolibrary.org/obo/RO_0004033) [is negative form of](http://purl.obolibrary.org/obo/RO_0004050) [acts upstream of or within](http://purl.obolibrary.org/obo/RO_0002264) -### luminal space of `http://purl.obolibrary.org/obo/RO_0002572` -#### Removed -- [luminal space of](http://purl.obolibrary.org/obo/RO_0002572) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +- [acts upstream of or within, negative effect](http://purl.obolibrary.org/obo/RO_0004033) [label](http://www.w3.org/2000/01/rdf-schema#label) "acts upstream of or within, negative effect" -- [luminal space of](http://purl.obolibrary.org/obo/RO_0002572) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "luminal_space_of" +- [acts upstream of or within, negative effect](http://purl.obolibrary.org/obo/RO_0004033) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2018-01-26T23:49:51Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) -- [luminal space of](http://purl.obolibrary.org/obo/RO_0002572) [id](http://www.geneontology.org/formats/oboInOwl#id) "luminal_space_of" +- ObjectProperty: [acts upstream of or within, negative effect](http://purl.obolibrary.org/obo/RO_0004033) -- [luminal space of](http://purl.obolibrary.org/obo/RO_0002572) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +- [acts upstream of or within, negative effect](http://purl.obolibrary.org/obo/RO_0004033) SubPropertyOf: [acts upstream of or within](http://purl.obolibrary.org/obo/RO_0002264) -- [luminal space of](http://purl.obolibrary.org/obo/RO_0002572) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002572" +- [enables](http://purl.obolibrary.org/obo/RO_0002327) o [causally upstream of or within, negative effect](http://purl.obolibrary.org/obo/RO_0004046) SubPropertyOf: [acts upstream of or within, negative effect](http://purl.obolibrary.org/obo/RO_0004033) -### lung `http://purl.obolibrary.org/obo/UBERON_0002048` +### acts upstream of or within, positive effect `http://purl.obolibrary.org/obo/RO_0004032` #### Removed -- [lung](http://purl.obolibrary.org/obo/UBERON_0002048) [never_in_taxon](http://purl.obolibrary.org/obo/RO_0002161) [NCBITaxon_7777](http://purl.obolibrary.org/obo/NCBITaxon_7777) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://github.com/obophenotype/uberon/issues/701" +- [acts upstream of or within, positive effect](http://purl.obolibrary.org/obo/RO_0004032) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - [editor](http://www.geneontology.org/formats/oboInOwl#editor) "https://orcid.org/0000-0002-9415-5104" +- [acts upstream of or within, positive effect](http://purl.obolibrary.org/obo/RO_0004032) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [valid_for_go_gp2term](http://purl.obolibrary.org/obo/valid_for_go_gp2term) -- [lung](http://purl.obolibrary.org/obo/UBERON_0002048) [never_in_taxon](http://purl.obolibrary.org/obo/RO_0002161) [Teleostei](http://purl.obolibrary.org/obo/NCBITaxon_32443) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://github.com/obophenotype/uberon/issues/701" +- [acts upstream of or within, positive effect](http://purl.obolibrary.org/obo/RO_0004032) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2018-01-26T23:49:30Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) - - [editor](http://www.geneontology.org/formats/oboInOwl#editor) "https://orcid.org/0000-0002-9415-5104" +- [acts upstream of or within, positive effect](http://purl.obolibrary.org/obo/RO_0004032) [label](http://www.w3.org/2000/01/rdf-schema#label) "acts upstream of or within, positive effect" -- [lung](http://purl.obolibrary.org/obo/UBERON_0002048) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "respiration organ in all air-breathing animals, including most tetrapods, a few fish and a few snails. In mammals and the more complex life forms, the two lungs are located in the chest on either side of the heart. Their principal function is to transport oxygen from the atmosphere into the bloodstream, and to release carbon dioxide from the bloodstream into the atmosphere. This exchange of gases is accomplished in the mosaic of specialized cells that form millions of tiny, exceptionally thin-walled air sacs called alveoli. // Avian lungs do not have alveoli as mammalian lungs do, they have Faveolar lungs. They contain millions of tiny passages known as para-bronchi, connected at both ends by the dorsobronchi" +- [acts upstream of or within, positive effect](http://purl.obolibrary.org/obo/RO_0004032) [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [lung](http://purl.obolibrary.org/obo/UBERON_0002048) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "pulmonary" +- ObjectProperty: [acts upstream of or within, positive effect](http://purl.obolibrary.org/obo/RO_0004032) -- [lung](http://purl.obolibrary.org/obo/UBERON_0002048) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VHOG:0000310" +- [acts upstream of or within, positive effect](http://purl.obolibrary.org/obo/RO_0004032) SubPropertyOf: [acts upstream of or within](http://purl.obolibrary.org/obo/RO_0002264) -- [lung](http://purl.obolibrary.org/obo/UBERON_0002048) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Either of two organs which allow gas exchange absorbing oxygen from inhaled air and releasing carbon dioxide with exhaled air.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [enables](http://purl.obolibrary.org/obo/RO_0002327) o [causally upstream of or within, positive effect](http://purl.obolibrary.org/obo/RO_0004047) SubPropertyOf: [acts upstream of or within, positive effect](http://purl.obolibrary.org/obo/RO_0004032) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010567" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:SBH" - -- [lung](http://purl.obolibrary.org/obo/UBERON_0002048) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Lungs had already developed as paired ventral pockets from the intestine in the ancestor of Osteognathostomata. (...) In actinopterygian fishes, apart from Cladistia, the ventral intestinal pocket migrates dorsally and becomes the swim-bladder, a mainly hydrostatical organ (reference 1); Comparative transcriptome analyses indicate molecular homology of zebrafish swimbladder and Mammalian lung (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### acts upstream of, negative effect `http://purl.obolibrary.org/obo/RO_0004035` +#### Removed +- [acts upstream of, negative effect](http://purl.obolibrary.org/obo/RO_0004035) [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [acts upstream of, negative effect](http://purl.obolibrary.org/obo/RO_0004035) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [acts upstream of, negative effect](http://purl.obolibrary.org/obo/RO_0004035) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000310" +- [acts upstream of, negative effect](http://purl.obolibrary.org/obo/RO_0004035) [label](http://www.w3.org/2000/01/rdf-schema#label) "acts upstream of, negative effect" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.210, DOI:10.1371/journal.pone.0024019 Zheng W, Wang Z, Collins JE, Andrews RM, Stemple D, Gong Z, Comparative transcriptome analyses indicate molecular homology of zebrafish swimbladder and Mammalian lung. PLoS One (2011)" +- [acts upstream of, negative effect](http://purl.obolibrary.org/obo/RO_0004035) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2018-01-26T23:53:22Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) -#### Added -- [lung](http://purl.obolibrary.org/obo/UBERON_0002048) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [acts upstream of, negative effect](http://purl.obolibrary.org/obo/RO_0004035) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [valid_for_go_gp2term](http://purl.obolibrary.org/obo/valid_for_go_gp2term) +- [acts upstream of, negative effect](http://purl.obolibrary.org/obo/RO_0004035) [is negative form of](http://purl.obolibrary.org/obo/RO_0004050) [acts upstream of](http://purl.obolibrary.org/obo/RO_0002263) -### lung blood vessel `http://purl.obolibrary.org/obo/UBERON_0003512` +- ObjectProperty: [acts upstream of, negative effect](http://purl.obolibrary.org/obo/RO_0004035) -#### Added -- [lung blood vessel](http://purl.obolibrary.org/obo/UBERON_0003512) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [acts upstream of, negative effect](http://purl.obolibrary.org/obo/RO_0004035) SubPropertyOf: [acts upstream of](http://purl.obolibrary.org/obo/RO_0002263) +- [acts upstream of, negative effect](http://purl.obolibrary.org/obo/RO_0004035) SubPropertyOf: [acts upstream of or within, negative effect](http://purl.obolibrary.org/obo/RO_0004033) -### lung bud `http://purl.obolibrary.org/obo/UBERON_0000118` +- [enables](http://purl.obolibrary.org/obo/RO_0002327) o [causally upstream of, negative effect](http://purl.obolibrary.org/obo/RO_0002305) SubPropertyOf: [acts upstream of, negative effect](http://purl.obolibrary.org/obo/RO_0004035) -#### Added -- [lung bud](http://purl.obolibrary.org/obo/UBERON_0000118) SubClassOf [endo-epithelium](http://purl.obolibrary.org/obo/UBERON_0005911) -### lung connective tissue `http://purl.obolibrary.org/obo/UBERON_0000114` +### acts upstream of, positive effect `http://purl.obolibrary.org/obo/RO_0004034` #### Removed -- [lung connective tissue](http://purl.obolibrary.org/obo/UBERON_0000114) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "it functions in the mechanical behavior of the lung, and forms a barrier to regulate the flow of plasma constituents from the capillaries to the airway and alveolar spaces" +- [acts upstream of, positive effect](http://purl.obolibrary.org/obo/RO_0004034) [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [lung connective tissue](http://purl.obolibrary.org/obo/UBERON_0000114) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - -#### Added -- [lung connective tissue](http://purl.obolibrary.org/obo/UBERON_0000114) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [acts upstream of, positive effect](http://purl.obolibrary.org/obo/RO_0004034) [label](http://www.w3.org/2000/01/rdf-schema#label) "acts upstream of, positive effect" +- [acts upstream of, positive effect](http://purl.obolibrary.org/obo/RO_0004034) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" -### lung endothelium `http://purl.obolibrary.org/obo/UBERON_0013479` +- [acts upstream of, positive effect](http://purl.obolibrary.org/obo/RO_0004034) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2018-01-26T23:53:14Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) -#### Added -- [lung endothelium](http://purl.obolibrary.org/obo/UBERON_0013479) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [acts upstream of, positive effect](http://purl.obolibrary.org/obo/RO_0004034) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [valid_for_go_gp2term](http://purl.obolibrary.org/obo/valid_for_go_gp2term) +- [acts upstream of, positive effect](http://purl.obolibrary.org/obo/RO_0004034) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) -### lung epithelium `http://purl.obolibrary.org/obo/UBERON_0000115` -#### Removed -- [lung epithelium](http://purl.obolibrary.org/obo/UBERON_0000115) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "A pseudostratified epithelium, containing basal cells, stem cells of the airway, submucosal glands and cartilage rings, is limited to the trachea and large lobar airways in the mouse (Morrisey and Hogan, 2010). This more complex epithelium extends to terminal bronchioles in the human[DOI:10.1242/dev.115469]" +- ObjectProperty: [acts upstream of, positive effect](http://purl.obolibrary.org/obo/RO_0004034) +- [acts upstream of, positive effect](http://purl.obolibrary.org/obo/RO_0004034) SubPropertyOf: [acts upstream of](http://purl.obolibrary.org/obo/RO_0002263) +- [acts upstream of, positive effect](http://purl.obolibrary.org/obo/RO_0004034) SubPropertyOf: [acts upstream of or within, positive effect](http://purl.obolibrary.org/obo/RO_0004032) -### lung field `http://purl.obolibrary.org/obo/UBERON_0022361` +- [enables](http://purl.obolibrary.org/obo/RO_0002327) o [causally upstream of, positive effect](http://purl.obolibrary.org/obo/RO_0002304) SubPropertyOf: [acts upstream of, positive effect](http://purl.obolibrary.org/obo/RO_0004034) -#### Added -- [lung field](http://purl.obolibrary.org/obo/UBERON_0022361) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) -### lung mesenchyme `http://purl.obolibrary.org/obo/UBERON_0004883` -#### Removed -- [lung mesenchyme](http://purl.obolibrary.org/obo/UBERON_0004883) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +### adaxial cell `http://purl.obolibrary.org/obo/CL_0007016` #### Added -- [lung mesenchyme](http://purl.obolibrary.org/obo/UBERON_0004883) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [adaxial cell](http://purl.obolibrary.org/obo/CL_0007016) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0000003" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### lung parenchyma `http://purl.obolibrary.org/obo/UBERON_0008946` +### adenohypophyseal placode `http://purl.obolibrary.org/obo/UBERON_0009122` #### Added -- [lung parenchyma](http://purl.obolibrary.org/obo/UBERON_0008946) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - +- [adenohypophyseal placode](http://purl.obolibrary.org/obo/UBERON_0009122) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### lymph node `http://purl.obolibrary.org/obo/UBERON_0000029` -#### Removed -- [lymph node](http://purl.obolibrary.org/obo/UBERON_0000029) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Lymph nodes that are associated with the lymphatic system have evolved in mammals.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### adenohypophysis `http://purl.obolibrary.org/obo/UBERON_0002196` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.630" +#### Added +- [adenohypophysis](http://purl.obolibrary.org/obo/UBERON_0002196) SubClassOf [reproductive structure](http://purl.obolibrary.org/obo/UBERON_0005156) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001273" +### adenohypophysis formation `http://purl.obolibrary.org/obo/GO_0048847` +#### Added +- [adenohypophysis formation](http://purl.obolibrary.org/obo/GO_0048847) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### lymph node follicle `http://purl.obolibrary.org/obo/UBERON_0010748` -#### Removed -- [lymph node follicle](http://purl.obolibrary.org/obo/UBERON_0010748) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [cortex of lymph node](http://purl.obolibrary.org/obo/UBERON_0002006) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP-def" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "issues/7" +### adenohypophysis morphogenesis `http://purl.obolibrary.org/obo/GO_0048855` #### Added -- [lymph node follicle](http://purl.obolibrary.org/obo/UBERON_0010748) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [cortex of lymph node](http://purl.obolibrary.org/obo/UBERON_0002006) +- [adenohypophysis morphogenesis](http://purl.obolibrary.org/obo/GO_0048855) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### lymph vasculature `http://purl.obolibrary.org/obo/UBERON_0004536` +### adepithelial cell `http://purl.obolibrary.org/obo/CL_0000462` #### Removed -- [lymph vasculature](http://purl.obolibrary.org/obo/UBERON_0004536) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "TAO:0005105" +- [adepithelial cell](http://purl.obolibrary.org/obo/CL_0000462) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00003219" -- [lymph vasculature](http://purl.obolibrary.org/obo/UBERON_0004536) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A network of blunt ended vessels lacking direct connection to the blood vascular system. These vessels collect and drain fluids and macromolecules from interstitial spaces throughout the animal. They derive from a subpopulation of endothelial cells and have walls that are much thinner than the blood carrying vessels. Lymphatic vessels are usually classified as either superficial or deep.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +#### Added +- [adepithelial cell](http://purl.obolibrary.org/obo/CL_0000462) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00003219" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### adipocyte `http://purl.obolibrary.org/obo/CL_0000136` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005105" +#### Added +- [adipocyte](http://purl.obolibrary.org/obo/CL_0000136) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009082" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [adipocyte](http://purl.obolibrary.org/obo/CL_0000136) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### lymphatic part of lymphoid system `http://purl.obolibrary.org/obo/UBERON_0006558` +### adipose macrophage `http://purl.obolibrary.org/obo/CL_0002477` #### Removed -- [lymphatic part of lymphoid system](http://purl.obolibrary.org/obo/UBERON_0006558) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "lymporeticular" - -- [lymphatic part of lymphoid system](http://purl.obolibrary.org/obo/UBERON_0006558) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA this is part of the cardiovascular system, but here we treat the CV system as a separate component of the circulatory system from the lymphatic system" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [lymphatic part of lymphoid system](http://purl.obolibrary.org/obo/UBERON_0006558) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the circulatory system which consists of a series of vessels which collect blood (exclusive of erythrocytes) which seep through capillary walls and return it to the veins.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010522" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +- [adipose macrophage](http://purl.obolibrary.org/obo/CL_0002477) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### lymphatic vessel `http://purl.obolibrary.org/obo/UBERON_0001473` -#### Removed -- [lymphatic vessel](http://purl.obolibrary.org/obo/UBERON_0001473) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D042601" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +### adipose tissue `http://purl.obolibrary.org/obo/UBERON_0001013` -- [lymphatic vessel](http://purl.obolibrary.org/obo/UBERON_0001473) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A network of blunt ended vessels lacking direct connection to the blood vascular system. These vessels collect and drain fluids and macromolecules from interstitial spaces throughout the animal. They derive from a subpopulation of endothelial cells and have walls that are much thinner than the blood carrying vessels. Lymphatic vessels are usually classified as either superficial or deep.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +#### Added +- [adipose tissue](http://purl.obolibrary.org/obo/UBERON_0001013) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### adrenal cortex formation `http://purl.obolibrary.org/obo/GO_0035802` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005105" +#### Added +- [adrenal cortex formation](http://purl.obolibrary.org/obo/GO_0035802) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [lymphatic vessel](http://purl.obolibrary.org/obo/UBERON_0001473) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A vessel that contains or conveys lymph.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0011005" +### adrenal gland capsule `http://purl.obolibrary.org/obo/UBERON_0002052` +#### Removed +- [adrenal gland capsule](http://purl.obolibrary.org/obo/UBERON_0002052) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" -- [lymphatic vessel](http://purl.obolibrary.org/obo/UBERON_0001473) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "TAO:0005105" +### adrenal medulla chromaffin cell `http://purl.obolibrary.org/obo/CL_0000336` -- [lymphatic vessel](http://purl.obolibrary.org/obo/UBERON_0001473) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [NCBITaxon_8342](http://purl.obolibrary.org/obo/NCBITaxon_8342) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1152/japplphysiol.00201.2013" +#### Added +- [adrenal medulla chromaffin cell](http://purl.obolibrary.org/obo/CL_0000336) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009167" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [lymphatic vessel](http://purl.obolibrary.org/obo/UBERON_0001473) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Tetrapods have evolved distinct lymphatic systems, in which lymphatic capillaries help drain most of the tissues of the body.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### adrenergic neuron `http://purl.obolibrary.org/obo/CL_0000109` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [adrenergic neuron](http://purl.obolibrary.org/obo/CL_0000109) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009061" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.627" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001249" +### adrenocorticotropic hormone secreting cell `http://purl.obolibrary.org/obo/CL_0000467` +#### Added +- [adrenocorticotropic hormone secreting cell](http://purl.obolibrary.org/obo/CL_0000467) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009216" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### lymphatic vessel endothelium `http://purl.obolibrary.org/obo/UBERON_0002042` -#### Removed -- [lymphatic vessel endothelium](http://purl.obolibrary.org/obo/UBERON_0002042) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The vascular endothelium that lines the lymph vessels.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +### adult organism `http://purl.obolibrary.org/obo/UBERON_0007023` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005258" +#### Added +- [adult organism](http://purl.obolibrary.org/obo/UBERON_0007023) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00003004" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### afferent neuron `http://purl.obolibrary.org/obo/CL_0000526` +#### Added +- [afferent neuron](http://purl.obolibrary.org/obo/CL_0000526) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009238" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### lymphocyte antigen 75 `http://purl.obolibrary.org/obo/PR_000001026` -#### Removed -- [lymphocyte antigen 75](http://purl.obolibrary.org/obo/PR_000001026) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [lymphocyte antigen 75 (human)](http://purl.obolibrary.org/obo/PR_000034294) +### aggregate regional part of brain `http://purl.obolibrary.org/obo/UBERON_0010009` +#### Added +- [aggregate regional part of brain](http://purl.obolibrary.org/obo/UBERON_0010009) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +- [aggregate regional part of brain](http://purl.obolibrary.org/obo/UBERON_0010009) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -### lymphoid system `http://purl.obolibrary.org/obo/UBERON_0002465` -#### Removed -- [lymphoid system](http://purl.obolibrary.org/obo/UBERON_0002465) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "We follow FMA and MA in distinguishing between lymphatic system and lymphoid system, with lymhoid tissue part of the non-lymphatic component, although these terms are often used interchangeably. We assume the ZFA term lymphatic tissue actually corresponds to the broader class (e.g. ZFA lymph node in the ZFA lymphatic system). See tracker for more comments." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://github.com/obophenotype/mouse-anatomy-ontology/issues/51" -- [lymphoid system](http://purl.obolibrary.org/obo/UBERON_0002465) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "lymphoid" +### alkali secreting cell `http://purl.obolibrary.org/obo/CL_0000435` -- [lymphoid system](http://purl.obolibrary.org/obo/UBERON_0002465) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the circulatory system which consists of a series of vessels which collect blood (exclusive of erythrocytes) which seep through capillary walls and return it to the veins.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [alkali secreting cell](http://purl.obolibrary.org/obo/CL_0000435) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009201" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010522" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### allantois `http://purl.obolibrary.org/obo/UBERON_0004340` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +#### Added +- [allantois](http://purl.obolibrary.org/obo/UBERON_0004340) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [lymphoid system](http://purl.obolibrary.org/obo/UBERON_0002465) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The lymphatic systems of reptiles and some birds have lymph hearts, and both groups have extensive lymph vessels, but their functional role in both lymph movement and plasma volume homeostasis is almost completely unknown [10.1152/japplphysiol.00201.2013]" -- [lymphoid system](http://purl.obolibrary.org/obo/UBERON_0002465) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The lymphatic system of anuran amphibians is characterized by large lymphatic sacs and two pairs of lymph hearts that return lymph into the venous circulation but no lymph vessels per se [10.1152/japplphysiol.00201.2013]" +### alobate nucleus `http://purl.obolibrary.org/obo/CL_0017509` -- [lymphoid system](http://purl.obolibrary.org/obo/UBERON_0002465) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Tetrapods have evolved distinct lymphatic systems, in which lymphatic capillaries help drain most of the tissues of the body.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000842" +#### Added +- [alobate nucleus](http://purl.obolibrary.org/obo/CL_0017509) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any nucleus that has characteristic some alobate." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### alpha-amino acid metabolic process `http://purl.obolibrary.org/obo/GO_1901605` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [alpha-amino acid metabolic process](http://purl.obolibrary.org/obo/GO_1901605) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.627" +### alpha-beta T cell `http://purl.obolibrary.org/obo/CL_0000789` +#### Added +- [alpha-beta T cell](http://purl.obolibrary.org/obo/CL_0000789) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009335" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### lymphoid tissue `http://purl.obolibrary.org/obo/UBERON_0001744` -#### Removed -- [lymphoid tissue](http://purl.obolibrary.org/obo/UBERON_0001744) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [Gnathostomata ](http://purl.obolibrary.org/obo/NCBITaxon_7776) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "lampreys lack organized lymphoid tissue" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "NCBIBook:NBK27108" +### alpha7 GABAergic cortical interneuron (Mmus) `http://purl.obolibrary.org/obo/CL_4023010` +#### Added +- [alpha7 GABAergic cortical interneuron (Mmus)](http://purl.obolibrary.org/obo/CL_4023010) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### lysosome-associated membrane glycoprotein 5 `http://purl.obolibrary.org/obo/PR_000032148` +### alveolar macrophage `http://purl.obolibrary.org/obo/CL_0000583` #### Removed -- [lysosome-associated membrane glycoprotein 5](http://purl.obolibrary.org/obo/PR_000032148) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [lysosome-associated membrane glycoprotein 5 (human)](http://purl.obolibrary.org/obo/PR_Q9UJQ1) +- [alveolar macrophage](http://purl.obolibrary.org/obo/CL_0000583) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### macrophage colony-stimulating factor 1 receptor `http://purl.obolibrary.org/obo/PR_000002062` -#### Removed -- [macrophage colony-stimulating factor 1 receptor](http://purl.obolibrary.org/obo/PR_000002062) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [macrophage colony-stimulating factor 1 receptor (human)](http://purl.obolibrary.org/obo/PR_P07333) - +### amacrine cell `http://purl.obolibrary.org/obo/CL_0000561` +#### Added +- [amacrine cell](http://purl.obolibrary.org/obo/CL_0000561) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009255" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### macrophage mannose receptor 1 `http://purl.obolibrary.org/obo/PR_000002972` -#### Removed -- [macrophage mannose receptor 1](http://purl.obolibrary.org/obo/PR_000002972) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [macrophage mannose receptor 1 (human)](http://purl.obolibrary.org/obo/PR_P22897) - +- [amacrine cell](http://purl.obolibrary.org/obo/CL_0000561) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### macrophage receptor MARCO `http://purl.obolibrary.org/obo/PR_000001884` -#### Removed -- [macrophage receptor MARCO](http://purl.obolibrary.org/obo/PR_000001884) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [macrophage receptor MARCO (human)](http://purl.obolibrary.org/obo/PR_Q9UEW3) +### amide binding `http://purl.obolibrary.org/obo/GO_0033218` +#### Added +- [amide binding](http://purl.obolibrary.org/obo/GO_0033218) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### macrophage scavenger receptor types I and II `http://purl.obolibrary.org/obo/PR_000001885` +### amide biosynthetic process `http://purl.obolibrary.org/obo/GO_0043604` #### Removed -- [macrophage scavenger receptor types I and II](http://purl.obolibrary.org/obo/PR_000001885) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [macrophage scavenger receptor types I and II (human)](http://purl.obolibrary.org/obo/PR_P21757) - +- [amide biosynthetic process](http://purl.obolibrary.org/obo/GO_0043604) SubClassOf [cellular nitrogen compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0044271) - -### macrosialin `http://purl.obolibrary.org/obo/PR_000002064` -#### Removed -- [macrosialin](http://purl.obolibrary.org/obo/PR_000002064) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [macrosialin (human)](http://purl.obolibrary.org/obo/PR_P34810) +#### Added +- [amide biosynthetic process](http://purl.obolibrary.org/obo/GO_0043604) SubClassOf [biosynthetic process](http://purl.obolibrary.org/obo/GO_0009058) +### amide metabolic process `http://purl.obolibrary.org/obo/GO_0043603` -### macula `http://purl.obolibrary.org/obo/UBERON_0000054` -#### Removed -- [macula](http://purl.obolibrary.org/obo/UBERON_0000054) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "macular" +#### Added +- [amide metabolic process](http://purl.obolibrary.org/obo/GO_0043603) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27189"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [macula](http://purl.obolibrary.org/obo/UBERON_0000054) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Patches of thickened, pseudostratified epithelium of the inner ear, consisting of regular arrays of sensory hair cells interspersed with supporting cells. Each patch has its own charcteristic shape and polarity pattern. (See Anatomical Atlas entry for sensory patches of the ear by T. Whitfield.)[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [amide metabolic process](http://purl.obolibrary.org/obo/GO_0043603) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000386" +- [amide metabolic process](http://purl.obolibrary.org/obo/GO_0043603) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [amide metabolic process](http://purl.obolibrary.org/obo/GO_0043603) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" -- [macula](http://purl.obolibrary.org/obo/UBERON_0000054) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this refers to the inner ear structure, not the macula of the retina. We follow ZFA in including a grouping class for the macula of utricle and sacule" +### amine binding `http://purl.obolibrary.org/obo/GO_0043176` #### Added -- [macula](http://purl.obolibrary.org/obo/UBERON_0000054) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [amine binding](http://purl.obolibrary.org/obo/GO_0043176) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### macula densa `http://purl.obolibrary.org/obo/UBERON_0002335` +### amine biosynthetic process `http://purl.obolibrary.org/obo/GO_0009309` #### Removed -- [macula densa](http://purl.obolibrary.org/obo/UBERON_0002335) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "not part of a nephron or distal tubule in MA and FMA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" - - - -### macula lutea `http://purl.obolibrary.org/obo/UBERON_0000053` +- [amine biosynthetic process](http://purl.obolibrary.org/obo/GO_0009309) SubClassOf [cellular nitrogen compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0044271) #### Added -- [macula lutea](http://purl.obolibrary.org/obo/UBERON_0000053) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [amine biosynthetic process](http://purl.obolibrary.org/obo/GO_0009309) SubClassOf [biosynthetic process](http://purl.obolibrary.org/obo/GO_0009058) -### male genital duct `http://purl.obolibrary.org/obo/UBERON_0006947` -#### Removed -- [male genital duct](http://purl.obolibrary.org/obo/UBERON_0006947) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA includes as parts: seminal vesicle, efferent ductule (vas efferentia), epididymis, deferent duct (vas deferens), ejaculatory duct" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [male genital duct](http://purl.obolibrary.org/obo/UBERON_0006947) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "we use this as a generic grouping class for a number of taxa" +### amine metabolic process `http://purl.obolibrary.org/obo/GO_0009308` +#### Added +- [amine metabolic process](http://purl.obolibrary.org/obo/GO_0009308) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### male organism `http://purl.obolibrary.org/obo/UBERON_0003101` -#### Removed -- [male organism](http://purl.obolibrary.org/obo/UBERON_0003101) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007004" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### amine transport `http://purl.obolibrary.org/obo/GO_0015837` +#### Added +- [amine transport](http://purl.obolibrary.org/obo/GO_0015837) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### male reproductive system `http://purl.obolibrary.org/obo/UBERON_0000079` +### amino acid binding `http://purl.obolibrary.org/obo/GO_0016597` #### Removed -- [male reproductive system](http://purl.obolibrary.org/obo/UBERON_0000079) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004927" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [male reproductive system](http://purl.obolibrary.org/obo/UBERON_0000079) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "By far, sexual reproduction is the more common pattern among living vertebrate forms and its widespread occurrence suggests that it is the plesiomorphic, or primitive, reproductive mode among the vertebrates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0792383369 Lombardi J, Comparative vertebrate reproduction (1998) p.43" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000725" +- [amino acid binding](http://purl.obolibrary.org/obo/GO_0016597) EquivalentTo [binding](http://purl.obolibrary.org/obo/GO_0005488) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33709](http://purl.obolibrary.org/obo/CHEBI_33709)) +- [amino acid binding](http://purl.obolibrary.org/obo/GO_0016597) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33709](http://purl.obolibrary.org/obo/CHEBI_33709) +#### Added +- [amino acid binding](http://purl.obolibrary.org/obo/GO_0016597) EquivalentTo [binding](http://purl.obolibrary.org/obo/GO_0005488) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238)) -### male urethral meatus `http://purl.obolibrary.org/obo/UBERON_0012241` -#### Removed -- [male urethral meatus](http://purl.obolibrary.org/obo/UBERON_0012241) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The external urethral orifice is the external opening or meatus of the urethra, normally placed at the tip of glans penis; it presents as a vertical slit, possibly bounded on either side by two small labia-like projections, In some cases the slit may be more rounded. This occurs naturally in some males and may also be a side effect of excess skin removal during circumcision. Congenital misplacement of the urethral orifice is called hypospadias when it is located in the underside (ventral aspect) of the penis, and epispadias when located in the dorsum (upper aspect). Improper shaping of the meatus can result in meatal stenosis." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:External_urethral_orifice_(male)" - +- [amino acid binding](http://purl.obolibrary.org/obo/GO_0016597) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238) +- [amino acid binding](http://purl.obolibrary.org/obo/GO_0016597) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### mammalian vulva `http://purl.obolibrary.org/obo/UBERON_0000997` -#### Removed -- [mammalian vulva](http://purl.obolibrary.org/obo/UBERON_0000997) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The external genital organs of the female, including the labia majora, labia minora, clitoris, and vestibule of the vagina. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### amino acid biosynthetic process `http://purl.obolibrary.org/obo/GO_0008652` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "amino acid synthesis" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001458" +- [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/17904"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/vulva" +- [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -- [mammalian vulva](http://purl.obolibrary.org/obo/UBERON_0000997) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "vulval" +- [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "amino acid biosynthesis" +- [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "amino acid formation" +- [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0008652" -### mammary bud `http://purl.obolibrary.org/obo/UBERON_0005333` -#### Removed -- [mammary bud](http://purl.obolibrary.org/obo/UBERON_0005333) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "produced along the length of the embryonic mammary ridge these buds represent the future locations of the mammary glands. Invagination of ectoderm at each bud leads to the development of epithelial diverticula, later maturing as lactiferous ducts" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/mammary+bud" +- [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Wikipedia:Amino_acid_synthesis" +- [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27304"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "cellular amino acid biosynthetic process" -### mammary gland `http://purl.obolibrary.org/obo/UBERON_0001911` -#### Removed -- [mammary gland](http://purl.obolibrary.org/obo/UBERON_0001911) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The detailed similarities of mammary glands in living monotremes, marsupials, and eutherians argue for a monophyletic origin of these glands, perhaps by the combination of parts of preexisting sebaceous and sweat glands.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "amino acid anabolism" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The chemical reactions and pathways resulting in the formation of amino acids, organic acids containing one or more amino substituents." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ISBN:0198506732" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652) [label](http://www.w3.org/2000/01/rdf-schema#label) "amino acid biosynthetic process" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.224" +- Class: [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000398" +- [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652) EquivalentTo [biosynthetic process](http://purl.obolibrary.org/obo/GO_0009058) and ([has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238)) -- [mammary gland](http://purl.obolibrary.org/obo/UBERON_0001911) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The mammary glands of humans are in the thoracid/breast region. In other mammals they may be located elsewhere on the mammary ridges." +- [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652) SubClassOf [biosynthetic process](http://purl.obolibrary.org/obo/GO_0009058) -- [mammary gland](http://purl.obolibrary.org/obo/UBERON_0001911) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "The BTO class represents the combination of nipple plus lobe" +- [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652) SubClassOf [amino acid metabolic process](http://purl.obolibrary.org/obo/GO_0006520) -- [mammary gland](http://purl.obolibrary.org/obo/UBERON_0001911) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "The MA class represents a composite structure, including the nipple, fat, connective tissue, smooth muscle as parts" +- [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652) SubClassOf [has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238) -- [mammary gland](http://purl.obolibrary.org/obo/UBERON_0001911) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "A mouse mammary gland contains a single duct or sinus, forming 5-10 secondary ducts" -- [mammary gland](http://purl.obolibrary.org/obo/UBERON_0001911) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "mammary" +### amino acid catabolic process `http://purl.obolibrary.org/obo/GO_0009063` -- [mammary gland](http://purl.obolibrary.org/obo/UBERON_0001911) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "The FMA class represents an individule lobe. The nipple is not a part" +#### Added +- [amino acid catabolic process](http://purl.obolibrary.org/obo/GO_0009063) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "amino acid degradation" -- [mammary gland](http://purl.obolibrary.org/obo/UBERON_0001911) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Any of the milk-producing apocrine glands typically occurring in pairs in female mammals and consisting of lobes containing clusters of alveoli with a system of ducts to convey the milk to an external nipple or teat. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/mammary+gland" +- [amino acid catabolic process](http://purl.obolibrary.org/obo/GO_0009063) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "amino acid catabolism" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [amino acid catabolic process](http://purl.obolibrary.org/obo/GO_0009063) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/17904"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [amino acid catabolic process](http://purl.obolibrary.org/obo/GO_0009063) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0009063" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [amino acid catabolic process](http://purl.obolibrary.org/obo/GO_0009063) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000398" +- [amino acid catabolic process](http://purl.obolibrary.org/obo/GO_0009063) [label](http://www.w3.org/2000/01/rdf-schema#label) "amino acid catabolic process" -- [mammary gland](http://purl.obolibrary.org/obo/UBERON_0001911) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The male Dayak fruit bat has lactating mammary glands" +- [amino acid catabolic process](http://purl.obolibrary.org/obo/GO_0009063) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "amino acid breakdown" +- [amino acid catabolic process](http://purl.obolibrary.org/obo/GO_0009063) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "cellular amino acid catabolic process" +- [amino acid catabolic process](http://purl.obolibrary.org/obo/GO_0009063) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The chemical reactions and pathways resulting in the breakdown of amino acids, organic acids containing one or more amino substituents." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:ai" -### mammary gland alveolus `http://purl.obolibrary.org/obo/UBERON_0003214` +- Class: [amino acid catabolic process](http://purl.obolibrary.org/obo/GO_0009063) -#### Added -- [mammary gland alveolus](http://purl.obolibrary.org/obo/UBERON_0003214) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [amino acid catabolic process](http://purl.obolibrary.org/obo/GO_0009063) EquivalentTo [catabolic process](http://purl.obolibrary.org/obo/GO_0009056) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238)) +- [amino acid catabolic process](http://purl.obolibrary.org/obo/GO_0009063) SubClassOf [amino acid metabolic process](http://purl.obolibrary.org/obo/GO_0006520) -### mammary gland connective tissue `http://purl.obolibrary.org/obo/UBERON_0003584` +- [amino acid catabolic process](http://purl.obolibrary.org/obo/GO_0009063) SubClassOf [catabolic process](http://purl.obolibrary.org/obo/GO_0009056) -#### Added -- [mammary gland connective tissue](http://purl.obolibrary.org/obo/UBERON_0003584) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [amino acid catabolic process](http://purl.obolibrary.org/obo/GO_0009063) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238) -### mammary gland cord `http://purl.obolibrary.org/obo/UBERON_0004182` +### amino acid export across plasma membrane `http://purl.obolibrary.org/obo/GO_0032973` #### Removed -- [mammary gland cord](http://purl.obolibrary.org/obo/UBERON_0004182) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in female mouse embryos, the primary mammary cord (aka 'mammary sprout') is formed between E15.5 and E16.5; once the primary cord reaches the adipocytes of the fat pad (around E16), it begins to branch in a characteristic dichotomous fashion to form the initial ductal tree" - -- [mammary gland cord](http://purl.obolibrary.org/obo/UBERON_0004182) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) - - - -### mammary gland luminal epithelium `http://purl.obolibrary.org/obo/UBERON_0011950` +- [amino acid export across plasma membrane](http://purl.obolibrary.org/obo/GO_0032973) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([has target start location](http://purl.obolibrary.org/obo/RO_0002338) some [cytosol](http://purl.obolibrary.org/obo/GO_0005829)) and ([has target end location](http://purl.obolibrary.org/obo/RO_0002339) some [extracellular region](http://purl.obolibrary.org/obo/GO_0005576)) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [plasma membrane](http://purl.obolibrary.org/obo/GO_0005886)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33709](http://purl.obolibrary.org/obo/CHEBI_33709)) #### Added -- [mammary gland luminal epithelium](http://purl.obolibrary.org/obo/UBERON_0011950) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [amino acid export across plasma membrane](http://purl.obolibrary.org/obo/GO_0032973) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([has target start location](http://purl.obolibrary.org/obo/RO_0002338) some [cytosol](http://purl.obolibrary.org/obo/GO_0005829)) and ([has target end location](http://purl.obolibrary.org/obo/RO_0002339) some [extracellular region](http://purl.obolibrary.org/obo/GO_0005576)) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [plasma membrane](http://purl.obolibrary.org/obo/GO_0005886)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238)) -### mammary gland myoepithelium `http://purl.obolibrary.org/obo/UBERON_0006954` +### amino acid import across plasma membrane `http://purl.obolibrary.org/obo/GO_0089718` #### Removed -- [mammary gland myoepithelium](http://purl.obolibrary.org/obo/UBERON_0006954) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "The cells of this structure are specialized epithelial cells that express smooth muscle-specific contractile and cytoskeletal properties; during lactation, MECs contract in response to oxytocin to generate the contractile force required for milk ejection; MECs are involved in all developmental stages of mammary gland morphogenesis, modulating proliferation and differentiation of luminal cells; they take part in the formation of extracellular matrix, synthesizing its components and secreting proteinases and their inhibitors; in addition, MECs are regarded as natural cancer suppressors: they secrete suppressor proteins limiting cancer growth, invasiveness, and neoangiogenesis; MECs are markedly resistant to malignant transformation and they are able to suppress the transformation of neighboring luminal cells[MP]" +- [amino acid import across plasma membrane](http://purl.obolibrary.org/obo/GO_0089718) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([has target start location](http://purl.obolibrary.org/obo/RO_0002338) some [extracellular region](http://purl.obolibrary.org/obo/GO_0005576)) and ([has target end location](http://purl.obolibrary.org/obo/RO_0002339) some [cytosol](http://purl.obolibrary.org/obo/GO_0005829)) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [plasma membrane](http://purl.obolibrary.org/obo/GO_0005886)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33709](http://purl.obolibrary.org/obo/CHEBI_33709)) +#### Added +- [amino acid import across plasma membrane](http://purl.obolibrary.org/obo/GO_0089718) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([has target start location](http://purl.obolibrary.org/obo/RO_0002338) some [extracellular region](http://purl.obolibrary.org/obo/GO_0005576)) and ([has target end location](http://purl.obolibrary.org/obo/RO_0002339) some [cytosol](http://purl.obolibrary.org/obo/GO_0005829)) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [plasma membrane](http://purl.obolibrary.org/obo/GO_0005886)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238)) -### mammary gland smooth muscle `http://purl.obolibrary.org/obo/UBERON_0004235` +### amino acid metabolic process `http://purl.obolibrary.org/obo/GO_0006520` #### Added -- [mammary gland smooth muscle](http://purl.obolibrary.org/obo/UBERON_0004235) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - +- [amino acid metabolic process](http://purl.obolibrary.org/obo/GO_0006520) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) -### mammary placode `http://purl.obolibrary.org/obo/UBERON_0005311` -#### Removed -- [mammary placode](http://purl.obolibrary.org/obo/UBERON_0005311) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in mouse, five pairs of symmetrically positioned mammary placodes (three thoracic and two inguinal) form at reproducible locations along the mammary line at E11.5; the individual pairs develop asynchronously and in a distinct order; pair 3 is first, followed by pair 4, then by pairs 1 and 5 (which develop together), and finally by pair 2; the orientation of placodal cells is not uniform, suggesting that placodes are formed by migration of cells from the mammary line; between E11.5 and E12.5, each mammary placode expands and invaginates into the underlying mesenchyme to form an early bulb-shaped mammary bud[MP]" +- [amino acid metabolic process](http://purl.obolibrary.org/obo/GO_0006520) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - -### mammary ridge `http://purl.obolibrary.org/obo/UBERON_0008425` +### amino acid transmembrane export from vacuole `http://purl.obolibrary.org/obo/GO_0032974` #### Removed -- [mammary ridge](http://purl.obolibrary.org/obo/UBERON_0008425) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The first manifestation of the mammary gland in many mammals is an elevated ridge or milk line, which then fragments into individual buds in specific regions lateral of the dorsal midline. After initial development of the milk lines they go into remission." - -- [mammary ridge](http://purl.obolibrary.org/obo/UBERON_0008425) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "in mouse, mammary gland development begins shortly after mid-gestation (about E10.5); epidermal cells within the milk line become columnar and multilayered, defining a ridge that protrudes above and below the plane of the single-layered primitive epidermis or periderm; by E11.5, five pairs of lens-shaped placodes form along the mammary line at the site of each future nipple.[MP]" - -- [mammary ridge](http://purl.obolibrary.org/obo/UBERON_0008425) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "These buds are either located in the thoracic region in primates, in the inguinal area in ungulates or along the entire length of the trunk in rodents and pigs. In humans, milk lines appear in the seventh week of embryonic development" +- [amino acid transmembrane export from vacuole](http://purl.obolibrary.org/obo/GO_0032974) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([has target start location](http://purl.obolibrary.org/obo/RO_0002338) some [vacuolar lumen](http://purl.obolibrary.org/obo/GO_0005775)) and ([has target end location](http://purl.obolibrary.org/obo/RO_0002339) some [cytosol](http://purl.obolibrary.org/obo/GO_0005829)) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [membrane](http://purl.obolibrary.org/obo/GO_0016020)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33709](http://purl.obolibrary.org/obo/CHEBI_33709)) +#### Added +- [amino acid transmembrane export from vacuole](http://purl.obolibrary.org/obo/GO_0032974) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([has target start location](http://purl.obolibrary.org/obo/RO_0002338) some [vacuolar lumen](http://purl.obolibrary.org/obo/GO_0005775)) and ([has target end location](http://purl.obolibrary.org/obo/RO_0002339) some [cytosol](http://purl.obolibrary.org/obo/GO_0005829)) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [membrane](http://purl.obolibrary.org/obo/GO_0016020)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238)) -### mammillary body `http://purl.obolibrary.org/obo/UBERON_0002206` +### amino acid transmembrane import into vacuole `http://purl.obolibrary.org/obo/GO_0032975` #### Removed -- [mammillary body](http://purl.obolibrary.org/obo/UBERON_0002206) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002035](http://purl.obolibrary.org/obo/UBERON_0002035) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +- [amino acid transmembrane import into vacuole](http://purl.obolibrary.org/obo/GO_0032975) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([has target start location](http://purl.obolibrary.org/obo/RO_0002338) some [cytosol](http://purl.obolibrary.org/obo/GO_0005829)) and ([has target end location](http://purl.obolibrary.org/obo/RO_0002339) some [vacuolar lumen](http://purl.obolibrary.org/obo/GO_0005775)) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [membrane](http://purl.obolibrary.org/obo/GO_0016020)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33709](http://purl.obolibrary.org/obo/CHEBI_33709)) -- [mammillary body](http://purl.obolibrary.org/obo/UBERON_0002206) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002706](http://purl.obolibrary.org/obo/UBERON_0002706) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +#### Added +- [amino acid transmembrane import into vacuole](http://purl.obolibrary.org/obo/GO_0032975) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([has target start location](http://purl.obolibrary.org/obo/RO_0002338) some [cytosol](http://purl.obolibrary.org/obo/GO_0005829)) and ([has target end location](http://purl.obolibrary.org/obo/RO_0002339) some [vacuolar lumen](http://purl.obolibrary.org/obo/GO_0005775)) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [membrane](http://purl.obolibrary.org/obo/GO_0016020)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238)) -- [mammillary body](http://purl.obolibrary.org/obo/UBERON_0002206) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0001935](http://purl.obolibrary.org/obo/UBERON_0001935) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" -- [mammillary body](http://purl.obolibrary.org/obo/UBERON_0002206) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002634](http://purl.obolibrary.org/obo/UBERON_0002634) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +### amino acid transmembrane transport `http://purl.obolibrary.org/obo/GO_0003333` +#### Removed +- [amino acid transmembrane transport](http://purl.obolibrary.org/obo/GO_0003333) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [membrane](http://purl.obolibrary.org/obo/GO_0016020)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33709](http://purl.obolibrary.org/obo/CHEBI_33709)) #### Added -- [mammillary body](http://purl.obolibrary.org/obo/UBERON_0002206) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [amino acid transmembrane transport](http://purl.obolibrary.org/obo/GO_0003333) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [membrane](http://purl.obolibrary.org/obo/GO_0016020)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238)) -### mandibular nerve `http://purl.obolibrary.org/obo/UBERON_0000375` +### amino acid transmembrane transporter activity `http://purl.obolibrary.org/obo/GO_0015171` #### Removed -- [mandibular nerve](http://purl.obolibrary.org/obo/UBERON_0000375) SubClassOf [nerve](http://purl.obolibrary.org/obo/UBERON_0001021) +- [amino acid transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015171) EquivalentTo [transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0022857) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33709](http://purl.obolibrary.org/obo/CHEBI_33709)) + +- [amino acid transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015171) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33709](http://purl.obolibrary.org/obo/CHEBI_33709) #### Added -- [mandibular nerve](http://purl.obolibrary.org/obo/UBERON_0000375) SubClassOf [nerve of head region](http://purl.obolibrary.org/obo/UBERON_0011779) +- [amino acid transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015171) EquivalentTo [transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0022857) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238)) + +- [amino acid transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015171) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238) -### mandibular symphysis `http://purl.obolibrary.org/obo/UBERON_0006606` +### amino acid transport `http://purl.obolibrary.org/obo/GO_0006865` #### Removed -- [mandibular symphysis](http://purl.obolibrary.org/obo/UBERON_0006606) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in snakes, the mandibular symphysis is composed of soft tissues, allowing independent movement of each mandible" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0073040584" +- [amino acid transport](http://purl.obolibrary.org/obo/GO_0006865) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33709](http://purl.obolibrary.org/obo/CHEBI_33709)) -- [mandibular symphysis](http://purl.obolibrary.org/obo/UBERON_0006606) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Joint that articulates the left and right dentary bones. Mandibular symphysis is unpaired.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001851" +- [amino acid transport](http://purl.obolibrary.org/obo/GO_0006865) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33709](http://purl.obolibrary.org/obo/CHEBI_33709) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [amino acid transport](http://purl.obolibrary.org/obo/GO_0006865) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238)) + +- [amino acid transport](http://purl.obolibrary.org/obo/GO_0006865) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [amino acid transport](http://purl.obolibrary.org/obo/GO_0006865) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" -- [mandibular symphysis](http://purl.obolibrary.org/obo/UBERON_0006606) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [dentary](http://purl.obolibrary.org/obo/UBERON_0004742) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "connects adjacent mandibles" +### ammonium excretion `http://purl.obolibrary.org/obo/GO_0140734` #### Added -- [mandibular symphysis](http://purl.obolibrary.org/obo/UBERON_0006606) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [dentary](http://purl.obolibrary.org/obo/UBERON_0004742) +- [ammonium excretion](http://purl.obolibrary.org/obo/GO_0140734) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### manual acropodium region `http://purl.obolibrary.org/obo/UBERON_0012355` -#### Removed -- [manual acropodium region](http://purl.obolibrary.org/obo/UBERON_0012355) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "class refers to an entire limb segment, not just the bones" +### ammonium ion binding `http://purl.obolibrary.org/obo/GO_0070405` +#### Added +- [ammonium ion binding](http://purl.obolibrary.org/obo/GO_0070405) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### manual digit `http://purl.obolibrary.org/obo/UBERON_0002389` +### ammonium ion metabolic process `http://purl.obolibrary.org/obo/GO_0097164` #### Removed -- [manual digit](http://purl.obolibrary.org/obo/UBERON_0002389) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of the fingers of the manus.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" +- [ammonium ion metabolic process](http://purl.obolibrary.org/obo/GO_0097164) SubClassOf [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000857" +#### Added +- [ammonium ion metabolic process](http://purl.obolibrary.org/obo/GO_0097164) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [ammonium ion metabolic process](http://purl.obolibrary.org/obo/GO_0097164) SubClassOf [metabolic process](http://purl.obolibrary.org/obo/GO_0008152) +### ammonium transmembrane transporter activity `http://purl.obolibrary.org/obo/GO_0008519` -### manual digit bone `http://purl.obolibrary.org/obo/UBERON_0004249` -#### Removed -- [manual digit bone](http://purl.obolibrary.org/obo/UBERON_0004249) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Skeleton-partonomy-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +#### Added +- [ammonium transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0008519) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/26941"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [ammonium transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0008519) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MetaCyc:RXN-9615" -### manual digit digitopodial skeleton `http://purl.obolibrary.org/obo/UBERON_5102389` +### amnion `http://purl.obolibrary.org/obo/UBERON_0000305` #### Removed -- [manual digit digitopodial skeleton](http://purl.obolibrary.org/obo/UBERON_5102389) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class represents a series of phalanges plus a metapodial element. In comparative anatomy terminology we would call this a 'digit', but the label 'digit' is sometimes used to exclude metapodials and to include soft tissue. This series of elements is hypothesized to be homologous to radials." +- [amnion](http://purl.obolibrary.org/obo/UBERON_0000305) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### manual digit epithelium `http://purl.obolibrary.org/obo/UBERON_0005227` +### amnioserosa `http://purl.obolibrary.org/obo/UBERON_0010302` #### Added -- [manual digit epithelium](http://purl.obolibrary.org/obo/UBERON_0005227) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) +- [amnioserosa](http://purl.obolibrary.org/obo/UBERON_0010302) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000095" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### manual digit mesenchyme `http://purl.obolibrary.org/obo/UBERON_0005257` +### amnioserosa formation `http://purl.obolibrary.org/obo/GO_0007378` #### Added -- [manual digit mesenchyme](http://purl.obolibrary.org/obo/UBERON_0005257) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - +- [amnioserosa formation](http://purl.obolibrary.org/obo/GO_0007378) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### manual digit plus metapodial segment `http://purl.obolibrary.org/obo/UBERON_5002389` -#### Removed -- [manual digit plus metapodial segment](http://purl.obolibrary.org/obo/UBERON_5002389) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class represents a series of phalanges plus a metapodial element plus associated soft tissues. Instances of this class typically do not form a distinct unit." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://github.com/obophenotype/uberon/issues/458" +### amnioserosal cell `http://purl.obolibrary.org/obo/CL_0000350` +#### Added +- [amnioserosal cell](http://purl.obolibrary.org/obo/CL_0000350) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any extraembryonic cell that is part of some amnioserosa." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### manual digitopodium bone `http://purl.obolibrary.org/obo/UBERON_0012358` -#### Removed -- [manual digitopodium bone](http://purl.obolibrary.org/obo/UBERON_0012358) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) [Skeleton-partonomy-Design-Pattern](https://github.com/obophenotype/uberon/wiki/Skeleton-partonomy-Design-Pattern) +### amniotic fold `http://purl.obolibrary.org/obo/UBERON_0005971` +#### Added +- [amniotic fold](http://purl.obolibrary.org/obo/UBERON_0005971) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### manual digitopodium region `http://purl.obolibrary.org/obo/UBERON_0012141` -#### Removed -- [manual digitopodium region](http://purl.obolibrary.org/obo/UBERON_0012141) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "some sources call this the acropodium. see https://github.com/obophenotype/uberon/wiki/Subdivisions-of-the-autopod" +### amygdala excitatory neuron `http://purl.obolibrary.org/obo/CL_4023039` +#### Added +- [amygdala excitatory neuron](http://purl.obolibrary.org/obo/CL_4023039) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any neuron that has its soma located in some amygdala and is capable of some glutamate secretion, neurotransmission." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### manus `http://purl.obolibrary.org/obo/UBERON_0002398` -#### Removed -- [manus](http://purl.obolibrary.org/obo/UBERON_0002398) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "manual" -- [manus](http://purl.obolibrary.org/obo/UBERON_0002398) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "like all limb segments, this class encompasses both the unformed hand region of the embryo to the fully formed structure complete with skeleton" +### anal region `http://purl.obolibrary.org/obo/UBERON_0001353` +#### Added +- [anal region](http://purl.obolibrary.org/obo/UBERON_0001353) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### manus bone `http://purl.obolibrary.org/obo/UBERON_0005897` -#### Removed -- [manus bone](http://purl.obolibrary.org/obo/UBERON_0005897) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Skeleton-partonomy-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +### anatomical cluster `http://purl.obolibrary.org/obo/UBERON_0000477` +#### Added +- [anatomical cluster](http://purl.obolibrary.org/obo/UBERON_0000477) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007277" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### manus connective tissue `http://purl.obolibrary.org/obo/UBERON_0003598` +### anatomical entity `http://purl.obolibrary.org/obo/UBERON_0001062` #### Added -- [manus connective tissue](http://purl.obolibrary.org/obo/UBERON_0003598) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### manus joint `http://purl.obolibrary.org/obo/UBERON_0001489` -#### Removed -- [manus joint](http://purl.obolibrary.org/obo/UBERON_0001489) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_71345](http://purl.obolibrary.org/obo/FMA_71345) +- [anatomical entity](http://purl.obolibrary.org/obo/UBERON_0001062) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:10000000" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### anatomical row `http://purl.obolibrary.org/obo/UBERON_0034926` -### mapping_justification `https://w3id.org/sssom/mapping_justification` -#### Removed -- AnnotationProperty: [mapping_justification](https://w3id.org/sssom/mapping_justification) +#### Added +- [anatomical row](http://purl.obolibrary.org/obo/UBERON_0034926) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00100152" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### anatomical space `http://purl.obolibrary.org/obo/UBERON_0000464` -### mapping_provider `https://w3id.org/sssom/mapping_provider` -#### Removed -- AnnotationProperty: [mapping_provider](https://w3id.org/sssom/mapping_provider) +#### Added +- [anatomical space](http://purl.obolibrary.org/obo/UBERON_0000464) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007017" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [anatomical space](http://purl.obolibrary.org/obo/UBERON_0000464) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -### marginal zone of spleen `http://purl.obolibrary.org/obo/UBERON_0001251` -#### Removed -- [marginal zone of spleen](http://purl.obolibrary.org/obo/UBERON_0001251) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "WP says - (Some sources consider it to be the part of red pulp which borders on the white pulp, while other sources consider it to be neither red pulp nor white pulp.) - we use the adjacency relation here so it overlaps neither. FMA considers this an anatomical line." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +### anatomical structure `http://purl.obolibrary.org/obo/UBERON_0000061` #### Added -- [marginal zone of spleen](http://purl.obolibrary.org/obo/UBERON_0001251) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [anatomical structure](http://purl.obolibrary.org/obo/UBERON_0000061) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007001" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [anatomical structure](http://purl.obolibrary.org/obo/UBERON_0000061) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -### material anatomical entity `http://purl.obolibrary.org/obo/UBERON_0000465` -#### Removed -- [material anatomical entity](http://purl.obolibrary.org/obo/UBERON_0000465) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007016" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### anatomical structure development `http://purl.obolibrary.org/obo/GO_0048856` +#### Added +- [anatomical structure development](http://purl.obolibrary.org/obo/GO_0048856) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) -### maxillary artery `http://purl.obolibrary.org/obo/UBERON_0001616` -#### Removed -- [maxillary artery](http://purl.obolibrary.org/obo/UBERON_0001616) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "...1st pair undergoes partial regression, the remnants of which becomes part of the maxillary arteries" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://download.videohelp.com/vitualis/med/Vascular_Devt.html" +- [anatomical structure development](http://purl.obolibrary.org/obo/GO_0048856) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### anatomical structure maturation `http://purl.obolibrary.org/obo/GO_0071695` -### maxillary nerve `http://purl.obolibrary.org/obo/UBERON_0000377` -#### Removed -- [maxillary nerve](http://purl.obolibrary.org/obo/UBERON_0000377) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of trunk maxillary-mandibularis (AAO:0010669)[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010670" +#### Added +- [anatomical structure maturation](http://purl.obolibrary.org/obo/GO_0071695) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### anatomical surface region `http://purl.obolibrary.org/obo/UBERON_0036215` + +#### Added +- [anatomical surface region](http://purl.obolibrary.org/obo/UBERON_0036215) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -- [maxillary nerve](http://purl.obolibrary.org/obo/UBERON_0000377) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Medial ramus (sensory) of the trigeminal nerve.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010670" +### anatomical system `http://purl.obolibrary.org/obo/UBERON_0000467` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [anatomical system](http://purl.obolibrary.org/obo/UBERON_0000467) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004856" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" -- [maxillary nerve](http://purl.obolibrary.org/obo/UBERON_0000377) SubClassOf [nerve](http://purl.obolibrary.org/obo/UBERON_0001021) +### androgen secreting cell `http://purl.obolibrary.org/obo/CL_0000593` #### Added -- [maxillary nerve](http://purl.obolibrary.org/obo/UBERON_0000377) SubClassOf [nerve of head region](http://purl.obolibrary.org/obo/UBERON_0011779) +- [androgen secreting cell](http://purl.obolibrary.org/obo/CL_0000593) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009271" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### medial nasal prominence `http://purl.obolibrary.org/obo/UBERON_0004068` +### angioblastic mesenchymal cell `http://purl.obolibrary.org/obo/CL_0000566` #### Removed -- [medial nasal prominence](http://purl.obolibrary.org/obo/UBERON_0004068) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Fusion of right and left medial nasal processes forms a primary palate rostrally and the nasal septum caudally. The incisive bone, including upper incisor teeth and the rostral up- per lip, are derived from the primary palate. The nasal septum consists of bone, cartilage, and a patch of soft tissue membrane that separates right & left halves of the nasal cavity." +- [angioblastic mesenchymal cell](http://purl.obolibrary.org/obo/CL_0000566) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +#### Added +- [angioblastic mesenchymal cell](http://purl.obolibrary.org/obo/CL_0000566) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009258" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### medial zone of hypothalamus `http://purl.obolibrary.org/obo/UBERON_0002272` +### angiogenesis `http://purl.obolibrary.org/obo/GO_0001525` #### Added -- [medial zone of hypothalamus](http://purl.obolibrary.org/obo/UBERON_0002272) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [angiogenesis](http://purl.obolibrary.org/obo/GO_0001525) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### median lingual swelling `http://purl.obolibrary.org/obo/UBERON_0006756` -#### Removed -- [median lingual swelling](http://purl.obolibrary.org/obo/UBERON_0006756) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Most adult amphibians have a tongue, as do all known reptiles, birds and mammals. Thus it is likely that the tongue appeared with the establishment of tetrapods and this structure seems to be related, to some extant, to the terrestrial lifestyle.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2002.00073.x" +### animal organ formation `http://purl.obolibrary.org/obo/GO_0048645` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [animal organ formation](http://purl.obolibrary.org/obo/GO_0048645) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### animal organ morphogenesis `http://purl.obolibrary.org/obo/GO_0009887` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000730" +#### Added +- [animal organ morphogenesis](http://purl.obolibrary.org/obo/GO_0009887) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Eumetazoa](http://purl.obolibrary.org/obo/NCBITaxon_6072) +- [animal organ morphogenesis](http://purl.obolibrary.org/obo/GO_0009887) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +- [animal organ morphogenesis](http://purl.obolibrary.org/obo/GO_0009887) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) only [Eumetazoa](http://purl.obolibrary.org/obo/NCBITaxon_6072) -### median preoptic nucleus `http://purl.obolibrary.org/obo/UBERON_0002625` -#### Removed -- [median preoptic nucleus](http://purl.obolibrary.org/obo/UBERON_0002625) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0007626](http://purl.obolibrary.org/obo/UBERON_0007626) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" -- [median preoptic nucleus](http://purl.obolibrary.org/obo/UBERON_0002625) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002034](http://purl.obolibrary.org/obo/UBERON_0002034) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +### anlage `http://purl.obolibrary.org/obo/UBERON_0007688` -- [median preoptic nucleus](http://purl.obolibrary.org/obo/UBERON_0002625) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0006168" +#### Added +- [anlage](http://purl.obolibrary.org/obo/UBERON_0007688) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005426" - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) +### annulus pulposus cell `http://purl.obolibrary.org/obo/CL_0002602` + +#### Added +- [annulus pulposus cell](http://purl.obolibrary.org/obo/CL_0002602) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any connective tissue cell that is part of some annulus fibrosus disci intervertebralis." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" + -- [median preoptic nucleus](http://purl.obolibrary.org/obo/UBERON_0002625) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002689](http://purl.obolibrary.org/obo/UBERON_0002689) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +### anorectum `http://purl.obolibrary.org/obo/UBERON_8410050` -- [median preoptic nucleus](http://purl.obolibrary.org/obo/UBERON_0002625) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [anteroventral periventricular nucleus](http://purl.obolibrary.org/obo/UBERON_0002690) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +#### Added +- [anorectum](http://purl.obolibrary.org/obo/UBERON_8410050) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [median preoptic nucleus](http://purl.obolibrary.org/obo/UBERON_0002625) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002219](http://purl.obolibrary.org/obo/UBERON_0002219) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" -- [median preoptic nucleus](http://purl.obolibrary.org/obo/UBERON_0002625) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0001934](http://purl.obolibrary.org/obo/UBERON_0001934) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +### anterior lateral line ganglion neuron `http://purl.obolibrary.org/obo/CL_0008021` +#### Added +- [anterior lateral line ganglion neuron](http://purl.obolibrary.org/obo/CL_0008021) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any neuron that has its soma located in some anterior lateral line ganglion." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### mediastinal pleura `http://purl.obolibrary.org/obo/UBERON_0035431` +### anterior lateral line nerve glial cell `http://purl.obolibrary.org/obo/CL_1000239` #### Added -- [mediastinal pleura](http://purl.obolibrary.org/obo/UBERON_0035431) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [anterior lateral line nerve glial cell](http://purl.obolibrary.org/obo/CL_1000239) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any glial cell that is part of some anterior lateral line nerve." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### mediastinum `http://purl.obolibrary.org/obo/UBERON_0003728` -#### Removed -- [mediastinum](http://purl.obolibrary.org/obo/UBERON_0003728) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "mediastinal" +### anterior neural tube `http://purl.obolibrary.org/obo/UBERON_0003080` +#### Added +- [anterior neural tube](http://purl.obolibrary.org/obo/UBERON_0003080) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### medium-wave-sensitive opsin `http://purl.obolibrary.org/obo/PR_000001224` -#### Removed -- [medium-wave-sensitive opsin](http://purl.obolibrary.org/obo/PR_000001224) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [medium-wave-sensitive opsin (human)](http://purl.obolibrary.org/obo/PR_000050522) +### anterior part of tongue `http://purl.obolibrary.org/obo/UBERON_0010032` +#### Added +- [anterior part of tongue](http://purl.obolibrary.org/obo/UBERON_0010032) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### medulla oblongata `http://purl.obolibrary.org/obo/UBERON_0001896` -#### Removed -- [medulla oblongata](http://purl.obolibrary.org/obo/UBERON_0001896) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The posterior region of the brain that is continuous with the spinal cord. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-17, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### anterior visceral endoderm cell migration `http://purl.obolibrary.org/obo/GO_1905070` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [anterior visceral endoderm cell migration](http://purl.obolibrary.org/obo/GO_1905070) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000181" +### antral ovarian follicle growth `http://purl.obolibrary.org/obo/GO_0001547` -- [medulla oblongata](http://purl.obolibrary.org/obo/UBERON_0001896) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Posterior portion of the hindbrain which controls respiration, heartbeat, digestion, and swallowing as well as some locomotor responses.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [antral ovarian follicle growth](http://purl.obolibrary.org/obo/GO_0001547) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010486" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### anus `http://purl.obolibrary.org/obo/UBERON_0001245` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +#### Added +- [anus](http://purl.obolibrary.org/obo/UBERON_0001245) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00047153" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [medulla oblongata](http://purl.obolibrary.org/obo/UBERON_0001896) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Classical anatomical studies subdivided the vertebrate rhombencephalon into pons and medulla oblongata. (...) The medulla oblongata appears therefore as a tagma, that is, a group of segmental units (pseudorhombomeres, in this case) sharing some morphological and molecular characteristics, and in some aspects different from the segmental units present in adjoining brain regions, pons and spinal cord.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/j.ydbio.2008.08.017 Marin F, Aroca P, Puelles L, Hox gene colinear expression in the avian medulla oblongata is correlated with pseudorhombomeric domains. Developmental Biology (2008)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### apical ectodermal ridge `http://purl.obolibrary.org/obo/UBERON_0004356` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [apical ectodermal ridge](http://purl.obolibrary.org/obo/UBERON_0004356) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000181" +### apical ectodermal ridge formation `http://purl.obolibrary.org/obo/GO_1905139` #### Added -- [medulla oblongata](http://purl.obolibrary.org/obo/UBERON_0001896) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [apical ectodermal ridge formation](http://purl.obolibrary.org/obo/GO_1905139) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### medulla of organ `http://purl.obolibrary.org/obo/UBERON_0000958` -#### Removed -- [medulla of organ](http://purl.obolibrary.org/obo/UBERON_0000958) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "medullary" +### aponeurosis `http://purl.obolibrary.org/obo/UBERON_0006614` + +#### Added +- [aponeurosis](http://purl.obolibrary.org/obo/UBERON_0006614) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) + -- [medulla of organ](http://purl.obolibrary.org/obo/UBERON_0000958) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class is used in a very general sense" +### appendage `http://purl.obolibrary.org/obo/UBERON_0000026` +#### Added +- [appendage](http://purl.obolibrary.org/obo/UBERON_0000026) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007000" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### medulla of thymus `http://purl.obolibrary.org/obo/UBERON_0002124` +### appendage morphogenesis `http://purl.obolibrary.org/obo/GO_0035107` #### Added -- [medulla of thymus](http://purl.obolibrary.org/obo/UBERON_0002124) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [appendage morphogenesis](http://purl.obolibrary.org/obo/GO_0035107) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### medullary ray `http://purl.obolibrary.org/obo/UBERON_0009883` +### arachnoid trabecula `http://purl.obolibrary.org/obo/UBERON_0000439` #### Removed -- [medullary ray](http://purl.obolibrary.org/obo/UBERON_0009883) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA says parenchyma, MP says cortex" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [medullary ray](http://purl.obolibrary.org/obo/UBERON_0009883) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "Their name is potentially misleading -- the 'medullary' refers to their destination, not their location. They are located only in the renal cortex, and not in the renal medulla" +- [arachnoid trabecula](http://purl.obolibrary.org/obo/UBERON_0000439) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### melanopsin `http://purl.obolibrary.org/obo/PR_000001243` -#### Removed -- [melanopsin](http://purl.obolibrary.org/obo/PR_000001243) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [melanopsin (human)](http://purl.obolibrary.org/obo/PR_Q9UHM6) +### arcuate artery cell `http://purl.obolibrary.org/obo/CL_1001135` +#### Added +- [arcuate artery cell](http://purl.obolibrary.org/obo/CL_1001135) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney cortex artery cell that is part of some kidney arcuate artery." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### member of `http://purl.obolibrary.org/obo/RO_0002350` -#### Removed -- [member of](http://purl.obolibrary.org/obo/RO_0002350) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) +### arcuate artery endothelial cell `http://purl.obolibrary.org/obo/CL_1001213` -- [member of](http://purl.obolibrary.org/obo/RO_0002350) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "is member of" +#### Added +- [arcuate artery endothelial cell](http://purl.obolibrary.org/obo/CL_1001213) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any endothelial cell that is part of some kidney arcuate artery." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [member of](http://purl.obolibrary.org/obo/RO_0002350) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "SIO" -- [member of](http://purl.obolibrary.org/obo/RO_0002350) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "member part of" +### arcuate artery smooth muscle cell `http://purl.obolibrary.org/obo/CL_1001214` -- [member of](http://purl.obolibrary.org/obo/RO_0002350) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "An organism that is a member of a population of organisms" +#### Added +- [arcuate artery smooth muscle cell](http://purl.obolibrary.org/obo/CL_1001214) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any smooth muscle cell that is part of some kidney arcuate artery." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" +### arcuate vein cell `http://purl.obolibrary.org/obo/CL_1001142` -### membrane bone `http://purl.obolibrary.org/obo/UBERON_0007842` -#### Removed -- [membrane bone](http://purl.obolibrary.org/obo/UBERON_0007842) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Bone element that arises as a result of intramembranous ossification.[VSAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070" +#### Added +- [arcuate vein cell](http://purl.obolibrary.org/obo/CL_1001142) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney cortex vein cell that is part of some kidney arcuate vein." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" +### arcuate vein endothelial cell `http://purl.obolibrary.org/obo/CL_1001220` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000023" +#### Added +- [arcuate vein endothelial cell](http://purl.obolibrary.org/obo/CL_1001220) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any endothelial cell that is part of some kidney arcuate vein." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" -- [membrane bone](http://purl.obolibrary.org/obo/UBERON_0007842) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Intramembranous bone that forms deep in the organism.[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### arcuate vein smooth muscle cell `http://purl.obolibrary.org/obo/CL_1001221` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [arcuate vein smooth muscle cell](http://purl.obolibrary.org/obo/CL_1001221) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any smooth muscle cell that is part of some kidney arcuate vein." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001645" +### areolar connective tissue `http://purl.obolibrary.org/obo/UBERON_0006815` +#### Added +- [areolar connective tissue](http://purl.obolibrary.org/obo/UBERON_0006815) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### membranous labyrinth `http://purl.obolibrary.org/obo/UBERON_0001849` +### aromatic compound biosynthetic process `http://purl.obolibrary.org/obo/GO_0019438` #### Removed -- [membranous labyrinth](http://purl.obolibrary.org/obo/UBERON_0001849) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17815" +- [aromatic compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0019438) [label](http://www.w3.org/2000/01/rdf-schema#label) "aromatic compound biosynthetic process" -- [membranous labyrinth](http://purl.obolibrary.org/obo/UBERON_0001849) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The labyrinth, or inner ear, evolved very early in vertebrate history and, with many variations in configuration but none of basic design and function, has been retained by all vertebrates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [aromatic compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0019438) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "aromatic compound biosynthesis" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [aromatic compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0019438) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The chemical reactions and pathways resulting in the formation of aromatic compounds, any substance containing an aromatic carbon ring." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:ai" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [aromatic compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0019438) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0019438" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000729" +- [aromatic compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0019438) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "aromatic compound synthesis" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0471090588 Hildebrand M, Analysis of vertebrate structure (1983) p.366" +- [aromatic compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0019438) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "aromatic hydrocarbon biosynthesis" -- [membranous labyrinth](http://purl.obolibrary.org/obo/UBERON_0001849) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A system of communicating epithelial sacs and ducts within the bony labyrinth, containing the endolymph. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [aromatic compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0019438) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "aromatic compound anabolism" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [aromatic compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0019438) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "aromatic hydrocarbon biosynthetic process" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [aromatic compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0019438) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/membranous+labyrinth" +- [aromatic compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0019438) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "aromatic compound formation" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000729" +- Class: [aromatic compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0019438) -- [membranous labyrinth](http://purl.obolibrary.org/obo/UBERON_0001849) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "inner ear has parts membranous and osseuous/bony labyrinth. it's not clear where the EMAPA term 'labyrinth' belong, we place them here for now" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EMAPA" +- [aromatic compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0019438) EquivalentTo [biosynthetic process](http://purl.obolibrary.org/obo/GO_0009058) and ([has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_33655](http://purl.obolibrary.org/obo/CHEBI_33655)) -#### Added -- [membranous labyrinth](http://purl.obolibrary.org/obo/UBERON_0001849) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [aromatic compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0019438) SubClassOf [has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_33655](http://purl.obolibrary.org/obo/CHEBI_33655) +- [aromatic compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0019438) SubClassOf [cellular aromatic compound metabolic process](http://purl.obolibrary.org/obo/GO_0006725) -### membranous layer `http://purl.obolibrary.org/obo/UBERON_0000158` -#### Removed -- [membranous layer](http://purl.obolibrary.org/obo/UBERON_0000158) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A thin sheet or layer of pliable tissue, serving as a covering or envelope of a part, as the lining of a cavity, as a partition or septum, or to connect two structures." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ncithesaurus:Membrane" +- [aromatic compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0019438) SubClassOf [cellular biosynthetic process](http://purl.obolibrary.org/obo/GO_0044249) -### meningeal cluster `http://purl.obolibrary.org/obo/UBERON_0010743` +### aromatic compound catabolic process `http://purl.obolibrary.org/obo/GO_0019439` #### Removed -- [meningeal cluster](http://purl.obolibrary.org/obo/UBERON_0010743) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:32660" +- [aromatic compound catabolic process](http://purl.obolibrary.org/obo/GO_0019439) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -- [meningeal cluster](http://purl.obolibrary.org/obo/UBERON_0010743) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "meningeal" +- [aromatic compound catabolic process](http://purl.obolibrary.org/obo/GO_0019439) [label](http://www.w3.org/2000/01/rdf-schema#label) "aromatic compound catabolic process" -- [meningeal cluster](http://purl.obolibrary.org/obo/UBERON_0010743) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In some primitive organisms, the meningeal cluster includes only the primitive meninx" +- [aromatic compound catabolic process](http://purl.obolibrary.org/obo/GO_0019439) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The chemical reactions and pathways resulting in the breakdown of aromatic compounds, any substance containing an aromatic carbon ring." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:ai" +- [aromatic compound catabolic process](http://purl.obolibrary.org/obo/GO_0019439) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "aromatic compound catabolism" +- [aromatic compound catabolic process](http://purl.obolibrary.org/obo/GO_0019439) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0019439" -### meningeal macrophage `http://purl.obolibrary.org/obo/CL_0000879` -#### Removed -- [meningeal macrophage](http://purl.obolibrary.org/obo/CL_0000879) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A central nervous system macrophage found in the meninges (the three membranes that surround the brain). This macrophage types is highly phagocytic and expresses scavenger receptors." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:11591794" +- [aromatic compound catabolic process](http://purl.obolibrary.org/obo/GO_0019439) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "aromatic compound breakdown" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GO_REF:0000031" +- [aromatic compound catabolic process](http://purl.obolibrary.org/obo/GO_0019439) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "aromatic hydrocarbon catabolism" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:ana" +- [aromatic compound catabolic process](http://purl.obolibrary.org/obo/GO_0019439) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "aromatic hydrocarbon catabolic process" -- [meningeal macrophage](http://purl.obolibrary.org/obo/CL_0000879) EquivalentTo [central nervous system macrophage](http://purl.obolibrary.org/obo/CL_0000878) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [meninx](http://purl.obolibrary.org/obo/UBERON_0002360)) and ([capable of](http://purl.obolibrary.org/obo/RO_0002215) some [scavenger receptor activity](http://purl.obolibrary.org/obo/GO_0005044)) +- [aromatic compound catabolic process](http://purl.obolibrary.org/obo/GO_0019439) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "aromatic compound degradation" -- [meningeal macrophage](http://purl.obolibrary.org/obo/CL_0000879) SubClassOf [central nervous system macrophage](http://purl.obolibrary.org/obo/CL_0000878) - - [is_inferred](http://www.geneontology.org/formats/oboInOwl#is_inferred) "true" +- Class: [aromatic compound catabolic process](http://purl.obolibrary.org/obo/GO_0019439) -#### Added -- [meningeal macrophage](http://purl.obolibrary.org/obo/CL_0000879) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "MnMΦ" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) +- [aromatic compound catabolic process](http://purl.obolibrary.org/obo/GO_0019439) EquivalentTo [catabolic process](http://purl.obolibrary.org/obo/GO_0009056) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33655](http://purl.obolibrary.org/obo/CHEBI_33655)) - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:38347231" +- [aromatic compound catabolic process](http://purl.obolibrary.org/obo/GO_0019439) SubClassOf [cellular aromatic compound metabolic process](http://purl.obolibrary.org/obo/GO_0006725) -- [meningeal macrophage](http://purl.obolibrary.org/obo/CL_0000879) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "subdural leptomeningeal macrophage" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:33556248" +- [aromatic compound catabolic process](http://purl.obolibrary.org/obo/GO_0019439) SubClassOf [cellular catabolic process](http://purl.obolibrary.org/obo/GO_0044248) -- [meningeal macrophage](http://purl.obolibrary.org/obo/CL_0000879) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "sdΜΦ" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) +- [aromatic compound catabolic process](http://purl.obolibrary.org/obo/GO_0019439) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33655](http://purl.obolibrary.org/obo/CHEBI_33655) - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37232741" -- [meningeal macrophage](http://purl.obolibrary.org/obo/CL_0000879) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A border associated macrophage that is part of a meninx. This macrophage type is elongated and amoeboid spindle-shaped with limited mobility. This macrophage is highly phagocytic, expresses scavenger receptors, has dynamic protrusions and extends its processes during inflammation." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:24078900" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:11591794" +### arterial system `http://purl.obolibrary.org/obo/UBERON_0004572` +#### Removed +- [arterial system](http://purl.obolibrary.org/obo/UBERON_0004572) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GO_REF:0000031" +#### Added +- [arterial system](http://purl.obolibrary.org/obo/UBERON_0004572) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:ana" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37232741" +### arthropod sensillum `http://purl.obolibrary.org/obo/UBERON_0002536` -- [meningeal macrophage](http://purl.obolibrary.org/obo/CL_0000879) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "subdural meningeal macrophage" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:28323268" +#### Added +- [arthropod sensillum](http://purl.obolibrary.org/obo/UBERON_0002536) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007152" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [meningeal macrophage](http://purl.obolibrary.org/obo/CL_0000879) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "MM" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:33556248" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) +### arthropod tagma `http://purl.obolibrary.org/obo/UBERON_6000002` -- [meningeal macrophage](http://purl.obolibrary.org/obo/CL_0000879) EquivalentTo [border associated macrophage](http://purl.obolibrary.org/obo/CL_4042003) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [meninx](http://purl.obolibrary.org/obo/UBERON_0002360)) and ([capable of](http://purl.obolibrary.org/obo/RO_0002215) some [scavenger receptor activity](http://purl.obolibrary.org/obo/GO_0005044)) +#### Added +- [arthropod tagma](http://purl.obolibrary.org/obo/UBERON_6000002) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000002" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [meningeal macrophage](http://purl.obolibrary.org/obo/CL_0000879) SubClassOf [border associated macrophage](http://purl.obolibrary.org/obo/CL_4042003) +### articular capsule `http://purl.obolibrary.org/obo/UBERON_0001484` -### meningeal vein `http://purl.obolibrary.org/obo/UBERON_0018251` -#### Removed -- [meningeal vein](http://purl.obolibrary.org/obo/UBERON_0018251) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, any of several veins that accompany the meningeal arteries, communicate with the sinuses of the dura mater and diploic veins, and drain into the regional veins outside the cranial vault." +#### Added +- [articular capsule](http://purl.obolibrary.org/obo/UBERON_0001484) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +### articular system `http://purl.obolibrary.org/obo/UBERON_0004770` -### meninx `http://purl.obolibrary.org/obo/UBERON_0002360` -#### Removed -- [meninx](http://purl.obolibrary.org/obo/UBERON_0002360) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EV:0100312" +#### Added +- [articular system](http://purl.obolibrary.org/obo/UBERON_0004770) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -- [meninx](http://purl.obolibrary.org/obo/UBERON_0002360) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Whereas cyclostomes and fishes only have a single envelope called the primitive meninx, amphibians have two layers, consisting of an outer dura mater which is extremely dense and protective, and a pia-arachnoid or secondary meninx which is more delicate and vascular. Mammals have three meninges: pia mater (which follows all the convolutions of the brain and is the most interior), the arachnoid layer (which is delicate and sends strands to the pia mater), and the dura mater (the outer, more protective meninx)." -- [meninx](http://purl.obolibrary.org/obo/UBERON_0002360) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Not consider part of the CNS/neuraxis in FMA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +### articulation `http://purl.obolibrary.org/obo/UBERON_0004905` - - [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "https://github.com/obophenotype/uberon/issues/1261" +#### Added +- [articulation](http://purl.obolibrary.org/obo/UBERON_0004905) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005811" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [meninx](http://purl.obolibrary.org/obo/UBERON_0002360) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Membrane covering the brain and spinal cord. It is represented by a single layer in fishes, two in amphibians, reptiles and birds and three in mammals (named dura mater, arachnoid and pia mater). [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### ascending aorta morphogenesis `http://purl.obolibrary.org/obo/GO_0035910` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [ascending aorta morphogenesis](http://purl.obolibrary.org/obo/GO_0035910) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001295" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/meninges" +### ascending colon `http://purl.obolibrary.org/obo/UBERON_0001156` -- [meninx](http://purl.obolibrary.org/obo/UBERON_0002360) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_76821](http://purl.obolibrary.org/obo/FMA_76821) +#### Added +- [ascending colon](http://purl.obolibrary.org/obo/UBERON_0001156) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [meninx](http://purl.obolibrary.org/obo/UBERON_0002360) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "meningeal" -- [meninx](http://purl.obolibrary.org/obo/UBERON_0002360) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" +### astrocyte `http://purl.obolibrary.org/obo/CL_0000127` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [astrocyte](http://purl.obolibrary.org/obo/CL_0000127) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009075" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### auditory epithelial supporting cell `http://purl.obolibrary.org/obo/CL_0005014` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001295" +#### Added +- [auditory epithelial supporting cell](http://purl.obolibrary.org/obo/CL_0005014) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005244" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +### auditory hair cell `http://purl.obolibrary.org/obo/CL_0000202` -### meninx of diencephalon `http://purl.obolibrary.org/obo/UBERON_0003290` -#### Removed -- [meninx of diencephalon](http://purl.obolibrary.org/obo/UBERON_0003290) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Meninges that are part of the diencephalon. [Bgee_curator][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [auditory hair cell](http://purl.obolibrary.org/obo/CL_0000202) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009121" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### auditory hillocks `http://purl.obolibrary.org/obo/UBERON_0006208` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000009" +#### Added +- [auditory hillocks](http://purl.obolibrary.org/obo/UBERON_0006208) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -- [meninx of diencephalon](http://purl.obolibrary.org/obo/UBERON_0003290) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### auditory hillocks, pharyngeal arch 1 derived `http://purl.obolibrary.org/obo/UBERON_0016611` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [auditory hillocks, pharyngeal arch 1 derived](http://purl.obolibrary.org/obo/UBERON_0016611) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [auditory hillocks, pharyngeal arch 1 derived](http://purl.obolibrary.org/obo/UBERON_0016611) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000009" +### auditory hillocks, pharyngeal arch 2 derived `http://purl.obolibrary.org/obo/UBERON_0016612` +#### Added +- [auditory hillocks, pharyngeal arch 2 derived](http://purl.obolibrary.org/obo/UBERON_0016612) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### meninx of hindbrain `http://purl.obolibrary.org/obo/UBERON_0003291` -#### Removed -- [meninx of hindbrain](http://purl.obolibrary.org/obo/UBERON_0003291) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Meninges that are part of the hindbrain. [Bgee_curator][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [auditory hillocks, pharyngeal arch 2 derived](http://purl.obolibrary.org/obo/UBERON_0016612) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### autonomic neuron `http://purl.obolibrary.org/obo/CL_0000107` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000011" +#### Added +- [autonomic neuron](http://purl.obolibrary.org/obo/CL_0000107) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009059" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) + + +### axial mesoderm `http://purl.obolibrary.org/obo/UBERON_0003068` -- [meninx of hindbrain](http://purl.obolibrary.org/obo/UBERON_0003291) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" +#### Added +- [axial mesoderm](http://purl.obolibrary.org/obo/UBERON_0003068) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### axial skeleton plus cranial skeleton `http://purl.obolibrary.org/obo/UBERON_0005944` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [axial skeleton plus cranial skeleton](http://purl.obolibrary.org/obo/UBERON_0005944) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000011" -- [meninx of hindbrain](http://purl.obolibrary.org/obo/UBERON_0003291) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future hindbrain meninx](http://purl.obolibrary.org/obo/UBERON_0010091) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" +### axon tract `http://purl.obolibrary.org/obo/UBERON_0001018` #### Added -- [meninx of hindbrain](http://purl.obolibrary.org/obo/UBERON_0003291) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future hindbrain meninx](http://purl.obolibrary.org/obo/UBERON_0010091) +- [axon tract](http://purl.obolibrary.org/obo/UBERON_0001018) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005100" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### meninx of midbrain `http://purl.obolibrary.org/obo/UBERON_0003288` +### azurophil granule `http://purl.obolibrary.org/obo/GO_0042582` #### Removed -- [meninx of midbrain](http://purl.obolibrary.org/obo/UBERON_0003288) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Meninges that are part of the midbrain. [Bgee_curator][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [azurophil granule](http://purl.obolibrary.org/obo/GO_0042582) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Primary lysosomal granule found in neutrophil granulocytes. Contains a wide range of hydrolytic enzymes and is released into the extracellular fluid." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:jl" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:17152095" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [azurophil granule](http://purl.obolibrary.org/obo/GO_0042582) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [neutrophil](http://purl.obolibrary.org/obo/CL_0000775) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000012" +#### Added +- [azurophil granule](http://purl.obolibrary.org/obo/GO_0042582) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Primary lysosomal granule readily stainable with a Romanowsky stain." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:jl" -- [meninx of midbrain](http://purl.obolibrary.org/obo/UBERON_0003288) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:28717070" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:5914694" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "WIKIPEDIA:Azurophilic_granule" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:17152095" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000012" +- [azurophil granule](http://purl.obolibrary.org/obo/GO_0042582) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27231"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +### band form neutrophil `http://purl.obolibrary.org/obo/CL_0000560` -### meninx of spinal cord `http://purl.obolibrary.org/obo/UBERON_0003292` -#### Removed -- [meninx of spinal cord](http://purl.obolibrary.org/obo/UBERON_0003292) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Meninges that are part of the spinal cord. [Bgee_curator][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [band form neutrophil](http://purl.obolibrary.org/obo/CL_0000560) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009254" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### barrier cell `http://purl.obolibrary.org/obo/CL_0000215` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000443" +#### Added +- [barrier cell](http://purl.obolibrary.org/obo/CL_0000215) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009132" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [meninx of spinal cord](http://purl.obolibrary.org/obo/UBERON_0003292) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### basement membrane collagen trimer `http://purl.obolibrary.org/obo/GO_0098651` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [basement membrane collagen trimer](http://purl.obolibrary.org/obo/GO_0098651) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000443" +### basement membrane of epithelium `http://purl.obolibrary.org/obo/UBERON_0005769` +#### Removed +- [basement membrane of epithelium](http://purl.obolibrary.org/obo/UBERON_0005769) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### meninx of telencephalon `http://purl.obolibrary.org/obo/UBERON_0003289` +### basic amino acid transmembrane import into vacuole `http://purl.obolibrary.org/obo/GO_0034490` #### Removed -- [meninx of telencephalon](http://purl.obolibrary.org/obo/UBERON_0003289) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" +- [basic amino acid transmembrane import into vacuole](http://purl.obolibrary.org/obo/GO_0034490) EquivalentTo [basic amino acid transport](http://purl.obolibrary.org/obo/GO_0015802) and ([has target start location](http://purl.obolibrary.org/obo/RO_0002338) some [cytosol](http://purl.obolibrary.org/obo/GO_0005829)) and ([has target end location](http://purl.obolibrary.org/obo/RO_0002339) some [vacuolar lumen](http://purl.obolibrary.org/obo/GO_0005775)) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [membrane](http://purl.obolibrary.org/obo/GO_0016020)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33709](http://purl.obolibrary.org/obo/CHEBI_33709)) + +#### Added +- [basic amino acid transmembrane import into vacuole](http://purl.obolibrary.org/obo/GO_0034490) EquivalentTo [basic amino acid transport](http://purl.obolibrary.org/obo/GO_0015802) and ([has target start location](http://purl.obolibrary.org/obo/RO_0002338) some [cytosol](http://purl.obolibrary.org/obo/GO_0005829)) and ([has target end location](http://purl.obolibrary.org/obo/RO_0002339) some [vacuolar lumen](http://purl.obolibrary.org/obo/GO_0005775)) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [membrane](http://purl.obolibrary.org/obo/GO_0016020)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238)) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### basidiospore formation `http://purl.obolibrary.org/obo/GO_0034295` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [basidiospore formation](http://purl.obolibrary.org/obo/GO_0034295) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000010" -- [meninx of telencephalon](http://purl.obolibrary.org/obo/UBERON_0003289) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Meninges that are part of the telencephalon. [Bgee_curator][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### basket cell `http://purl.obolibrary.org/obo/CL_0000118` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [basket cell](http://purl.obolibrary.org/obo/CL_0000118) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009068" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000010" +### basophil mast progenitor cell `http://purl.obolibrary.org/obo/CL_0002028` +#### Removed +- [basophil mast progenitor cell](http://purl.obolibrary.org/obo/CL_0002028) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### mereotopologically related to `http://purl.obolibrary.org/obo/RO_0002323` +### basophil progenitor cell `http://purl.obolibrary.org/obo/CL_0000613` #### Removed -- [mereotopologically related to](http://purl.obolibrary.org/obo/RO_0002323) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +- [basophil progenitor cell](http://purl.obolibrary.org/obo/CL_0000613) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [mereotopologically related to](http://purl.obolibrary.org/obo/RO_0002323) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) -- [mereotopologically related to](http://purl.obolibrary.org/obo/RO_0002323) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving parthood or connectivity relationships" +### basophilic erythroblast `http://purl.obolibrary.org/obo/CL_0000549` +#### Removed +- [basophilic erythroblast](http://purl.obolibrary.org/obo/CL_0000549) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) + +#### Added +- [basophilic erythroblast](http://purl.obolibrary.org/obo/CL_0000549) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005236" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### merocrine gland `http://purl.obolibrary.org/obo/UBERON_0010243` +### behavior `http://purl.obolibrary.org/obo/GO_0007610` #### Removed -- [merocrine gland](http://purl.obolibrary.org/obo/UBERON_0010243) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "merocrine" +- [behavior](http://purl.obolibrary.org/obo/GO_0007610) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) + +#### Added +- [behavior](http://purl.obolibrary.org/obo/GO_0007610) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) +### bicarbonate binding `http://purl.obolibrary.org/obo/GO_0071890` -### mesangium `http://purl.obolibrary.org/obo/UBERON_0002319` -#### Removed -- [mesangium](http://purl.obolibrary.org/obo/UBERON_0002319) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "mesangial" +#### Added +- [bicarbonate binding](http://purl.obolibrary.org/obo/GO_0071890) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [mesangium](http://purl.obolibrary.org/obo/UBERON_0002319) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:28248" -- [mesangium](http://purl.obolibrary.org/obo/UBERON_0002319) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "WP considers this the same as glomerular mesangium. In MA, glomerular and extraglomerular are distingsuished. FMA class has no definition and is a type of stroma, which is inconsistent with our classification of this here." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +### bicarbonate channel activity `http://purl.obolibrary.org/obo/GO_0160133` #### Added -- [mesangium](http://purl.obolibrary.org/obo/UBERON_0002319) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [bicarbonate channel activity](http://purl.obolibrary.org/obo/GO_0160133) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/26780"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [bicarbonate channel activity](http://purl.obolibrary.org/obo/GO_0160133) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "hydrogencarbonate channel activity" -### mesencephalic neural crest `http://purl.obolibrary.org/obo/UBERON_0003849` -#### Removed -- [mesencephalic neural crest](http://purl.obolibrary.org/obo/UBERON_0003849) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### bicarbonate transmembrane transporter activity `http://purl.obolibrary.org/obo/GO_0015106` + +#### Added +- [bicarbonate transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015106) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "hydrogencarbonate transmembrane transporter activity" + +- [bicarbonate transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015106) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/26780"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43" +### bicarbonate transport `http://purl.obolibrary.org/obo/GO_0015701` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000796" +#### Added +- [bicarbonate transport](http://purl.obolibrary.org/obo/GO_0015701) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/26780"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [bicarbonate transport](http://purl.obolibrary.org/obo/GO_0015701) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "hydrogencarbonate transport" +- [bicarbonate transport](http://purl.obolibrary.org/obo/GO_0015701) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### mesenchyme `http://purl.obolibrary.org/obo/UBERON_0003104` -#### Removed -- [mesenchyme](http://purl.obolibrary.org/obo/UBERON_0003104) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of tissue consisting of loosely organized undifferentiated mesodermal cells that give rise to such structures as connective tissues, blood, lymphatics, bone, and cartilage.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### bilaminar disc `http://purl.obolibrary.org/obo/UBERON_0000091` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [bilaminar disc](http://purl.obolibrary.org/obo/UBERON_0000091) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010427" -- [mesenchyme](http://purl.obolibrary.org/obo/UBERON_0003104) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "mesenchymal" +### bile acid binding `http://purl.obolibrary.org/obo/GO_0032052` -- [mesenchyme](http://purl.obolibrary.org/obo/UBERON_0003104) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A mesh-like cell arrangement, less compact than an epithelium. Kimmel et al, 1995.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000393" +#### Added +- [bile acid binding](http://purl.obolibrary.org/obo/GO_0032052) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### bile acid biosynthetic process `http://purl.obolibrary.org/obo/GO_0006699` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [bile acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0006699) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Eumetazoa](http://purl.obolibrary.org/obo/NCBITaxon_6072) +- [bile acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0006699) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) only [Eumetazoa](http://purl.obolibrary.org/obo/NCBITaxon_6072) -### mesenchyme derived from head neural crest `http://purl.obolibrary.org/obo/UBERON_0007213` +### bile acid secretion `http://purl.obolibrary.org/obo/GO_0032782` #### Added -- [mesenchyme derived from head neural crest](http://purl.obolibrary.org/obo/UBERON_0007213) SubClassOf [mesenchyme derived from neural crest](http://purl.obolibrary.org/obo/UBERON_0014387) +- [bile acid secretion](http://purl.obolibrary.org/obo/GO_0032782) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### mesenchyme derived from trunk neural crest `http://purl.obolibrary.org/obo/UBERON_0007214` +### biliary system `http://purl.obolibrary.org/obo/UBERON_0002294` +#### Removed +- [biliary system](http://purl.obolibrary.org/obo/UBERON_0002294) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) #### Added -- [mesenchyme derived from trunk neural crest](http://purl.obolibrary.org/obo/UBERON_0007214) SubClassOf [mesenchyme derived from neural crest](http://purl.obolibrary.org/obo/UBERON_0014387) +- [biliary system](http://purl.obolibrary.org/obo/UBERON_0002294) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### mesenchyme from rhombencephalic neural crest `http://purl.obolibrary.org/obo/UBERON_0010258` +### biliary tree `http://purl.obolibrary.org/obo/UBERON_0001173` #### Removed -- [mesenchyme from rhombencephalic neural crest](http://purl.obolibrary.org/obo/UBERON_0010258) SubClassOf [mesenchyme derived from neural crest](http://purl.obolibrary.org/obo/UBERON_0014387) +- [biliary tree](http://purl.obolibrary.org/obo/UBERON_0001173) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### mesenchyme from somatopleure `http://purl.obolibrary.org/obo/UBERON_0010377` +### binucleate cell `http://purl.obolibrary.org/obo/CL_0000227` #### Added -- [mesenchyme from somatopleure](http://purl.obolibrary.org/obo/UBERON_0010377) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [binucleate cell](http://purl.obolibrary.org/obo/CL_0000227) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any cell that has characteristic some binucleate." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### mesenchyme from splanchnopleure `http://purl.obolibrary.org/obo/UBERON_0010378` +### biogenic amine secreting cell `http://purl.obolibrary.org/obo/CL_0000457` #### Added -- [mesenchyme from splanchnopleure](http://purl.obolibrary.org/obo/UBERON_0010378) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [biogenic amine secreting cell](http://purl.obolibrary.org/obo/CL_0000457) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009212" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### mesenchyme of carpal region `http://purl.obolibrary.org/obo/UBERON_0003319` -#### Removed -- [mesenchyme of carpal region](http://purl.obolibrary.org/obo/UBERON_0003319) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:19122" +### biosynthetic process `http://purl.obolibrary.org/obo/GO_0009058` +#### Added +- [biosynthetic process](http://purl.obolibrary.org/obo/GO_0009058) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) -### mesenchyme of footplate `http://purl.obolibrary.org/obo/UBERON_0003328` -#### Removed -- [mesenchyme of footplate](http://purl.obolibrary.org/obo/UBERON_0003328) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "We group two EMAPA classes here but these may need to be separated" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EMAPA" +### bipolar neuron `http://purl.obolibrary.org/obo/CL_0000103` +#### Added +- [bipolar neuron](http://purl.obolibrary.org/obo/CL_0000103) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009055" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### mesenchyme of handplate `http://purl.obolibrary.org/obo/UBERON_0009523` -#### Removed -- [mesenchyme of handplate](http://purl.obolibrary.org/obo/UBERON_0009523) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "We group two EMAPA classes here but these may need to be separated" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EMAPA" +### bladder cell `http://purl.obolibrary.org/obo/CL_1001319` +#### Added +- [bladder cell](http://purl.obolibrary.org/obo/CL_1001319) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any cell that is part of some urinary bladder." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### mesenchyme of mammary gland `http://purl.obolibrary.org/obo/UBERON_0003326` +### bladder lumen `http://purl.obolibrary.org/obo/UBERON_0009958` #### Added -- [mesenchyme of mammary gland](http://purl.obolibrary.org/obo/UBERON_0003326) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [bladder lumen](http://purl.obolibrary.org/obo/UBERON_0009958) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### mesenchyme of middle ear `http://purl.obolibrary.org/obo/UBERON_0009506` -#### Removed -- [mesenchyme of middle ear](http://purl.obolibrary.org/obo/UBERON_0009506) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Also 1st arch maxillary mesenchyme in EHDAA2" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" +### blastemal cell `http://purl.obolibrary.org/obo/CL_0000354` +#### Added +- [blastemal cell](http://purl.obolibrary.org/obo/CL_0000354) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009178" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### mesenchyme of pinna `http://purl.obolibrary.org/obo/UBERON_0003325` -#### Removed -- [mesenchyme of pinna](http://purl.obolibrary.org/obo/UBERON_0003325) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "EMAPA divides this spatially into condensation + rest, and temporally into mesenchyme and cartilage condensation" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EMAPA" +### blastocyst `http://purl.obolibrary.org/obo/UBERON_0000358` +#### Added +- [blastocyst](http://purl.obolibrary.org/obo/UBERON_0000358) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### mesenchyme of trachea `http://purl.obolibrary.org/obo/UBERON_0009505` +### blastocyst formation `http://purl.obolibrary.org/obo/GO_0001825` #### Added -- [mesenchyme of trachea](http://purl.obolibrary.org/obo/UBERON_0009505) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [blastocyst formation](http://purl.obolibrary.org/obo/GO_0001825) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### mesenchyme of umbilical cord `http://purl.obolibrary.org/obo/UBERON_0003422` +### blastocyst growth `http://purl.obolibrary.org/obo/GO_0001832` #### Added -- [mesenchyme of umbilical cord](http://purl.obolibrary.org/obo/UBERON_0003422) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [blastocyst growth](http://purl.obolibrary.org/obo/GO_0001832) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### mesenteric lymph node `http://purl.obolibrary.org/obo/UBERON_0002509` +### blastoderm cell `http://purl.obolibrary.org/obo/CL_0000353` #### Added -- [mesenteric lymph node](http://purl.obolibrary.org/obo/UBERON_0002509) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [blastoderm cell](http://purl.obolibrary.org/obo/CL_0000353) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009177" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### mesenteric lymphatic vessel `http://purl.obolibrary.org/obo/UBERON_8480006` +### blastula `http://purl.obolibrary.org/obo/UBERON_0000307` #### Added -- [mesenteric lymphatic vessel](http://purl.obolibrary.org/obo/UBERON_8480006) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [blastula](http://purl.obolibrary.org/obo/UBERON_0000307) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### mesenteric vein `http://purl.obolibrary.org/obo/UBERON_0005617` +### blood `http://purl.obolibrary.org/obo/UBERON_0000178` #### Removed -- [mesenteric vein](http://purl.obolibrary.org/obo/UBERON_0005617) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans the inferior mesenteric vein empties into the splenic vein, the superior mesenteric vein joins the splenic vein to form the portal vein" - +- [blood](http://purl.obolibrary.org/obo/UBERON_0000178) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +#### Added +- [blood](http://purl.obolibrary.org/obo/UBERON_0000178) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### mesentery `http://purl.obolibrary.org/obo/UBERON_0002095` -#### Removed -- [mesentery](http://purl.obolibrary.org/obo/UBERON_0002095) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "mesenteric" -- [mesentery](http://purl.obolibrary.org/obo/UBERON_0002095) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in Uberon, this term is used in the generic sense, not necessarily restricted to the peritoneum, consistent with FMA. WP: 'In anatomy, the mesentery is the double layer of peritoneum that suspends the jejunum and ileum from the posterior wall of the abdomen. Its meaning, however, is frequently extended to include double layers of peritoneum connecting various components of the abdominal cavity.'. TODO - check. Consider FMA:259286 - Region of mesentery." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +### blood cell `http://purl.obolibrary.org/obo/CL_0000081` +#### Added +- [blood cell](http://purl.obolibrary.org/obo/CL_0000081) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009044" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### mesentery of foregut-midgut junction `http://purl.obolibrary.org/obo/UBERON_0009483` +### blood clot `http://purl.obolibrary.org/obo/UBERON_0010210` #### Removed -- [mesentery of foregut-midgut junction](http://purl.obolibrary.org/obo/UBERON_0009483) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0521617147 Stevens CE and Hume ID, Comparative physiology of the vertebrate digestive system (2004) p.11" +- [blood clot](http://purl.obolibrary.org/obo/UBERON_0010210) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [blood clot](http://purl.obolibrary.org/obo/UBERON_0010210) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### blood coagulation `http://purl.obolibrary.org/obo/GO_0007596` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000430" +#### Added +- [blood coagulation](http://purl.obolibrary.org/obo/GO_0007596) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### blood island `http://purl.obolibrary.org/obo/UBERON_0003061` + +#### Added +- [blood island](http://purl.obolibrary.org/obo/UBERON_0003061) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### mesentery of midgut `http://purl.obolibrary.org/obo/UBERON_0003284` -#### Removed -- [mesentery of midgut](http://purl.obolibrary.org/obo/UBERON_0003284) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut.[uncertain][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000413" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0521617147 Stevens CE and Hume ID, Comparative physiology of the vertebrate digestive system (2004) p.11" +### blood plasma `http://purl.obolibrary.org/obo/UBERON_0001969` +#### Removed +- [blood plasma](http://purl.obolibrary.org/obo/UBERON_0001969) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### blood vasculature `http://purl.obolibrary.org/obo/UBERON_0004537` +#### Removed +- [blood vasculature](http://purl.obolibrary.org/obo/UBERON_0004537) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +#### Added +- [blood vasculature](http://purl.obolibrary.org/obo/UBERON_0004537) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### mesentery of oesophagus `http://purl.obolibrary.org/obo/UBERON_0003283` +### blood vessel `http://purl.obolibrary.org/obo/UBERON_0001981` #### Removed -- [mesentery of oesophagus](http://purl.obolibrary.org/obo/UBERON_0003283) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0521617147 Stevens CE and Hume ID, Comparative physiology of the vertebrate digestive system (2004) p.11" +- [blood vessel](http://purl.obolibrary.org/obo/UBERON_0001981) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### blood vessel endothelial cell `http://purl.obolibrary.org/obo/CL_0000071` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000415" +#### Added +- [blood vessel endothelial cell](http://purl.obolibrary.org/obo/CL_0000071) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009036" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +### blue sensitive photoreceptor cell `http://purl.obolibrary.org/obo/CL_0000495` + +#### Added +- [blue sensitive photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000495) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009222" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### mesentery of stomach `http://purl.obolibrary.org/obo/UBERON_0003281` -#### Removed -- [mesentery of stomach](http://purl.obolibrary.org/obo/UBERON_0003281) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The portion of the primitive mesentery that encloses the stomach; from its dorsal sheet, the greater omentum develops, and from its ventral sheet, the lesser omentum. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### body morphogenesis `http://purl.obolibrary.org/obo/GO_0010171` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [body morphogenesis](http://purl.obolibrary.org/obo/GO_0010171) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/mesogastrium" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000358" +### bone element `http://purl.obolibrary.org/obo/UBERON_0001474` +#### Added +- [bone element](http://purl.obolibrary.org/obo/UBERON_0001474) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### mesoderm `http://purl.obolibrary.org/obo/UBERON_0000926` +### bone marrow macrophage `http://purl.obolibrary.org/obo/CL_0002476` #### Removed -- [mesoderm](http://purl.obolibrary.org/obo/UBERON_0000926) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "mesodermal" +- [bone marrow macrophage](http://purl.obolibrary.org/obo/CL_0002476) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [mesoderm](http://purl.obolibrary.org/obo/UBERON_0000926) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "sponges do not seem to have a mesoderm and accordingly Amphimedon lacks transcription factors involved in mesoderm development (Fkh, Gsc, Twist, Snail)[http://www.nature.com/nature/journal/v466/n7307/full/nature09201.html]. Mesoderm may not be homologous across verteberates" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://github.com/obophenotype/uberon/wiki/The-neural-crest" -- [mesoderm](http://purl.obolibrary.org/obo/UBERON_0000926) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Primary germ layer that is the middle of the embryonic germ layers.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### bony projection `http://purl.obolibrary.org/obo/UBERON_0004530` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000304" +#### Added +- [bony projection](http://purl.obolibrary.org/obo/UBERON_0004530) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [mesoderm](http://purl.obolibrary.org/obo/UBERON_0000926) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### border follicle cell `http://purl.obolibrary.org/obo/CL_0000579` +#### Removed +- [border follicle cell](http://purl.obolibrary.org/obo/CL_0000579) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004905" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000152" +#### Added +- [border follicle cell](http://purl.obolibrary.org/obo/CL_0000579) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004905" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) Limb development and evolution, p.722" +### brain `http://purl.obolibrary.org/obo/UBERON_0000955` -- [mesoderm](http://purl.obolibrary.org/obo/UBERON_0000926) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000126" +#### Added +- [brain](http://purl.obolibrary.org/obo/UBERON_0000955) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005095" - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [mesoderm](http://purl.obolibrary.org/obo/UBERON_0000926) SubClassOf [germ layer](http://purl.obolibrary.org/obo/UBERON_0000923) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "sometimes not considered primary" + +### brain marginal zone `http://purl.obolibrary.org/obo/UBERON_0010403` #### Added -- [mesoderm](http://purl.obolibrary.org/obo/UBERON_0000926) SubClassOf [germ layer](http://purl.obolibrary.org/obo/UBERON_0000923) +- [brain marginal zone](http://purl.obolibrary.org/obo/UBERON_0010403) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### mesoderm blood island `http://purl.obolibrary.org/obo/UBERON_0003304` +### branching involved in seminal vesicle morphogenesis `http://purl.obolibrary.org/obo/GO_0061683` #### Removed -- [mesoderm blood island](http://purl.obolibrary.org/obo/UBERON_0003304) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:16115" +- [branching involved in seminal vesicle morphogenesis](http://purl.obolibrary.org/obo/GO_0061683) SubClassOf [developmental process involved in reproduction](http://purl.obolibrary.org/obo/GO_0003006) -- [mesoderm blood island](http://purl.obolibrary.org/obo/UBERON_0003304) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in EHDAA2, gives rise to blood and dorsal aorta" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" +### branching morphogenesis of a nerve `http://purl.obolibrary.org/obo/GO_0048755` -### mesoderm-derived structure `http://purl.obolibrary.org/obo/UBERON_0004120` -#### Removed -- [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Grouping term for query purposes" +#### Added +- [branching morphogenesis of a nerve](http://purl.obolibrary.org/obo/GO_0048755) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### branchiomotor neuron `http://purl.obolibrary.org/obo/CL_0005023` + +#### Added +- [branchiomotor neuron](http://purl.obolibrary.org/obo/CL_0005023) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005731" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### mesonephric capsule `http://purl.obolibrary.org/obo/UBERON_0006170` + +### bronchial smooth muscle cell `http://purl.obolibrary.org/obo/CL_0002598` #### Added -- [mesonephric capsule](http://purl.obolibrary.org/obo/UBERON_0006170) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [bronchial smooth muscle cell](http://purl.obolibrary.org/obo/CL_0002598) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any smooth muscle cell that is part of some bronchus." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### mesonephric collecting duct `http://purl.obolibrary.org/obo/UBERON_0005319` +### brush border epithelial cell `http://purl.obolibrary.org/obo/CL_0000239` #### Added -- [mesonephric collecting duct](http://purl.obolibrary.org/obo/UBERON_0005319) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [brush border epithelial cell](http://purl.obolibrary.org/obo/CL_0000239) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009143" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### mesonephric distal tubule `http://purl.obolibrary.org/obo/UBERON_0006190` +### brush cell of trachebronchial tree `http://purl.obolibrary.org/obo/CL_0002075` #### Removed -- [mesonephric distal tubule](http://purl.obolibrary.org/obo/UBERON_0006190) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "ZFA has terms for developing tubule" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" +- [brush cell of trachebronchial tree](http://purl.obolibrary.org/obo/CL_0002075) [label](http://www.w3.org/2000/01/rdf-schema#label) "brush cell of trachebronchial tree" + +#### Added +- [brush cell of trachebronchial tree](http://purl.obolibrary.org/obo/CL_0002075) [label](http://www.w3.org/2000/01/rdf-schema#label) "brush cell of tracheobronchial tree" +### buccopharyngeal membrane `http://purl.obolibrary.org/obo/UBERON_0006211` + +#### Added +- [buccopharyngeal membrane](http://purl.obolibrary.org/obo/UBERON_0006211) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### mesonephric duct `http://purl.obolibrary.org/obo/UBERON_0003074` -#### Removed -- [mesonephric duct](http://purl.obolibrary.org/obo/UBERON_0003074) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "In the male the Wolffian duct persists, and forms for example the epididymis, the ductus deferens, the ejaculatory duct, seminal vesicle and efferent ducts." -- [mesonephric duct](http://purl.obolibrary.org/obo/UBERON_0003074) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VHOG:0000082" +### caecum `http://purl.obolibrary.org/obo/UBERON_0001153` -- [mesonephric duct](http://purl.obolibrary.org/obo/UBERON_0003074) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) in all craniates, the archinephric duct develops in embryogeny.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [caecum](http://purl.obolibrary.org/obo/UBERON_0001153) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### calcitonin catabolic process `http://purl.obolibrary.org/obo/GO_0010816` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.686" +#### Added +- [calcitonin catabolic process](http://purl.obolibrary.org/obo/GO_0010816) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000082" -- [mesonephric duct](http://purl.obolibrary.org/obo/UBERON_0003074) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0005990" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### calcitonin secreting cell `http://purl.obolibrary.org/obo/CL_0000443` - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +#### Added +- [calcitonin secreting cell](http://purl.obolibrary.org/obo/CL_0000443) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009206" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) +- [calcitonin secreting cell](http://purl.obolibrary.org/obo/CL_0000443) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any secretory cell that is capable of some calcitonin secretion." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [mesonephric duct](http://purl.obolibrary.org/obo/UBERON_0003074) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The first-formed kidney duct, which drains the kidney of most anamniotes and becomes the ductus deferens of male amniotes. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-3, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### calcium ion binding `http://purl.obolibrary.org/obo/GO_0005509` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [calcium ion binding](http://purl.obolibrary.org/obo/GO_0005509) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000082" -- [mesonephric duct](http://purl.obolibrary.org/obo/UBERON_0003074) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical structure consisting of either of a pair of longitudinal ducts which carry urine and in males, sperm, to the cloaca.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000637" +### calcium ion transmembrane transporter activity `http://purl.obolibrary.org/obo/GO_0015085` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [calcium ion transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015085) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/26941"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [calcium ion transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015085) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MetaCyc:TRANS-RXN-144" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" -- [mesonephric duct](http://purl.obolibrary.org/obo/UBERON_0003074) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:16577" +### calcium ion transport `http://purl.obolibrary.org/obo/GO_0006816` -- [mesonephric duct](http://purl.obolibrary.org/obo/UBERON_0003074) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) +#### Added +- [calcium ion transport](http://purl.obolibrary.org/obo/GO_0006816) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### calcium-activated cation channel activity `http://purl.obolibrary.org/obo/GO_0005227` +#### Removed +- [calcium-activated cation channel activity](http://purl.obolibrary.org/obo/GO_0005227) EquivalentTo [gated channel activity](http://purl.obolibrary.org/obo/GO_0022836) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_23906](http://purl.obolibrary.org/obo/CHEBI_23906)) and ([has small molecule activator](http://purl.obolibrary.org/obo/RO_0012001) some [CHEBI_39124](http://purl.obolibrary.org/obo/CHEBI_39124)) -### mesonephric epithelium `http://purl.obolibrary.org/obo/UBERON_0005103` +- [calcium-activated cation channel activity](http://purl.obolibrary.org/obo/GO_0005227) SubClassOf [has small molecule activator](http://purl.obolibrary.org/obo/RO_0012001) some [CHEBI_39124](http://purl.obolibrary.org/obo/CHEBI_39124) #### Added -- [mesonephric epithelium](http://purl.obolibrary.org/obo/UBERON_0005103) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) +- [calcium-activated cation channel activity](http://purl.obolibrary.org/obo/GO_0005227) EquivalentTo [gated channel activity](http://purl.obolibrary.org/obo/GO_0022836) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_23906](http://purl.obolibrary.org/obo/CHEBI_23906)) and ([has small molecule activator](http://purl.obolibrary.org/obo/RO_0012001) some [CHEBI_29108](http://purl.obolibrary.org/obo/CHEBI_29108)) +- [calcium-activated cation channel activity](http://purl.obolibrary.org/obo/GO_0005227) SubClassOf [has small molecule activator](http://purl.obolibrary.org/obo/RO_0012001) some [CHEBI_29108](http://purl.obolibrary.org/obo/CHEBI_29108) -### mesonephric glomerulus `http://purl.obolibrary.org/obo/UBERON_0005325` -#### Removed -- [mesonephric glomerulus](http://purl.obolibrary.org/obo/UBERON_0005325) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "SCTID:362217000" -- [mesonephric glomerulus](http://purl.obolibrary.org/obo/UBERON_0005325) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In animals in which the mesonephros is the terminal kidney, such as amphibians and fish, the final organ is very complex, containing a large number of nephrons, most of which have an internal glomerulus.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0127224411 Vize PD, Woolf AS, Bard JBL, The kidney: From normal development to congenital disease (2003) p.3" +### calcium-mediated signaling using extracellular calcium source `http://purl.obolibrary.org/obo/GO_0035585` +#### Removed +- [calcium-mediated signaling using extracellular calcium source](http://purl.obolibrary.org/obo/GO_0035585) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2010-10-18T11:04:27Z" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [calcium-mediated signaling using extracellular calcium source](http://purl.obolibrary.org/obo/GO_0035585) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0035585" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [calcium-mediated signaling using extracellular calcium source](http://purl.obolibrary.org/obo/GO_0035585) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "bf" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [calcium-mediated signaling using extracellular calcium source](http://purl.obolibrary.org/obo/GO_0035585) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "extracellular calcium influx" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:BHF" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001238" +- [calcium-mediated signaling using extracellular calcium source](http://purl.obolibrary.org/obo/GO_0035585) [label](http://www.w3.org/2000/01/rdf-schema#label) "calcium-mediated signaling using extracellular calcium source" -- [mesonephric glomerulus](http://purl.obolibrary.org/obo/UBERON_0005325) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A tuft of capillaries found in a Bowman's capsule in which waste products are filtered from the blood and urine formation is initiated.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010388" +- [calcium-mediated signaling using extracellular calcium source](http://purl.obolibrary.org/obo/GO_0035585) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "calcium signalling using extracellular calcium source" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [calcium-mediated signaling using extracellular calcium source](http://purl.obolibrary.org/obo/GO_0035585) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [calcium-mediated signaling using extracellular calcium source](http://purl.obolibrary.org/obo/GO_0035585) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "calcium signaling using extracellular calcium source" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +- [calcium-mediated signaling using extracellular calcium source](http://purl.obolibrary.org/obo/GO_0035585) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The series of molecular signals in which a cell uses calcium ions imported from an extracellular source to convert a signal into a response." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:bf" -- [mesonephric glomerulus](http://purl.obolibrary.org/obo/UBERON_0005325) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "XAO/AAO class belongs here, as it refers to mesonephric structure" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "XAO" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:20192754" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:BHF" +- [calcium-mediated signaling using extracellular calcium source](http://purl.obolibrary.org/obo/GO_0035585) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "calcium-mediated signalling using extracellular calcium source" -### mesonephric juxtaglomerular apparatus `http://purl.obolibrary.org/obo/UBERON_0005320` +- Class: [calcium-mediated signaling using extracellular calcium source](http://purl.obolibrary.org/obo/GO_0035585) -#### Added -- [mesonephric juxtaglomerular apparatus](http://purl.obolibrary.org/obo/UBERON_0005320) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [calcium-mediated signaling using extracellular calcium source](http://purl.obolibrary.org/obo/GO_0035585) EquivalentTo [calcium-mediated signaling](http://purl.obolibrary.org/obo/GO_0019722) and ([starts with](http://purl.obolibrary.org/obo/RO_0002224) some [calcium ion import across plasma membrane](http://purl.obolibrary.org/obo/GO_0098703)) +- [calcium-mediated signaling using extracellular calcium source](http://purl.obolibrary.org/obo/GO_0035585) SubClassOf [starts with](http://purl.obolibrary.org/obo/RO_0002224) some [calcium ion import across plasma membrane](http://purl.obolibrary.org/obo/GO_0098703) -### mesonephric mesenchyme `http://purl.obolibrary.org/obo/UBERON_0005323` +- [calcium-mediated signaling using extracellular calcium source](http://purl.obolibrary.org/obo/GO_0035585) SubClassOf [calcium-mediated signaling](http://purl.obolibrary.org/obo/GO_0019722) -#### Added -- [mesonephric mesenchyme](http://purl.obolibrary.org/obo/UBERON_0005323) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) -### mesonephric nephron `http://purl.obolibrary.org/obo/UBERON_0005322` +### calcium-mediated signaling using intracellular calcium source `http://purl.obolibrary.org/obo/GO_0035584` #### Removed -- [mesonephric nephron](http://purl.obolibrary.org/obo/UBERON_0005322) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The structure that is the basic functional unit of the kidney.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:9268568" +- [calcium-mediated signaling using intracellular calcium source](http://purl.obolibrary.org/obo/GO_0035584) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2010-10-18T11:01:08Z" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010387" +- [calcium-mediated signaling using intracellular calcium source](http://purl.obolibrary.org/obo/GO_0035584) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "bf" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [calcium-mediated signaling using intracellular calcium source](http://purl.obolibrary.org/obo/GO_0035584) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The series of molecular signals in which a cell uses calcium ions released from an intracellular store to convert a signal into a response." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:bf" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:20192754" -#### Added -- [mesonephric nephron](http://purl.obolibrary.org/obo/UBERON_0005322) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:BHF" +- [calcium-mediated signaling using intracellular calcium source](http://purl.obolibrary.org/obo/GO_0035584) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "calcium-mediated signalling using intracellular calcium source" -### mesonephric nephron progenitor `http://purl.obolibrary.org/obo/UBERON_0010537` +- [calcium-mediated signaling using intracellular calcium source](http://purl.obolibrary.org/obo/GO_0035584) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -#### Added -- [mesonephric nephron progenitor](http://purl.obolibrary.org/obo/UBERON_0010537) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [calcium-mediated signaling using intracellular calcium source](http://purl.obolibrary.org/obo/GO_0035584) [label](http://www.w3.org/2000/01/rdf-schema#label) "calcium-mediated signaling using intracellular calcium source" +- [calcium-mediated signaling using intracellular calcium source](http://purl.obolibrary.org/obo/GO_0035584) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0035584" -### mesonephric proximal tubule `http://purl.obolibrary.org/obo/UBERON_0006192` -#### Removed -- [mesonephric proximal tubule](http://purl.obolibrary.org/obo/UBERON_0006192) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "ZFA has terms for developing tubule" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" +- [calcium-mediated signaling using intracellular calcium source](http://purl.obolibrary.org/obo/GO_0035584) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "calcium signalling using intracellular calcium source" +- [calcium-mediated signaling using intracellular calcium source](http://purl.obolibrary.org/obo/GO_0035584) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "calcium signaling using intracellular calcium source" +- Class: [calcium-mediated signaling using intracellular calcium source](http://purl.obolibrary.org/obo/GO_0035584) -### mesonephric tubule `http://purl.obolibrary.org/obo/UBERON_0000083` -#### Removed -- [mesonephric tubule](http://purl.obolibrary.org/obo/UBERON_0000083) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Any of the renal tubules composing the mesonephros. In mammals they function as excretory structures during the early embryonic development but are later incorporated into the reproductive system. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [calcium-mediated signaling using intracellular calcium source](http://purl.obolibrary.org/obo/GO_0035584) EquivalentTo [calcium-mediated signaling](http://purl.obolibrary.org/obo/GO_0019722) and ([starts with](http://purl.obolibrary.org/obo/RO_0002224) some [release of sequestered calcium ion into cytosol](http://purl.obolibrary.org/obo/GO_0051209)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [calcium-mediated signaling using intracellular calcium source](http://purl.obolibrary.org/obo/GO_0035584) SubClassOf [calcium-mediated signaling](http://purl.obolibrary.org/obo/GO_0019722) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [calcium-mediated signaling using intracellular calcium source](http://purl.obolibrary.org/obo/GO_0035584) SubClassOf [starts with](http://purl.obolibrary.org/obo/RO_0002224) some [release of sequestered calcium ion into cytosol](http://purl.obolibrary.org/obo/GO_0051209) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/mesonephric+tubule" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000500" -- [mesonephric tubule](http://purl.obolibrary.org/obo/UBERON_0000083) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "As the pronephros regresses, the archinephric duct induces the sequential differentiation of tubules in the more caudal parts of the nephric ridge. (...) Tubules that differentiate in the middle part of the nephric ridge form a kidney called the mesonephros. This kidney functions in the embryos and larvae of all vertebrates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### camera-type eye photoreceptor cell `http://purl.obolibrary.org/obo/CL_0010009` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [camera-type eye photoreceptor cell](http://purl.obolibrary.org/obo/CL_0010009) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any photoreceptor cell that is part of some camera-type eye." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [camera-type eye photoreceptor cell](http://purl.obolibrary.org/obo/CL_0010009) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.639" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000500" +### capsule of lens `http://purl.obolibrary.org/obo/UBERON_0001804` +#### Removed +- [capsule of lens](http://purl.obolibrary.org/obo/UBERON_0001804) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### mesonephros `http://purl.obolibrary.org/obo/UBERON_0000080` +### capsule of liver `http://purl.obolibrary.org/obo/UBERON_0016479` #### Removed -- [mesonephros](http://purl.obolibrary.org/obo/UBERON_0000080) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A kidney formed of nephric tubules arising in the middle region of the nephric ridge; a transient embryonic stage that replaces the pronephros, but is itself replaced by the adult metanephros [in mammals; in fishes and amphibians it is the adult kidney]. [Evolution, Fourth_Edition_(2006)_McGraw-Hill, Function, Kardong_KV, Vertebrates:_Comparative_Anatomy, p.745][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [capsule of liver](http://purl.obolibrary.org/obo/UBERON_0016479) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000038" - -- [mesonephros](http://purl.obolibrary.org/obo/UBERON_0000080) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In mammals, the mesonephros is the second of the three embryonic kidneys to be established and exists only transiently. In fish and amphibians, the mesonephros will form the mature kidney" +### capsule of parathyroid gland `http://purl.obolibrary.org/obo/UBERON_0001748` +#### Removed +- [capsule of parathyroid gland](http://purl.obolibrary.org/obo/UBERON_0001748) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [mesonephros](http://purl.obolibrary.org/obo/UBERON_0000080) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "As the pronephros regresses, the archinephric duct induces the sequential differentiation of tubules in the more caudal parts of the nephric ridge. (...) Tubules that differentiate in the middle part of the nephric ridge form a kidney called the mesonephros. This kidney functions in the embryos and larvae of all vertebrates. (...) In all vertebrate embryos, the kidney begins with the differentiation of a few renal tubules from the anterior end of the nephric ridge overlying the pericardial cavity. (...) This early-developing embryonic kidney is called the pronephros.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### carbohydrate binding `http://purl.obolibrary.org/obo/GO_0030246` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.639" +#### Added +- [carbohydrate binding](http://purl.obolibrary.org/obo/GO_0030246) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000038" +- [carbohydrate binding](http://purl.obolibrary.org/obo/GO_0030246) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [mesonephros](http://purl.obolibrary.org/obo/UBERON_0000080) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "By contrast to the pronephros, the histological features of the mammalian mesonephros, with its primitive glomeruli, suggest that it probably functions as a primitive kidney, and is involved in the production of much of the amniotic fluid. Within the two mesonephroi, one located on either side of the dorsal mesentery of the hindgut, a substantial number (in the region of about 40 or more) of cranio-caudally segmented mesonephric tubules are formed. It has, however, been suggested that only the most rostrally located 4-6 pairs of mesonephric tubules drain into the mesonephric portion of the nephric duct. This is now seen to extend along the length of the mesonephroi, being located towards their lateral sides. The mesonephros is also retained over a considerably longer period than the pronephros, but gradually undergoes regression in a cranio-caudal direction. While the rostral part displays clear evidence of regression its more caudal part appears to display evidence of functional activity. Within the medial part of the mesonephros, vesicles are formed, although no glomeruli are formed there in this species. It is, however, difficult to believe that the relatively enormous mesonephroi do not have an excretory role in the mouse, only serving as a base for gonadal differentiation. In the human embryo, the medial part of the mesonephric tubules enlarges, become invaginated by capillaries, and form glomeruli. These then take on an excretory role. In the mouse, the mesonephric ducts appear to be patent throughout their length[GUDMAP, modified]" -- [mesonephros](http://purl.obolibrary.org/obo/UBERON_0000080) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organ that is the definitive adult kidney. It replaces the earlier pronephros, which degenerates as the mesonephros becomes functional in feeding stage tadpoles.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010384" +### carbohydrate derivative binding `http://purl.obolibrary.org/obo/GO_0097367` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [carbohydrate derivative binding](http://purl.obolibrary.org/obo/GO_0097367) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +### carbohydrate derivative metabolic process `http://purl.obolibrary.org/obo/GO_1901135` -- [mesonephros](http://purl.obolibrary.org/obo/UBERON_0000080) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "mesonephric" +#### Added +- [carbohydrate derivative metabolic process](http://purl.obolibrary.org/obo/GO_1901135) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### carbohydrate derivative transport `http://purl.obolibrary.org/obo/GO_1901264` -### mesopodial skeleton `http://purl.obolibrary.org/obo/UBERON_0009878` -#### Removed -- [mesopodial skeleton](http://purl.obolibrary.org/obo/UBERON_0009878) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Limb skeleton subdivision consisting of endochondral bones increasing the freedom of movement of the autopodia, and located between zeugopodia and autopodia.[VSAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "VSAO:NI" +#### Added +- [carbohydrate derivative transport](http://purl.obolibrary.org/obo/GO_1901264) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0005022" +### carbohydrate metabolic process `http://purl.obolibrary.org/obo/GO_0005975` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" +#### Added +- [carbohydrate metabolic process](http://purl.obolibrary.org/obo/GO_0005975) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) -- [mesopodial skeleton](http://purl.obolibrary.org/obo/UBERON_0009878) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: subclass skeletal subdivision (VSAO:0000042) CHANGED TO: distally_connected_to subdivision of skeleton (UBERON:0010912)[VSAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [carbohydrate metabolic process](http://purl.obolibrary.org/obo/GO_0005975) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0005022" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" +### carbohydrate transport `http://purl.obolibrary.org/obo/GO_0008643` #### Added -- [mesopodial skeleton](http://purl.obolibrary.org/obo/UBERON_0009878) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [carbohydrate transport](http://purl.obolibrary.org/obo/GO_0008643) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### mesopodium bone `http://purl.obolibrary.org/obo/UBERON_0003656` -#### Removed -- [mesopodium bone](http://purl.obolibrary.org/obo/UBERON_0003656) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The carpus (wrist) and tarsus (ankle) of land vertebrates primitively had three rows of carpal or tarsal bones. Often some of these have become lost or fused in evolution. Three proximals. In the hand humans has all three. In the foot the middle proximal appears in 5-15% of people as an os trigonum. Centrale or os centrale, on the medial side. In humans and our closest relatives the African apes (chimpanzees and gorillas) it fuses to the scaphoid where it forms the articulation with the trapezoid bone; occasionally it stays separate. In Man's foot it is the navicular. Some early land vertebrates had more than one (up to three) os centrale per hand or foot. Distals, one per finger / toe at the base of each metacarpal or metatarsal. In mammals the 4th and 5th fuse. In the horse the 1st is lost" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Carpus_and_tarsus_of_land_vertebrates" +### carboxylic acid binding `http://purl.obolibrary.org/obo/GO_0031406` + +#### Added +- [carboxylic acid binding](http://purl.obolibrary.org/obo/GO_0031406) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) + -- [mesopodium bone](http://purl.obolibrary.org/obo/UBERON_0003656) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [mesopodial skeleton](http://purl.obolibrary.org/obo/UBERON_0009878) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "https://github.com/obophenotype/uberon/wiki/Skeleton-partonomy-Design-Pattern" +### carboxylic acid transport `http://purl.obolibrary.org/obo/GO_0046942` #### Added -- [mesopodium bone](http://purl.obolibrary.org/obo/UBERON_0003656) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [mesopodial skeleton](http://purl.obolibrary.org/obo/UBERON_0009878) +- [carboxylic acid transport](http://purl.obolibrary.org/obo/GO_0046942) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### mesopodium region `http://purl.obolibrary.org/obo/UBERON_0006716` +### cardia of stomach `http://purl.obolibrary.org/obo/UBERON_0001162` #### Removed -- [mesopodium region](http://purl.obolibrary.org/obo/UBERON_0006716) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "Naming conventions for pod terms under discussion within phenoscape group" +- [cardia of stomach](http://purl.obolibrary.org/obo/UBERON_0001162) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### metabolic zone of liver `http://purl.obolibrary.org/obo/UBERON_8400005` +### cardiac blood vessel endothelial cell `http://purl.obolibrary.org/obo/CL_0010006` #### Added -- [metabolic zone of liver](http://purl.obolibrary.org/obo/UBERON_8400005) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [cardiac blood vessel endothelial cell](http://purl.obolibrary.org/obo/CL_0010006) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any blood vessel endothelial cell that is part of some heart." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### metacarpophalangeal joint `http://purl.obolibrary.org/obo/UBERON_0003695` -#### Removed -- [metacarpophalangeal joint](http://purl.obolibrary.org/obo/UBERON_0003695) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_71364](http://purl.obolibrary.org/obo/FMA_71364) +### cardiac chamber formation `http://purl.obolibrary.org/obo/GO_0003207` +#### Added +- [cardiac chamber formation](http://purl.obolibrary.org/obo/GO_0003207) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### metacarpus region `http://purl.obolibrary.org/obo/UBERON_0004453` -#### Removed -- [metacarpus region](http://purl.obolibrary.org/obo/UBERON_0004453) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Note that mammalian and non-mammalian AOs differ in whether they consider this a part of the skeleton" +### cardiac chamber morphogenesis `http://purl.obolibrary.org/obo/GO_0003206` -- [metacarpus region](http://purl.obolibrary.org/obo/UBERON_0004453) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "metacarpal" +#### Added +- [cardiac chamber morphogenesis](http://purl.obolibrary.org/obo/GO_0003206) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### cardiac endothelial cell `http://purl.obolibrary.org/obo/CL_0010008` -### metacarpus skeleton `http://purl.obolibrary.org/obo/UBERON_0010544` -#### Removed -- [metacarpus skeleton](http://purl.obolibrary.org/obo/UBERON_0010544) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:36158" +#### Added +- [cardiac endothelial cell](http://purl.obolibrary.org/obo/CL_0010008) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any endothelial cell that is part of some heart." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [metacarpus skeleton](http://purl.obolibrary.org/obo/UBERON_0010544) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Segment of the forearm corresponding to the metacarpus, which articulates with the carpals at one end and with the phalanges at the other end.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### cardiac glial cell `http://purl.obolibrary.org/obo/CL_0010020` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [cardiac glial cell](http://purl.obolibrary.org/obo/CL_0010020) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any glial cell that is part of some heart." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000946" -- [metacarpus skeleton](http://purl.obolibrary.org/obo/UBERON_0010544) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [manual digit metacarpus cartilage element](http://purl.obolibrary.org/obo/UBERON_0010699) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "many to one" +### cardiac mesenchymal cell `http://purl.obolibrary.org/obo/CL_0000569` #### Added -- [metacarpus skeleton](http://purl.obolibrary.org/obo/UBERON_0010544) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [manual digit metacarpus cartilage element](http://purl.obolibrary.org/obo/UBERON_0010699) +- [cardiac mesenchymal cell](http://purl.obolibrary.org/obo/CL_0000569) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009259" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### metadata complete `http://purl.obolibrary.org/obo/IAO_0000120` -#### Removed -- [metadata complete](http://purl.obolibrary.org/obo/IAO_0000120) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "metadata complete"@en +### cardiac muscle cell `http://purl.obolibrary.org/obo/CL_0000746` +#### Added +- [cardiac muscle cell](http://purl.obolibrary.org/obo/CL_0000746) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009316" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### metadata incomplete `http://purl.obolibrary.org/obo/IAO_0000123` -#### Removed -- [metadata incomplete](http://purl.obolibrary.org/obo/IAO_0000123) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "metadata incomplete"@en +### cardiac muscle cell contraction `http://purl.obolibrary.org/obo/GO_0086003` +#### Added +- [cardiac muscle cell contraction](http://purl.obolibrary.org/obo/GO_0086003) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### metanephric capsule `http://purl.obolibrary.org/obo/UBERON_0005137` +### cardiac muscle myoblast `http://purl.obolibrary.org/obo/CL_0000513` #### Added -- [metanephric capsule](http://purl.obolibrary.org/obo/UBERON_0005137) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [cardiac muscle myoblast](http://purl.obolibrary.org/obo/CL_0000513) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009234" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### metanephric cortical collecting duct `http://purl.obolibrary.org/obo/UBERON_0005115` +### cardiac muscle tissue growth `http://purl.obolibrary.org/obo/GO_0055017` #### Added -- [metanephric cortical collecting duct](http://purl.obolibrary.org/obo/UBERON_0005115) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [cardiac muscle tissue growth](http://purl.obolibrary.org/obo/GO_0055017) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### metanephric descending thin limb `http://purl.obolibrary.org/obo/UBERON_0005116` +### cardiac myoblast `http://purl.obolibrary.org/obo/CL_0010021` #### Added -- [metanephric descending thin limb](http://purl.obolibrary.org/obo/UBERON_0005116) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [cardiac myoblast](http://purl.obolibrary.org/obo/CL_0010021) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any myoblast that develops into some cardiac muscle cell." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### metanephric epithelium `http://purl.obolibrary.org/obo/UBERON_0005108` +### cardiac septum morphogenesis `http://purl.obolibrary.org/obo/GO_0060411` #### Added -- [metanephric epithelium](http://purl.obolibrary.org/obo/UBERON_0005108) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) +- [cardiac septum morphogenesis](http://purl.obolibrary.org/obo/GO_0060411) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### metanephric juxtaglomerular apparatus `http://purl.obolibrary.org/obo/UBERON_0004738` +### cardiac valve cell `http://purl.obolibrary.org/obo/CL_1000147` #### Added -- [metanephric juxtaglomerular apparatus](http://purl.obolibrary.org/obo/UBERON_0004738) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [cardiac valve cell](http://purl.obolibrary.org/obo/CL_1000147) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009402" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### metanephric mesenchyme `http://purl.obolibrary.org/obo/UBERON_0003220` +### cardioblast (sensu Arthropoda) `http://purl.obolibrary.org/obo/CL_0000465` #### Removed -- [metanephric mesenchyme](http://purl.obolibrary.org/obo/UBERON_0003220) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A mass of intermediate mesodermal cells around the distal end of the ureteric bud that gives rise to nephrons in the metanephric kidney. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/metanephric+mesenchyme" +- [cardioblast (sensu Arthropoda)](http://purl.obolibrary.org/obo/CL_0000465) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001666" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [cardioblast (sensu Arthropoda)](http://purl.obolibrary.org/obo/CL_0000465) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001666" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### cardioblast migration `http://purl.obolibrary.org/obo/GO_0003260` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000540" +#### Added +- [cardioblast migration](http://purl.obolibrary.org/obo/GO_0003260) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [metanephric mesenchyme](http://purl.obolibrary.org/obo/UBERON_0003220) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "When the ureteric buds emerge from the nephric duct, they enter the metanephrogenic mesenchyme. The ureteric buds induce this mesenchymal tissue to condense around them and differentiate into the nephrons of the mammalian kidney. As this mesenchyme differentiates, it tells the ureteric bud to branch and grow.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### cardiogenic plate `http://purl.obolibrary.org/obo/UBERON_0004139` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [cardiogenic plate](http://purl.obolibrary.org/obo/UBERON_0004139) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000540" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) p.462" +### cardiogenic plate morphogenesis `http://purl.obolibrary.org/obo/GO_0003142` +#### Added +- [cardiogenic plate morphogenesis](http://purl.obolibrary.org/obo/GO_0003142) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### metanephric nephron `http://purl.obolibrary.org/obo/UBERON_0005110` +### cardiovascular system `http://purl.obolibrary.org/obo/UBERON_0004535` #### Removed -- [metanephric nephron](http://purl.obolibrary.org/obo/UBERON_0005110) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The primitive form of the vertebrate nephron consists of a vascular filtration surface overlain with podocytes, a specialized coelomic cavity to receive the ultrafiltrate, and a tubule for modification to final urine. Although previously thought to be unique to the vertebrates, this design is now known to be widespread among invertebrates, including most of the protochordates, and especially their larvae.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1093/icb/34.4.542 Ruppert EE, Evolutionary Origin of the Vertebrate Nephron. Integrative and Comparative Biology (1994)" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000719" +- [cardiovascular system](http://purl.obolibrary.org/obo/UBERON_0004535) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +#### Added +- [cardiovascular system](http://purl.obolibrary.org/obo/UBERON_0004535) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### metanephric nephron tubule `http://purl.obolibrary.org/obo/UBERON_0005146` +### cargo receptor activity `http://purl.obolibrary.org/obo/GO_0038024` #### Removed -- [metanephric nephron tubule](http://purl.obolibrary.org/obo/UBERON_0005146) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) +- [cargo receptor activity](http://purl.obolibrary.org/obo/GO_0038024) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Binding specifically to a substance (cargo) to deliver it to a transport vesicle. Cargo receptors span a membrane (either the plasma membrane or a vesicle membrane), binding simultaneously to cargo molecules and coat adaptors, to efficiently recruit soluble proteins to nascent vesicles." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:27903609" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:15239958" +- [cargo receptor activity](http://purl.obolibrary.org/obo/GO_0038024) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Notes: (1) this term and its child terms are intended for receptors that bind to and internalize molecules by receptor-mediated endocytosis. For receptors that are coupled to a signal transduction pathway, consider instead the term 'signaling receptor activity ; GO:0038023' and its children. (2) Cargo receptors transport substances by vesicular transport, not by transmembrane transport. For transmembrane transporters, consider instead the term 'transmembrane transporter activity ; GO:0022857." -### metanephric pyramid `http://purl.obolibrary.org/obo/UBERON_0005111` +- [cargo receptor activity](http://purl.obolibrary.org/obo/GO_0038024) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [endocytosis](http://purl.obolibrary.org/obo/GO_0006897) #### Added -- [metanephric pyramid](http://purl.obolibrary.org/obo/UBERON_0005111) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [cargo receptor activity](http://purl.obolibrary.org/obo/GO_0038024) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/26872"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [cargo receptor activity](http://purl.obolibrary.org/obo/GO_0038024) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Notes: (1) For receptors binding a molecule but coupled to a signal transduction pathway, consider instead the term 'signaling receptor activity ; GO:0038023' and its children. (2) Cargo receptors transport substances by vesicular transport, not by transmembrane transport. For transmembrane transporters, consider instead the term 'transmembrane transporter activity ; GO:0022857'." -### metanephric renal pelvis `http://purl.obolibrary.org/obo/UBERON_0005249` -#### Removed -- [metanephric renal pelvis](http://purl.obolibrary.org/obo/UBERON_0005249) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The ureteric bud itself forms the collecting tubules and the ureter that drain the adult kidney. This type of kidney, called the metanephros, occurs in all adult amniotes.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [cargo receptor activity](http://purl.obolibrary.org/obo/GO_0038024) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Binding specifically to a substance (cargo) to deliver it to a transport vesicle. Cargo receptors span membranes (for instance the plasma membrane or the endoplasmic reticulum membrane), binding simultaneously to cargo molecules and coat adaptors, to efficiently recruit the cargo molecules to nascent vesicles." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:27903609" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:15239958" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [cargo receptor activity](http://purl.obolibrary.org/obo/GO_0038024) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [vesicle-mediated transport](http://purl.obolibrary.org/obo/GO_0016192) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.639" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000945" +### cartilage element `http://purl.obolibrary.org/obo/UBERON_0007844` #### Added -- [metanephric renal pelvis](http://purl.obolibrary.org/obo/UBERON_0005249) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### metanephric renal vesicle `http://purl.obolibrary.org/obo/UBERON_0005147` -#### Removed -- [metanephric renal vesicle](http://purl.obolibrary.org/obo/UBERON_0005147) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) +- [cartilage element](http://purl.obolibrary.org/obo/UBERON_0007844) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - -### metanephric tubule `http://purl.obolibrary.org/obo/UBERON_0005106` +### cartilage of bronchus `http://purl.obolibrary.org/obo/UBERON_0001956` #### Removed -- [metanephric tubule](http://purl.obolibrary.org/obo/UBERON_0005106) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The ureteric diverticulum grows dorsally into the posterior region of the nephric ridge. Here it enlarges and stimulates the growth of metanephric tubules that come to make up the metanephric kidney. The metanephros becomes the adult kidney of amniotes.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001526" +- [cartilage of bronchus](http://purl.obolibrary.org/obo/UBERON_0001956) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### cartilaginous joint `http://purl.obolibrary.org/obo/UBERON_0002213` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.543" +#### Added +- [cartilaginous joint](http://purl.obolibrary.org/obo/UBERON_0002213) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +### cartilaginous neural arch `http://purl.obolibrary.org/obo/UBERON_0006063` -### metanephros `http://purl.obolibrary.org/obo/UBERON_0000081` -#### Removed -- [metanephros](http://purl.obolibrary.org/obo/UBERON_0000081) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A kidney formed of nephric tubules arising in the posterior region of the nephric ridge and drained by a ureter; replaces the embryonic pronephros and mesonephros [in mammals]. [Evolution, Fourth_Edition_(2006)_McGraw-Hill, Function, Kardong_KV, Vertebrates:_Comparative_Anatomy, p.745][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [cartilaginous neural arch](http://purl.obolibrary.org/obo/UBERON_0006063) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### cartilaginous neurocranium `http://purl.obolibrary.org/obo/UBERON_0004761` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000039" +#### Added +- [cartilaginous neurocranium](http://purl.obolibrary.org/obo/UBERON_0004761) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [metanephros](http://purl.obolibrary.org/obo/UBERON_0000081) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The ureteric diverticulum grows dorsally into the posterior region of the nephric ridge. Here it enlarges and stimulates the growth of metanephric tubules that come to make up the metanephric kidney. The metanephros becomes the adult kidney of amniotes.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### cartilaginous projection `http://purl.obolibrary.org/obo/UBERON_0011769` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [cartilaginous projection](http://purl.obolibrary.org/obo/UBERON_0011769) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.543" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000039" +### catabolic process `http://purl.obolibrary.org/obo/GO_0009056` -- [metanephros](http://purl.obolibrary.org/obo/UBERON_0000081) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "metanephric" +#### Added +- [catabolic process](http://purl.obolibrary.org/obo/GO_0009056) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) -- [metanephros](http://purl.obolibrary.org/obo/UBERON_0000081) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "During the fifth week of gestation, the mesonephric duct develops an outpouching, the ureteric bud, near its attachment to the cloaca. This bud, also called the metanephrogenic diverticulum, grows posteriorly and towards the head of the embryo. The elongated stalk of the ureteric bud, the metanephric duct, later forms the ureter. As the cranial end of the bud extends into the intermediate mesoderm, it undergoes a series of branchings to form the collecting duct system of the kidney. It also forms the major and minor calyces and the renal pelvis" -- [metanephros](http://purl.obolibrary.org/obo/UBERON_0000081) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [metanephric mesenchyme](http://purl.obolibrary.org/obo/UBERON_0003220) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" +### catalytic activity `http://purl.obolibrary.org/obo/GO_0003824` #### Added -- [metanephros](http://purl.obolibrary.org/obo/UBERON_0000081) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [metanephric mesenchyme](http://purl.obolibrary.org/obo/UBERON_0003220) - - -### metanephros induced blastemal cells `http://purl.obolibrary.org/obo/UBERON_0010531` -#### Removed -- [metanephros induced blastemal cells](http://purl.obolibrary.org/obo/UBERON_0010531) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:27621" +- [catalytic activity](http://purl.obolibrary.org/obo/GO_0003824) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) -- [metanephros induced blastemal cells](http://purl.obolibrary.org/obo/UBERON_0010531) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "different versions of EMAPA have different labels for the same classes. In vHOG this is part of metanephros cortex but this leads to a cycle in basic." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EMAPA" +- [catalytic activity](http://purl.obolibrary.org/obo/GO_0003824) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) +- [catalytic activity](http://purl.obolibrary.org/obo/GO_0003824) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -### metaphysis `http://purl.obolibrary.org/obo/UBERON_0001438` -#### Removed -- [metaphysis](http://purl.obolibrary.org/obo/UBERON_0001438) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Subdivision of diaphysis which forms the proximal or distal end of diaphysis next to the epiphysis; together with diaphysis proper, it constitutes the diaphysis. Examples: proximal metaphysis of humerus, distal metaphysis of femur.[FMA]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:24014" +### catalytic activity, acting on DNA `http://purl.obolibrary.org/obo/GO_0140097` +#### Added +- [catalytic activity, acting on DNA](http://purl.obolibrary.org/obo/GO_0140097) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### metaphysis of femur `http://purl.obolibrary.org/obo/UBERON_0006865` +### catalytic activity, acting on RNA `http://purl.obolibrary.org/obo/GO_0140098` #### Added -- [metaphysis of femur](http://purl.obolibrary.org/obo/UBERON_0006865) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [catalytic activity, acting on RNA](http://purl.obolibrary.org/obo/GO_0140098) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### metaphysis of fibula `http://purl.obolibrary.org/obo/UBERON_0016928` +### catalytic activity, acting on a glycoprotein `http://purl.obolibrary.org/obo/GO_0140103` #### Added -- [metaphysis of fibula](http://purl.obolibrary.org/obo/UBERON_0016928) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [catalytic activity, acting on a glycoprotein](http://purl.obolibrary.org/obo/GO_0140103) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### metaphysis of humerus `http://purl.obolibrary.org/obo/UBERON_0013749` +### catalytic activity, acting on a nucleic acid `http://purl.obolibrary.org/obo/GO_0140640` #### Added -- [metaphysis of humerus](http://purl.obolibrary.org/obo/UBERON_0013749) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [catalytic activity, acting on a nucleic acid](http://purl.obolibrary.org/obo/GO_0140640) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### metaphysis of tibia `http://purl.obolibrary.org/obo/UBERON_0013750` +### catalytic activity, acting on a protein `http://purl.obolibrary.org/obo/GO_0140096` #### Added -- [metaphysis of tibia](http://purl.obolibrary.org/obo/UBERON_0013750) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [catalytic activity, acting on a protein](http://purl.obolibrary.org/obo/GO_0140096) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### metapodial skeleton `http://purl.obolibrary.org/obo/UBERON_0010546` -#### Removed -- [metapodial skeleton](http://purl.obolibrary.org/obo/UBERON_0010546) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: subclass skeletal subdivision (VSAO:0000042) CHANGED TO: connected_to subdivision of skeleton (UBERON:0010912)[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0005025" +### catalytic complex `http://purl.obolibrary.org/obo/GO_1902494` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [catalytic complex](http://purl.obolibrary.org/obo/GO_1902494) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" -- [metapodial skeleton](http://purl.obolibrary.org/obo/UBERON_0010546) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: subclass skeletal subdivision (VSAO:0000042) CHANGED TO: distally_connected_to subdivision of skeleton (UBERON:0010912)[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0005025" +### catecholamine binding `http://purl.obolibrary.org/obo/GO_1901338` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [catecholamine binding](http://purl.obolibrary.org/obo/GO_1901338) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" -- [metapodial skeleton](http://purl.obolibrary.org/obo/UBERON_0010546) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Endochondral bone complex located between the mesopodium and the acropodium and consisting of the metacarpals or metatarsals.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0005025" +### catecholamine transport `http://purl.obolibrary.org/obo/GO_0051937` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "VSAO:NI" +#### Added +- [catecholamine transport](http://purl.obolibrary.org/obo/GO_0051937) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" +### caudal ganglionic eminence derived interneuron `http://purl.obolibrary.org/obo/CL_4023064` #### Added -- [metapodial skeleton](http://purl.obolibrary.org/obo/UBERON_0010546) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [caudal ganglionic eminence derived interneuron](http://purl.obolibrary.org/obo/CL_4023064) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### metapodium bone `http://purl.obolibrary.org/obo/UBERON_0003821` +### causal relation between entities `http://purl.obolibrary.org/obo/RO_0002506` #### Removed -- [metapodium bone](http://purl.obolibrary.org/obo/UBERON_0003821) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [metapodial skeleton](http://purl.obolibrary.org/obo/UBERON_0010546) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "https://github.com/obophenotype/uberon/wiki/Skeleton-partonomy-Design-Pattern" +- [causal relation between entities](http://purl.obolibrary.org/obo/RO_0002506) [editor note](http://purl.obolibrary.org/obo/IAO_0000116) "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" -#### Added -- [metapodium bone](http://purl.obolibrary.org/obo/UBERON_0003821) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [metapodial skeleton](http://purl.obolibrary.org/obo/UBERON_0010546) +- [causal relation between entities](http://purl.obolibrary.org/obo/RO_0002506) [label](http://www.w3.org/2000/01/rdf-schema#label) "causal relation between entities" +- ObjectProperty: [causal relation between entities](http://purl.obolibrary.org/obo/RO_0002506) -### metapodium region `http://purl.obolibrary.org/obo/UBERON_0009877` -#### Removed -- [metapodium region](http://purl.obolibrary.org/obo/UBERON_0009877) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "Naming conventions for pod terms under discussion within phenoscape group" +- [causal relation between entities](http://purl.obolibrary.org/obo/RO_0002506) Domain [continuant](http://purl.obolibrary.org/obo/BFO_0000002) + +- [causal relation between entities](http://purl.obolibrary.org/obo/RO_0002506) Range [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +- [causal relation between entities](http://purl.obolibrary.org/obo/RO_0002506) SubPropertyOf: [causally related to](http://purl.obolibrary.org/obo/RO_0002410) -### metastasis-suppressor KiSS-1 `http://purl.obolibrary.org/obo/PR_000009344` + +### causally influenced by `http://purl.obolibrary.org/obo/RO_0002559` #### Removed -- [metastasis-suppressor KiSS-1](http://purl.obolibrary.org/obo/PR_000009344) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [metastasis-suppressor KiSS-1 (human)](http://purl.obolibrary.org/obo/PR_Q15726) +- [causally influenced by](http://purl.obolibrary.org/obo/RO_0002559) [label](http://www.w3.org/2000/01/rdf-schema#label) "causally influenced by" +- ObjectProperty: [causally influenced by](http://purl.obolibrary.org/obo/RO_0002559) +- [causally influenced by](http://purl.obolibrary.org/obo/RO_0002559) InverseOf [causally influences](http://purl.obolibrary.org/obo/RO_0002566) -### metatarsus region `http://purl.obolibrary.org/obo/UBERON_0000983` -#### Removed -- [metatarsus region](http://purl.obolibrary.org/obo/UBERON_0000983) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "mammalian and non-mammalian AOs differ in whether they consider this a part of the skeleton" +- [causally influenced by](http://purl.obolibrary.org/obo/RO_0002559) SubPropertyOf: [causal relation between entities](http://purl.obolibrary.org/obo/RO_0002506) -### metatarsus skeleton `http://purl.obolibrary.org/obo/UBERON_0010545` +### causally influences `http://purl.obolibrary.org/obo/RO_0002566` #### Removed -- [metatarsus skeleton](http://purl.obolibrary.org/obo/UBERON_0010545) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Segment of the leg corresponding to the metatarsus, which articulates with the carpals at one end and with the phalanges at the other end.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" +- [causally influences](http://purl.obolibrary.org/obo/RO_0002566) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000221" +- [causally influences](http://purl.obolibrary.org/obo/RO_0002566) [label](http://www.w3.org/2000/01/rdf-schema#label) "causally influences" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- ObjectProperty: [causally influences](http://purl.obolibrary.org/obo/RO_0002566) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [causally influences](http://purl.obolibrary.org/obo/RO_0002566) Domain [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [metatarsus skeleton](http://purl.obolibrary.org/obo/UBERON_0010545) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [pedal digit metatarsal cartilage element](http://purl.obolibrary.org/obo/UBERON_0010697) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "many to one" - -#### Added -- [metatarsus skeleton](http://purl.obolibrary.org/obo/UBERON_0010545) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [pedal digit metatarsal cartilage element](http://purl.obolibrary.org/obo/UBERON_0010697) +- [causally influences](http://purl.obolibrary.org/obo/RO_0002566) Range [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +- [causally influences](http://purl.obolibrary.org/obo/RO_0002566) SubPropertyOf: [causal relation between entities](http://purl.obolibrary.org/obo/RO_0002506) -### metathalamus `http://purl.obolibrary.org/obo/UBERON_0002704` -#### Removed -- [metathalamus](http://purl.obolibrary.org/obo/UBERON_0002704) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D005829" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) +- [enables](http://purl.obolibrary.org/obo/RO_0002327) o [causally upstream of](http://purl.obolibrary.org/obo/RO_0002411) o [has input](http://purl.obolibrary.org/obo/RO_0002233) SubPropertyOf: [causally influences](http://purl.obolibrary.org/obo/RO_0002566) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +- [enables](http://purl.obolibrary.org/obo/RO_0002327) o [causally upstream of](http://purl.obolibrary.org/obo/RO_0002411) o [enabled by](http://purl.obolibrary.org/obo/RO_0002333) SubPropertyOf: [causally influences](http://purl.obolibrary.org/obo/RO_0002566) -- [metathalamus](http://purl.obolibrary.org/obo/UBERON_0002704) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002776](http://purl.obolibrary.org/obo/UBERON_0002776) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" -- [metathalamus](http://purl.obolibrary.org/obo/UBERON_0002704) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we follow FMA in making this a subtype of nucleus, but in fact it is a group containing two nuclei" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" -- [metathalamus](http://purl.obolibrary.org/obo/UBERON_0002704) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002144](http://purl.obolibrary.org/obo/UBERON_0002144) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +### cavity of pharynx `http://purl.obolibrary.org/obo/UBERON_0001731` +#### Added +- [cavity of pharynx](http://purl.obolibrary.org/obo/UBERON_0001731) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### metencephalon `http://purl.obolibrary.org/obo/UBERON_0001895` +### cell `http://purl.obolibrary.org/obo/CL_0000000` #### Removed -- [metencephalon](http://purl.obolibrary.org/obo/UBERON_0001895) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [NCBITaxon_7955](http://purl.obolibrary.org/obo/NCBITaxon_7955) +- [cell](http://purl.obolibrary.org/obo/CL_0000000) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007002" -- [metencephalon](http://purl.obolibrary.org/obo/UBERON_0001895) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The early development of most vertebrate brains is similar (...). The zebrafish neural tube follows the same basic differentiation pattern as the mammalian neural tube (reference 1); The brain develops from three embryonic enlargements of the neural tube, which later differentiate into five regions. A forebrain differentiates into telencephalon and diencephalon. The midbrain, or mesencephalon, remains undivided. The hindbrain divides into the metencephalon and myelencephalon. Cavities within the brain enlarge to form a series of interconnected ventricles (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [cell](http://purl.obolibrary.org/obo/CL_0000000) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009000" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [cell](http://purl.obolibrary.org/obo/CL_0000000) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007002" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) p.381-382, ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.500" +### cell adhesion `http://purl.obolibrary.org/obo/GO_0007155` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000741" +#### Added +- [cell adhesion](http://purl.obolibrary.org/obo/GO_0007155) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -- [metencephalon](http://purl.obolibrary.org/obo/UBERON_0001895) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The anterior of two brain vesicles formed by specialization of the rhombencephalon in the developing embryo. It gives rise to cerebellum and pons. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### cell chemotaxis `http://purl.obolibrary.org/obo/GO_0060326` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [cell chemotaxis](http://purl.obolibrary.org/obo/GO_0060326) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000741" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/metencephalon" +### cell cluster organ `http://purl.obolibrary.org/obo/UBERON_0010001` -- [metencephalon](http://purl.obolibrary.org/obo/UBERON_0001895) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anterior part of the hindbrain ventral to the cerebellum[BIRNLEX:965]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "BIRNLEX:965" +#### Added +- [cell cluster organ](http://purl.obolibrary.org/obo/UBERON_0010001) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007229" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [metencephalon](http://purl.obolibrary.org/obo/UBERON_0001895) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) -- [metencephalon](http://purl.obolibrary.org/obo/UBERON_0001895) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future metencephalon](http://purl.obolibrary.org/obo/UBERON_0010092) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" +### cell communication involved in cardiac conduction `http://purl.obolibrary.org/obo/GO_0086065` #### Added -- [metencephalon](http://purl.obolibrary.org/obo/UBERON_0001895) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future metencephalon](http://purl.obolibrary.org/obo/UBERON_0010092) +- [cell communication involved in cardiac conduction](http://purl.obolibrary.org/obo/GO_0086065) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### midbrain `http://purl.obolibrary.org/obo/UBERON_0001891` +### cell cycle `http://purl.obolibrary.org/obo/GO_0007049` #### Removed -- [midbrain](http://purl.obolibrary.org/obo/UBERON_0001891) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "part of brainstem in ABA - we reject this in favor of ISBN:0471888893 which has an implicit overlaps relationships" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ABA" +- [cell cycle](http://purl.obolibrary.org/obo/GO_0007049) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) + +#### Added +- [cell cycle](http://purl.obolibrary.org/obo/GO_0007049) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) -- [midbrain](http://purl.obolibrary.org/obo/UBERON_0001891) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Middle part of the brain composed of the optic tectum and penducular region.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [cell cycle](http://purl.obolibrary.org/obo/GO_0007049) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +### cell cycle process `http://purl.obolibrary.org/obo/GO_0022402` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010149" +#### Added +- [cell cycle process](http://purl.obolibrary.org/obo/GO_0022402) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -- [midbrain](http://purl.obolibrary.org/obo/UBERON_0001891) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The brain region between the forebrain anteriorly and the hindbrain posteriorly, including the tectum dorsally and the midbrain tegmentum ventrally. Kimmel et al, 1995.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000128" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +### cell differentiation `http://purl.obolibrary.org/obo/GO_0030154` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [cell differentiation](http://purl.obolibrary.org/obo/GO_0030154) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [cell differentiation](http://purl.obolibrary.org/obo/GO_0030154) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [midbrain](http://purl.obolibrary.org/obo/UBERON_0001891) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [hindbrain](http://purl.obolibrary.org/obo/UBERON_0002028) - - [exceptions](http://www.geneontology.org/formats/oboInOwl#exceptions) "ZFA" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +### cell growth `http://purl.obolibrary.org/obo/GO_0016049` - - [status](http://www.geneontology.org/formats/oboInOwl#status) "pending" +#### Added +- [cell growth](http://purl.obolibrary.org/obo/GO_0016049) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [midbrain](http://purl.obolibrary.org/obo/UBERON_0001891) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Fine structural, computerized three-dimensional (3D) mapping of cell connectivity in the amphioxus nervous system and comparative molecular genetic studies of amphioxus and tunicates have provided recent insights into the phylogenetic origin of the vertebrate nervous system. The results suggest that several of the genetic mechanisms for establishing and patterning the vertebrate nervous system already operated in the ancestral chordate and that the nerve cord of the proximate invertebrate ancestor of the vertebrates included a diencephalon, midbrain, hindbrain, and spinal cord.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/S0959-4388(99)00003-3 Holland LZ and Holland ND, Chordate origins of the vertebrate central nervous system. Current Opinion in Neurobiology (1999)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### cell migration in hindbrain `http://purl.obolibrary.org/obo/GO_0021535` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [cell migration in hindbrain](http://purl.obolibrary.org/obo/GO_0021535) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000069" +### cell morphogenesis `http://purl.obolibrary.org/obo/GO_0000902` -- [midbrain](http://purl.obolibrary.org/obo/UBERON_0001891) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [diencephalon](http://purl.obolibrary.org/obo/UBERON_0001894) - - [exceptions](http://www.geneontology.org/formats/oboInOwl#exceptions) "ZFA" +#### Added +- [cell morphogenesis](http://purl.obolibrary.org/obo/GO_0000902) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [exceptions_url](http://www.geneontology.org/formats/oboInOwl#exceptions_url) "https://github.com/obophenotype/uberon/issues/378" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +### cell motility `http://purl.obolibrary.org/obo/GO_0048870` - - [status](http://www.geneontology.org/formats/oboInOwl#status) "pending" +#### Added +- [cell motility](http://purl.obolibrary.org/obo/GO_0048870) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -- [midbrain](http://purl.obolibrary.org/obo/UBERON_0001891) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "mesencephalic" +- [cell motility](http://purl.obolibrary.org/obo/GO_0048870) [never in taxon](http://purl.obolibrary.org/obo/RO_0002161) [Ascomycota](http://purl.obolibrary.org/obo/NCBITaxon_4890) -- [midbrain](http://purl.obolibrary.org/obo/UBERON_0001891) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [cell motility](http://purl.obolibrary.org/obo/GO_0048870) DisjointWith [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Ascomycota](http://purl.obolibrary.org/obo/NCBITaxon_4890) -- [midbrain](http://purl.obolibrary.org/obo/UBERON_0001891) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [mesencephalic neural crest](http://purl.obolibrary.org/obo/UBERON_0003849) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" +- [cell motility](http://purl.obolibrary.org/obo/GO_0048870) SubClassOf not ([in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Ascomycota](http://purl.obolibrary.org/obo/NCBITaxon_4890)) -#### Added -- [midbrain](http://purl.obolibrary.org/obo/UBERON_0001891) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [mesencephalic neural crest](http://purl.obolibrary.org/obo/UBERON_0003849) +- [cell motility](http://purl.obolibrary.org/obo/GO_0048870) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some (not ([Ascomycota](http://purl.obolibrary.org/obo/NCBITaxon_4890))) -### midbrain arachnoid mater `http://purl.obolibrary.org/obo/UBERON_0003557` -#### Removed -- [midbrain arachnoid mater](http://purl.obolibrary.org/obo/UBERON_0003557) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Arachnoid mater that is part of the midbrain. [Bgee_curator][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### cell of skeletal muscle `http://purl.obolibrary.org/obo/CL_0000188` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [cell of skeletal muscle](http://purl.obolibrary.org/obo/CL_0000188) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009115" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000233" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### cell projection `http://purl.obolibrary.org/obo/GO_0042995` -- [midbrain arachnoid mater](http://purl.obolibrary.org/obo/UBERON_0003557) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" +#### Added +- [cell projection](http://purl.obolibrary.org/obo/GO_0042995) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [cell projection](http://purl.obolibrary.org/obo/GO_0042995) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000233" +### cell projection morphogenesis `http://purl.obolibrary.org/obo/GO_0048858` +#### Removed +- [cell projection morphogenesis](http://purl.obolibrary.org/obo/GO_0048858) SubClassOf [cellular anatomical entity morphogenesis](http://purl.obolibrary.org/obo/GO_0032989) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [cell projection morphogenesis](http://purl.obolibrary.org/obo/GO_0048858) SubClassOf [anatomical structure morphogenesis](http://purl.obolibrary.org/obo/GO_0009653) +### cell proliferation in dorsal spinal cord `http://purl.obolibrary.org/obo/GO_0010456` -### midbrain dura mater `http://purl.obolibrary.org/obo/UBERON_0003562` -#### Removed -- [midbrain dura mater](http://purl.obolibrary.org/obo/UBERON_0003562) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Dura mater that is part of the midbrain. [Bgee_curator][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [cell proliferation in dorsal spinal cord](http://purl.obolibrary.org/obo/GO_0010456) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### cell proliferation in forebrain `http://purl.obolibrary.org/obo/GO_0021846` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000410" +#### Added +- [cell proliferation in forebrain](http://purl.obolibrary.org/obo/GO_0021846) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [midbrain dura mater](http://purl.obolibrary.org/obo/UBERON_0003562) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### cell proliferation in hindbrain `http://purl.obolibrary.org/obo/GO_0021534` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [cell proliferation in hindbrain](http://purl.obolibrary.org/obo/GO_0021534) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000410" +### cell proliferation in midbrain `http://purl.obolibrary.org/obo/GO_0033278` +#### Added +- [cell proliferation in midbrain](http://purl.obolibrary.org/obo/GO_0033278) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### midbrain hindbrain boundary neural plate `http://purl.obolibrary.org/obo/UBERON_0009615` +### cell surface receptor signaling pathway `http://purl.obolibrary.org/obo/GO_0007166` #### Removed -- [midbrain hindbrain boundary neural plate](http://purl.obolibrary.org/obo/UBERON_0009615) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [presumptive midbrain hindbrain boundary](http://purl.obolibrary.org/obo/UBERON_0007281) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "https://github.com/obophenotype/uberon/issues/438" +- [cell surface receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0007166) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The series of molecular signals initiated by activation of a receptor on the surface of a cell. The pathway begins with binding of an extracellular ligand to a cell surface receptor, or for receptors that signal in the absence of a ligand, by ligand-withdrawal or the activity of a constitutively active receptor. The pathway ends with regulation of a downstream cellular process, e.g. transcription." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:mah" + + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:bf" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Bgee:AN" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:signaling" + + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:pr" #### Added -- [midbrain hindbrain boundary neural plate](http://purl.obolibrary.org/obo/UBERON_0009615) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [presumptive midbrain hindbrain boundary](http://purl.obolibrary.org/obo/UBERON_0007281) +- [cell surface receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0007166) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The series of molecular signals initiated by an extracellular ligand binding to a receptor located on the cell surface. The pathway ends with regulation of a downstream cellular process, e.g. transcription." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:signaling" -### midbrain neural tube `http://purl.obolibrary.org/obo/UBERON_0010286` +### cell-cell adhesion in response to extracellular stimulus `http://purl.obolibrary.org/obo/GO_0140039` #### Added -- [midbrain neural tube](http://purl.obolibrary.org/obo/UBERON_0010286) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [cell-cell adhesion in response to extracellular stimulus](http://purl.obolibrary.org/obo/GO_0140039) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2017-05-24T11:37:30Z" +- [cell-cell adhesion in response to extracellular stimulus](http://purl.obolibrary.org/obo/GO_0140039) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0140039" -### midbrain pia mater `http://purl.obolibrary.org/obo/UBERON_0003551` -#### Removed -- [midbrain pia mater](http://purl.obolibrary.org/obo/UBERON_0003551) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Pia mater that is part of the midbrain. [Bgee_curator][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [cell-cell adhesion in response to extracellular stimulus](http://purl.obolibrary.org/obo/GO_0140039) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "pg" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [cell-cell adhesion in response to extracellular stimulus](http://purl.obolibrary.org/obo/GO_0140039) [label](http://www.w3.org/2000/01/rdf-schema#label) "cell-cell adhesion in response to extracellular stimulus" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [cell-cell adhesion in response to extracellular stimulus](http://purl.obolibrary.org/obo/GO_0140039) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000467" +- [cell-cell adhesion in response to extracellular stimulus](http://purl.obolibrary.org/obo/GO_0140039) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The attachment of one cell to another cell via adhesion molecules as a result of an extracellular stimulus." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:14996911" -- [midbrain pia mater](http://purl.obolibrary.org/obo/UBERON_0003551) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" +- Class: [cell-cell adhesion in response to extracellular stimulus](http://purl.obolibrary.org/obo/GO_0140039) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [cell-cell adhesion in response to extracellular stimulus](http://purl.obolibrary.org/obo/GO_0140039) EquivalentTo [cell-cell adhesion](http://purl.obolibrary.org/obo/GO_0098609) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [cellular response to stimulus](http://purl.obolibrary.org/obo/GO_0051716)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [cell-cell adhesion in response to extracellular stimulus](http://purl.obolibrary.org/obo/GO_0140039) SubClassOf [cell-cell adhesion](http://purl.obolibrary.org/obo/GO_0098609) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [cell-cell adhesion in response to extracellular stimulus](http://purl.obolibrary.org/obo/GO_0140039) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [cellular response to stimulus](http://purl.obolibrary.org/obo/GO_0051716) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000467" +### cell-cell fusion `http://purl.obolibrary.org/obo/GO_0140253` +#### Added +- [cell-cell fusion](http://purl.obolibrary.org/obo/GO_0140253) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### midbrain subarachnoid space `http://purl.obolibrary.org/obo/UBERON_0005217` -#### Removed -- [midbrain subarachnoid space](http://purl.obolibrary.org/obo/UBERON_0005217) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Subarachnoid space that is part of the midbrain. [Bgee_curator][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### cellular anatomical entity morphogenesis `http://purl.obolibrary.org/obo/GO_0032989` +#### Removed +- [cellular anatomical entity morphogenesis](http://purl.obolibrary.org/obo/GO_0032989) EquivalentTo [anatomical structure morphogenesis](http://purl.obolibrary.org/obo/GO_0009653) and ([results in morphogenesis of](http://purl.obolibrary.org/obo/RO_0002298) some [cellular anatomical entity](http://purl.obolibrary.org/obo/GO_0110165)) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [cellular anatomical entity morphogenesis](http://purl.obolibrary.org/obo/GO_0032989) SubClassOf [anatomical structure morphogenesis](http://purl.obolibrary.org/obo/GO_0009653) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001304" +- [cellular anatomical entity morphogenesis](http://purl.obolibrary.org/obo/GO_0032989) SubClassOf [results in morphogenesis of](http://purl.obolibrary.org/obo/RO_0002298) some [cellular anatomical entity](http://purl.obolibrary.org/obo/GO_0110165) +#### Added +- [cellular anatomical entity morphogenesis](http://purl.obolibrary.org/obo/GO_0032989) SubClassOf [cellular component organization](http://purl.obolibrary.org/obo/GO_0016043) -### midbrain tectum `http://purl.obolibrary.org/obo/UBERON_0002314` +### cellular aromatic compound metabolic process `http://purl.obolibrary.org/obo/GO_0006725` #### Removed -- [midbrain tectum](http://purl.obolibrary.org/obo/UBERON_0002314) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In adult humans it is present only in the mesencephalon as the inferior and the superior colliculi" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" +- [cellular aromatic compound metabolic process](http://purl.obolibrary.org/obo/GO_0006725) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "aromatic compound metabolism" -- [midbrain tectum](http://purl.obolibrary.org/obo/UBERON_0002314) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The tectum - a multisensory, topologically mapped structure in the roof of the midbrain presents a remarkable degree of conservation in all vertebrate radiations; although it varies in the extent of its development in different vertebrate classes, there is considerable evidence now to deem its layered structure, its cell types, and its hodological pattern as homologous in all vertebrates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [cellular aromatic compound metabolic process](http://purl.obolibrary.org/obo/GO_0006725) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [cellular aromatic compound metabolic process](http://purl.obolibrary.org/obo/GO_0006725) [label](http://www.w3.org/2000/01/rdf-schema#label) "cellular aromatic compound metabolic process" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [cellular aromatic compound metabolic process](http://purl.obolibrary.org/obo/GO_0006725) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_pir](http://purl.obolibrary.org/obo/go#goslim_pir) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1371/journal.pone.0003582 Maximino C, Evolutionary Changes in the Complexity of the Tectum of Nontetrapods: A Cladistic Approach. PLoS ONE (2008)" +- [cellular aromatic compound metabolic process](http://purl.obolibrary.org/obo/GO_0006725) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0006725" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001388" +- [cellular aromatic compound metabolic process](http://purl.obolibrary.org/obo/GO_0006725) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The chemical reactions and pathways involving aromatic compounds, any organic compound characterized by one or more planar rings, each of which contains conjugated double bonds and delocalized pi electrons, as carried out by individual cells." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:ai" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ISBN:0198506732" +- [cellular aromatic compound metabolic process](http://purl.obolibrary.org/obo/GO_0006725) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "aromatic hydrocarbon metabolic process" -### midbrain tegmentum `http://purl.obolibrary.org/obo/UBERON_0001943` -#### Removed -- [midbrain tegmentum](http://purl.obolibrary.org/obo/UBERON_0001943) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D013681" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) +- [cellular aromatic compound metabolic process](http://purl.obolibrary.org/obo/GO_0006725) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "aromatic hydrocarbon metabolism" - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +- Class: [cellular aromatic compound metabolic process](http://purl.obolibrary.org/obo/GO_0006725) -- [midbrain tegmentum](http://purl.obolibrary.org/obo/UBERON_0001943) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Together, our results reveal a shared basic organization in the tegmental domains of the diencephalon and midbrain of developing lamprey, indicating early appearance of the domain in vertebrate phylogeny.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [cellular aromatic compound metabolic process](http://purl.obolibrary.org/obo/GO_0006725) EquivalentTo [metabolic process](http://purl.obolibrary.org/obo/GO_0008152) and ([has primary input or output](http://purl.obolibrary.org/obo/RO_0004007) some [CHEBI_33655](http://purl.obolibrary.org/obo/CHEBI_33655)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [cellular aromatic compound metabolic process](http://purl.obolibrary.org/obo/GO_0006725) SubClassOf [has primary input or output](http://purl.obolibrary.org/obo/RO_0004007) some [CHEBI_33655](http://purl.obolibrary.org/obo/CHEBI_33655) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [cellular aromatic compound metabolic process](http://purl.obolibrary.org/obo/GO_0006725) SubClassOf [cellular metabolic process](http://purl.obolibrary.org/obo/GO_0044237) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/j.brainresbull.2005.05.001 Villar-Cheda B, Abalo XM, Anadon R, Rodicio MC, The tegmental proliferation region in the sea lamprey. Brain Research Bulletin (2005)" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001367" +### cellular biosynthetic process `http://purl.obolibrary.org/obo/GO_0044249` +#### Added +- [cellular biosynthetic process](http://purl.obolibrary.org/obo/GO_0044249) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term." -### midbrain-hindbrain boundary `http://purl.obolibrary.org/obo/UBERON_0003052` -#### Removed -- [midbrain-hindbrain boundary](http://purl.obolibrary.org/obo/UBERON_0003052) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Lampreys also have an MHB [midbrain hindbrain boundary], expressing a similar repertoire of regulatory gene cognates as in gnathostomes.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [cellular biosynthetic process](http://purl.obolibrary.org/obo/GO_0044249) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [cellular biosynthetic process](http://purl.obolibrary.org/obo/GO_0044249) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27052"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000649" +### cellular component assembly `http://purl.obolibrary.org/obo/GO_0022607` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/j.ydbio.2005.02.008 Murakami Y, Uchida K, Rijli FM and Kuratani S, Evolution of the brain developmental plan: Insights from agnathans. Developmental Biology (2005)" +#### Added +- [cellular component assembly](http://purl.obolibrary.org/obo/GO_0022607) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -- [midbrain-hindbrain boundary](http://purl.obolibrary.org/obo/UBERON_0003052) SubClassOf [anatomical junction](http://purl.obolibrary.org/obo/UBERON_0007651) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://sourceforge.net/p/obo/zebrafish-anatomy-zfa-term-requests/106/" - - [inconsistent_with](http://www.geneontology.org/formats/oboInOwl#inconsistent_with) "ZFA" +### cellular component disassembly `http://purl.obolibrary.org/obo/GO_0022411` #### Added -- [midbrain-hindbrain boundary](http://purl.obolibrary.org/obo/UBERON_0003052) SubClassOf [anatomical junction](http://purl.obolibrary.org/obo/UBERON_0007651) +- [cellular component disassembly](http://purl.obolibrary.org/obo/GO_0022411) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." +- [cellular component disassembly](http://purl.obolibrary.org/obo/GO_0022411) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -### middle ear `http://purl.obolibrary.org/obo/UBERON_0001756` -#### Removed -- [middle ear](http://purl.obolibrary.org/obo/UBERON_0001756) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The tympanic cavity and auditory tube of an amniote develop from the first embryonic pharyngeal pouch, so they are homologous to the first gill pouch, or spiracle, of a fish. We are uncertain whether this homology strictly applies to the middle ear cavity and auditory tube of lissamphibians, which show certain peculiarities in their development.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.417" +- [cellular component disassembly](http://purl.obolibrary.org/obo/GO_0022411) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27189"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### cellular component organization `http://purl.obolibrary.org/obo/GO_0016043` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [cellular component organization](http://purl.obolibrary.org/obo/GO_0016043) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000312" +- [cellular component organization](http://purl.obolibrary.org/obo/GO_0016043) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -- [middle ear](http://purl.obolibrary.org/obo/UBERON_0001756) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The intermediate portion of the ear which consists of a small air-filled and membrane-lined chamber. It is lodged in the temporal bone and continues with the nasopharynx through the Eustachian tube. It is separated from the external ear by the tympanic membrane and from the inner ear by the fenestrae. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [cellular component organization](http://purl.obolibrary.org/obo/GO_0016043) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### cellular component organization or biogenesis `http://purl.obolibrary.org/obo/GO_0071840` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000312" +#### Added +- [cellular component organization or biogenesis](http://purl.obolibrary.org/obo/GO_0071840) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27189"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [cellular component organization or biogenesis](http://purl.obolibrary.org/obo/GO_0071840) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." +- [cellular component organization or biogenesis](http://purl.obolibrary.org/obo/GO_0071840) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -### middle phalanx `http://purl.obolibrary.org/obo/UBERON_0004301` -#### Removed -- [middle phalanx](http://purl.obolibrary.org/obo/UBERON_0004301) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Intermediate phalanges are bones found in the limbs of most vertebrates. In humans, they are the bones of the finger and toe which lie in the middle, between the two wrinkly joints. The thumb and big toe do not have intermediate phalanges. In most other vertebrates, they have a corresponding place in their limbs, whether they be paw, wing, hoof or fin" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" -- [middle phalanx](http://purl.obolibrary.org/obo/UBERON_0004301) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in some groups such as whales, there are multiple intermediate phalanges" +### cellular detoxification `http://purl.obolibrary.org/obo/GO_1990748` +#### Added +- [cellular detoxification](http://purl.obolibrary.org/obo/GO_1990748) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### midface `http://purl.obolibrary.org/obo/UBERON_0004089` -#### Removed -- [midface](http://purl.obolibrary.org/obo/UBERON_0004089) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "midfacial" +### cellular homeostasis `http://purl.obolibrary.org/obo/GO_0019725` -- [midface](http://purl.obolibrary.org/obo/UBERON_0004089) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:32806" +#### Added +- [cellular homeostasis](http://purl.obolibrary.org/obo/GO_0019725) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) +- [cellular homeostasis](http://purl.obolibrary.org/obo/GO_0019725) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### midgut `http://purl.obolibrary.org/obo/UBERON_0001045` -#### Removed -- [midgut](http://purl.obolibrary.org/obo/UBERON_0001045) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The bilaterian gut is typically a complete tube that opens to the exterior at both ends. It consists of mouth, foregut, midgut, hindgut, and anus (reference 1); Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### cellular localization `http://purl.obolibrary.org/obo/GO_0051641` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [cellular localization](http://purl.obolibrary.org/obo/GO_0051641) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27189"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [cellular localization](http://purl.obolibrary.org/obo/GO_0051641) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.203, ISBN:978-0521617147 Stevens CE and Hume ID, Comparative physiology of the vertebrate digestive system (2004) p.11" +- [cellular localization](http://purl.obolibrary.org/obo/GO_0051641) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000290" -- [midgut](http://purl.obolibrary.org/obo/UBERON_0001045) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA this represents an embryonic region." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +### cellular nitrogen compound biosynthetic process `http://purl.obolibrary.org/obo/GO_0044271` +#### Removed +- [cellular nitrogen compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0044271) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "nitrogen compound synthesis" -- [midgut](http://purl.obolibrary.org/obo/UBERON_0001045) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans: originates from the foregut at the opening of the bile duct into the duodenum and continues through the small intestine and much of the large intestine until the transition to the hindgut about two-thirds of the way through the transverse colon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" +- [cellular nitrogen compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0044271) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0044271" -- [midgut](http://purl.obolibrary.org/obo/UBERON_0001045) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005383" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [cellular nitrogen compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0044271) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "nitrogen compound formation" +- [cellular nitrogen compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0044271) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "nitrogen compound anabolism" +- [cellular nitrogen compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0044271) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "nitrogen compound biosynthesis" -### milk `http://purl.obolibrary.org/obo/UBERON_0001913` -#### Removed -- [milk](http://purl.obolibrary.org/obo/UBERON_0001913) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The detailed similarities of mammary glands in living monotremes, marsupials, and eutherians argue for a monophyletic origin of these glands, perhaps by the combination of parts of preexisting sebaceous and sweat glands.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [cellular nitrogen compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0044271) [label](http://www.w3.org/2000/01/rdf-schema#label) "cellular nitrogen compound biosynthetic process" + +- [cellular nitrogen compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0044271) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The chemical reactions and pathways resulting in the formation of organic and inorganic nitrogenous compounds." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:jl" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ISBN:0198506732" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [cellular nitrogen compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0044271) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.224" +- Class: [cellular nitrogen compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0044271) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001263" +- [cellular nitrogen compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0044271) SubClassOf [cellular nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0034641) -- [milk](http://purl.obolibrary.org/obo/UBERON_0001913) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "ncit:Milk refers specifically to cow milk" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ncit" +- [cellular nitrogen compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0044271) SubClassOf [cellular biosynthetic process](http://purl.obolibrary.org/obo/GO_0044249) -### mineralized bone tissue `http://purl.obolibrary.org/obo/UBERON_4000115` +### cellular nitrogen compound catabolic process `http://purl.obolibrary.org/obo/GO_0044270` #### Removed -- [mineralized bone tissue](http://purl.obolibrary.org/obo/UBERON_4000115) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (vertebrate_skeletal_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/vsao.owl" +- [cellular nitrogen compound catabolic process](http://purl.obolibrary.org/obo/GO_0044270) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The chemical reactions and pathways resulting in the breakdown of organic and inorganic nitrogenous compounds." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:jl" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ISBN:0198506732" +- [cellular nitrogen compound catabolic process](http://purl.obolibrary.org/obo/GO_0044270) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "nitrogen compound breakdown" -### mineralized extracellular matrix `http://purl.obolibrary.org/obo/UBERON_4000020` -#### Removed -- [mineralized extracellular matrix](http://purl.obolibrary.org/obo/UBERON_4000020) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (vertebrate_skeletal_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/vsao.owl" +- [cellular nitrogen compound catabolic process](http://purl.obolibrary.org/obo/GO_0044270) [label](http://www.w3.org/2000/01/rdf-schema#label) "cellular nitrogen compound catabolic process" +- [cellular nitrogen compound catabolic process](http://purl.obolibrary.org/obo/GO_0044270) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" +- [cellular nitrogen compound catabolic process](http://purl.obolibrary.org/obo/GO_0044270) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "nitrogen compound degradation" -### missing_from `http://www.geneontology.org/formats/oboInOwl#missing_from` -#### Removed -- AnnotationProperty: [missing_from](http://www.geneontology.org/formats/oboInOwl#missing_from) +- [cellular nitrogen compound catabolic process](http://purl.obolibrary.org/obo/GO_0044270) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0044270" +- [cellular nitrogen compound catabolic process](http://purl.obolibrary.org/obo/GO_0044270) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "nitrogen compound catabolism" +- Class: [cellular nitrogen compound catabolic process](http://purl.obolibrary.org/obo/GO_0044270) -### mixed ectoderm/mesoderm/endoderm-derived structure `http://purl.obolibrary.org/obo/UBERON_0000078` -#### Removed -- [mixed ectoderm/mesoderm/endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000078) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Grouping term for query purposes. Notes that the developmental relationships are being refined such that most structures should develop in whole from at most one layer, but may have contributions from multiple" +- [cellular nitrogen compound catabolic process](http://purl.obolibrary.org/obo/GO_0044270) SubClassOf [cellular catabolic process](http://purl.obolibrary.org/obo/GO_0044248) + +- [cellular nitrogen compound catabolic process](http://purl.obolibrary.org/obo/GO_0044270) SubClassOf [cellular nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0034641) -### mixed endoderm/mesoderm-derived structure `http://purl.obolibrary.org/obo/UBERON_0000077` +### cellular nitrogen compound metabolic process `http://purl.obolibrary.org/obo/GO_0034641` #### Removed -- [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Grouping term for query purposes. Notes that the developmental relationships are being refined such that most structures should develop in whole from at most one layer, but may have contributions from multiple" +- [cellular nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0034641) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) +- [cellular nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0034641) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0034641" +- [cellular nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0034641) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -### modified_from `http://www.geneontology.org/formats/oboInOwl#modified_from` -#### Removed -- AnnotationProperty: [modified_from](http://www.geneontology.org/formats/oboInOwl#modified_from) +- [cellular nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0034641) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The chemical reactions and pathways involving various organic and inorganic nitrogenous compounds, as carried out by individual cells." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:mah" +- [cellular nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0034641) [label](http://www.w3.org/2000/01/rdf-schema#label) "cellular nitrogen compound metabolic process" +- [cellular nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0034641) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/26424"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -### molecular interaction relation helper property `http://purl.obolibrary.org/obo/RO_0002564` -#### Removed -- [molecular interaction relation helper property](http://purl.obolibrary.org/obo/RO_0002564) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +- [cellular nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0034641) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "cellular nitrogen compound metabolism" +- [cellular nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0034641) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_chembl](http://purl.obolibrary.org/obo/go#goslim_chembl) +- Class: [cellular nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0034641) -### molecular layer of cerebellar cortex `http://purl.obolibrary.org/obo/UBERON_0002974` -#### Removed -- [molecular layer of cerebellar cortex](http://purl.obolibrary.org/obo/UBERON_0002974) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Compare with ZFA:0000636 - cerebellar crest, which is also composed of parallel fibers but located in a more restricted nucleus within the cerebellum" +- [cellular nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0034641) SubClassOf [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807) +- [cellular nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0034641) SubClassOf [cellular metabolic process](http://purl.obolibrary.org/obo/GO_0044237) -### molecularly interacts with `http://purl.obolibrary.org/obo/RO_0002436` + +### cellular process involved in reproduction in multicellular organism `http://purl.obolibrary.org/obo/GO_0022412` #### Removed -- [molecularly interacts with](http://purl.obolibrary.org/obo/RO_0002436) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "molecularly binds with" +- [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) EquivalentTo [cellular process](http://purl.obolibrary.org/obo/GO_0009987) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [multicellular organism reproduction](http://purl.obolibrary.org/obo/GO_0032504)) -- [molecularly interacts with](http://purl.obolibrary.org/obo/RO_0002436) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "binds" +- [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [multicellular organism reproduction](http://purl.obolibrary.org/obo/GO_0032504) -- [molecularly interacts with](http://purl.obolibrary.org/obo/RO_0002436) [closeMatch](http://www.w3.org/2004/02/skos/core#closeMatch) "http://purl.obolibrary.org/obo/MI_0915"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) SubClassOf [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) -- [molecularly interacts with](http://purl.obolibrary.org/obo/RO_0002436) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +#### Added +- [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) EquivalentTo [cellular process](http://purl.obolibrary.org/obo/GO_0009987) and [multicellular organismal reproductive process](http://purl.obolibrary.org/obo/GO_0048609) +- [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) SubClassOf [multicellular organismal reproductive process](http://purl.obolibrary.org/obo/GO_0048609) -### monoatomic ion transmembrane transporter activity `http://purl.obolibrary.org/obo/GO_0015075` +### cellular response to abiotic stimulus `http://purl.obolibrary.org/obo/GO_0071214` #### Removed -- [monoatomic ion transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015075) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [monoatomic ion transmembrane transport](http://purl.obolibrary.org/obo/GO_0034220) - - [source](http://www.geneontology.org/formats/oboInOwl#http://purl.org/dc/terms/source) "GO_REF:0000090" +- [cellular response to abiotic stimulus](http://purl.obolibrary.org/obo/GO_0071214) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) #### Added -- [monoatomic ion transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015075) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [monoatomic ion transmembrane transport](http://purl.obolibrary.org/obo/GO_0034220) +- [cellular response to abiotic stimulus](http://purl.obolibrary.org/obo/GO_0071214) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -### morula `http://purl.obolibrary.org/obo/UBERON_0000085` +### cellular response to amino acid stimulus `http://purl.obolibrary.org/obo/GO_0071230` #### Removed -- [morula](http://purl.obolibrary.org/obo/UBERON_0000085) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "EHDAA2 has embryo starting later" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" +- [cellular response to amino acid stimulus](http://purl.obolibrary.org/obo/GO_0071230) EquivalentTo [cellular response to chemical stimulus](http://purl.obolibrary.org/obo/GO_0070887) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33709](http://purl.obolibrary.org/obo/CHEBI_33709)) +#### Added +- [cellular response to amino acid stimulus](http://purl.obolibrary.org/obo/GO_0071230) EquivalentTo [cellular response to chemical stimulus](http://purl.obolibrary.org/obo/GO_0070887) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238)) -### mouth `http://purl.obolibrary.org/obo/UBERON_0000165` +### cellular response to calcium ion `http://purl.obolibrary.org/obo/GO_0071277` #### Removed -- [mouth](http://purl.obolibrary.org/obo/UBERON_0000165) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "some AOs place this as developing from the stomodeum but we weaken this to developmental contribution, as the mouth includes non-ectodermal derivatives" - -- [mouth](http://purl.obolibrary.org/obo/UBERON_0000165) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "oral" +- [cellular response to calcium ion](http://purl.obolibrary.org/obo/GO_0071277) EquivalentTo [cellular response to chemical stimulus](http://purl.obolibrary.org/obo/GO_0070887) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_39124](http://purl.obolibrary.org/obo/CHEBI_39124)) -- [mouth](http://purl.obolibrary.org/obo/UBERON_0000165) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cavity in which food is initially ingested and generally contains teeth, tongue and glands.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [cellular response to calcium ion](http://purl.obolibrary.org/obo/GO_0071277) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_39124](http://purl.obolibrary.org/obo/CHEBI_39124) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010355" +#### Added +- [cellular response to calcium ion](http://purl.obolibrary.org/obo/GO_0071277) EquivalentTo [cellular response to chemical stimulus](http://purl.obolibrary.org/obo/GO_0070887) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_29108](http://purl.obolibrary.org/obo/CHEBI_29108)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +### cellular response to chemical stimulus `http://purl.obolibrary.org/obo/GO_0070887` +#### Removed +- [cellular response to chemical stimulus](http://purl.obolibrary.org/obo/GO_0070887) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) -- [mouth](http://purl.obolibrary.org/obo/UBERON_0000165) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Molecular and developmental cell lineage data suggest that the acoel mouth opening is homologous to the mouth of protostomes and deuterostomes and that the last common ancestor of the Bilateria (the 'urbilaterian') had only this single digestive opening.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [cellular response to chemical stimulus](http://purl.obolibrary.org/obo/GO_0070887) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### cellular response to dsDNA `http://purl.obolibrary.org/obo/GO_1990786` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1038/nature07309 Hejnol A, Martindale MQ, Acoel development indicates the independent evolution of the bilaterian mouth and anus. Nature (2008)" +#### Added +- [cellular response to dsDNA](http://purl.obolibrary.org/obo/GO_1990786) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000812" +- [cellular response to dsDNA](http://purl.obolibrary.org/obo/GO_1990786) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "sl" -- [mouth](http://purl.obolibrary.org/obo/UBERON_0000165) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA, the tongue, palate etc are part of the mouth which is itself a subdivision of the face. ZFA includes a separate class 'oral region' which is part of the mouth, but excludes tongue and lips" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [cellular response to dsDNA](http://purl.obolibrary.org/obo/GO_1990786) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:1990786" -- [mouth](http://purl.obolibrary.org/obo/UBERON_0000165) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00003126" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [cellular response to dsDNA](http://purl.obolibrary.org/obo/GO_1990786) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a double-stranded DNA stimulus." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:10051633" -- [mouth](http://purl.obolibrary.org/obo/UBERON_0000165) SubClassOf [subdivision of digestive tract](http://purl.obolibrary.org/obo/UBERON_0004921) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "the mouth contains structures such as jaw skeleton that may not strictly be considered tract parts" +- [cellular response to dsDNA](http://purl.obolibrary.org/obo/GO_1990786) [label](http://www.w3.org/2000/01/rdf-schema#label) "cellular response to dsDNA" -#### Added -- [mouth](http://purl.obolibrary.org/obo/UBERON_0000165) SubClassOf [subdivision of digestive tract](http://purl.obolibrary.org/obo/UBERON_0004921) +- [cellular response to dsDNA](http://purl.obolibrary.org/obo/GO_1990786) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2015-06-24T22:48:25Z" +- Class: [cellular response to dsDNA](http://purl.obolibrary.org/obo/GO_1990786) -### mouth mucosa `http://purl.obolibrary.org/obo/UBERON_0003729` -#### Removed -- [mouth mucosa](http://purl.obolibrary.org/obo/UBERON_0003729) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this is defined as any mucous membrane of the mouth - including palate, lips, uvula, etc. ncit split mouth/oral mucosa into lip and buccal. In future we may split into masticatory/keratinized (gingiva + hard palate) vs lining/non-keratinized (lips, cheeks, floor of mouth, soft palate). FMA distinguishes between mucosa of mouth and region of mouth (the latter including the buccal mucosa)" +- [cellular response to dsDNA](http://purl.obolibrary.org/obo/GO_1990786) EquivalentTo [cellular response to chemical stimulus](http://purl.obolibrary.org/obo/GO_0070887) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_4705](http://purl.obolibrary.org/obo/CHEBI_4705)) -- [mouth mucosa](http://purl.obolibrary.org/obo/UBERON_0003729) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "the mucous membrane epithelium of the mouth. It can be divided into three categories: masticatory, lining, and specialized[Wikipedia:Oral_mucosa]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Oral_mucosa" +- [cellular response to dsDNA](http://purl.obolibrary.org/obo/GO_1990786) SubClassOf [response to dsDNA](http://purl.obolibrary.org/obo/GO_1990784) +- [cellular response to dsDNA](http://purl.obolibrary.org/obo/GO_1990786) SubClassOf [cellular response to chemical stimulus](http://purl.obolibrary.org/obo/GO_0070887) -### mucosa `http://purl.obolibrary.org/obo/UBERON_0000344` +### cellular response to endogenous stimulus `http://purl.obolibrary.org/obo/GO_0071495` #### Removed -- [mucosa](http://purl.obolibrary.org/obo/UBERON_0000344) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA has mucosa vs region of mucosa; these are subtypes of Mucosa: Mucosa of gallbladder, tongue, .... The following are subtypes of Region of mucosa: Mucosa of zone of stomach, trachea, bronchus, dorsum of tongue.... Depends on whether the covered area is an organ or organ component. Uberon does not regard organ vs organ component as crucial distinction and thus collapses these into a single class deliberately" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [cellular response to endogenous stimulus](http://purl.obolibrary.org/obo/GO_0071495) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) -- [mucosa](http://purl.obolibrary.org/obo/UBERON_0000344) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "mucosal" +#### Added +- [cellular response to endogenous stimulus](http://purl.obolibrary.org/obo/GO_0071495) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -- [mucosa](http://purl.obolibrary.org/obo/UBERON_0000344) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [submucosa](http://purl.obolibrary.org/obo/UBERON_0000009) +### cellular response to epinephrine stimulus `http://purl.obolibrary.org/obo/GO_0071872` +#### Removed +- [cellular response to epinephrine stimulus](http://purl.obolibrary.org/obo/GO_0071872) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "mah" +- [cellular response to epinephrine stimulus](http://purl.obolibrary.org/obo/GO_0071872) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an epinephrine stimulus. Epinephrine is a catecholamine that has the formula C9H13NO3; it is secreted by the adrenal medulla to act as a hormone, and released by certain neurons to act as a neurotransmitter active in the central nervous system." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:mah" -### mucosa of anal canal `http://purl.obolibrary.org/obo/UBERON_0003342` + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:BHF" -#### Added -- [mucosa of anal canal](http://purl.obolibrary.org/obo/UBERON_0003342) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [cellular response to epinephrine stimulus](http://purl.obolibrary.org/obo/GO_0071872) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that epinephrine and norepinephrine are ligands for the same receptors, and there are multiple adrenergic receptors." +- [cellular response to epinephrine stimulus](http://purl.obolibrary.org/obo/GO_0071872) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0071872" -### mucosa of biliary tree `http://purl.obolibrary.org/obo/UBERON_0004999` +- [cellular response to epinephrine stimulus](http://purl.obolibrary.org/obo/GO_0071872) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2010-09-13T03:31:40Z" -#### Added -- [mucosa of biliary tree](http://purl.obolibrary.org/obo/UBERON_0004999) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [cellular response to epinephrine stimulus](http://purl.obolibrary.org/obo/GO_0071872) [label](http://www.w3.org/2000/01/rdf-schema#label) "cellular response to epinephrine stimulus" +- [cellular response to epinephrine stimulus](http://purl.obolibrary.org/obo/GO_0071872) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -### mucosa of bronchiole `http://purl.obolibrary.org/obo/UBERON_0005039` +- [cellular response to epinephrine stimulus](http://purl.obolibrary.org/obo/GO_0071872) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "cellular response to adrenaline stimulus" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:mah" -#### Added -- [mucosa of bronchiole](http://purl.obolibrary.org/obo/UBERON_0005039) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- Class: [cellular response to epinephrine stimulus](http://purl.obolibrary.org/obo/GO_0071872) +- [cellular response to epinephrine stimulus](http://purl.obolibrary.org/obo/GO_0071872) EquivalentTo [cellular response to chemical stimulus](http://purl.obolibrary.org/obo/GO_0070887) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33568](http://purl.obolibrary.org/obo/CHEBI_33568)) -### mucosa of dorsum of tongue `http://purl.obolibrary.org/obo/UBERON_0010052` -#### Removed -- [mucosa of dorsum of tongue](http://purl.obolibrary.org/obo/UBERON_0010052) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "develops fungiform papillae by WNT induction at 11 weeks pc in human. Filiform papillae develop later. ISBN:1607950324" +- [cellular response to epinephrine stimulus](http://purl.obolibrary.org/obo/GO_0071872) SubClassOf [response to epinephrine](http://purl.obolibrary.org/obo/GO_0071871) + +- [cellular response to epinephrine stimulus](http://purl.obolibrary.org/obo/GO_0071872) SubClassOf [cellular response to chemical stimulus](http://purl.obolibrary.org/obo/GO_0070887) -### mucosa of gallbladder `http://purl.obolibrary.org/obo/UBERON_0005033` +### cellular response to glucose stimulus `http://purl.obolibrary.org/obo/GO_0071333` +#### Removed +- [cellular response to glucose stimulus](http://purl.obolibrary.org/obo/GO_0071333) EquivalentTo [cellular response to chemical stimulus](http://purl.obolibrary.org/obo/GO_0070887) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_17234](http://purl.obolibrary.org/obo/CHEBI_17234)) #### Added -- [mucosa of gallbladder](http://purl.obolibrary.org/obo/UBERON_0005033) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [cellular response to glucose stimulus](http://purl.obolibrary.org/obo/GO_0071333) EquivalentTo [cellular response to chemical stimulus](http://purl.obolibrary.org/obo/GO_0070887) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_4167](http://purl.obolibrary.org/obo/CHEBI_4167)) -### mucosa of lacrimal canaliculus `http://purl.obolibrary.org/obo/UBERON_0005029` +### cellular response to lipoprotein particle stimulus `http://purl.obolibrary.org/obo/GO_0071402` #### Added -- [mucosa of lacrimal canaliculus](http://purl.obolibrary.org/obo/UBERON_0005029) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [cellular response to lipoprotein particle stimulus](http://purl.obolibrary.org/obo/GO_0071402) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### mucosa of larynx `http://purl.obolibrary.org/obo/UBERON_0001824` +### cellular response to nitrogen compound `http://purl.obolibrary.org/obo/GO_1901699` #### Added -- [mucosa of larynx](http://purl.obolibrary.org/obo/UBERON_0001824) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - +- [cellular response to nitrogen compound](http://purl.obolibrary.org/obo/GO_1901699) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." -### mucosa of nasolacrimal duct `http://purl.obolibrary.org/obo/UBERON_0005043` +- [cellular response to nitrogen compound](http://purl.obolibrary.org/obo/GO_1901699) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27194"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -#### Added -- [mucosa of nasolacrimal duct](http://purl.obolibrary.org/obo/UBERON_0005043) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [cellular response to nitrogen compound](http://purl.obolibrary.org/obo/GO_1901699) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -### mucosa of nasopharynx `http://purl.obolibrary.org/obo/UBERON_0005022` +### cellular response to peptide `http://purl.obolibrary.org/obo/GO_1901653` +#### Removed +- [cellular response to peptide](http://purl.obolibrary.org/obo/GO_1901653) EquivalentTo [cellular response to chemical stimulus](http://purl.obolibrary.org/obo/GO_0070887) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670)) #### Added -- [mucosa of nasopharynx](http://purl.obolibrary.org/obo/UBERON_0005022) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [cellular response to peptide](http://purl.obolibrary.org/obo/GO_1901653) EquivalentTo [cellular response to chemical stimulus](http://purl.obolibrary.org/obo/GO_0070887) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466)) -### mucosa of oral region `http://purl.obolibrary.org/obo/UBERON_0003343` +### cellular response to stimulus `http://purl.obolibrary.org/obo/GO_0051716` #### Removed -- [mucosa of oral region](http://purl.obolibrary.org/obo/UBERON_0003343) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:26937" +- [cellular response to stimulus](http://purl.obolibrary.org/obo/GO_0051716) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) +#### Added +- [cellular response to stimulus](http://purl.obolibrary.org/obo/GO_0051716) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -### mucosa of seminal vesicle `http://purl.obolibrary.org/obo/UBERON_0004984` +### cementoblast `http://purl.obolibrary.org/obo/CL_0000061` #### Added -- [mucosa of seminal vesicle](http://purl.obolibrary.org/obo/UBERON_0004984) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [cementoblast](http://purl.obolibrary.org/obo/CL_0000061) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009030" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### mucosa of stomach `http://purl.obolibrary.org/obo/UBERON_0001199` -#### Removed -- [mucosa of stomach](http://purl.obolibrary.org/obo/UBERON_0001199) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The gastric mucosa is the mucous membrane layer of the stomach which contains the glands and the gastric pits. In men it is about 1 mm thick and its surface is smooth, soft, and velvety. It consists of epithelium, lamina propria, and the muscularis mucosae. In its fresh state, it is of a pinkish tinge at the pyloric end and of a red or reddish-brown color over the rest of its surface. In infancy it is of a brighter hue, the vascular redness being more marked. It is thin at the cardiac extremity, but thicker toward the pylorus. During the contracted state of the organ it is thrown into numerous plaits or rugae, which, for the most part, have a longitudinal direction, and are most marked toward the pyloric end of the stomach, and along the greater curvature. These folds are entirely obliterated when the organ becomes distended. When examined with a lens, the inner surface of the mucous membrane presents a peculiar honeycomb appearance from being covered with funnel-like depressions or foveolae of a polygonal or hexagonal form, which vary from 0.12 to 0.25 mm. in diameter. These are the ducts of the gastric glands, and at the bottom of each may be seen one or more minute orifices, the openings of the gland tubes. Gastric glands are simple or branched tubular glands that emerge on the deeper part of the gastric foveola, inside the gastric areas and outlined by the folds of the mucosa. There are three types of glands: cardiac glands (in the proximal part of the stomach), oxyntic glands (the dominating type of gland), and pyloric glands. The cardiac glands mainly contain mucus producing cells. The bottom part of the oxyntic glands is dominated by zymogen (chief) cells that produce pepsinogen (an inactive precursor of the pepsin enzyme). Parietal cells, which secrete hydrochloric acid are scattered in the glands, with most of them in the middle part. The upper part of the glands consist of mucous neck cells; in this part the dividing cells are seen. The pyloric glands contain mucus-secreting cells. Several types of endocrine cells are found in all regions of the gastric mucosa. In the pyloric glands contain gastrin producing cells (G cells); this hormone stimulates acid production from the parietal cells. ECL (enterochromaffine-like) cells, found in the oxyntic glands release histamine, which also is a powerful stimulant of the acid secretion. The A cells produce glucagon, which mobilizes the hepatic glycogen, and the enterochromaffin cells that produce serotonin, which stimulates the contraction of the smooth muscles. The surface of the mucous membrane is covered by a single layer of columnar epithelium . This epithelium commences very abruptly at the cardiac orifice, where there is a sudden transition from the stratified epithelium of the esophagus. The epithelial lining of the gland ducts is of the same character and is continuous with the general lining of the stomach. [WP,unvetted][Wikipedia:Gastric_mucosa]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Gastric_mucosa" +### cementocyte `http://purl.obolibrary.org/obo/CL_0000141` +#### Added +- [cementocyte](http://purl.obolibrary.org/obo/CL_0000141) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009087" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### mucosa of ureter `http://purl.obolibrary.org/obo/UBERON_0004980` +### central nervous system `http://purl.obolibrary.org/obo/UBERON_0001017` #### Added -- [mucosa of ureter](http://purl.obolibrary.org/obo/UBERON_0004980) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [central nervous system](http://purl.obolibrary.org/obo/UBERON_0001017) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005094" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### mucosa of urethra `http://purl.obolibrary.org/obo/UBERON_0012299` +### central nervous system formation `http://purl.obolibrary.org/obo/GO_0021556` #### Added -- [mucosa of urethra](http://purl.obolibrary.org/obo/UBERON_0012299) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [central nervous system formation](http://purl.obolibrary.org/obo/GO_0021556) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### mucosa of urinary bladder `http://purl.obolibrary.org/obo/UBERON_0001259` +### central nervous system gray matter layer `http://purl.obolibrary.org/obo/UBERON_0016548` #### Added -- [mucosa of urinary bladder](http://purl.obolibrary.org/obo/UBERON_0001259) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [central nervous system gray matter layer](http://purl.obolibrary.org/obo/UBERON_0016548) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### mucosa of uterine tube `http://purl.obolibrary.org/obo/UBERON_0005048` +### central nervous system morphogenesis `http://purl.obolibrary.org/obo/GO_0021551` #### Added -- [mucosa of uterine tube](http://purl.obolibrary.org/obo/UBERON_0005048) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [central nervous system morphogenesis](http://purl.obolibrary.org/obo/GO_0021551) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### mucosa of vagina `http://purl.obolibrary.org/obo/UBERON_0004983` +### central nervous system white matter layer `http://purl.obolibrary.org/obo/UBERON_0016549` #### Added -- [mucosa of vagina](http://purl.obolibrary.org/obo/UBERON_0004983) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [central nervous system white matter layer](http://purl.obolibrary.org/obo/UBERON_0016549) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### mucous gland `http://purl.obolibrary.org/obo/UBERON_0000414` +### centripetally migrating follicle cell `http://purl.obolibrary.org/obo/CL_0000671` #### Removed -- [mucous gland](http://purl.obolibrary.org/obo/UBERON_0000414) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In frogs and salamanders, this is the smaller of the two types of gland, the other being the granular (poison) gland. In these species the mucous gland is a cluster of cells that release secretion into a common duct[Kardong]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0073040584" - - - [hasScope](http://www.geneontology.org/formats/oboInOwl#hasScope) "NCBITaxon:8292" +- [centripetally migrating follicle cell](http://purl.obolibrary.org/obo/CL_0000671) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004906" +#### Added +- [centripetally migrating follicle cell](http://purl.obolibrary.org/obo/CL_0000671) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004906" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### mucous gland of lung `http://purl.obolibrary.org/obo/UBERON_0019190` +### cerebellar Golgi cell `http://purl.obolibrary.org/obo/CL_0000119` #### Added -- [mucous gland of lung](http://purl.obolibrary.org/obo/UBERON_0019190) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - +- [cerebellar Golgi cell](http://purl.obolibrary.org/obo/CL_0000119) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009069" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### mucus `http://purl.obolibrary.org/obo/UBERON_0000912` -#### Removed -- [mucus](http://purl.obolibrary.org/obo/UBERON_0000912) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "mucous" -- [mucus](http://purl.obolibrary.org/obo/UBERON_0000912) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "mucoid" +### cerebellar Purkinje cell layer formation `http://purl.obolibrary.org/obo/GO_0021694` +#### Added +- [cerebellar Purkinje cell layer formation](http://purl.obolibrary.org/obo/GO_0021694) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### multi cell part structure `http://purl.obolibrary.org/obo/UBERON_0005162` -#### Removed -- [multi cell part structure](http://purl.obolibrary.org/obo/UBERON_0005162) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we go with the FMA classification rather than the CARO one. FMA def: 'Anatomical cluster which has as direct parts cell parts from two or more cells.'" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +### cerebellar Purkinje cell layer morphogenesis `http://purl.obolibrary.org/obo/GO_0021692` - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "CARO" +#### Added +- [cerebellar Purkinje cell layer morphogenesis](http://purl.obolibrary.org/obo/GO_0021692) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [multi cell part structure](http://purl.obolibrary.org/obo/UBERON_0005162) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007060" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### cerebellar cortex formation `http://purl.obolibrary.org/obo/GO_0021697` +#### Added +- [cerebellar cortex formation](http://purl.obolibrary.org/obo/GO_0021697) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### multi-tissue structure `http://purl.obolibrary.org/obo/UBERON_0000481` -#### Removed -- [multi-tissue structure](http://purl.obolibrary.org/obo/UBERON_0000481) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007010" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### cerebellar cortex morphogenesis `http://purl.obolibrary.org/obo/GO_0021696` +#### Added +- [cerebellar cortex morphogenesis](http://purl.obolibrary.org/obo/GO_0021696) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### multi-unit eye `http://purl.obolibrary.org/obo/UBERON_0015165` -#### Removed -- [multi-unit eye](http://purl.obolibrary.org/obo/UBERON_0015165) [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [NCBITaxon_6544](http://purl.obolibrary.org/obo/NCBITaxon_6544) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "present on mantle edge in arcacean Bivalvia" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:21062451" +### cerebellar granular layer formation `http://purl.obolibrary.org/obo/GO_0021684` -- [multi-unit eye](http://purl.obolibrary.org/obo/UBERON_0015165) [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [NCBITaxon_6340](http://purl.obolibrary.org/obo/NCBITaxon_6340) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "present on tentacular crown" +#### Added +- [cerebellar granular layer formation](http://purl.obolibrary.org/obo/GO_0021684) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:21062451" -- [multi-unit eye](http://purl.obolibrary.org/obo/UBERON_0015165) [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [NCBITaxon_7588](http://purl.obolibrary.org/obo/NCBITaxon_7588) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "The eyes (optic cushions) on the oral surface of Asteroida (Echinodermata), close to the base of the terminal tentacles, are also composed of a number of simple ocelli - as many as 80-200 in certain species" +### cerebellar granular layer morphogenesis `http://purl.obolibrary.org/obo/GO_0021683` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:21062451" +#### Added +- [cerebellar granular layer morphogenesis](http://purl.obolibrary.org/obo/GO_0021683) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### cerebellar granule cell `http://purl.obolibrary.org/obo/CL_0001031` -### multicellular anatomical structure `http://purl.obolibrary.org/obo/UBERON_0010000` -#### Removed -- [multicellular anatomical structure](http://purl.obolibrary.org/obo/UBERON_0010000) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00100313" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +#### Added +- [cerebellar granule cell](http://purl.obolibrary.org/obo/CL_0001031) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0001691" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +### cerebellar inhibitory GABAergic interneuron `http://purl.obolibrary.org/obo/CL_4023057` -### multicellular organism `http://purl.obolibrary.org/obo/UBERON_0000468` -#### Removed -- [multicellular organism](http://purl.obolibrary.org/obo/UBERON_0000468) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000001" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +#### Added +- [cerebellar inhibitory GABAergic interneuron](http://purl.obolibrary.org/obo/CL_4023057) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any GABAergic interneuron that has its soma located in some cerebellar cortex." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [multicellular organism](http://purl.obolibrary.org/obo/UBERON_0000468) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "organismal" +### cerebellar molecular layer formation `http://purl.obolibrary.org/obo/GO_0021688` +#### Added +- [cerebellar molecular layer formation](http://purl.obolibrary.org/obo/GO_0021688) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### multilaminar epithelium `http://purl.obolibrary.org/obo/UBERON_0000486` -#### Removed -- [multilaminar epithelium](http://purl.obolibrary.org/obo/UBERON_0000486) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Epithelium that consists of more than one layer of epithelial cells.[CARO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://orcid.org/0000-0001-9114-8737" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "CARO:0000069" +### cerebellar molecular layer morphogenesis `http://purl.obolibrary.org/obo/GO_0021687` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [cerebellar molecular layer morphogenesis](http://purl.obolibrary.org/obo/GO_0021687) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "CARO" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:45562" +### cerebellar stellate cell `http://purl.obolibrary.org/obo/CL_0010010` +#### Added +- [cerebellar stellate cell](http://purl.obolibrary.org/obo/CL_0010010) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any stellate neuron that has its soma located in some cerebellum." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### muscle layer of anal canal `http://purl.obolibrary.org/obo/UBERON_0012490` +### cerebellum formation `http://purl.obolibrary.org/obo/GO_0021588` #### Added -- [muscle layer of anal canal](http://purl.obolibrary.org/obo/UBERON_0012490) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [cerebellum formation](http://purl.obolibrary.org/obo/GO_0021588) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### muscle layer of epididymis `http://purl.obolibrary.org/obo/UBERON_0006646` +### cerebellum morphogenesis `http://purl.obolibrary.org/obo/GO_0021587` #### Added -- [muscle layer of epididymis](http://purl.obolibrary.org/obo/UBERON_0006646) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### muscle layer of esophagus `http://purl.obolibrary.org/obo/UBERON_0011878` -#### Removed -- [muscle layer of esophagus](http://purl.obolibrary.org/obo/UBERON_0011878) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "In the upper esophagus, part of the externa is skeletal muscle, rather than smooth muscle" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" +- [cerebellum morphogenesis](http://purl.obolibrary.org/obo/GO_0021587) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [muscle layer of esophagus](http://purl.obolibrary.org/obo/UBERON_0011878) SubClassOf [has part](http://purl.obolibrary.org/obo/BFO_0000051) some [skeletal muscle tissue](http://purl.obolibrary.org/obo/UBERON_0001134) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "upper part" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Muscular_layer" +### cerebellum vasculature morphogenesis `http://purl.obolibrary.org/obo/GO_0061301` #### Added -- [muscle layer of esophagus](http://purl.obolibrary.org/obo/UBERON_0011878) SubClassOf [has part](http://purl.obolibrary.org/obo/BFO_0000051) some [skeletal muscle tissue](http://purl.obolibrary.org/obo/UBERON_0001134) +- [cerebellum vasculature morphogenesis](http://purl.obolibrary.org/obo/GO_0061301) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### muscle layer of oviduct `http://purl.obolibrary.org/obo/UBERON_0006642` +### cerebral blood circulation `http://purl.obolibrary.org/obo/GO_0120275` #### Added -- [muscle layer of oviduct](http://purl.obolibrary.org/obo/UBERON_0006642) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [cerebral blood circulation](http://purl.obolibrary.org/obo/GO_0120275) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### muscle layer of urinary bladder `http://purl.obolibrary.org/obo/UBERON_0012378` +### cerebral cortex marginal layer `http://purl.obolibrary.org/obo/UBERON_0014935` #### Added -- [muscle layer of urinary bladder](http://purl.obolibrary.org/obo/UBERON_0012378) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [cerebral cortex marginal layer](http://purl.obolibrary.org/obo/UBERON_0014935) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### muscle of arm `http://purl.obolibrary.org/obo/UBERON_0001499` -#### Removed -- [muscle of arm](http://purl.obolibrary.org/obo/UBERON_0001499) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "See notes on UBERON:0001460 for possible terminological confusion over term 'arm'. MA uses this consistent with uberon (forelimb muscle is subdivided into shoulder, arm and hand)" +### cerebrospinal fluid secreting cell `http://purl.obolibrary.org/obo/CL_0000686` +#### Added +- [cerebrospinal fluid secreting cell](http://purl.obolibrary.org/obo/CL_0000686) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009295" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### muscle of auditory ossicle `http://purl.obolibrary.org/obo/UBERON_0004113` +### chandelier cell `http://purl.obolibrary.org/obo/CL_4023083` #### Removed -- [muscle of auditory ossicle](http://purl.obolibrary.org/obo/UBERON_0004113) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "attenuate low-frequency sounds, reduce masking of high-frequency sounds by low-frequency sounds, frequency-selection filter" +- [chandelier cell](http://purl.obolibrary.org/obo/CL_4023083) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A GABAergic interneuron that selectively innervates the axon initial segment of pyramidal cells. Their local axonal clusters are formed by high-frequency branching at shallow angles, often ramifying around, above or below their somata with a high bouton density. The characteristic terminal portions of the axon form short vertical rows of boutons, resembling the candlesticks and candles of a chandelier. Chandelier cells can be multipolar or bitufted." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:15378039" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:27199673" +#### Added +- [chandelier cell](http://purl.obolibrary.org/obo/CL_4023083) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A GABAergic interneuron that selectively innervates the axon initial segment of pyramidal cells. Their local axonal clusters are formed by high-frequency branching at shallow angles, often ramifying around, above or below their somata with a high bouton density. The characteristic terminal portions of the axon form short vertical rows of boutons, resembling the candlesticks and candles of a chandelier. Chandelier cells can be multipolar or bitufted." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:15378039" -### muscle of iris `http://purl.obolibrary.org/obo/UBERON_0001606` -#### Removed -- [muscle of iris](http://purl.obolibrary.org/obo/UBERON_0001606) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:35448" - -- [muscle of iris](http://purl.obolibrary.org/obo/UBERON_0001606) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in aves, stromal mesenchymal cells may migrate to the iris and become skeletal" - -- [muscle of iris](http://purl.obolibrary.org/obo/UBERON_0001606) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The muscle cells of the iris are smooth muscle in mammals and amphibians, but are striated muscle in birds and reptiles. Many fish have neither, and, as a result, their irides are unable to dilate and contract, so that the pupil always remains of a fixed size[Romer, via WP]" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:27199673" -### muscle of larynx `http://purl.obolibrary.org/obo/UBERON_0001568` +### channel protein `http://purl.obolibrary.org/obo/PR_000044676` #### Added -- [muscle of larynx](http://purl.obolibrary.org/obo/UBERON_0001568) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [channel protein](http://purl.obolibrary.org/obo/PR_000044676) SubClassOf [material entity](http://purl.obolibrary.org/obo/BFO_0000040) +- [channel protein](http://purl.obolibrary.org/obo/PR_000044676) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -### muscle of leg `http://purl.obolibrary.org/obo/UBERON_0001383` -#### Removed -- [muscle of leg](http://purl.obolibrary.org/obo/UBERON_0001383) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:19318" - -- [muscle of leg](http://purl.obolibrary.org/obo/UBERON_0001383) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:19144" -- [muscle of leg](http://purl.obolibrary.org/obo/UBERON_0001383) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "see notes on UBERON:0000978 for possible confusion over the term 'leg'." +### chemoreceptor cell `http://purl.obolibrary.org/obo/CL_0000206` +#### Added +- [chemoreceptor cell](http://purl.obolibrary.org/obo/CL_0000206) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009124" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### muscle of neck `http://purl.obolibrary.org/obo/UBERON_0002377` -#### Removed -- [muscle of neck](http://purl.obolibrary.org/obo/UBERON_0002377) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:36050" +### chemosensory organ `http://purl.obolibrary.org/obo/UBERON_0000005` +#### Added +- [chemosensory organ](http://purl.obolibrary.org/obo/UBERON_0000005) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005157" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### muscle of pectoral girdle `http://purl.obolibrary.org/obo/UBERON_0008196` -#### Removed -- [muscle of pectoral girdle](http://purl.obolibrary.org/obo/UBERON_0008196) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17748" +### cholangiocyte `http://purl.obolibrary.org/obo/CL_1000488` -- [muscle of pectoral girdle](http://purl.obolibrary.org/obo/UBERON_0008196) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "EMAPA has both non-skeletal and skeletal types, with the non-skeletal also including a chest muscle, so we place the skeletal class here as the most accurate" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EMAPA" +#### Added +- [cholangiocyte](http://purl.obolibrary.org/obo/CL_1000488) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009397" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [cholangiocyte](http://purl.obolibrary.org/obo/CL_1000488) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### muscle of pelvic girdle `http://purl.obolibrary.org/obo/UBERON_0001497` +### cholinergic neuron `http://purl.obolibrary.org/obo/CL_0000108` #### Removed -- [muscle of pelvic girdle](http://purl.obolibrary.org/obo/UBERON_0001497) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:18184" +- [cholinergic neuron](http://purl.obolibrary.org/obo/CL_0000108) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007173" -- [muscle of pelvic girdle](http://purl.obolibrary.org/obo/UBERON_0001497) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Note that in MA, this is a subclass of pelvis muscle; in FMA this is a hindlimb muscle, but recall in FMA hindlimb includes the girdle." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +#### Added +- [cholinergic neuron](http://purl.obolibrary.org/obo/CL_0000108) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009060" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [cholinergic neuron](http://purl.obolibrary.org/obo/CL_0000108) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007173" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### muscle of pelvis `http://purl.obolibrary.org/obo/UBERON_0001325` -#### Removed -- [muscle of pelvis](http://purl.obolibrary.org/obo/UBERON_0001325) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:18184" +### chondroblast `http://purl.obolibrary.org/obo/CL_0000058` +#### Added +- [chondroblast](http://purl.obolibrary.org/obo/CL_0000058) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009027" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [chondroblast](http://purl.obolibrary.org/obo/CL_0000058) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### muscle organ `http://purl.obolibrary.org/obo/UBERON_0001630` -#### Removed -- [muscle organ](http://purl.obolibrary.org/obo/UBERON_0001630) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "It seems clear that the metazoan ancestor inherited from its unicellular descendants an actin cytoskeleton and motor-proteins of the myosin superfamily. Within metazoans, these two molecules were arranged into effective contractile units, the muscles. The basic trends for muscle evolution are already expressed in the diploblastic taxa.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### chondrocyte `http://purl.obolibrary.org/obo/CL_0000138` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [chondrocyte](http://purl.obolibrary.org/obo/CL_0000138) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009084" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.75" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001245" +### chondrocyte activation `http://purl.obolibrary.org/obo/GO_0044566` -- [muscle organ](http://purl.obolibrary.org/obo/UBERON_0001630) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "AAO:0011066" +#### Added +- [chondrocyte activation](http://purl.obolibrary.org/obo/GO_0044566) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [muscle organ](http://purl.obolibrary.org/obo/UBERON_0001630) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "muscular" -- [muscle organ](http://purl.obolibrary.org/obo/UBERON_0001630) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:32715" +### chondroitin sulfate binding `http://purl.obolibrary.org/obo/GO_0035374` -- [muscle organ](http://purl.obolibrary.org/obo/UBERON_0001630) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of tissue composed of contractile fibers.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005145" +#### Added +- [chondroitin sulfate binding](http://purl.obolibrary.org/obo/GO_0035374) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### chondroitin sulfate biosynthetic process `http://purl.obolibrary.org/obo/GO_0030206` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [chondroitin sulfate biosynthetic process](http://purl.obolibrary.org/obo/GO_0030206) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27107"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [chondroitin sulfate biosynthetic process](http://purl.obolibrary.org/obo/GO_0030206) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MetaCyc:PWY-6567" -### muscle structure `http://purl.obolibrary.org/obo/UBERON_0005090` -#### Removed -- [muscle structure](http://purl.obolibrary.org/obo/UBERON_0005090) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "in some organisms such as drosophila, muscles can be single cells. This class groups together all discrete muscle elements, from multicellular muscle organs in vertebrates, to individual single-cell muscles in drisophila" +### chondroitin sulfate catabolic process `http://purl.obolibrary.org/obo/GO_0030207` -- [muscle structure](http://purl.obolibrary.org/obo/UBERON_0005090) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:32715" +#### Added +- [chondroitin sulfate catabolic process](http://purl.obolibrary.org/obo/GO_0030207) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MetaCyc:PWY-6573" +- [chondroitin sulfate catabolic process](http://purl.obolibrary.org/obo/GO_0030207) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27107"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [chondroitin sulfate catabolic process](http://purl.obolibrary.org/obo/GO_0030207) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MetaCyc:PWY-6572" -### muscle tissue `http://purl.obolibrary.org/obo/UBERON_0002385` -#### Removed -- [muscle tissue](http://purl.obolibrary.org/obo/UBERON_0002385) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of the four types of tissue in traditional classifications. Tissue that contains cells with contractile filaments that move past each other and change the size of the cell. Muscle tissue also is separated into three distinct categories.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### chondroitin sulfate metabolic process `http://purl.obolibrary.org/obo/GO_0030204` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000306" +#### Added +- [chondroitin sulfate metabolic process](http://purl.obolibrary.org/obo/GO_0030204) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" -- [muscle tissue](http://purl.obolibrary.org/obo/UBERON_0002385) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [neural tissue](http://purl.obolibrary.org/obo/UBERON_0003714) +### chordate pharynx `http://purl.obolibrary.org/obo/UBERON_0001042` +#### Added +- [chordate pharynx](http://purl.obolibrary.org/obo/UBERON_0001042) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### muscle tissue of prostate `http://purl.obolibrary.org/obo/UBERON_0008715` +### chordotonal organ `http://purl.obolibrary.org/obo/UBERON_0001038` #### Added -- [muscle tissue of prostate](http://purl.obolibrary.org/obo/UBERON_0008715) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [chordotonal organ](http://purl.obolibrary.org/obo/UBERON_0001038) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005215" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### muscular coat `http://purl.obolibrary.org/obo/UBERON_0006660` -#### Removed -- [muscular coat](http://purl.obolibrary.org/obo/UBERON_0006660) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An outer layer of smooth muscle surrounding a hollow or tubular organ as the bladder, esophagus, large intestine, small intestine, stomach, ureter, uterus, and vagina that often consists of an inner layer of circular fibers serving to narrow the lumen of the organ and an outer layer of longitudinal fibers serving to shorten its length[BTO]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "BTO:0004838" +### chorion syncytiotrophoblast `http://purl.obolibrary.org/obo/UBERON_0003224` -- [muscular coat](http://purl.obolibrary.org/obo/UBERON_0006660) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0006676](http://purl.obolibrary.org/obo/UBERON_0006676) +#### Added +- [chorion syncytiotrophoblast](http://purl.obolibrary.org/obo/UBERON_0003224) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [muscular coat](http://purl.obolibrary.org/obo/UBERON_0006660) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [submucosa](http://purl.obolibrary.org/obo/UBERON_0000009) -- [muscular coat](http://purl.obolibrary.org/obo/UBERON_0006660) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "typically smooth muscle, but there may be exceptions - in the upper esophagus, part of the externa is skeletal muscle, rather than smooth muscle." +### chorionic ectoderm `http://purl.obolibrary.org/obo/UBERON_0003374` +#### Added +- [chorionic ectoderm](http://purl.obolibrary.org/obo/UBERON_0003374) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### muscular coat of digestive tract `http://purl.obolibrary.org/obo/UBERON_0018261` +### chorionic membrane mesenchymal stem cell `http://purl.obolibrary.org/obo/CL_0002541` #### Removed -- [muscular coat of digestive tract](http://purl.obolibrary.org/obo/UBERON_0018261) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "responsible for gut movement, such as peristalsis" - +- [chorionic membrane mesenchymal stem cell](http://purl.obolibrary.org/obo/CL_0002541) [present in taxon](http://purl.obolibrary.org/obo/RO_0002175) [Homo sapiens](http://purl.obolibrary.org/obo/NCBITaxon_9606) +- [chorionic membrane mesenchymal stem cell](http://purl.obolibrary.org/obo/CL_0002541) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [human_reference_atlas](http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas) -### muscular coat of seminal vesicle `http://purl.obolibrary.org/obo/UBERON_0004665` - -#### Added -- [muscular coat of seminal vesicle](http://purl.obolibrary.org/obo/UBERON_0004665) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) -### muscular coat of ureter `http://purl.obolibrary.org/obo/UBERON_0006855` -#### Removed -- [muscular coat of ureter](http://purl.obolibrary.org/obo/UBERON_0006855) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:28811" +### chorionic trophoblast cell proliferation `http://purl.obolibrary.org/obo/GO_0097360` #### Added -- [muscular coat of ureter](http://purl.obolibrary.org/obo/UBERON_0006855) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [chorionic trophoblast cell proliferation](http://purl.obolibrary.org/obo/GO_0097360) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### muscular layer of prostatic urethra `http://purl.obolibrary.org/obo/UBERON_0016515` +### chorionic villus `http://purl.obolibrary.org/obo/UBERON_0007106` #### Added -- [muscular layer of prostatic urethra](http://purl.obolibrary.org/obo/UBERON_0016515) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [chorionic villus](http://purl.obolibrary.org/obo/UBERON_0007106) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### muscular layer of vagina `http://purl.obolibrary.org/obo/UBERON_0006652` +### choroid plexus epithelial cell `http://purl.obolibrary.org/obo/CL_0000706` #### Added -- [muscular layer of vagina](http://purl.obolibrary.org/obo/UBERON_0006652) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [choroid plexus epithelial cell](http://purl.obolibrary.org/obo/CL_0000706) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009304" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### musculature `http://purl.obolibrary.org/obo/UBERON_0001015` +### choroid plexus stroma `http://purl.obolibrary.org/obo/UBERON_0005206` #### Removed -- [musculature](http://purl.obolibrary.org/obo/UBERON_0001015) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "AAO:0011066" +- [choroid plexus stroma](http://purl.obolibrary.org/obo/UBERON_0005206) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [musculature](http://purl.obolibrary.org/obo/UBERON_0001015) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:32715" -- [musculature](http://purl.obolibrary.org/obo/UBERON_0001015) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "In FMA this is classified as a set of organs. ZFA musculature system has subtypes, so it is classified here. WBbt muscular system has subtypes so it goes here. Note that we use the MA term set of skeletal muscles here as it seems most appropriate (*not* MA:musculature). AAO is generally confused here." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [musculature](http://purl.obolibrary.org/obo/UBERON_0001015) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [bone element](http://purl.obolibrary.org/obo/UBERON_0001474) +### choroidal cell of the eye `http://purl.obolibrary.org/obo/CL_0000348` +#### Added +- [choroidal cell of the eye](http://purl.obolibrary.org/obo/CL_0000348) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009175" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### musculature of body `http://purl.obolibrary.org/obo/UBERON_0000383` -#### Removed -- [musculature of body](http://purl.obolibrary.org/obo/UBERON_0000383) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical system that consists of the muscles of the body.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000033" +- [choroidal cell of the eye](http://purl.obolibrary.org/obo/CL_0000348) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "VSAO:curator" +### chromaffin cell `http://purl.obolibrary.org/obo/CL_0000166` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" +#### Added +- [chromaffin cell](http://purl.obolibrary.org/obo/CL_0000166) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009099" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [musculature of body](http://purl.obolibrary.org/obo/UBERON_0000383) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we place the MA term musculature here, rather than under uberon:musculature, as this seems more appropriate given the structure of MA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" -- [musculature of body](http://purl.obolibrary.org/obo/UBERON_0000383) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:35578" +### chromatin `http://purl.obolibrary.org/obo/GO_0000785` +#### Added +- [chromatin](http://purl.obolibrary.org/obo/GO_0000785) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -### musculature of body wall `http://purl.obolibrary.org/obo/UBERON_0004462` -#### Removed -- [musculature of body wall](http://purl.obolibrary.org/obo/UBERON_0004462) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "define generically to encompass both vertebrates and invertebrates" +### chromosome `http://purl.obolibrary.org/obo/GO_0005694` +#### Added +- [chromosome](http://purl.obolibrary.org/obo/GO_0005694) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) -### musculature of larynx `http://purl.obolibrary.org/obo/UBERON_0004478` +### ciliary body morphogenesis `http://purl.obolibrary.org/obo/GO_0061073` #### Added -- [musculature of larynx](http://purl.obolibrary.org/obo/UBERON_0004478) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [ciliary body morphogenesis](http://purl.obolibrary.org/obo/GO_0061073) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### musculature of leg `http://purl.obolibrary.org/obo/UBERON_0004466` +### ciliated cell `http://purl.obolibrary.org/obo/CL_0000064` #### Removed -- [musculature of leg](http://purl.obolibrary.org/obo/UBERON_0004466) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "see notes on UBERON:0000978 for possible confusion over the term 'leg'. This class represents the class-union of upper leg musculature and lower leg musculature (and thus may not mean precisely the same thing as the EHDAA2 class)" +- [ciliated cell](http://purl.obolibrary.org/obo/CL_0000064) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +#### Added +- [ciliated cell](http://purl.obolibrary.org/obo/CL_0000064) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009032" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### musculature of pelvic girdle `http://purl.obolibrary.org/obo/UBERON_0004470` -#### Removed -- [musculature of pelvic girdle](http://purl.obolibrary.org/obo/UBERON_0004470) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we merge two FMA classes here" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +### ciliated epithelial cell `http://purl.obolibrary.org/obo/CL_0000067` +#### Added +- [ciliated epithelial cell](http://purl.obolibrary.org/obo/CL_0000067) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009035" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### musculature of thorax `http://purl.obolibrary.org/obo/UBERON_0004464` -#### Removed -- [musculature of thorax](http://purl.obolibrary.org/obo/UBERON_0004464) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "BTO and FMA do not mean precisely the same thing here. BTO thorax muscle is a pectoral muscle or diaphragm" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "BTO" +### ciliated olfactory receptor neuron `http://purl.obolibrary.org/obo/CL_0000847` +#### Added +- [ciliated olfactory receptor neuron](http://purl.obolibrary.org/obo/CL_0000847) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009358" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### musculoskeletal system `http://purl.obolibrary.org/obo/UBERON_0002204` +### cilium `http://purl.obolibrary.org/obo/GO_0005929` #### Removed -- [musculoskeletal system](http://purl.obolibrary.org/obo/UBERON_0002204) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "musculoskeletal" +- [cilium](http://purl.obolibrary.org/obo/GO_0005929) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) + + -- [musculoskeletal system](http://purl.obolibrary.org/obo/UBERON_0002204) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "There are more than 50,000 extant vertebrate species, representing over 500 million years of evolution. During that time, the vertebrate musculoskeletal systems have adapted to aquatic, terrestrial, fossorial, and arboreal lifestyles, while simultaneously retaining functionally integrated axial and appendicular skeletal systems.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### cilium movement `http://purl.obolibrary.org/obo/GO_0003341` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [cilium movement](http://purl.obolibrary.org/obo/GO_0003341) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1002/jez.b.21246 Shearman RM, Burke AC, The lateral somitic frontier in ontogeny and phylogeny. Journal of Experimental Zoology (2009)" +### cilium or flagellum-dependent cell motility `http://purl.obolibrary.org/obo/GO_0001539` +#### Removed +- [cilium or flagellum-dependent cell motility](http://purl.obolibrary.org/obo/GO_0001539) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001275" +#### Added +- [cilium or flagellum-dependent cell motility](http://purl.obolibrary.org/obo/GO_0001539) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -- [musculoskeletal system](http://purl.obolibrary.org/obo/UBERON_0002204) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical system that provides locomotion and physical support to the organism.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### cilium-dependent cell motility `http://purl.obolibrary.org/obo/GO_0060285` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010546" +#### Added +- [cilium-dependent cell motility](http://purl.obolibrary.org/obo/GO_0060285) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" -- [musculoskeletal system](http://purl.obolibrary.org/obo/UBERON_0002204) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [mesoderm](http://purl.obolibrary.org/obo/UBERON_0000926) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "check ctenophore" +### circulating cell `http://purl.obolibrary.org/obo/CL_0000080` #### Added -- [musculoskeletal system](http://purl.obolibrary.org/obo/UBERON_0002204) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [mesoderm](http://purl.obolibrary.org/obo/UBERON_0000926) +- [circulating cell](http://purl.obolibrary.org/obo/CL_0000080) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009043" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### mushroom body `http://purl.obolibrary.org/obo/UBERON_0001058` +### classical monocyte `http://purl.obolibrary.org/obo/CL_0000860` #### Removed -- [mushroom body](http://purl.obolibrary.org/obo/UBERON_0001058) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Also in annelids. 'Comparison to the vertebrate pallium reveals that the annelid mushroom bodies develop from similar molecular coordinates within a conserved overall molecular brain topology and that their development involves conserved patterning mechanisms and produces conserved neuron types that existed already in the proto- stome-deuterostome ancestors. These data indicate deep homology of pallium and mushroom bodies and date back the origin of higher brain centers to prebilaterian times'" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:20813265" +- [classical monocyte](http://purl.obolibrary.org/obo/CL_0000860) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) + -- [mushroom body](http://purl.obolibrary.org/obo/UBERON_0001058) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005801" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [mushroom body](http://purl.obolibrary.org/obo/UBERON_0001058) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Protostomia](http://purl.obolibrary.org/obo/NCBITaxon_33317) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "annelids and arthropods" +### clavicle bone primordium `http://purl.obolibrary.org/obo/UBERON_0010905` #### Added -- [mushroom body](http://purl.obolibrary.org/obo/UBERON_0001058) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Protostomia](http://purl.obolibrary.org/obo/NCBITaxon_33317) +- [clavicle bone primordium](http://purl.obolibrary.org/obo/UBERON_0010905) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### myelencephalon `http://purl.obolibrary.org/obo/UBERON_0005290` -#### Removed -- [myelencephalon](http://purl.obolibrary.org/obo/UBERON_0005290) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D054024" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### cloacal membrane `http://purl.obolibrary.org/obo/UBERON_0006217` - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) +#### Added +- [cloacal membrane](http://purl.obolibrary.org/obo/UBERON_0006217) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" -- [myelencephalon](http://purl.obolibrary.org/obo/UBERON_0005290) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The posterior of the two brain vesicles formed by specialization of the rhombencephalon in the developing embryo, it comprises the medulla oblongata. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### club-like cell of the urethral epithelium `http://purl.obolibrary.org/obo/CL_4032000` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [club-like cell of the urethral epithelium](http://purl.obolibrary.org/obo/CL_4032000) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/myelencephalon" +### cochlea auditory hair cell `http://purl.obolibrary.org/obo/CL_4023120` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000456" +#### Added +- [cochlea auditory hair cell](http://purl.obolibrary.org/obo/CL_4023120) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [myelencephalon](http://purl.obolibrary.org/obo/UBERON_0005290) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The early development of most vertebrate brains is similar (...). The zebrafish neural tube follows the same basic differentiation pattern as the mammalian neural tube (reference 1); The brain develops from three embryonic enlargements of the neural tube, which later differentiate into five regions. A forebrain differentiates into telencephalon and diencephalon. The midbrain, or mesencephalon, remains undivided. The hindbrain divides into the metencephalon and myelencephalon. Cavities within the brain enlarge to form a series of interconnected ventricles (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### cochlea morphogenesis `http://purl.obolibrary.org/obo/GO_0090103` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [cochlea morphogenesis](http://purl.obolibrary.org/obo/GO_0090103) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) p.381-382, ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.500" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000456" +### coelemic cavity lumen `http://purl.obolibrary.org/obo/UBERON_0002323` -- [myelencephalon](http://purl.obolibrary.org/obo/UBERON_0005290) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [NCBITaxon_7955](http://purl.obolibrary.org/obo/NCBITaxon_7955) +#### Added +- [coelemic cavity lumen](http://purl.obolibrary.org/obo/UBERON_0002323) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005060" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [myelencephalon](http://purl.obolibrary.org/obo/UBERON_0005290) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "the terms metencephalon and myelencephalon are only meaningful in mammals and birds - Neuroanatomy of the Zebrafish Brain. Note that its not clear if this refers to the developing medulla oblongata - MA (adult) has two distinct classes" +- [coelemic cavity lumen](http://purl.obolibrary.org/obo/UBERON_0002323) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [myelencephalon](http://purl.obolibrary.org/obo/UBERON_0005290) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future myelencephalon](http://purl.obolibrary.org/obo/UBERON_0010096) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" -- [myelencephalon](http://purl.obolibrary.org/obo/UBERON_0005290) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +### coelomic epithelium `http://purl.obolibrary.org/obo/UBERON_0005891` #### Added -- [myelencephalon](http://purl.obolibrary.org/obo/UBERON_0005290) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future myelencephalon](http://purl.obolibrary.org/obo/UBERON_0010096) +- [coelomic epithelium](http://purl.obolibrary.org/obo/UBERON_0005891) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### myelinated nerve fiber `http://purl.obolibrary.org/obo/UBERON_0006135` -#### Removed -- [myelinated nerve fiber](http://purl.obolibrary.org/obo/UBERON_0006135) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "http://www1.pbrc.hawaii.edu/~danh/MyelinEvolution/evolution.html, http://journals.cambridge.org/action/displayAbstract?fromPage=online&aid=6134604, Wikipedia:Myelin#Invertebrate_myelin" +### collagen metabolic process `http://purl.obolibrary.org/obo/GO_0032963` +#### Added +- [collagen metabolic process](http://purl.obolibrary.org/obo/GO_0032963) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### myeloperoxidase `http://purl.obolibrary.org/obo/PR_000010543` -#### Removed -- [myeloperoxidase](http://purl.obolibrary.org/obo/PR_000010543) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [myeloperoxidase (human)](http://purl.obolibrary.org/obo/PR_P05164) +### collagen secreting cell `http://purl.obolibrary.org/obo/CL_0000667` +#### Added +- [collagen secreting cell](http://purl.obolibrary.org/obo/CL_0000667) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009287" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### myocardium `http://purl.obolibrary.org/obo/UBERON_0002349` +### collection of collagen fibrils `http://purl.obolibrary.org/obo/UBERON_0011860` #### Removed -- [myocardium](http://purl.obolibrary.org/obo/UBERON_0002349) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The middle layer of the heart, consisting of cardiac muscle.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010410" +- [collection of collagen fibrils](http://purl.obolibrary.org/obo/UBERON_0011860) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +### collection of hairs `http://purl.obolibrary.org/obo/UBERON_0010164` + +#### Added +- [collection of hairs](http://purl.obolibrary.org/obo/UBERON_0010164) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -- [myocardium](http://purl.obolibrary.org/obo/UBERON_0002349) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "myocardial" +- [collection of hairs](http://purl.obolibrary.org/obo/UBERON_0010164) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [myocardium](http://purl.obolibrary.org/obo/UBERON_0002349) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:32688" -- [myocardium](http://purl.obolibrary.org/obo/UBERON_0002349) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Robust muscular tunic of the heart which forms the basic part of its walls. Its external surface is covered by the pericardium and its internal one by the endocardium. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### columnar chondrocyte `http://purl.obolibrary.org/obo/CL_0000744` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [columnar chondrocyte](http://purl.obolibrary.org/obo/CL_0000744) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009314" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000083" +### columnar/cuboidal epithelial cell `http://purl.obolibrary.org/obo/CL_0000075` +#### Added +- [columnar/cuboidal epithelial cell](http://purl.obolibrary.org/obo/CL_0000075) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009038" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### myocardium of anterior wall of right ventricle `http://purl.obolibrary.org/obo/UBERON_0036291` -#### Removed -- [myocardium of anterior wall of right ventricle](http://purl.obolibrary.org/obo/UBERON_0036291) SubClassOf [myocardium of ventricle](http://purl.obolibrary.org/obo/UBERON_0001083) +### comma-shaped body `http://purl.obolibrary.org/obo/UBERON_0004198` #### Added -- [myocardium of anterior wall of right ventricle](http://purl.obolibrary.org/obo/UBERON_0036291) SubClassOf [right ventricle myocardium](http://purl.obolibrary.org/obo/UBERON_0006567) - +- [comma-shaped body](http://purl.obolibrary.org/obo/UBERON_0004198) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### myocardium of atrium `http://purl.obolibrary.org/obo/UBERON_0002302` -#### Removed -- [myocardium of atrium](http://purl.obolibrary.org/obo/UBERON_0002302) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "As noted, the hearts of birds and mammals have four chambers that arises from the two chambers (atrium and ventricle) of the fish heart.[uncertain][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000602" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### comma-shaped body morphogenesis `http://purl.obolibrary.org/obo/GO_0072049` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [comma-shaped body morphogenesis](http://purl.obolibrary.org/obo/GO_0072049) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.481" +### committed double negative thymocyte (Homo sapiens) `http://purl.obolibrary.org/obo/CL_0009082` +#### Removed +- [committed double negative thymocyte (Homo sapiens)](http://purl.obolibrary.org/obo/CL_0009082) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [human_reference_atlas](http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas) -### myocardium of ventricle `http://purl.obolibrary.org/obo/UBERON_0001083` +### common dendritic progenitor `http://purl.obolibrary.org/obo/CL_0001029` #### Removed -- [myocardium of ventricle](http://purl.obolibrary.org/obo/UBERON_0001083) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "As noted, the hearts of birds and mammals have four chambers that arises from the two chambers (atrium and ventricle) of the fish heart.[uncertain][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000604" +- [common dendritic progenitor](http://purl.obolibrary.org/obo/CL_0001029) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) + - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### common lymphoid progenitor `http://purl.obolibrary.org/obo/CL_0000051` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [common lymphoid progenitor](http://purl.obolibrary.org/obo/CL_0000051) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009023" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.481" -- [myocardium of ventricle](http://purl.obolibrary.org/obo/UBERON_0001083) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Muscular layer of the cardiac ventricle composed of a compact myocardial layer surrounding the trabecular layer Hu et al. 2001.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005061" +### common myeloid progenitor `http://purl.obolibrary.org/obo/CL_0000049` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +#### Added +- [common myeloid progenitor](http://purl.obolibrary.org/obo/CL_0000049) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009021" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### common myeloid progenitor, CD34-positive `http://purl.obolibrary.org/obo/CL_0001059` +#### Removed +- [common myeloid progenitor, CD34-positive](http://purl.obolibrary.org/obo/CL_0001059) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### myocardium trabecular layer `http://purl.obolibrary.org/obo/UBERON_0004124` +### complex of collagen trimers `http://purl.obolibrary.org/obo/GO_0098644` #### Removed -- [myocardium trabecular layer](http://purl.obolibrary.org/obo/UBERON_0004124) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The layer of the myocardium composed of projections of contractile myocytes. The trabecular layer is bounded internally by the the endocardium. Unlike the trabeculations of higher vertebrates, both atrial and ventricular trabeculae of the zebrafish have more strut-like character, and are more uniform without apparent regional differences Hu et al. 2001.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [complex of collagen trimers](http://purl.obolibrary.org/obo/GO_0098644) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005059" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### compound eye `http://purl.obolibrary.org/obo/UBERON_0000018` +#### Added +- [compound eye](http://purl.obolibrary.org/obo/UBERON_0000018) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004508" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### myocoele `http://purl.obolibrary.org/obo/UBERON_0012054` +### compound eye cone cell `http://purl.obolibrary.org/obo/CL_0000718` #### Removed -- [myocoele](http://purl.obolibrary.org/obo/UBERON_0012054) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The central cavity within the mesoderm is the paired primary or embryonic coelom. Parts of the embryonic coelom often become enclosed in the mesoderm, forming a myocoel within the epimere, a nephrocoel within the mesomere, and simple coelom (body cavity) within the lateral plate mesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [compound eye cone cell](http://purl.obolibrary.org/obo/CL_0000718) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004193" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [compound eye cone cell](http://purl.obolibrary.org/obo/CL_0000718) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004193" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001283" +### compound eye photoreceptor cell `http://purl.obolibrary.org/obo/CL_2000019` +#### Removed +- [compound eye photoreceptor cell](http://purl.obolibrary.org/obo/CL_2000019) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004211" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.166 and Figure 5.6" +#### Added +- [compound eye photoreceptor cell](http://purl.obolibrary.org/obo/CL_2000019) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00006009" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### conceptus `http://purl.obolibrary.org/obo/UBERON_0004716` -### myoepithelial cell of mammary gland `http://purl.obolibrary.org/obo/CL_0002324` -#### Removed -- [myoepithelial cell of mammary gland](http://purl.obolibrary.org/obo/CL_0002324) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "basal cell of lactiferous duct" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:67800" +#### Added +- [conceptus](http://purl.obolibrary.org/obo/UBERON_0004716) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [myoepithelial cell of mammary gland](http://purl.obolibrary.org/obo/CL_0002324) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "myoepithelial cell of lactiferous gland" -- [myoepithelial cell of mammary gland](http://purl.obolibrary.org/obo/CL_0002324) [label](http://www.w3.org/2000/01/rdf-schema#label) "myoepithelial cell of mammary gland" +### cone retinal bipolar cell `http://purl.obolibrary.org/obo/CL_0000752` -- [myoepithelial cell of mammary gland](http://purl.obolibrary.org/obo/CL_0002324) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A myoepithelial cell that surrounds milk-secreting luminal epithelial cells. This cell type contracts under the stimulation of oxytocin and is attached to the basement membrane by hemidesmosomes and to the adjacent luminal cells by desmosomes. This cell type expresses high level of keratin-14 and is estrogen receptor alpha negative." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:tfm" +#### Added +- [cone retinal bipolar cell](http://purl.obolibrary.org/obo/CL_0000752) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009322" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:19022771" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:11250738" +### connecting stalk `http://purl.obolibrary.org/obo/UBERON_0007806` #### Added -- [myoepithelial cell of mammary gland](http://purl.obolibrary.org/obo/CL_0002324) [contributor](http://purl.org/dc/terms/contributor) [X](https://orcid.org/0000-0003-4969-670X) +- [connecting stalk](http://purl.obolibrary.org/obo/UBERON_0007806) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [myoepithelial cell of mammary gland](http://purl.obolibrary.org/obo/CL_0002324) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A myoepithelial cell that is part of a mammary gland and is located in the basal layer. During lactation, a basal-myoepithelial cell of mammary gland contracts under the stimulation of oxytocin. In humans, a basal-myoepithelial cell of mammary gland can be identified by high levels of CD49f and low levels of EpCAM." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:tfm" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:38059556" +### connecting stalk vasculature `http://purl.obolibrary.org/obo/UBERON_0007807` - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:19022771" +#### Added +- [connecting stalk vasculature](http://purl.obolibrary.org/obo/UBERON_0007807) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:11250738" -- [myoepithelial cell of mammary gland](http://purl.obolibrary.org/obo/CL_0002324) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Due inconsistencies in naming this and other mammary gland epithelial cell types, several mammary gland experts gathered for a breast atlas annotation jamboree organized by Chan-Zuckerberg initiative. They agreed to label this cell type as basal-myoepithelial cell (and abbreviated: B-Myo cell)." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:38059556" +### connective tissue cell `http://purl.obolibrary.org/obo/CL_0002320` -- [myoepithelial cell of mammary gland](http://purl.obolibrary.org/obo/CL_0002324) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "basal-myoepithelial cell" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37380767" +#### Added +- [connective tissue cell](http://purl.obolibrary.org/obo/CL_0002320) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009392" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [myoepithelial cell of mammary gland](http://purl.obolibrary.org/obo/CL_0002324) [label](http://www.w3.org/2000/01/rdf-schema#label) "basal-myoepithelial cell of mammary gland" -- [myoepithelial cell of mammary gland](http://purl.obolibrary.org/obo/CL_0002324) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "B-Myo cell" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) +### continuant `http://purl.obolibrary.org/obo/BFO_0000002` +#### Removed +- [continuant](http://purl.obolibrary.org/obo/BFO_0000002) [label](http://www.w3.org/2000/01/rdf-schema#label) "continuant"@en -- [myoepithelial cell of mammary gland](http://purl.obolibrary.org/obo/CL_0002324) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "BM" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:38059556" +- [continuant](http://purl.obolibrary.org/obo/BFO_0000002) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts."@en - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) +- [continuant](http://purl.obolibrary.org/obo/BFO_0000002) DisjointWith [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [myoepithelial cell of mammary gland](http://purl.obolibrary.org/obo/CL_0002324) [contributor](http://purl.org/dc/terms/contributor) [0000-0001-6677-8489](https://orcid.org/0000-0001-6677-8489) +- [continuant](http://purl.obolibrary.org/obo/BFO_0000002) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) only [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [myoepithelial cell of mammary gland](http://purl.obolibrary.org/obo/CL_0002324) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "myoepithelial cell of mammary gland" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:11250738" -- [myoepithelial cell of mammary gland](http://purl.obolibrary.org/obo/CL_0002324) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "myoepithelial cell of lactiferous gland" -- [myoepithelial cell of mammary gland](http://purl.obolibrary.org/obo/CL_0002324) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "basal myoepithelial cell" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37694522" +### contractile fiber `http://purl.obolibrary.org/obo/GO_0043292` +#### Removed +- [contractile fiber](http://purl.obolibrary.org/obo/GO_0043292) [label](http://www.w3.org/2000/01/rdf-schema#label) "contractile fiber" -- [myoepithelial cell of mammary gland](http://purl.obolibrary.org/obo/CL_0002324) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "basal cell of lactiferous duct" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:67800" +#### Added +- [contractile fiber](http://purl.obolibrary.org/obo/GO_0043292) [label](http://www.w3.org/2000/01/rdf-schema#label) "contractile muscle fiber" -- [myoepithelial cell of mammary gland](http://purl.obolibrary.org/obo/CL_0002324) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "basal" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) +- [contractile fiber](http://purl.obolibrary.org/obo/GO_0043292) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27281"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37380767" +- [contractile fiber](http://purl.obolibrary.org/obo/GO_0043292) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Eumetazoa](http://purl.obolibrary.org/obo/NCBITaxon_6072) +- [contractile fiber](http://purl.obolibrary.org/obo/GO_0043292) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) only [Eumetazoa](http://purl.obolibrary.org/obo/NCBITaxon_6072) -### myometrium `http://purl.obolibrary.org/obo/UBERON_0001296` -#### Removed -- [myometrium](http://purl.obolibrary.org/obo/UBERON_0001296) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "The myometrium stretches (the smooth muscle cells expand in both size and number) during pregnancy to allow for the harboring of the pregnancy, and contracts in a coordinated fashion during the process of labor. After delivery the myometrium contracts to expel the placenta and reduce blood loss." -- [myometrium](http://purl.obolibrary.org/obo/UBERON_0001296) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The muscular wall of the uterus. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/myometrium" +### cornea `http://purl.obolibrary.org/obo/UBERON_0000964` +#### Removed +- [cornea](http://purl.obolibrary.org/obo/UBERON_0000964) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### corneal endothelial cell `http://purl.obolibrary.org/obo/CL_0000132` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001281" +#### Added +- [corneal endothelial cell](http://purl.obolibrary.org/obo/CL_0000132) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009079" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [myometrium](http://purl.obolibrary.org/obo/UBERON_0001296) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "myometrial" -- [myometrium](http://purl.obolibrary.org/obo/UBERON_0001296) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In all mammals, the uterus develops as a specialization of the paramesonephric or Müllerian ducts, which gives rise to the infundibula, oviducts, uterus, cervix, and anterior vagina. Morphogenetic events common to development of all uteri include: 1) differentiation and growth of the myometrium, 2) differentiation and morphogenesis of the endometrial glands, and 3) organization and stratification of endometrial stroma. Uterine development is initiated in the fetus, but is only completed postnatally with differentiation and development of the endometrial glands.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### corneal epithelial cell `http://purl.obolibrary.org/obo/CL_0000575` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [corneal epithelial cell](http://purl.obolibrary.org/obo/CL_0000575) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009264" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:15471813 Spencer TE, Bazer FW, Uterine and placental factors regulating conceptus growth in domestic animals. Journal of Animal Science (2004)" +### corneocyte `http://purl.obolibrary.org/obo/CL_0002153` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001281" +#### Added +- [corneocyte](http://purl.obolibrary.org/obo/CL_0002153) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +### corpus luteum `http://purl.obolibrary.org/obo/UBERON_0002512` -### myotome `http://purl.obolibrary.org/obo/UBERON_0003082` -#### Removed -- [myotome](http://purl.obolibrary.org/obo/UBERON_0003082) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In all vertebrates, the skeletal muscle of the body axis is chiefly derived from an early embryonic compartment, known as the myotome.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [corpus luteum](http://purl.obolibrary.org/obo/UBERON_0002512) SubClassOf [female reproductive organ](http://purl.obolibrary.org/obo/UBERON_0003134) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### cortex of thymus `http://purl.obolibrary.org/obo/UBERON_0002123` +#### Removed +- [cortex of thymus](http://purl.obolibrary.org/obo/UBERON_0002123) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1038/sj.embor.embor920 Hollway GE, Currie PD, Myotome meanderings. Cellular morphogenesis and the making of muscle. EMBO Rep.(2003)" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001244" -- [myotome](http://purl.obolibrary.org/obo/UBERON_0003082) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of the somites giving rise to body wall muscle masses. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +### cortical intermediate zone `http://purl.obolibrary.org/obo/UBERON_0004040` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001056" +#### Added +- [cortical intermediate zone](http://purl.obolibrary.org/obo/UBERON_0004040) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### cortical subplate `http://purl.obolibrary.org/obo/UBERON_0004035` +#### Added +- [cortical subplate](http://purl.obolibrary.org/obo/UBERON_0004035) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### nail `http://purl.obolibrary.org/obo/UBERON_0001705` +### corticosteroid receptor signaling pathway `http://purl.obolibrary.org/obo/GO_0031958` #### Removed -- [nail](http://purl.obolibrary.org/obo/UBERON_0001705) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "A primate's nail consists of the unguis alone; the subunguis has disappeared" +- [corticosteroid receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0031958) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The series of molecular signals initiated by corticosteroid binding to its receptor, and ending with the regulation of a downstream cellular process, e.g. transcription." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:mah" -- [nail](http://purl.obolibrary.org/obo/UBERON_0001705) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Use this class for both the nails of primates and the homologous claws of mammals such as mouse." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:11027914" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:12606724" +- [corticosteroid receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0031958) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "corticosteroid receptor signalling pathway" -### nail plate `http://purl.obolibrary.org/obo/UBERON_0008198` -#### Removed -- [nail plate](http://purl.obolibrary.org/obo/UBERON_0008198) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA, the nail is the nail plate" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [corticosteroid receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0031958) [label](http://www.w3.org/2000/01/rdf-schema#label) "corticosteroid receptor signaling pathway" #### Added -- [nail plate](http://purl.obolibrary.org/obo/UBERON_0008198) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [corticosteroid receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0031958) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "corticosteroid receptor signaling pathway" +- [corticosteroid receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0031958) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "corticosteroid receptor signalling pathway" -### named class expression `http://purl.obolibrary.org/obo/IAO_0000421` -#### Removed -- [named class expression](http://purl.obolibrary.org/obo/IAO_0000421) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "named class expression"@en - -- [named class expression](http://purl.obolibrary.org/obo/IAO_0000421) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "Alan Ruttenberg"@en +- [corticosteroid receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0031958) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The series of molecular signals initiated by corticosteroid binding to its nuclear receptor inside the cell, and ending with the regulation of a downstream cellular process, e.g. transcription." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:mah" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:11027914" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:12606724" -### naris `http://purl.obolibrary.org/obo/UBERON_0000003` -#### Removed -- [naris](http://purl.obolibrary.org/obo/UBERON_0000003) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we have classified this as an orifice, according to FMA. Note that in FMA, orifices are immaterial entities, but in ZFA this is a surface structure" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - -- [naris](http://purl.obolibrary.org/obo/UBERON_0000003) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in actinopterygians, both pairs of nares are external. In tetrapods, the exhalant empties into the buccal cavity" +- [corticosteroid receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0031958) [label](http://www.w3.org/2000/01/rdf-schema#label) "intracellular corticosteroid receptor signaling pathway" -- [naris](http://purl.obolibrary.org/obo/UBERON_0000003) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Naris refer to the external and interior naris (choana) of tetrapods, and to anterior and posterior naris of zebrafish. It seems now accepted that the structure is homologous: The choana, a unique 'internal nostril' opening from the nasal sac into the roof of the mouth, is a key part of the tetrapod (land vertebrate) respiratory system. It was the first component of the tetrapod body plan to evolve, well before the origin of limbs, and is therefore crucial to our understanding of the beginning of the fish-tetrapod transition. (...) Here we present new material of Kenichthys, a 395-million-year-old fossil fish from China, that provides direct evidence for the origin of the choana and establishes its homology: it is indeed a displaced posterior external nostril that, during a brief transitional stage illustrated by Kenichthys, separated the maxilla from the premaxilla.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000663" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### cranial motor neuron `http://purl.obolibrary.org/obo/CL_0015000` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [cranial motor neuron](http://purl.obolibrary.org/obo/CL_0015000) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005730" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1038/nature02843 Zhu M, Ahlberg PE, The origin of the internal nostril in tetrapodes. Nature (2004)" +### cranial nerve `http://purl.obolibrary.org/obo/UBERON_0001785` -- [naris](http://purl.obolibrary.org/obo/UBERON_0000003) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of paired external openings of the nasal chamber.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" +#### Added +- [cranial nerve](http://purl.obolibrary.org/obo/UBERON_0001785) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### cranial nerve formation `http://purl.obolibrary.org/obo/GO_0021603` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000311" +#### Added +- [cranial nerve formation](http://purl.obolibrary.org/obo/GO_0021603) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### cranial nerve morphogenesis `http://purl.obolibrary.org/obo/GO_0021602` -### nasal cartilage `http://purl.obolibrary.org/obo/UBERON_0001823` -#### Removed -- [nasal cartilage](http://purl.obolibrary.org/obo/UBERON_0001823) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D055171" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +#### Added +- [cranial nerve morphogenesis](http://purl.obolibrary.org/obo/GO_0021602) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +### craniofacial suture morphogenesis `http://purl.obolibrary.org/obo/GO_0097094` #### Added -- [nasal cartilage](http://purl.obolibrary.org/obo/UBERON_0001823) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [craniofacial suture morphogenesis](http://purl.obolibrary.org/obo/GO_0097094) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### nasal cavity `http://purl.obolibrary.org/obo/UBERON_0001707` -#### Removed -- [nasal cavity](http://purl.obolibrary.org/obo/UBERON_0001707) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "a large air filled space above and behind the nose in the middle of the face[WP][Wikipedia:Nasal_cavity]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Nasal_cavity" +### crypt olfactory receptor neuron `http://purl.obolibrary.org/obo/CL_0000849` -- [nasal cavity](http://purl.obolibrary.org/obo/UBERON_0001707) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Saclike space internal to the nasal capsule lined by respiratory and sensory epithelium and glandular tissue.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000314" +#### Added +- [crypt olfactory receptor neuron](http://purl.obolibrary.org/obo/CL_0000849) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009360" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### cumulus cell differentiation `http://purl.obolibrary.org/obo/GO_0001549` +#### Removed +- [cumulus cell differentiation](http://purl.obolibrary.org/obo/GO_0001549) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" -- [nasal cavity](http://purl.obolibrary.org/obo/UBERON_0001707) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Despite significant modification to the nasal cavity within Archosauria and its extreme hypertrophy and supraorbital development in Lambeosaurinae, the neural olfactory system and the olfactory region of the nasal cavity proper retain their plesiomorphic positions and associations, suggesting that this system is highly conserved in vertebrate evolution.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### cyanoblast `http://purl.obolibrary.org/obo/CL_0005005` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [cyanoblast](http://purl.obolibrary.org/obo/CL_0005005) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005332" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000271" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1666/0094-8373(2006)032[0109:NCHACC]2.0.CO;2 Evans DC, Nasal cavity homologies and cranial crest function in lambeosaurine dinosaurs. Paleobiology (2006)" +### cyanophore `http://purl.obolibrary.org/obo/CL_0000747` -- [nasal cavity](http://purl.obolibrary.org/obo/UBERON_0001707) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in humans, the cavity includes and starts at the nares and reaches all the way through to the and includes the choanae, the posterior nasal apertures" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "HP" +#### Added +- [cyanophore](http://purl.obolibrary.org/obo/CL_0000747) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009317" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [cyanophore](http://purl.obolibrary.org/obo/CL_0000747) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### nasal cavity mucosa `http://purl.obolibrary.org/obo/UBERON_0001826` +### cystoblast division `http://purl.obolibrary.org/obo/GO_0007282` +#### Removed +- [cystoblast division](http://purl.obolibrary.org/obo/GO_0007282) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) #### Added -- [nasal cavity mucosa](http://purl.obolibrary.org/obo/UBERON_0001826) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [cystoblast division](http://purl.obolibrary.org/obo/GO_0007282) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [nasal cavity mucosa](http://purl.obolibrary.org/obo/UBERON_0001826) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +### cytokine receptor activity `http://purl.obolibrary.org/obo/GO_0004896` -### nasal mucus `http://purl.obolibrary.org/obo/UBERON_0002306` -#### Removed -- [nasal mucus](http://purl.obolibrary.org/obo/UBERON_0002306) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "protects the olfactory epithelium and allows odors to dissolve so that they can be detected by olfactory receptor neurons" - +#### Added +- [cytokine receptor activity](http://purl.obolibrary.org/obo/GO_0004896) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### nasal muscle `http://purl.obolibrary.org/obo/UBERON_0008522` +### cytoplasm `http://purl.obolibrary.org/obo/GO_0005737` #### Added -- [nasal muscle](http://purl.obolibrary.org/obo/UBERON_0008522) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [cytoplasm](http://purl.obolibrary.org/obo/GO_0005737) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) +- [cytoplasm](http://purl.obolibrary.org/obo/GO_0005737) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) -### nasal skeleton `http://purl.obolibrary.org/obo/UBERON_0006813` -#### Removed -- [nasal skeleton](http://purl.obolibrary.org/obo/UBERON_0006813) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [dermatocranium](http://purl.obolibrary.org/obo/UBERON_0003113) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Kardong-abduced" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "facial series" +### cytoskeleton `http://purl.obolibrary.org/obo/GO_0005856` #### Added -- [nasal skeleton](http://purl.obolibrary.org/obo/UBERON_0006813) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [dermatocranium](http://purl.obolibrary.org/obo/UBERON_0003113) +- [cytoskeleton](http://purl.obolibrary.org/obo/GO_0005856) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) -- [nasal skeleton](http://purl.obolibrary.org/obo/UBERON_0006813) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [cytoskeleton](http://purl.obolibrary.org/obo/GO_0005856) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -### nasal-associated lymphoid tissue `http://purl.obolibrary.org/obo/UBERON_0012330` +### cytosol `http://purl.obolibrary.org/obo/GO_0005829` #### Added -- [nasal-associated lymphoid tissue](http://purl.obolibrary.org/obo/UBERON_0012330) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### nasolacrimal duct `http://purl.obolibrary.org/obo/UBERON_0002392` -#### Removed -- [nasolacrimal duct](http://purl.obolibrary.org/obo/UBERON_0002392) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The nasolacrimal duct is probably homologous to the posterior (excurrent) naris of actinopterygian fishes.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [cytosol](http://purl.obolibrary.org/obo/GO_0005829) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### decidua `http://purl.obolibrary.org/obo/UBERON_0002450` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000664" +#### Added +- [decidua](http://purl.obolibrary.org/obo/UBERON_0002450) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.256" -- [nasolacrimal duct](http://purl.obolibrary.org/obo/UBERON_0002392) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "the nasolacrimal duct, the sac is lined by stratified columnar epithelium with mucus-secreting goblet cells, and is surrounded by connective tissue" +### defense response to insect `http://purl.obolibrary.org/obo/GO_0002213` #### Added -- [nasolacrimal duct](http://purl.obolibrary.org/obo/UBERON_0002392) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [defense response to insect](http://purl.obolibrary.org/obo/GO_0002213) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### nasopharyngeal gland `http://purl.obolibrary.org/obo/UBERON_0008310` +### defense response to nematode `http://purl.obolibrary.org/obo/GO_0002215` #### Added -- [nasopharyngeal gland](http://purl.obolibrary.org/obo/UBERON_0008310) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [defense response to nematode](http://purl.obolibrary.org/obo/GO_0002215) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### nasopharynx `http://purl.obolibrary.org/obo/UBERON_0001728` +### dendritic cell `http://purl.obolibrary.org/obo/CL_0000451` #### Removed -- [nasopharynx](http://purl.obolibrary.org/obo/UBERON_0001728) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "nasopharyngeal" +- [dendritic cell](http://purl.obolibrary.org/obo/CL_0000451) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [nasopharynx](http://purl.obolibrary.org/obo/UBERON_0001728) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans - in front it communicates through the choanae with the nasal cavities. On its lateral wall is the pharyngeal ostium of the auditory tube, somewhat triangular in shape, and bounded behind by a firm prominence, the torus tubarius or cushion, caused by the medial end of the cartilage of the tube which elevates the mucous membrane" +#### Added +- [dendritic cell](http://purl.obolibrary.org/obo/CL_0000451) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009209" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [nasopharynx](http://purl.obolibrary.org/obo/UBERON_0001728) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The uppermost of the three regions of the throat (pharynx), situated behind the nasal cavity and extending from the posterior nares to the level above the soft palate. [TFD][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000375" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### dendritic cell antigen processing and presentation `http://purl.obolibrary.org/obo/GO_0002468` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [dendritic cell antigen processing and presentation](http://purl.obolibrary.org/obo/GO_0002468) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/nasopharynx" +### dense connective tissue `http://purl.obolibrary.org/obo/UBERON_0011823` +#### Removed +- [dense connective tissue](http://purl.obolibrary.org/obo/UBERON_0011823) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### nasopharynx connective tissue `http://purl.obolibrary.org/obo/UBERON_0003582` +### dense mesenchyme tissue `http://purl.obolibrary.org/obo/UBERON_0007524` #### Added -- [nasopharynx connective tissue](http://purl.obolibrary.org/obo/UBERON_0003582) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - - -### natural cytotoxicity triggering receptor 1 `http://purl.obolibrary.org/obo/PR_000001893` -#### Removed -- [natural cytotoxicity triggering receptor 1](http://purl.obolibrary.org/obo/PR_000001893) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [natural cytotoxicity triggering receptor 1 (human)](http://purl.obolibrary.org/obo/PR_O76036) +- [dense mesenchyme tissue](http://purl.obolibrary.org/obo/UBERON_0007524) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +### dental papilla cell `http://purl.obolibrary.org/obo/CL_0000345` -### natural cytotoxicity triggering receptor 2 `http://purl.obolibrary.org/obo/PR_000001894` -#### Removed -- [natural cytotoxicity triggering receptor 2](http://purl.obolibrary.org/obo/PR_000001894) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [natural cytotoxicity triggering receptor 2 (human)](http://purl.obolibrary.org/obo/PR_O95944) - +#### Added +- [dental papilla cell](http://purl.obolibrary.org/obo/CL_0000345) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009173" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [dental papilla cell](http://purl.obolibrary.org/obo/CL_0000345) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### natural killer cell receptor 2B4 `http://purl.obolibrary.org/obo/PR_000001896` -#### Removed -- [natural killer cell receptor 2B4](http://purl.obolibrary.org/obo/PR_000001896) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [natural killer cell receptor 2B4 (human)](http://purl.obolibrary.org/obo/PR_Q9BZW8) +### dentition `http://purl.obolibrary.org/obo/UBERON_0003672` +#### Added +- [dentition](http://purl.obolibrary.org/obo/UBERON_0003672) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### neck `http://purl.obolibrary.org/obo/UBERON_0000974` -#### Removed -- [neck](http://purl.obolibrary.org/obo/UBERON_0000974) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "cervical" +- [dentition](http://purl.obolibrary.org/obo/UBERON_0003672) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -- [neck](http://purl.obolibrary.org/obo/UBERON_0000974) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "true necks are considered to be present when the pectoral girdle is separate from the skull - Tiktaalik is the earliest known fish to have a true neck." -- [neck](http://purl.obolibrary.org/obo/UBERON_0000974) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [Teleostei](http://purl.obolibrary.org/obo/NCBITaxon_32443) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:9780674021839" +### dermatome `http://purl.obolibrary.org/obo/UBERON_0004016` +#### Added +- [dermatome](http://purl.obolibrary.org/obo/UBERON_0004016) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### neck of bone element `http://purl.obolibrary.org/obo/UBERON_0018664` +### dermis `http://purl.obolibrary.org/obo/UBERON_0002067` #### Removed -- [neck of bone element](http://purl.obolibrary.org/obo/UBERON_0018664) SubClassOf [zone of bone organ](http://purl.obolibrary.org/obo/UBERON_0005913) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "https://github.com/obophenotype/uberon/wiki/Hidden-GCIs" +- [dermis](http://purl.obolibrary.org/obo/UBERON_0002067) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -#### Added -- [neck of bone element](http://purl.obolibrary.org/obo/UBERON_0018664) SubClassOf [zone of bone organ](http://purl.obolibrary.org/obo/UBERON_0005913) -### neck of femur `http://purl.obolibrary.org/obo/UBERON_0007119` +### dermomyotome `http://purl.obolibrary.org/obo/UBERON_0004290` #### Added -- [neck of femur](http://purl.obolibrary.org/obo/UBERON_0007119) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [dermomyotome](http://purl.obolibrary.org/obo/UBERON_0004290) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### neck of fibula `http://purl.obolibrary.org/obo/UBERON_0018673` +### descending aorta morphogenesis `http://purl.obolibrary.org/obo/GO_0035911` #### Added -- [neck of fibula](http://purl.obolibrary.org/obo/UBERON_0018673) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [descending aorta morphogenesis](http://purl.obolibrary.org/obo/GO_0035911) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### neck of gallbladder `http://purl.obolibrary.org/obo/UBERON_0035267` +### descending colon `http://purl.obolibrary.org/obo/UBERON_0001158` #### Added -- [neck of gallbladder](http://purl.obolibrary.org/obo/UBERON_0035267) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [descending colon](http://purl.obolibrary.org/obo/UBERON_0001158) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### neck of humerus `http://purl.obolibrary.org/obo/UBERON_4200172` +### detoxification `http://purl.obolibrary.org/obo/GO_0098754` #### Added -- [neck of humerus](http://purl.obolibrary.org/obo/UBERON_4200172) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [detoxification](http://purl.obolibrary.org/obo/GO_0098754) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) + +- [detoxification](http://purl.obolibrary.org/obo/GO_0098754) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) -### neck of tooth `http://purl.obolibrary.org/obo/UBERON_0015181` +### detoxification of inorganic compound `http://purl.obolibrary.org/obo/GO_0061687` #### Added -- [neck of tooth](http://purl.obolibrary.org/obo/UBERON_0015181) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [detoxification of inorganic compound](http://purl.obolibrary.org/obo/GO_0061687) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### neck of urinary bladder `http://purl.obolibrary.org/obo/UBERON_0001258` +### detoxification of iron ion `http://purl.obolibrary.org/obo/GO_1990461` #### Added -- [neck of urinary bladder](http://purl.obolibrary.org/obo/UBERON_0001258) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [detoxification of iron ion](http://purl.obolibrary.org/obo/GO_1990461) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### negatively regulated by `http://purl.obolibrary.org/obo/RO_0002335` -#### Removed -- [negatively regulated by](http://purl.obolibrary.org/obo/RO_0002335) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - +### detoxification of nitrogen compound `http://purl.obolibrary.org/obo/GO_0051410` +#### Added +- [detoxification of nitrogen compound](http://purl.obolibrary.org/obo/GO_0051410) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### negatively regulates `http://purl.obolibrary.org/obo/RO_0002212` -#### Removed -- [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [causal-relations](http://purl.obolibrary.org/obo/ro/docs/causal-relations) -- [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) [IAO_0000589](http://purl.obolibrary.org/obo/IAO_0000589) "negatively regulates (process to process)" +### developing anatomical structure `http://purl.obolibrary.org/obo/UBERON_0005423` -- [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +#### Added +- [developing anatomical structure](http://purl.obolibrary.org/obo/UBERON_0005423) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007006" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [developing anatomical structure](http://purl.obolibrary.org/obo/UBERON_0005423) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -### neocortex `http://purl.obolibrary.org/obo/UBERON_0001950` +### developmental process involved in reproduction `http://purl.obolibrary.org/obo/GO_0003006` #### Removed -- [neocortex](http://purl.obolibrary.org/obo/UBERON_0001950) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [olfactory bulb](http://purl.obolibrary.org/obo/UBERON_0002264) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [neocortex](http://purl.obolibrary.org/obo/UBERON_0001950) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The 6-layer neocortex is well conserved in all extant mammals, but not present in birds or reptils" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:23027930" - +- [developmental process involved in reproduction](http://purl.obolibrary.org/obo/GO_0003006) EquivalentTo [developmental process](http://purl.obolibrary.org/obo/GO_0032502) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [reproduction](http://purl.obolibrary.org/obo/GO_0000003)) +#### Added +- [developmental process involved in reproduction](http://purl.obolibrary.org/obo/GO_0003006) EquivalentTo [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) and [developmental process](http://purl.obolibrary.org/obo/GO_0032502) -### nephrogenic zone `http://purl.obolibrary.org/obo/UBERON_0009871` -#### Removed -- [nephrogenic zone](http://purl.obolibrary.org/obo/UBERON_0009871) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "see http://www.ncbi.nlm.nih.gov/pubmed/12761251 for description of nephrogenic zone in dogfish." +### device utilizes material `http://purl.obolibrary.org/obo/RO_0017001` +#### Added +- [device utilizes material](http://purl.obolibrary.org/obo/RO_0017001) [contributor](http://purl.org/dc/terms/contributor) [0000-0003-2620-0345](https://orcid.org/0000-0003-2620-0345) -### nephron `http://purl.obolibrary.org/obo/UBERON_0001285` -#### Removed -- [nephron](http://purl.obolibrary.org/obo/UBERON_0001285) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Functional unit of the kidney that filters waste.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [device utilizes material](http://purl.obolibrary.org/obo/RO_0017001) [contributor](http://purl.org/dc/terms/contributor) [0000-0001-9625-1899](https://orcid.org/0000-0001-9625-1899) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### dicarboxylic acid transport `http://purl.obolibrary.org/obo/GO_0006835` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002153" +#### Added +- [dicarboxylic acid transport](http://purl.obolibrary.org/obo/GO_0006835) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [nephron](http://purl.obolibrary.org/obo/UBERON_0001285) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In the avian kidney, three types of nephron are identified: mammalian-type nephrons with long and short loops of Henle, and reptilian type nephrons (Gambaryan, 1992)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO" -- [nephron](http://purl.obolibrary.org/obo/UBERON_0001285) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [nephrogenic mesenchyme](http://purl.obolibrary.org/obo/UBERON_0004208) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" +### diencephalon morphogenesis `http://purl.obolibrary.org/obo/GO_0048852` #### Added -- [nephron](http://purl.obolibrary.org/obo/UBERON_0001285) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [nephrogenic mesenchyme](http://purl.obolibrary.org/obo/UBERON_0004208) - +- [diencephalon morphogenesis](http://purl.obolibrary.org/obo/GO_0048852) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### nephron tubule `http://purl.obolibrary.org/obo/UBERON_0001231` -#### Removed -- [nephron tubule](http://purl.obolibrary.org/obo/UBERON_0001231) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "note that in ISBN:0073040584 (Vertebrates, Kardong), the uriniferous tubule contains the nephron, so we have a separate class, rather than using a synonym, as in MA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" -- [nephron tubule](http://purl.obolibrary.org/obo/UBERON_0001231) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [kidney mesenchyme](http://purl.obolibrary.org/obo/UBERON_0003918) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "checkme" +### differentiated genital tubercle `http://purl.obolibrary.org/obo/UBERON_0011757` #### Added -- [nephron tubule](http://purl.obolibrary.org/obo/UBERON_0001231) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [kidney mesenchyme](http://purl.obolibrary.org/obo/UBERON_0003918) +- [differentiated genital tubercle](http://purl.obolibrary.org/obo/UBERON_0011757) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### neprilysin `http://purl.obolibrary.org/obo/PR_000001898` -#### Removed -- [neprilysin](http://purl.obolibrary.org/obo/PR_000001898) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [neprilysin (human)](http://purl.obolibrary.org/obo/PR_P08473) +### digestive enzyme secreting cell `http://purl.obolibrary.org/obo/CL_0000470` +#### Added +- [digestive enzyme secreting cell](http://purl.obolibrary.org/obo/CL_0000470) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009217" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### nerve `http://purl.obolibrary.org/obo/UBERON_0001021` -#### Removed -- [nerve](http://purl.obolibrary.org/obo/UBERON_0001021) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005105" +### digestive system `http://purl.obolibrary.org/obo/UBERON_0001007` + +#### Added +- [digestive system](http://purl.obolibrary.org/obo/UBERON_0001007) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005055" - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [nerve](http://purl.obolibrary.org/obo/UBERON_0001021) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A portion of tissue which is a fasiculated group of axons.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0007009" +### digestive tract `http://purl.obolibrary.org/obo/UBERON_0001555` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [digestive tract](http://purl.obolibrary.org/obo/UBERON_0001555) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00003125" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [digestive tract](http://purl.obolibrary.org/obo/UBERON_0001555) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [nerve](http://purl.obolibrary.org/obo/UBERON_0001021) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "nervous" +### digestive tract diverticulum `http://purl.obolibrary.org/obo/UBERON_0009854` +#### Added +- [digestive tract diverticulum](http://purl.obolibrary.org/obo/UBERON_0009854) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00100316" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### nerve fiber `http://purl.obolibrary.org/obo/UBERON_0006134` -#### Removed -- [nerve fiber](http://purl.obolibrary.org/obo/UBERON_0006134) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "neurofibrous" +### digestive tract epithelium `http://purl.obolibrary.org/obo/UBERON_0003929` +#### Added +- [digestive tract epithelium](http://purl.obolibrary.org/obo/UBERON_0003929) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00047166" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### nerve fiber layer of retina `http://purl.obolibrary.org/obo/UBERON_0001793` -#### Removed -- [nerve fiber layer of retina](http://purl.obolibrary.org/obo/UBERON_0001793) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001169" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429" +### digit `http://purl.obolibrary.org/obo/UBERON_0002544` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [digit](http://purl.obolibrary.org/obo/UBERON_0002544) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### digit plus metapodial segment `http://purl.obolibrary.org/obo/UBERON_5002544` +#### Added +- [digit plus metapodial segment](http://purl.obolibrary.org/obo/UBERON_5002544) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### nerve innervating pinna `http://purl.obolibrary.org/obo/UBERON_0035648` -#### Removed -- [nerve innervating pinna](http://purl.obolibrary.org/obo/UBERON_0035648) SubClassOf [nerve](http://purl.obolibrary.org/obo/UBERON_0001021) +### direct pathway medium spiny neuron `http://purl.obolibrary.org/obo/CL_4023026` #### Added -- [nerve innervating pinna](http://purl.obolibrary.org/obo/UBERON_0035648) SubClassOf [nerve of head region](http://purl.obolibrary.org/obo/UBERON_0011779) +- [direct pathway medium spiny neuron](http://purl.obolibrary.org/obo/CL_4023026) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### nerve plexus `http://purl.obolibrary.org/obo/UBERON_0001810` +### directly negatively regulated by `http://purl.obolibrary.org/obo/RO_0002023` #### Removed -- [nerve plexus](http://purl.obolibrary.org/obo/UBERON_0001810) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Made to be a subtype of junction rather than tissue to be consistent with FMA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [directly negatively regulated by](http://purl.obolibrary.org/obo/RO_0002023) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2017-09-17T13:52:38Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) +- [directly negatively regulated by](http://purl.obolibrary.org/obo/RO_0002023) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) +- [directly negatively regulated by](http://purl.obolibrary.org/obo/RO_0002023) [label](http://www.w3.org/2000/01/rdf-schema#label) "directly negatively regulated by" -### nerve root `http://purl.obolibrary.org/obo/UBERON_0002211` -#### Removed -- [nerve root](http://purl.obolibrary.org/obo/UBERON_0002211) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The continuation of the neurite bundle and associated glia of a nerve, inside the central nervous system[FBbt:00007602, FBC:DOS]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FBbt:00007602, FBC:DOS" - -- [nerve root](http://purl.obolibrary.org/obo/UBERON_0002211) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA has 'central zone of nerve' which is the superclass of cranial nerve tracts, which the FMA sometimes calls roots" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [directly negatively regulated by](http://purl.obolibrary.org/obo/RO_0002023) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) +- ObjectProperty: [directly negatively regulated by](http://purl.obolibrary.org/obo/RO_0002023) +- [directly negatively regulated by](http://purl.obolibrary.org/obo/RO_0002023) InverseOf [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) -### nerve trunk `http://purl.obolibrary.org/obo/UBERON_0002464` -#### Removed -- [nerve trunk](http://purl.obolibrary.org/obo/UBERON_0002464) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Segment of neural tree organ which consists of nerve fiber bundles aggregated to form a cable-like structure that branches off to different nerves; together with all nerves of the same tree. Example: trunk of cranial nerve, trunk of spinal nerve, trunk of peripheral nerve[FMA:5913]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:5913" +- [directly negatively regulated by](http://purl.obolibrary.org/obo/RO_0002023) SubPropertyOf: [directly regulated by](http://purl.obolibrary.org/obo/RO_0002022) -### nervous system `http://purl.obolibrary.org/obo/UBERON_0001016` +### directly negatively regulates `http://purl.obolibrary.org/obo/RO_0002630` #### Removed -- [nervous system](http://purl.obolibrary.org/obo/UBERON_0001016) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical system consisting of nerve bodies and nerve fibers which regulate the response of the body to external and internal stimuli.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000324" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +- [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [valid_for_go_annotation_extension](http://purl.obolibrary.org/obo/valid_for_go_annotation_extension) -- [nervous system](http://purl.obolibrary.org/obo/UBERON_0001016) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Nervous systems evolved in the ancestor of Eumetazoa.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "directly_negatively_regulates" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) [label](http://www.w3.org/2000/01/rdf-schema#label) "directly negatively regulates" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000402" +- [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "https://wiki.geneontology.org/Directly_negatively_regulates"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002630" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.117" +- [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [valid_for_go_ontology](http://purl.obolibrary.org/obo/valid_for_go_ontology) -- [nervous system](http://purl.obolibrary.org/obo/UBERON_0001016) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "neural" +- [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "external" -- [nervous system](http://purl.obolibrary.org/obo/UBERON_0001016) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A regulatory system of the body that consists of neurons and neuroglial cells. The nervous system is divided into two parts, the central nervous system (CNS) and the peripheral nervous system (PNS). (Source: BioGlossary, www.Biology-Text.com)[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000396" +- [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) [id](http://www.geneontology.org/formats/oboInOwl#id) "directly_negatively_regulates" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [valid_for_gocam](http://purl.obolibrary.org/obo/valid_for_gocam) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - -- [nervous system](http://purl.obolibrary.org/obo/UBERON_0001016) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "nervous" - -- [nervous system](http://purl.obolibrary.org/obo/UBERON_0001016) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005093" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) [is negative form of](http://purl.obolibrary.org/obo/RO_0004050) [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) +- ObjectProperty: [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) +- [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) SubPropertyOf: [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) -### netrin-G1 `http://purl.obolibrary.org/obo/PR_000011467` -#### Removed -- [netrin-G1](http://purl.obolibrary.org/obo/PR_000011467) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [netrin-G1 (human)](http://purl.obolibrary.org/obo/PR_Q9Y2I2) +- [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) SubPropertyOf: [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) -### neural arch `http://purl.obolibrary.org/obo/UBERON_0003861` +### directly negatively regulates activity of `http://purl.obolibrary.org/obo/RO_0002449` #### Removed -- [neural arch](http://purl.obolibrary.org/obo/UBERON_0003861) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "the dorsal bony and/or cartilaginous part of a vertebra, consisting of a pair of pedicles, a pair of laminae, and seven processes (four articular processes, two transverse processes, and one spinous process)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0004599:csmith" - -- [neural arch](http://purl.obolibrary.org/obo/UBERON_0003861) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) certain common components [of vertebral structure] are found in nearly all vertebrate. A representative vertebra has a vertebral arch or neural arch, which extends dorsally around the spinal cord.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [directly negatively regulates activity of](http://purl.obolibrary.org/obo/RO_0002449) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "molecularly decreases activity of" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [directly negatively regulates activity of](http://purl.obolibrary.org/obo/RO_0002449) [label](http://www.w3.org/2000/01/rdf-schema#label) "directly negatively regulates activity of" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.270" +- [directly negatively regulates activity of](http://purl.obolibrary.org/obo/RO_0002449) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. +For example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001670" +- ObjectProperty: [directly negatively regulates activity of](http://purl.obolibrary.org/obo/RO_0002449) -- [neural arch](http://purl.obolibrary.org/obo/UBERON_0003861) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "tiny neural arches present in Hagfish (which lack a true vertebraal column)." +- [directly negatively regulates activity of](http://purl.obolibrary.org/obo/RO_0002449) Domain [material entity](http://purl.obolibrary.org/obo/BFO_0000040) -- [neural arch](http://purl.obolibrary.org/obo/UBERON_0003861) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A neural arch encloses the neural canal and typically meets its partner to form a neural spine. The neural arch can be a replacement ossification of the basidorsal cartilage or can form directly in membrane bone.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [directly negatively regulates activity of](http://purl.obolibrary.org/obo/RO_0002449) Range [material entity](http://purl.obolibrary.org/obo/BFO_0000040) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001066" +- [directly negatively regulates activity of](http://purl.obolibrary.org/obo/RO_0002449) SubPropertyOf: [directly regulates activity of](http://purl.obolibrary.org/obo/RO_0002448) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [enables](http://purl.obolibrary.org/obo/RO_0002327) o [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) o [enabled by](http://purl.obolibrary.org/obo/RO_0002333) SubPropertyOf: [directly negatively regulates activity of](http://purl.obolibrary.org/obo/RO_0002449) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" -- [neural arch](http://purl.obolibrary.org/obo/UBERON_0003861) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Bony arch perched on the vertebral centrum; successive arches enclose the neural canal that surrounds and protects the spinal cord dorsally.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000725" +### directly positively regulated by `http://purl.obolibrary.org/obo/RO_0002024` +#### Removed +- [directly positively regulated by](http://purl.obolibrary.org/obo/RO_0002024) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2017-09-17T13:52:47Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [directly positively regulated by](http://purl.obolibrary.org/obo/RO_0002024) [label](http://www.w3.org/2000/01/rdf-schema#label) "directly positively regulated by" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:Pugener_2002" +- [directly positively regulated by](http://purl.obolibrary.org/obo/RO_0002024) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) -- [neural arch](http://purl.obolibrary.org/obo/UBERON_0003861) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The neural arch can be a replacement ossification of the basidorsal cartilage or can form directly in membrane bone" +- [directly positively regulated by](http://purl.obolibrary.org/obo/RO_0002024) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) -- [neural arch](http://purl.obolibrary.org/obo/UBERON_0003861) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: develops_from basidorsal (TAO:0001060)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001066" +- ObjectProperty: [directly positively regulated by](http://purl.obolibrary.org/obo/RO_0002024) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [directly positively regulated by](http://purl.obolibrary.org/obo/RO_0002024) InverseOf [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [directly positively regulated by](http://purl.obolibrary.org/obo/RO_0002024) SubPropertyOf: [directly regulated by](http://purl.obolibrary.org/obo/RO_0002022) -### neural cell adhesion molecule 1 `http://purl.obolibrary.org/obo/PR_000001024` +### directly positively regulates `http://purl.obolibrary.org/obo/RO_0002629` #### Removed -- [neural cell adhesion molecule 1](http://purl.obolibrary.org/obo/PR_000001024) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [neural cell adhesion molecule 1 (human)](http://purl.obolibrary.org/obo/PR_P13591) +- [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [valid_for_go_ontology](http://purl.obolibrary.org/obo/valid_for_go_ontology) +- [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "directly_positively_regulates" +- [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002629" -### neural crest `http://purl.obolibrary.org/obo/UBERON_0002342` -#### Removed -- [neural crest](http://purl.obolibrary.org/obo/UBERON_0002342) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Migratory cell population which delaminates from neural tube, borders surface ectoderm and neural ectoderm, and gives rise to many different tissue types.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" +- [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) [label](http://www.w3.org/2000/01/rdf-schema#label) "directly positively regulates" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [valid_for_go_annotation_extension](http://purl.obolibrary.org/obo/valid_for_go_annotation_extension) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "external" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010578" +- [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." -- [neural crest](http://purl.obolibrary.org/obo/UBERON_0002342) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A cell population arising from the dorsolateral aspect of the central nervous system primordium during the segmentation period, and later migrating along stereotyped pathways to give rise to a diverse and well-defined set of cell types including pigment cells, peripheral neurons and glia, and head cartilage. Kimmel et al, 1995.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000045" +- [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) [id](http://www.geneontology.org/formats/oboInOwl#id) "directly_positively_regulates" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [valid_for_gocam](http://purl.obolibrary.org/obo/valid_for_gocam) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "https://wiki.geneontology.org/Directly_positively_regulates"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- ObjectProperty: [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) -- [neural crest](http://purl.obolibrary.org/obo/UBERON_0002342) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "A well developed neural crest population is present in lampreys (Horigome et al. 1999 ; Tomsa & Langeland, 1999) and gnathostomes. chordate fossils from the early Cambrian (Yunnanozoan and Haikouella) with apparent neural-crest derived structures (pharyngeal denticles and pharyngeal skeletons resembling the striped mucocartilage of the branchial bars in lamprey ammocoete larvae), suggests that neural crest arose very early in vertebrate evolution (Chen et al. 1999; Holland & Chen, 2001). The invertebrate chordates apparently lack defini- tive neural crest. One marker of migrating neural crest in some vertebrates, the antibody HNK1, does not recognize any cells in amphioxus embryos (Holland, unpublished). Even so, in both amphioxus and tunicates, cells at the edges of the neural plate and adjacent nonneural ectoderm share some properties of neural crest[PMID:11523831]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:11523831" +- [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) SubPropertyOf: [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) -- [neural crest](http://purl.obolibrary.org/obo/UBERON_0002342) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [NCBITaxon_117565](http://purl.obolibrary.org/obo/NCBITaxon_117565) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0073040584" +- [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) SubPropertyOf: [positively regulates](http://purl.obolibrary.org/obo/RO_0002213) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:17377535" -- [neural crest](http://purl.obolibrary.org/obo/UBERON_0002342) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "EDITOR_NOTE consider including subclasses for pre- and post- migratory (e.g. sheets/paths/streams)." -- [neural crest](http://purl.obolibrary.org/obo/UBERON_0002342) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "TAO:0000045" +### directly positively regulates activity of `http://purl.obolibrary.org/obo/RO_0002450` +#### Removed +- [directly positively regulates activity of](http://purl.obolibrary.org/obo/RO_0002450) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. +For example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." -- [neural crest](http://purl.obolibrary.org/obo/UBERON_0002342) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "We conclude that the neural crest is a vertebrate novelty, but that neural crest cells and their derivatives evolved and diversified in a step-wise fashion - first by elaboration of neural plate border cells, then by the innovation or co-option of new or ancient metazoan cell fates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [directly positively regulates activity of](http://purl.obolibrary.org/obo/RO_0002450) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "molecularly increases activity of" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [directly positively regulates activity of](http://purl.obolibrary.org/obo/RO_0002450) [label](http://www.w3.org/2000/01/rdf-schema#label) "directly positively regulates activity of" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- ObjectProperty: [directly positively regulates activity of](http://purl.obolibrary.org/obo/RO_0002450) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1469-7580.2012.01495.x Hall BK, Gillis JA, Incremental evolution of the neural crest, neural crest cells and neural crest-derived skeletal tissues. J Anat (2012)" +- [directly positively regulates activity of](http://purl.obolibrary.org/obo/RO_0002450) Domain [material entity](http://purl.obolibrary.org/obo/BFO_0000040) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000057" +- [directly positively regulates activity of](http://purl.obolibrary.org/obo/RO_0002450) Range [material entity](http://purl.obolibrary.org/obo/BFO_0000040) -- [neural crest](http://purl.obolibrary.org/obo/UBERON_0002342) SubClassOf [composed primarily of](http://purl.obolibrary.org/obo/RO_0002473) some [migratory neural crest cell](http://purl.obolibrary.org/obo/CL_0000333) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "pre migratory https://github.com/obophenotype/uberon/wiki/The-neural-crest" +- [directly positively regulates activity of](http://purl.obolibrary.org/obo/RO_0002450) SubPropertyOf: [directly regulates activity of](http://purl.obolibrary.org/obo/RO_0002448) -- [neural crest](http://purl.obolibrary.org/obo/UBERON_0002342) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Craniata ](http://purl.obolibrary.org/obo/NCBITaxon_89593) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0073040584" +- [enables](http://purl.obolibrary.org/obo/RO_0002327) o [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) o [enabled by](http://purl.obolibrary.org/obo/RO_0002333) SubPropertyOf: [directly positively regulates activity of](http://purl.obolibrary.org/obo/RO_0002450) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "Hall and others restrict NC to vertebrates but we opt for a less restrictive constraint to avoid inconsistencies when areas such as P1 area of pallium in hagfishes inherit cell lineage from telecephalon-contributing NC cells" -#### Added -- [neural crest](http://purl.obolibrary.org/obo/UBERON_0002342) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Craniata ](http://purl.obolibrary.org/obo/NCBITaxon_89593) -- [neural crest](http://purl.obolibrary.org/obo/UBERON_0002342) SubClassOf [composed primarily of](http://purl.obolibrary.org/obo/RO_0002473) some [migratory neural crest cell](http://purl.obolibrary.org/obo/CL_0000333) +### directly regulated by `http://purl.obolibrary.org/obo/RO_0002022` +#### Removed +- [directly regulated by](http://purl.obolibrary.org/obo/RO_0002022) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) -- [neural crest](http://purl.obolibrary.org/obo/UBERON_0002342) SubClassOf [structure with developmental contribution from neural crest](http://purl.obolibrary.org/obo/UBERON_0010314) +- [directly regulated by](http://purl.obolibrary.org/obo/RO_0002022) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2017-09-17T13:52:24Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) +- [directly regulated by](http://purl.obolibrary.org/obo/RO_0002022) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) -### neural crest-derived structure `http://purl.obolibrary.org/obo/UBERON_0010313` -#### Removed -- [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Grouping term for query purposes" +- [directly regulated by](http://purl.obolibrary.org/obo/RO_0002022) [label](http://www.w3.org/2000/01/rdf-schema#label) "directly regulated by" +- ObjectProperty: [directly regulated by](http://purl.obolibrary.org/obo/RO_0002022) +- [directly regulated by](http://purl.obolibrary.org/obo/RO_0002022) InverseOf [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) -### neural fold `http://purl.obolibrary.org/obo/UBERON_0005062` -#### Removed -- [neural fold](http://purl.obolibrary.org/obo/UBERON_0005062) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "In front of the primitive streak two longitudinal ridges, caused by a folding up of the ectoderm, make their appearance, one on either side of the middle line. These are named the neural folds; they commence some little distance behind the anterior end of the embryonic disk, where they are continuous with each other, and from there gradually extend backward, one on either side of the anterior end of the primitive streak. Also, after differentiation it turns into the neural tubes[Wikipedia:Neural_fold]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Neural_fold" +- [directly regulated by](http://purl.obolibrary.org/obo/RO_0002022) SubPropertyOf: [regulated by](http://purl.obolibrary.org/obo/RO_0002334) -#### Added -- [neural fold](http://purl.obolibrary.org/obo/UBERON_0005062) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) -### neural groove `http://purl.obolibrary.org/obo/UBERON_0005061` +### directly regulates `http://purl.obolibrary.org/obo/RO_0002578` #### Removed -- [neural groove](http://purl.obolibrary.org/obo/UBERON_0005061) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The neural groove is a shallow median groove between the neural folds of an embryo. The neural folds are two longitudinal ridges that are caused by a folding up of the ectoderm in front of the primitive streak of the developing embryo. The groove gradually deepens as the neural folds become elevated, and ultimately the folds meet and coalesce in the middle line and convert the groove into a closed tube, the neural tube or canal, the ectodermal wall of which forms the rudiment of the nervous system. After the coalescence of the neural folds over the anterior end of the primitive streak, the blastopore no longer opens on the surface but into the closed canal of the neural tube, and thus a transitory communication, the neurenteric canal, is established between the neural tube and the primitive digestive tube. The coalescence of the neural folds occurs first in the region of the hind-brain, and from there extends forward and backward; toward the end of the third week the front opening (anterior neuropore) of the tube finally closes at the anterior end of the future brain, and forms a recess which is in contact, for a time, with the overlying ectoderm; the hinder part of the neural groove presents for a time a rhomboidal shape, and to this expanded portion the term sinus rhomboidalis has been applied. Before the neural groove is closed a ridge of ectodermal cells appears along the prominent margin of each neural fold; this is termed the neural crest or ganglion ridge, and from it the spinal and cranial nerve ganglia and the ganglia of the sympathetic nervous system are developed. By the upward growth of the mesoderm the neural tube is ultimately separated from the overlying ectoderm. The cephalic end of the neural groove exhibits several dilatations, which, when the tube is closed, assume the form of three vesicles; these constitute the three primary cerebral vesicles, and correspond respectively to the future fore-brain (prosencephalon), mid-brain (mesencephalon), and hind-brain (rhombencephalon). The walls of the vesicles are developed into the nervous tissue and neuroglia of the brain, and their cavities are modified to form its ventricles. The remainder of the tube forms the medulla spinalis or spinal cord; from its ectodermal wall the nervous and neuroglial elements of the medulla spinalis are developed while the cavity persists as the central canal[Wikipedia:Neural_groove]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Neural_groove" +- [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "p directly regulates q iff p is immediately causally upstream of q and p regulates q." +- [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [valid_for_go_ontology](http://purl.obolibrary.org/obo/valid_for_go_ontology) +- [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002578" -### neural keel `http://purl.obolibrary.org/obo/UBERON_0007135` -#### Removed -- [neural keel](http://purl.obolibrary.org/obo/UBERON_0007135) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An intermediate stage (between the neural plate and neural rod) during the early segmentation period in the morphogenesis of the central nervous system primordium; the keel is roughly triangular shaped in cross section. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [valid_for_gocam](http://purl.obolibrary.org/obo/valid_for_gocam) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000131" +- [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "directly_regulates" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) [id](http://www.geneontology.org/formats/oboInOwl#id) "directly_regulates" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "external" +- [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [valid_for_go_annotation_extension](http://purl.obolibrary.org/obo/valid_for_go_annotation_extension) +- [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) [label](http://www.w3.org/2000/01/rdf-schema#label) "directly regulates" -### neural nucleus `http://purl.obolibrary.org/obo/UBERON_0000125` -#### Removed -- [neural nucleus](http://purl.obolibrary.org/obo/UBERON_0000125) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical structure consisting of a discrete aggregate of neuronal soma[GO][GO_REF:0000021]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO_REF:0000021" +- ObjectProperty: [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) -- [neural nucleus](http://purl.obolibrary.org/obo/UBERON_0000125) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Proposed CUMBO def from MM: A subcortical part of the nervous system consisting of a relatively compact group of cells that is distinguishable histologically that share a commonality of cytoarchitecture, chemoarchitecturel and connectivity. (comments: I put in 'subcortical' because I don't think we consider either the cerebellar cortex or cerebral cortex to be nuclei. Some people distinguish between a nucleus and a laminar structure (see Wikipedia definition). However, there are structures identified as nuclei that are laminar, e.g., lateral geniculate nucleus, although they are not laminated in all species. Also, I put in 'relatively compact' and 'distiguishable by histology' because we have groups of cells, e.g., cholinergic cell groups, doparminergic cell groups that are related on the 3 criteria but which we don't tend to consider nuclei because they don't occupy an easily defined territory. But all is open to debate." +- [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) SubPropertyOf: [regulates](http://purl.obolibrary.org/obo/RO_0002211) -- [neural nucleus](http://purl.obolibrary.org/obo/UBERON_0000125) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Chordata](http://purl.obolibrary.org/obo/NCBITaxon_7711) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "we limit this structure by definition to chordate and vertebrate nervous systems" +- [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) SubPropertyOf: [immediately causally upstream of](http://purl.obolibrary.org/obo/RO_0002412) -#### Added -- [neural nucleus](http://purl.obolibrary.org/obo/UBERON_0000125) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Chordata](http://purl.obolibrary.org/obo/NCBITaxon_7711) -### neural plate `http://purl.obolibrary.org/obo/UBERON_0003075` +### directly regulates activity of `http://purl.obolibrary.org/obo/RO_0002448` #### Removed -- [neural plate](http://purl.obolibrary.org/obo/UBERON_0003075) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D054258" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [directly regulates activity of](http://purl.obolibrary.org/obo/RO_0002448) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B. - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) +A and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +- [directly regulates activity of](http://purl.obolibrary.org/obo/RO_0002448) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "molecularly controls" -- [neural plate](http://purl.obolibrary.org/obo/UBERON_0003075) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [directly regulates activity of](http://purl.obolibrary.org/obo/RO_0002448) [label](http://www.w3.org/2000/01/rdf-schema#label) "directly regulates activity of" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- ObjectProperty: [directly regulates activity of](http://purl.obolibrary.org/obo/RO_0002448) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [directly regulates activity of](http://purl.obolibrary.org/obo/RO_0002448) Domain [material entity](http://purl.obolibrary.org/obo/BFO_0000040) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28" +- [directly regulates activity of](http://purl.obolibrary.org/obo/RO_0002448) Range [material entity](http://purl.obolibrary.org/obo/BFO_0000040) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000068" +- [directly regulates activity of](http://purl.obolibrary.org/obo/RO_0002448) SubPropertyOf: [molecularly interacts with](http://purl.obolibrary.org/obo/RO_0002436) -- [neural plate](http://purl.obolibrary.org/obo/UBERON_0003075) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The earliest recognizable dorsal ectodermal primordium of the central nervous system present near the end of gastrulation before infolding to form the neural keel; consists of a thickened pseudostratified epithelium. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [directly regulates activity of](http://purl.obolibrary.org/obo/RO_0002448) SubPropertyOf: [regulates activity of](http://purl.obolibrary.org/obo/RO_0011002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000132" +- [enables](http://purl.obolibrary.org/obo/RO_0002327) o [regulates](http://purl.obolibrary.org/obo/RO_0002211) o [enabled by](http://purl.obolibrary.org/obo/RO_0002333) SubPropertyOf: [directly regulates activity of](http://purl.obolibrary.org/obo/RO_0002448) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### disconnected anatomical group `http://purl.obolibrary.org/obo/UBERON_0034923` + +#### Added +- [disconnected anatomical group](http://purl.obolibrary.org/obo/UBERON_0034923) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007276" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### neural rod `http://purl.obolibrary.org/obo/UBERON_0005068` +### disposition `http://purl.obolibrary.org/obo/BFO_0000016` #### Removed -- [neural rod](http://purl.obolibrary.org/obo/UBERON_0005068) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An intermediate stage in the development of the central nervous system present during the segmentation period; the neural rod is roughly cylindrical in shape, forms from the neural keel, and is not yet hollowed out into the neural tube. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [disposition](http://purl.obolibrary.org/obo/BFO_0000016) [label](http://www.w3.org/2000/01/rdf-schema#label) "disposition"@en - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000133" +- Class: [disposition](http://purl.obolibrary.org/obo/BFO_0000016) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [disposition](http://purl.obolibrary.org/obo/BFO_0000016) DisjointWith [role](http://purl.obolibrary.org/obo/BFO_0000023) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [disposition](http://purl.obolibrary.org/obo/BFO_0000016) SubClassOf [realizable entity](http://purl.obolibrary.org/obo/BFO_0000017) -### neural spine `http://purl.obolibrary.org/obo/UBERON_0001076` +### disposition of `http://purl.obolibrary.org/obo/RO_0000092` #### Removed -- [neural spine](http://purl.obolibrary.org/obo/UBERON_0001076) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The spinous process of a vertebra is directed backward and downward from the junction of the laminae (in humans), and serves for the attachment of muscles and ligaments. In animals without an erect stance, the process points upward and may slant forward or backward. Spinous processes are exaggerated in some animals, such as the extinct Dimetrodon and Spinosaurus, where they form a sail- or finback. [Wikipedia:Spinous_process]" - -- [neural spine](http://purl.obolibrary.org/obo/UBERON_0001076) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Elaboration of the mid-dorsal keel into a posterior or posterolateral process.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [disposition of](http://purl.obolibrary.org/obo/RO_0000092) [label](http://www.w3.org/2000/01/rdf-schema#label) "disposition of"@en - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:Pugener_and_Maglia_2008" +- [disposition of](http://purl.obolibrary.org/obo/RO_0000092) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [RO_0002259](http://purl.obolibrary.org/obo/RO_0002259) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [disposition of](http://purl.obolibrary.org/obo/RO_0000092) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "inverse of has disposition" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000705" +- [disposition of](http://purl.obolibrary.org/obo/RO_0000092) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." -- [neural spine](http://purl.obolibrary.org/obo/UBERON_0001076) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Small, posteriorly directed process at the posterior margin of each neural arch lamina; it is not a neural spine.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- ObjectProperty: [disposition of](http://purl.obolibrary.org/obo/RO_0000092) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000739" +- [disposition of](http://purl.obolibrary.org/obo/RO_0000092) SubPropertyOf: [characteristic of](http://purl.obolibrary.org/obo/RO_0000052) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:Pugener_2002" -- [neural spine](http://purl.obolibrary.org/obo/UBERON_0001076) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Neural spines are extensions of neural arches dorsal to the neural canal in the median skeletogenous septum. Neural spines are typically unpaired median structures but can be paired in some instances, e.g., in the abdominal region of basal teleosts such as Leptolepis, Elops, Megalops, and Hiodon).[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +### distal tip cell migration `http://purl.obolibrary.org/obo/GO_0097628` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001336" +#### Added +- [distal tip cell migration](http://purl.obolibrary.org/obo/GO_0097628) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### dopamine binding `http://purl.obolibrary.org/obo/GO_0035240` -- [neural spine](http://purl.obolibrary.org/obo/UBERON_0001076) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of mid-dorsal keel (AAO:0000735)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [dopamine binding](http://purl.obolibrary.org/obo/GO_0035240) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000705" +### dopamine metabolic process `http://purl.obolibrary.org/obo/GO_0042417` +#### Added +- [dopamine metabolic process](http://purl.obolibrary.org/obo/GO_0042417) [never in taxon](http://purl.obolibrary.org/obo/RO_0002161) [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751) +- [dopamine metabolic process](http://purl.obolibrary.org/obo/GO_0042417) DisjointWith [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751) -### neural tissue `http://purl.obolibrary.org/obo/UBERON_0003714` -#### Removed -- [neural tissue](http://purl.obolibrary.org/obo/UBERON_0003714) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of the four types of tissue in traditional classifications. Cells forming the brain, spinal cord and peripheral nervous system.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" +- [dopamine metabolic process](http://purl.obolibrary.org/obo/GO_0042417) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000325" +- [dopamine metabolic process](http://purl.obolibrary.org/obo/GO_0042417) SubClassOf not ([in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751)) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [dopamine metabolic process](http://purl.obolibrary.org/obo/GO_0042417) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some (not ([Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751))) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" -- [neural tissue](http://purl.obolibrary.org/obo/UBERON_0003714) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA definition includes vasculature" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +### dopamine transport `http://purl.obolibrary.org/obo/GO_0015872` +#### Added +- [dopamine transport](http://purl.obolibrary.org/obo/GO_0015872) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### neural tube `http://purl.obolibrary.org/obo/UBERON_0001049` +### dopaminergic neuron `http://purl.obolibrary.org/obo/CL_0000700` #### Removed -- [neural tube](http://purl.obolibrary.org/obo/UBERON_0001049) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Hollow epithelial tube on dorsal side of the embryo that develops into the central nervous system.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:JOR" +- [dopaminergic neuron](http://purl.obolibrary.org/obo/CL_0000700) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005131" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010617" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [dopaminergic neuron](http://purl.obolibrary.org/obo/CL_0000700) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009301" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [neural tube](http://purl.obolibrary.org/obo/UBERON_0001049) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D054259" +- [dopaminergic neuron](http://purl.obolibrary.org/obo/CL_0000700) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005131" - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" -- [neural tube](http://purl.obolibrary.org/obo/UBERON_0001049) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The dorsal tubular structure in the vertebrate embryo that develops into the brain and spinal cord. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### double-stranded DNA binding `http://purl.obolibrary.org/obo/GO_0003690` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [double-stranded DNA binding](http://purl.obolibrary.org/obo/GO_0003690) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0003690" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/neural+tube" +- [double-stranded DNA binding](http://purl.obolibrary.org/obo/GO_0003690) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "molecular_function" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000307" +- [double-stranded DNA binding](http://purl.obolibrary.org/obo/GO_0003690) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Binding to double-stranded DNA." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:elh" -- [neural tube](http://purl.obolibrary.org/obo/UBERON_0001049) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The mature structure of the neural tube exists when the tube has been segmented into the forebrain, midbrain, hindbrain and spinal cord regions. In addition neural crest has budded away from the epithelium" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO:0021915" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:vw" -- [neural tube](http://purl.obolibrary.org/obo/UBERON_0001049) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [double-stranded DNA binding](http://purl.obolibrary.org/obo/GO_0003690) [label](http://www.w3.org/2000/01/rdf-schema#label) "double-stranded DNA binding" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [double-stranded DNA binding](http://purl.obolibrary.org/obo/GO_0003690) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "dsDNA binding" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:elh" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- Class: [double-stranded DNA binding](http://purl.obolibrary.org/obo/GO_0003690) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28" +- [double-stranded DNA binding](http://purl.obolibrary.org/obo/GO_0003690) EquivalentTo [binding](http://purl.obolibrary.org/obo/GO_0005488) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_4705](http://purl.obolibrary.org/obo/CHEBI_4705)) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000307" +- [double-stranded DNA binding](http://purl.obolibrary.org/obo/GO_0003690) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_4705](http://purl.obolibrary.org/obo/CHEBI_4705) +- [double-stranded DNA binding](http://purl.obolibrary.org/obo/GO_0003690) SubClassOf [DNA binding](http://purl.obolibrary.org/obo/GO_0003677) -### neural tube basal plate `http://purl.obolibrary.org/obo/UBERON_0004064` +### duct `http://purl.obolibrary.org/obo/UBERON_0000058` #### Removed -- [neural tube basal plate](http://purl.obolibrary.org/obo/UBERON_0004064) SubClassOf [developmentally induced by](http://purl.obolibrary.org/obo/RO_0002256) some [notochord](http://purl.obolibrary.org/obo/UBERON_0002328) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Swenson" - - - [gene](http://www.geneontology.org/formats/oboInOwl#gene) "Shh" +- [duct](http://purl.obolibrary.org/obo/UBERON_0000058) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) #### Added -- [neural tube basal plate](http://purl.obolibrary.org/obo/UBERON_0004064) SubClassOf [developmentally induced by](http://purl.obolibrary.org/obo/RO_0002256) some [notochord](http://purl.obolibrary.org/obo/UBERON_0002328) - -- [neural tube basal plate](http://purl.obolibrary.org/obo/UBERON_0004064) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [duct](http://purl.obolibrary.org/obo/UBERON_0000058) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00100314" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### neural tube lateral wall `http://purl.obolibrary.org/obo/UBERON_0005496` -#### Removed -- [neural tube lateral wall](http://purl.obolibrary.org/obo/UBERON_0005496) SubClassOf [anatomical structure](http://purl.obolibrary.org/obo/UBERON_0000061) +### duct epithelial cell `http://purl.obolibrary.org/obo/CL_0000068` #### Added -- [neural tube lateral wall](http://purl.obolibrary.org/obo/UBERON_0005496) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [duct epithelial cell](http://purl.obolibrary.org/obo/CL_0000068) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009372" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### neural tube lumen `http://purl.obolibrary.org/obo/UBERON_0003842` +### ductal plate `http://purl.obolibrary.org/obo/UBERON_8410003` #### Removed -- [neural tube lumen](http://purl.obolibrary.org/obo/UBERON_0003842) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001119" +- [ductal plate](http://purl.obolibrary.org/obo/UBERON_8410003) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### early T lineage precursor `http://purl.obolibrary.org/obo/CL_0002425` +#### Removed +- [early T lineage precursor](http://purl.obolibrary.org/obo/CL_0002425) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28" +### early embryonic cell (metazoa) `http://purl.obolibrary.org/obo/CL_0000007` -### neural tube mantle layer `http://purl.obolibrary.org/obo/UBERON_0004061` -#### Removed -- [neural tube mantle layer](http://purl.obolibrary.org/obo/UBERON_0004061) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [germinal neuroepithelium](http://purl.obolibrary.org/obo/UBERON_0004022) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "by division" +#### Added +- [early embryonic cell (metazoa)](http://purl.obolibrary.org/obo/CL_0000007) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009002" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "NCBIBook:NBK10047" -#### Added -- [neural tube mantle layer](http://purl.obolibrary.org/obo/UBERON_0004061) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [germinal neuroepithelium](http://purl.obolibrary.org/obo/UBERON_0004022) +### early telencephalic vesicle `http://purl.obolibrary.org/obo/UBERON_0009676` -- [neural tube mantle layer](http://purl.obolibrary.org/obo/UBERON_0004061) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) +#### Added +- [early telencephalic vesicle](http://purl.obolibrary.org/obo/UBERON_0009676) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### neural tube marginal layer `http://purl.obolibrary.org/obo/UBERON_0004062` -#### Removed -- [neural tube marginal layer](http://purl.obolibrary.org/obo/UBERON_0004062) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [neural tube mantle layer](http://purl.obolibrary.org/obo/UBERON_0004061) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "forms from axons" +### ecdysteroid secreting cell `http://purl.obolibrary.org/obo/CL_0000176` #### Added -- [neural tube marginal layer](http://purl.obolibrary.org/obo/UBERON_0004062) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [neural tube mantle layer](http://purl.obolibrary.org/obo/UBERON_0004061) +- [ecdysteroid secreting cell](http://purl.obolibrary.org/obo/CL_0000176) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any secretory cell that is capable of some ecdysteroid secretion." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [neural tube marginal layer](http://purl.obolibrary.org/obo/UBERON_0004062) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +### ecto-epithelial cell `http://purl.obolibrary.org/obo/CL_0002077` -### neural tube ventricular layer `http://purl.obolibrary.org/obo/UBERON_0004060` -#### Removed -- [neural tube ventricular layer](http://purl.obolibrary.org/obo/UBERON_0004060) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The layer of undifferentiated, proliferating cells that line the neural tube lumen" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0009689" +#### Added +- [ecto-epithelial cell](http://purl.obolibrary.org/obo/CL_0002077) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009385" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [ecto-epithelial cell](http://purl.obolibrary.org/obo/CL_0002077) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### neurectoderm `http://purl.obolibrary.org/obo/UBERON_0002346` +### ectocervix `http://purl.obolibrary.org/obo/UBERON_0012249` #### Removed -- [neurectoderm](http://purl.obolibrary.org/obo/UBERON_0002346) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) the ability of ectoderm to produce neuronal cells is a general metazoan feature.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [ectocervix](http://purl.obolibrary.org/obo/UBERON_0012249) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000150" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)" +### ectoderm `http://purl.obolibrary.org/obo/UBERON_0000924` -- [neurectoderm](http://purl.obolibrary.org/obo/UBERON_0002346) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001057" +#### Added +- [ectoderm](http://purl.obolibrary.org/obo/UBERON_0000924) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000111" - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [neurectoderm](http://purl.obolibrary.org/obo/UBERON_0002346) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "neurectodermal" - -- [neurectoderm](http://purl.obolibrary.org/obo/UBERON_0002346) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "we prefer neurectoderm to neural ectoderm since placodal ectoderm is not classified here" +### ectoderm-derived structure `http://purl.obolibrary.org/obo/UBERON_0004121` +#### Added +- [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### neurocranium `http://purl.obolibrary.org/obo/UBERON_0001703` -#### Removed -- [neurocranium](http://purl.obolibrary.org/obo/UBERON_0001703) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster that consists of the cartilages and bones that surround the brain.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001580" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:MAH" +### ectodermal cell `http://purl.obolibrary.org/obo/CL_0000221` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [ectodermal cell](http://purl.obolibrary.org/obo/CL_0000221) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009137" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" -- [neurocranium](http://purl.obolibrary.org/obo/UBERON_0001703) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "It includes the following bones: Ethmoid bone, Frontal bone, Occipital bone, Parietal bone, Sphenoid bone, Temporal bone. The term cranium can be ambiguous, in that it can refer to the neurocranium, or the neurocranium and the Facial skeleton" +### ectodermal placode formation `http://purl.obolibrary.org/obo/GO_0060788` -- [neurocranium](http://purl.obolibrary.org/obo/UBERON_0001703) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The cartilaginous parts of the neurocranium undergo endochondral ossification in most species; ossification has been lost in cartilaginous fishes, but the cartilaginous condition of the skull of lampreys is considered to be primitive (Kardong, 1995)[PMID:11523816]. The neurocranium arises from paraxial mesoderm in the head (first five somites and the unsegmented somitomeres rostral to the first somite) and from ectoderm via the neural crest. In Chondrichthyes and other cartilaginous vertebrates this portion of the cranium does not ossify; it is not replaced via endochondral ossification[WP]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" +#### Added +- [ectodermal placode formation](http://purl.obolibrary.org/obo/GO_0060788) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [neurocranium](http://purl.obolibrary.org/obo/UBERON_0001703) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17681" -- [neurocranium](http://purl.obolibrary.org/obo/UBERON_0001703) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "It seems MA uses 'neurocranium' as a synonym for chondrocranium. Note there are currently some structures part of both viscero and neurocranium - ethmoid, zyogomatic, ..." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +### ectodermal placode morphogenesis `http://purl.obolibrary.org/obo/GO_0071697` -- [neurocranium](http://purl.obolibrary.org/obo/UBERON_0001703) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "AAO:0010153" +#### Added +- [ectodermal placode morphogenesis](http://purl.obolibrary.org/obo/GO_0071697) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [neurocranium](http://purl.obolibrary.org/obo/UBERON_0001703) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "neurocranial" -- [neurocranium](http://purl.obolibrary.org/obo/UBERON_0001703) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EHDAA2:0000243" +### efferent neuron `http://purl.obolibrary.org/obo/CL_0000527` +#### Added +- [efferent neuron](http://purl.obolibrary.org/obo/CL_0000527) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009239" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### neurogenic placode `http://purl.obolibrary.org/obo/UBERON_0009955` +### egg activation `http://purl.obolibrary.org/obo/GO_0007343` #### Removed -- [neurogenic placode](http://purl.obolibrary.org/obo/UBERON_0009955) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "While some sensory placodes (otic and olfactory) may have homologues in basal chordates (Wada et al., 1998), the so-called neurogenenic placodes (trigeminal, otic, lateral line and epibranchial placodes) appear to have emerged at a later time (Shimeld and Holland, 2000)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "NCBIBook:NBK53171" - -- [neurogenic placode](http://purl.obolibrary.org/obo/UBERON_0009955) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Includes: trigeminal, otic, lateral line and epibranchial placodes." +- [egg activation](http://purl.obolibrary.org/obo/GO_0007343) SubClassOf [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) +#### Added +- [egg activation](http://purl.obolibrary.org/obo/GO_0007343) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### neurohypophysis `http://purl.obolibrary.org/obo/UBERON_0002198` +### egg cell `http://purl.obolibrary.org/obo/CL_0000025` #### Removed -- [neurohypophysis](http://purl.obolibrary.org/obo/UBERON_0002198) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "It (the hypophysis) develops embryonically in all vertebrates from two ectodermal evaginations that meet and unite. An infundibulum grows ventrally from the diencephalon of the brain, and Rathke's pouch extends dorsally from the roof of the developing mouth, or stomodaeum. The infundibulum remains connected to the floor of the diencephalon, which becomes the hypothalamus, and gives rise to the part of the gland known as the neurohypophysis. (...) Rathke's pouch loses its connection with the stomodaeum in most adult vertebrates and gives rise to the rest of the gland, the adenohypophysis. (...) A well-developed hypophyseal system with functional connections to the hypothalamus is unique to craniates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [egg cell](http://purl.obolibrary.org/obo/CL_0000025) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00057012" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [egg cell](http://purl.obolibrary.org/obo/CL_0000025) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00057012" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.510 and Figure 15-5" +- [egg cell](http://purl.obolibrary.org/obo/CL_0000025) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0001570" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [egg cell](http://purl.obolibrary.org/obo/CL_0000025) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000142" -- [neurohypophysis](http://purl.obolibrary.org/obo/UBERON_0002198) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "todo - resolve EMAPA and EHDAA2 models, include future neurohypophysis (TS15-19)? relationship to infundibular recess of 3rd ventricle (TS15-19)" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EMAPA" +### elbow joint `http://purl.obolibrary.org/obo/UBERON_0001490` -- [neurohypophysis](http://purl.obolibrary.org/obo/UBERON_0002198) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The infundibular part of the pituitary gland consisting of two regions.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [elbow joint](http://purl.obolibrary.org/obo/UBERON_0001490) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +### electrically active cell `http://purl.obolibrary.org/obo/CL_0000211` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010537" +#### Added +- [electrically active cell](http://purl.obolibrary.org/obo/CL_0000211) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009128" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [neurohypophysis](http://purl.obolibrary.org/obo/UBERON_0002198) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +### electrically responsive cell `http://purl.obolibrary.org/obo/CL_0000393` +#### Added +- [electrically responsive cell](http://purl.obolibrary.org/obo/CL_0000393) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009190" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### neuromast `http://purl.obolibrary.org/obo/UBERON_0008904` -#### Removed -- [neuromast](http://purl.obolibrary.org/obo/UBERON_0008904) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Type of mechanoreceptive organ of the lateral line which are arranged in lines on the body surface. These organs are constituted by hair cells and supporting cells and it is located in the epidermis with its hair cells exposed to the surface. Absent in some caecilians. These receptors receive afferent and efferent innervations.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### electrically signaling cell `http://purl.obolibrary.org/obo/CL_0000404` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0001004" +#### Added +- [electrically signaling cell](http://purl.obolibrary.org/obo/CL_0000404) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009193" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" -- [neuromast](http://purl.obolibrary.org/obo/UBERON_0008904) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Volcano-shaped lateral line sensory organ located in characteristic positions within the skin epithelium and containing hair cells and their support elements. Kimmel et al, 1995. (Also see Anatomical Atlas entry for lateral line by T. Whitfield.)[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +### elicited macrophage `http://purl.obolibrary.org/obo/CL_0000861` +#### Removed +- [elicited macrophage](http://purl.obolibrary.org/obo/CL_0000861) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000243" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### embryo `http://purl.obolibrary.org/obo/UBERON_0000922` -- [neuromast](http://purl.obolibrary.org/obo/UBERON_0008904) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0006219" +#### Added +- [embryo](http://purl.obolibrary.org/obo/UBERON_0000922) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000052" - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) +### embryo development `http://purl.obolibrary.org/obo/GO_0009790` +#### Removed +- [embryo development](http://purl.obolibrary.org/obo/GO_0009790) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) -- [neuromast](http://purl.obolibrary.org/obo/UBERON_0008904) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of lateral line receptor organ (AAO:0001001)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [embryo development](http://purl.obolibrary.org/obo/GO_0009790) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0001004" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### embryonic autopod plate `http://purl.obolibrary.org/obo/UBERON_0010130` -- [neuromast](http://purl.obolibrary.org/obo/UBERON_0008904) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: subclass lateral line receptor (AAO:0010705)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [embryonic autopod plate](http://purl.obolibrary.org/obo/UBERON_0010130) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0001004" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### embryonic blood vessel endothelial progenitor cell `http://purl.obolibrary.org/obo/CL_0002546` +#### Added +- [embryonic blood vessel endothelial progenitor cell](http://purl.obolibrary.org/obo/CL_0002546) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005773" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### neuromere `http://purl.obolibrary.org/obo/UBERON_0004731` -#### Removed -- [neuromere](http://purl.obolibrary.org/obo/UBERON_0004731) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A metameric segment of the central nervous system.[ZFA]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +### embryonic cell (metazoa) `http://purl.obolibrary.org/obo/CL_0002321` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001328" +#### Added +- [embryonic cell (metazoa)](http://purl.obolibrary.org/obo/CL_0002321) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0007089" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### embryonic cloaca `http://purl.obolibrary.org/obo/UBERON_0000163` #### Added -- [neuromere](http://purl.obolibrary.org/obo/UBERON_0004731) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [embryonic cloaca](http://purl.obolibrary.org/obo/UBERON_0000163) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### neuron projection bundle `http://purl.obolibrary.org/obo/UBERON_0000122` +### embryonic crystal cell `http://purl.obolibrary.org/obo/CL_0000715` #### Removed -- [neuron projection bundle](http://purl.obolibrary.org/obo/UBERON_0000122) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005099" +- [embryonic crystal cell](http://purl.obolibrary.org/obo/CL_0000715) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001690" + +#### Added +- [embryonic crystal cell](http://purl.obolibrary.org/obo/CL_0000715) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001690" - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### embryonic head `http://purl.obolibrary.org/obo/UBERON_0008816` -### neuron projection bundle connecting eye with brain `http://purl.obolibrary.org/obo/UBERON_0004904` -#### Removed -- [neuron projection bundle connecting eye with brain](http://purl.obolibrary.org/obo/UBERON_0004904) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001956" +#### Added +- [embryonic head](http://purl.obolibrary.org/obo/UBERON_0008816) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000155" - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### embryonic placenta morphogenesis `http://purl.obolibrary.org/obo/GO_0060669` -### neuronal acetylcholine receptor subunit alpha-7 `http://purl.obolibrary.org/obo/PR_000005460` -#### Removed -- [neuronal acetylcholine receptor subunit alpha-7](http://purl.obolibrary.org/obo/PR_000005460) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [neuronal acetylcholine receptor subunit alpha-7 (human)](http://purl.obolibrary.org/obo/PR_P36544) - +#### Added +- [embryonic placenta morphogenesis](http://purl.obolibrary.org/obo/GO_0060669) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### neuropilin and tolloid-like protein 1 `http://purl.obolibrary.org/obo/PR_000011143` -#### Removed -- [neuropilin and tolloid-like protein 1](http://purl.obolibrary.org/obo/PR_000011143) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [neuropilin and tolloid-like protein 1 (human)](http://purl.obolibrary.org/obo/PR_Q8TDF5) +### embryonic post-anal tail `http://purl.obolibrary.org/obo/UBERON_0007144` +#### Added +- [embryonic post-anal tail](http://purl.obolibrary.org/obo/UBERON_0007144) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### neurotransmitter transmembrane transporter activity `http://purl.obolibrary.org/obo/GO_0005326` -#### Removed -- [neurotransmitter transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0005326) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [neurotransmitter transport](http://purl.obolibrary.org/obo/GO_0006836) - - [source](http://www.geneontology.org/formats/oboInOwl#http://purl.org/dc/terms/source) "GO_REF:0000090" +### embryonic structure `http://purl.obolibrary.org/obo/UBERON_0002050` #### Added -- [neurotransmitter transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0005326) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [neurotransmitter transport](http://purl.obolibrary.org/obo/GO_0006836) +- [embryonic structure](http://purl.obolibrary.org/obo/UBERON_0002050) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004208" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### neurula stage `http://purl.obolibrary.org/obo/UBERON_0000110` -#### Removed -- [neurula stage](http://purl.obolibrary.org/obo/UBERON_0000110) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [NCBITaxon_7955](http://purl.obolibrary.org/obo/NCBITaxon_7955) +### embryonic tagma `http://purl.obolibrary.org/obo/UBERON_6000137` -- [neurula stage](http://purl.obolibrary.org/obo/UBERON_0000110) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In zebrafish, the times of neurulation and segmentation overlap so extensively there is no distinct neurula period of development, such as occurs largely before segmentation in amphibian embryos." +#### Added +- [embryonic tagma](http://purl.obolibrary.org/obo/UBERON_6000137) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000137" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### embryonic urethral groove `http://purl.obolibrary.org/obo/UBERON_0013241` -### neutrophil gelatinase-associated lipocalin `http://purl.obolibrary.org/obo/PR_000009725` -#### Removed -- [neutrophil gelatinase-associated lipocalin](http://purl.obolibrary.org/obo/PR_000009725) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [neutrophil gelatinase-associated lipocalin (human)](http://purl.obolibrary.org/obo/PR_P80188) +#### Added +- [embryonic urethral groove](http://purl.obolibrary.org/obo/UBERON_0013241) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +### embryonic-extraembryonic boundary `http://purl.obolibrary.org/obo/UBERON_0004015` -### never_in_taxon `http://purl.obolibrary.org/obo/RO_0002161` +#### Added +- [embryonic-extraembryonic boundary](http://purl.obolibrary.org/obo/UBERON_0004015) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) + + +### enabled by `http://purl.obolibrary.org/obo/RO_0002333` #### Removed -- [never_in_taxon](http://purl.obolibrary.org/obo/RO_0002161) [id](http://www.geneontology.org/formats/oboInOwl#id) "never_in_taxon" +- [enabled by](http://purl.obolibrary.org/obo/RO_0002333) [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "https://wiki.geneontology.org/Enabled_by"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [never_in_taxon](http://purl.obolibrary.org/obo/RO_0002161) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "tooth SubClassOf 'never in taxon' value 'Aves'" +- [enabled by](http://purl.obolibrary.org/obo/RO_0002333) [label](http://www.w3.org/2000/01/rdf-schema#label) "enabled by"@en -- [never_in_taxon](http://purl.obolibrary.org/obo/RO_0002161) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [17921072](http://www.ncbi.nlm.nih.gov/pubmed/17921072) +- [enabled by](http://purl.obolibrary.org/obo/RO_0002333) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "inverse of enables" -- [never_in_taxon](http://purl.obolibrary.org/obo/RO_0002161) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "S never_in_taxon T iff: S SubClassOf in_taxon only not T." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:20973947" +- [enabled by](http://purl.obolibrary.org/obo/RO_0002333) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [valid_for_gocam](http://purl.obolibrary.org/obo/valid_for_gocam) -- [never_in_taxon](http://purl.obolibrary.org/obo/RO_0002161) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002161" +- ObjectProperty: [enabled by](http://purl.obolibrary.org/obo/RO_0002333) -- [never_in_taxon](http://purl.obolibrary.org/obo/RO_0002161) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "never_in_taxon" +- [enabled by](http://purl.obolibrary.org/obo/RO_0002333) SubPropertyOf: [functionally related to](http://purl.obolibrary.org/obo/RO_0002328) -- [never_in_taxon](http://purl.obolibrary.org/obo/RO_0002161) [is_metadata_tag](http://www.geneontology.org/formats/oboInOwl#is_metadata_tag) true +- [enabled by](http://purl.obolibrary.org/obo/RO_0002333) SubPropertyOf: [has participant](http://purl.obolibrary.org/obo/RO_0000057) -- [never_in_taxon](http://purl.obolibrary.org/obo/RO_0002161) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" -- [never_in_taxon](http://purl.obolibrary.org/obo/RO_0002161) [is_class_level](http://www.geneontology.org/formats/oboInOwl#is_class_level) true -- [never_in_taxon](http://purl.obolibrary.org/obo/RO_0002161) [label](http://www.w3.org/2000/01/rdf-schema#label) "never_in_taxon" +### enables `http://purl.obolibrary.org/obo/RO_0002327` +#### Removed +- [enables](http://purl.obolibrary.org/obo/RO_0002327) [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "https://wiki.geneontology.org/Enables"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [never_in_taxon](http://purl.obolibrary.org/obo/RO_0002161) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +- [enables](http://purl.obolibrary.org/obo/RO_0002327) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "c enables p iff c is capable of p and c acts to execute p." -- [never_in_taxon](http://purl.obolibrary.org/obo/RO_0002161) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [20973947](http://www.ncbi.nlm.nih.gov/pubmed/20973947) +- [enables](http://purl.obolibrary.org/obo/RO_0002327) [label](http://www.w3.org/2000/01/rdf-schema#label) "enables"@en -- [never_in_taxon](http://purl.obolibrary.org/obo/RO_0002161) [IAO_0000425](http://purl.obolibrary.org/obo/IAO_0000425) "Class: ?X DisjointWith: RO_0002162 some ?Y " +- [enables](http://purl.obolibrary.org/obo/RO_0002327) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [valid_for_go_gp2term](http://purl.obolibrary.org/obo/valid_for_go_gp2term) -- [never_in_taxon](http://purl.obolibrary.org/obo/RO_0002161) [IAO_0000425](http://purl.obolibrary.org/obo/IAO_0000425) "Class: <http://www.w3.org/2002/07/owl#Nothing> EquivalentTo: ?X and (RO_0002162 some ?Y)" +- ObjectProperty: [enables](http://purl.obolibrary.org/obo/RO_0002327) +- [enables](http://purl.obolibrary.org/obo/RO_0002327) InverseOf [enabled by](http://purl.obolibrary.org/obo/RO_0002333) +- [enables](http://purl.obolibrary.org/obo/RO_0002327) SubPropertyOf: [capable of](http://purl.obolibrary.org/obo/RO_0002215) -### nipple `http://purl.obolibrary.org/obo/UBERON_0002030` -#### Removed -- [nipple](http://purl.obolibrary.org/obo/UBERON_0002030) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA makes this part of the breast, whereas in MA it is part of the mammary gland -" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [enables](http://purl.obolibrary.org/obo/RO_0002327) o [has component activity](http://purl.obolibrary.org/obo/RO_0002017) SubPropertyOf: [enables](http://purl.obolibrary.org/obo/RO_0002327) -- [nipple](http://purl.obolibrary.org/obo/UBERON_0002030) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "a male mouse has no nipples - mammary tissue regresses during embryonic development" +- [enables](http://purl.obolibrary.org/obo/RO_0002327) o [has part](http://purl.obolibrary.org/obo/BFO_0000051) SubPropertyOf: [enables](http://purl.obolibrary.org/obo/RO_0002327) -### non-connected functional system `http://purl.obolibrary.org/obo/UBERON_0015203` +### enables subfunction `http://purl.obolibrary.org/obo/RO_0004031` #### Removed -- [non-connected functional system](http://purl.obolibrary.org/obo/UBERON_0015203) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007278" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [enables subfunction](http://purl.obolibrary.org/obo/RO_0004031) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +- [enables subfunction](http://purl.obolibrary.org/obo/RO_0004031) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2018-01-25T23:20:13Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) +- [enables subfunction](http://purl.obolibrary.org/obo/RO_0004031) [label](http://www.w3.org/2000/01/rdf-schema#label) "enables subfunction" -### non-neural ectoderm `http://purl.obolibrary.org/obo/UBERON_0005497` -#### Removed -- [non-neural ectoderm](http://purl.obolibrary.org/obo/UBERON_0005497) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In the early gastrula of vertebrates, factors from the organizer (e.g. noggin, chordin, and follistatin in Xenopus) antagonize the epidermalizing factor bone morphogenetic protein 4 (BMP4), thus dividing the epiblast into neuroectoderm. In Drosophila, decapentaplegic, the homologue of BMP4, interacts similarly with the protein short gastrulation, the homologue of chordin. Thus, a comparable molecular mechanism for distinguishing non-neural ectoderm from neural ectoderm was probably present in the common ancestor of all bilaterally symmetrical animals.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/S0959-4388(99)00003-3 Holland LZ and Holland ND, Chordate origins of the vertebrate central nervous system. Current Opinion in Neurobiology (1999)" +- [enables subfunction](http://purl.obolibrary.org/obo/RO_0004031) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- ObjectProperty: [enables subfunction](http://purl.obolibrary.org/obo/RO_0004031) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [enables subfunction](http://purl.obolibrary.org/obo/RO_0004031) SubPropertyOf: [functionally related to](http://purl.obolibrary.org/obo/RO_0002328) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001372" +- [enables](http://purl.obolibrary.org/obo/RO_0002327) o [has part](http://purl.obolibrary.org/obo/BFO_0000051) SubPropertyOf: [enables subfunction](http://purl.obolibrary.org/obo/RO_0004031) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" -- [non-neural ectoderm](http://purl.obolibrary.org/obo/UBERON_0005497) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "After gastrulation, neural crest cells are specified at the border of the neural plate and the non-neural ectoderm." -- [non-neural ectoderm](http://purl.obolibrary.org/obo/UBERON_0005497) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [neurectoderm](http://purl.obolibrary.org/obo/UBERON_0002346) +### endo-epithelial cell `http://purl.obolibrary.org/obo/CL_0002076` +#### Added +- [endo-epithelial cell](http://purl.obolibrary.org/obo/CL_0002076) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009383" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [endo-epithelial cell](http://purl.obolibrary.org/obo/CL_0002076) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### non-secretory ribonuclease `http://purl.obolibrary.org/obo/PR_000014046` -#### Removed -- [non-secretory ribonuclease](http://purl.obolibrary.org/obo/PR_000014046) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [non-secretory ribonuclease (human)](http://purl.obolibrary.org/obo/PR_P10153) +### endocardial cushion formation `http://purl.obolibrary.org/obo/GO_0003272` +#### Added +- [endocardial cushion formation](http://purl.obolibrary.org/obo/GO_0003272) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### nonskeletal ligament `http://purl.obolibrary.org/obo/UBERON_0008845` -#### Removed -- [nonskeletal ligament](http://purl.obolibrary.org/obo/UBERON_0008845) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Ligament organ that primarily consists of dense connective tissue aggregated into fasciculi which may be admixed with smooth muscle. Examples: ligament of liver, ovarian ligament[FMA:25625]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:25625" -- [nonskeletal ligament](http://purl.obolibrary.org/obo/UBERON_0008845) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "this class is used more generally than the FMA class, to include for example folds of mesentery such as the broad ligament of the uterus." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +### endocardium formation `http://purl.obolibrary.org/obo/GO_0060214` +#### Added +- [endocardium formation](http://purl.obolibrary.org/obo/GO_0060214) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### normal `http://purl.obolibrary.org/obo/PATO_0000461` -#### Removed -- [normal](http://purl.obolibrary.org/obo/PATO_0000461) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [abnormal](http://purl.obolibrary.org/obo/PATO_0000460) +### endocardium morphogenesis `http://purl.obolibrary.org/obo/GO_0003160` +#### Added +- [endocardium morphogenesis](http://purl.obolibrary.org/obo/GO_0003160) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### nose `http://purl.obolibrary.org/obo/UBERON_0000004` +### endocervix `http://purl.obolibrary.org/obo/UBERON_0000458` #### Removed -- [nose](http://purl.obolibrary.org/obo/UBERON_0000004) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organ that is the specialized structure of the face that contains olfactory neurons. The peripheral olfactory organ is paired[ZFA:0000047]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA:0000047" +- [endocervix](http://purl.obolibrary.org/obo/UBERON_0000458) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [nose](http://purl.obolibrary.org/obo/UBERON_0000004) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "the organ that is specialized for smell and is part of the respiratory system" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0002233" -- [nose](http://purl.obolibrary.org/obo/UBERON_0000004) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "the structure of the nose varies across vertebrates. In tetrapods the nose is part of the respiratory system.[PMID:25312359]" -- [nose](http://purl.obolibrary.org/obo/UBERON_0000004) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "a protuberance in vertebrates that houses the nostrils, or nares, which admit and expel air for respiration in conjunction with the mouth. Behind the nose are the olfactory mucosa and the sinuses. Behind the nasal cavity, air next passes through the pharynx, shared with the digestive system, and then into the rest of the respiratory system. In humans, the nose is located centrally on the face; on most other mammals, it is on the upper tip of the snout[WP]. GO: The nose is the specialized structure of the face that serves as the organ of the sense of smell and as part of the respiratory system. Includes the nasi externus (external nose) and cavitas nasi (nasal cavity)[Wikipedia:Nose]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Nose" +### endocrine cell `http://purl.obolibrary.org/obo/CL_0000163` +#### Added +- [endocrine cell](http://purl.obolibrary.org/obo/CL_0000163) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009096" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### nose epithelium `http://purl.obolibrary.org/obo/UBERON_0019306` +### endocrine system `http://purl.obolibrary.org/obo/UBERON_0000949` #### Added -- [nose epithelium](http://purl.obolibrary.org/obo/UBERON_0019306) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) +- [endocrine system](http://purl.obolibrary.org/obo/UBERON_0000949) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005068" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [endocrine system](http://purl.obolibrary.org/obo/UBERON_0000949) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -### notes `http://www.geneontology.org/formats/oboInOwl#notes` -#### Removed -- AnnotationProperty: [notes](http://www.geneontology.org/formats/oboInOwl#notes) +### endoderm `http://purl.obolibrary.org/obo/UBERON_0000925` +#### Added +- [endoderm](http://purl.obolibrary.org/obo/UBERON_0000925) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000125" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### notochord `http://purl.obolibrary.org/obo/UBERON_0002328` -#### Removed -- [notochord](http://purl.obolibrary.org/obo/UBERON_0002328) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "notochordal" -- [notochord](http://purl.obolibrary.org/obo/UBERON_0002328) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "In between vertebra the notochord becomes the nucleus pulposus, under it degenerates, and at anterior end in some species its tissue merges with some of the cranial bones.. Some organisms retain a post-embryonic notochord." +### endoderm-derived structure `http://purl.obolibrary.org/obo/UBERON_0004119` -- [notochord](http://purl.obolibrary.org/obo/UBERON_0002328) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Slender rod of fibrous connective tissue surrounding a core of fluid-filled cells of mesodermal origin; it lies above the gut and directly beneath the spinal cord. The notochord is present during early development and in a few cases it is retained through life; however, usually the notochord is replaced by the vertebral column.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" +#### Added +- [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000327" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### endodermal cell `http://purl.obolibrary.org/obo/CL_0000223` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [endodermal cell](http://purl.obolibrary.org/obo/CL_0000223) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009139" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [notochord](http://purl.obolibrary.org/obo/UBERON_0002328) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Avascular multi-tissue structure composed of large vacuolated epithelial cells (chordablasts) and perichordal fibrous tissue.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000032" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### endorphin secreting cell `http://purl.obolibrary.org/obo/CL_0000507` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" +#### Added +- [endorphin secreting cell](http://purl.obolibrary.org/obo/CL_0000507) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009232" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" -- [notochord](http://purl.obolibrary.org/obo/UBERON_0002328) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Rod-like principal supportive element of the embryo and larva, present in the midline just ventral to the neural tube, and differentiating during the segmentation period to form large vacuolated epithelial cells and a surrounding a sheath of fibrous and elastic layers. Layering of the sheath may differ in structure, thickness and development among groups; in cypriniforms there are actually three very thin layers to the sheath. A functional, well developed notochord is present throughout life in certain basal fish groups but not in cypriniforms. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +### endothelial cell `http://purl.obolibrary.org/obo/CL_0000115` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000135" +#### Added +- [endothelial cell](http://purl.obolibrary.org/obo/CL_0000115) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009065" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### endothelial cell activation `http://purl.obolibrary.org/obo/GO_0042118` -- [notochord](http://purl.obolibrary.org/obo/UBERON_0002328) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: differentiates_from mesoderm (AAO:0000304) CHANGED TO: develops_from mesoderm (UBERON:0000926)[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000327" +#### Added +- [endothelial cell activation](http://purl.obolibrary.org/obo/GO_0042118) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### endothelial tip cell `http://purl.obolibrary.org/obo/CL_0000704` -- [notochord](http://purl.obolibrary.org/obo/UBERON_0002328) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (3) a stiff, longitudinal rod of turgid cells along the dorsal part of the body that is called a notochord (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [endothelial tip cell](http://purl.obolibrary.org/obo/CL_0000704) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009303" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### endovascular extravillous trophoblast cell `http://purl.obolibrary.org/obo/CL_4033063` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28" +#### Added +- [endovascular extravillous trophoblast cell](http://purl.obolibrary.org/obo/CL_4033063) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [human_reference_atlas](http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000199" +- [endovascular extravillous trophoblast cell](http://purl.obolibrary.org/obo/CL_4033063) [present in taxon](http://purl.obolibrary.org/obo/RO_0002175) [Homo sapiens](http://purl.obolibrary.org/obo/NCBITaxon_9606) -#### Added -- [notochord](http://purl.obolibrary.org/obo/UBERON_0002328) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [endovascular extravillous trophoblast cell](http://purl.obolibrary.org/obo/CL_4033063) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### notochordal canal `http://purl.obolibrary.org/obo/UBERON_0013704` +### enkephalin secreting cell `http://purl.obolibrary.org/obo/CL_0000506` #### Added -- [notochordal canal](http://purl.obolibrary.org/obo/UBERON_0013704) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [enkephalin secreting cell](http://purl.obolibrary.org/obo/CL_0000506) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009231" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### notochordal plate `http://purl.obolibrary.org/obo/UBERON_0006267` -#### Removed -- [notochordal plate](http://purl.obolibrary.org/obo/UBERON_0006267) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The notochordal plate is the dorsal part of the notochordal process when the ventral portion breaks down. It is continuous laterally with the endoderm that composes the roof of the primitive foregut and is in contact dorsally with the neural tube. The folding off of the notochordal plate gives rise to the notochord. [Carson_JL, Dehart_DB, Developmental_Dynamics_(1994)_201:_260-278, Gesteland_K_and_Schoenwolf_GC, Inagaki_T, Morphogenesis_of_the_murine_node_and_notochordal_plate, The_prechordal_plate, Vrablic_T, see_Mueller_F_and_O'Rahilly_R, the_rostral_end_of_the_notochord_and_nearby_median_features_in_staged_human_embryos._Cells_Tissues_Organs_(2003)_173:_1-20_and_Sulik_K][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### ensheathment of neurons `http://purl.obolibrary.org/obo/GO_0007272` + +#### Added +- [ensheathment of neurons](http://purl.obolibrary.org/obo/GO_0007272) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### enteric neuron `http://purl.obolibrary.org/obo/CL_0007011` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001212" +#### Added +- [enteric neuron](http://purl.obolibrary.org/obo/CL_0007011) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005775" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +### enterocyte `http://purl.obolibrary.org/obo/CL_0000584` -### nuchal ligament `http://purl.obolibrary.org/obo/UBERON_0000351` -#### Removed -- [nuchal ligament](http://purl.obolibrary.org/obo/UBERON_0000351) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans it is a tendon-like structure that has developed independently in humans and other animals well adapted for running. In some four legged animals, particularly ungulates, the nuchal ligament serves to sustain the weight of the head" +#### Added +- [enterocyte](http://purl.obolibrary.org/obo/CL_0000584) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009269" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [nuchal ligament](http://purl.obolibrary.org/obo/UBERON_0000351) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "As it is required for running, not all animals have a nuchal ligament" -- [nuchal ligament](http://purl.obolibrary.org/obo/UBERON_0000351) SubClassOf [attached to](http://purl.obolibrary.org/obo/RO_0002371) some [cervical vertebra](http://purl.obolibrary.org/obo/UBERON_0002413) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "C7 in humans" +### enteroendocrine cell `http://purl.obolibrary.org/obo/CL_0000164` #### Added -- [nuchal ligament](http://purl.obolibrary.org/obo/UBERON_0000351) SubClassOf [attached to](http://purl.obolibrary.org/obo/RO_0002371) some [cervical vertebra](http://purl.obolibrary.org/obo/UBERON_0002413) +- [enteroendocrine cell](http://purl.obolibrary.org/obo/CL_0000164) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009097" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### nuclear factor NF-kappa-B p100 subunit `http://purl.obolibrary.org/obo/PR_000011178` -#### Removed -- [nuclear factor NF-kappa-B p100 subunit](http://purl.obolibrary.org/obo/PR_000011178) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [nuclear factor NF-kappa-B p100 subunit (human)](http://purl.obolibrary.org/obo/PR_Q00653) +### entire embryonic mesenchyme `http://purl.obolibrary.org/obo/UBERON_0009142` + +#### Added +- [entire embryonic mesenchyme](http://purl.obolibrary.org/obo/UBERON_0009142) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +- [entire embryonic mesenchyme](http://purl.obolibrary.org/obo/UBERON_0009142) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -### nuclear receptor ROR-gamma `http://purl.obolibrary.org/obo/PR_000001902` -#### Removed -- [nuclear receptor ROR-gamma](http://purl.obolibrary.org/obo/PR_000001902) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [nuclear receptor ROR-gamma (human)](http://purl.obolibrary.org/obo/PR_P51449) +### entire surface of organism `http://purl.obolibrary.org/obo/UBERON_0035159` +#### Added +- [entire surface of organism](http://purl.obolibrary.org/obo/UBERON_0035159) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -### nucleus accumbens `http://purl.obolibrary.org/obo/UBERON_0001882` +### envelope `http://purl.obolibrary.org/obo/GO_0031975` #### Removed -- [nucleus accumbens](http://purl.obolibrary.org/obo/UBERON_0001882) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [olfactory tubercle](http://purl.obolibrary.org/obo/UBERON_0001883) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -- [nucleus accumbens](http://purl.obolibrary.org/obo/UBERON_0001882) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "a collection of pleomorphic cells in the caudal part of the anterior horn of the lateral ventricle, in the region of the olfactory tubercle, lying between the head of the caudate nucleus and the anterior perforated substance. It is part of the ventral striatum, a composite structure considered part of the basal ganglia[GO][GO:0021768]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO:0021768" +- [envelope](http://purl.obolibrary.org/obo/GO_0031975) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A multilayered structure surrounding all or part of a cell; encompasses one or more lipid bilayers, and may include a cell wall layer; also includes the space between layers." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:mah" -- [nucleus accumbens](http://purl.obolibrary.org/obo/UBERON_0001882) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The ventral striatopallidal complex in birds corresponds closely to its counterpart in mammals, with a nucleus accumbes present in the rostral telenceaphalon. Note that in birds, a region previously called the nucleus accumbens is now recognized as the lateral part of the bed nucleus of stria terminalis.[ISBN:0471888893]" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:pz" +- [envelope](http://purl.obolibrary.org/obo/GO_0031975) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0031975" +- [envelope](http://purl.obolibrary.org/obo/GO_0031975) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "cellular_component" -### nucleus of dorsal thalamus `http://purl.obolibrary.org/obo/UBERON_0015233` -#### Removed -- [nucleus of dorsal thalamus](http://purl.obolibrary.org/obo/UBERON_0015233) [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [NCBITaxon_7762](http://purl.obolibrary.org/obo/NCBITaxon_7762) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "Hagfish possess a habenular complex and separate nuclei in the dorsal thalamus" +- [envelope](http://purl.obolibrary.org/obo/GO_0031975) [label](http://www.w3.org/2000/01/rdf-schema#label) "envelope" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Butler, 1996, p. 303" +- Class: [envelope](http://purl.obolibrary.org/obo/GO_0031975) +- [envelope](http://purl.obolibrary.org/obo/GO_0031975) SubClassOf [cellular anatomical entity](http://purl.obolibrary.org/obo/GO_0110165) +- [envelope](http://purl.obolibrary.org/obo/GO_0031975) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [cell](http://purl.obolibrary.org/obo/CL_0000000) -### nucleus of lateral olfactory tract `http://purl.obolibrary.org/obo/UBERON_0002893` -#### Removed -- [nucleus of lateral olfactory tract](http://purl.obolibrary.org/obo/UBERON_0002893) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0004069](http://purl.obolibrary.org/obo/UBERON_0004069) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" -- [nucleus of lateral olfactory tract](http://purl.obolibrary.org/obo/UBERON_0002893) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002590](http://purl.obolibrary.org/obo/UBERON_0002590) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" -- [nucleus of lateral olfactory tract](http://purl.obolibrary.org/obo/UBERON_0002893) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002266](http://purl.obolibrary.org/obo/UBERON_0002266) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +### eomesodermin homolog (human) `http://purl.obolibrary.org/obo/PR_O95936` +#### Added +- [eomesodermin homolog (human)](http://purl.obolibrary.org/obo/PR_O95936) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-452232" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "PR:O95936 located_in GO:0005654" -### nucleus of midbrain tegmentum `http://purl.obolibrary.org/obo/UBERON_0007414` +### eosinophil progenitor cell `http://purl.obolibrary.org/obo/CL_0000611` #### Removed -- [nucleus of midbrain tegmentum](http://purl.obolibrary.org/obo/UBERON_0007414) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class groups together any nuclei in the tegmentum region, possibly including disparate structures across species" - +- [eosinophil progenitor cell](http://purl.obolibrary.org/obo/CL_0000611) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +#### Added +- [eosinophil progenitor cell](http://purl.obolibrary.org/obo/CL_0000611) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any granulocytopoietic cell that has part some transcription factor PU.1 and has part some CCAAT/enhancer-binding protein alpha and has part some erythroid transcription factor and lacks plasma membrane part some CD19 molecule and lacks plasma membrane part some CD4 molecule and lacks plasma membrane part some integrin alpha-M and lacks plasma membrane part some CD3 epsilon and lacks plasma membrane part some neural cell adhesion molecule 1 and lacks plasma membrane part some CD2 molecule and lacks plasma membrane part some T-cell surface glycoprotein CD8 alpha chain and lacks plasma membrane part some membrane-spanning 4-domains subfamily A member 1 and lacks plasma membrane part some T-cell surface glycoprotein CD5 and lacks plasma membrane part some CD14 molecule and lacks plasma membrane part some lymphocyte antigen 6G and lacks plasma membrane part some lymphocyte antigen 76 (mouse) and has plasma membrane part some CD34 molecule and has plasma membrane part some ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 and has plasma membrane part some interleukin-3 receptor class 2 alpha chain and has plasma membrane part some interleukin-5 receptor subunit alpha and has plasma membrane part some mast/stem cell growth factor receptor and is capable of some eosinophil differentiation." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### nucleus of superior olivary complex `http://purl.obolibrary.org/obo/UBERON_0007247` -#### Removed -- [nucleus of superior olivary complex](http://purl.obolibrary.org/obo/UBERON_0007247) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class exists largely for consistency with the FMA. It is defined trivially with respect to the SOC. The class may be removed in future." +### ependymal cell `http://purl.obolibrary.org/obo/CL_0000065` +#### Added +- [ependymal cell](http://purl.obolibrary.org/obo/CL_0000065) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009033" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### nucleus pulposus `http://purl.obolibrary.org/obo/UBERON_0002242` -#### Removed -- [nucleus pulposus](http://purl.obolibrary.org/obo/UBERON_0002242) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D000070614" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) +### ependymoglial cell `http://purl.obolibrary.org/obo/CL_0000683` - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +#### Added +- [ependymoglial cell](http://purl.obolibrary.org/obo/CL_0000683) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009294" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [nucleus pulposus](http://purl.obolibrary.org/obo/UBERON_0002242) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "The nucleus pulposus consists of chondrocytes, collagen fibrils, and proteoglycan aggrecans that have hyaluronic long chains which attract water. Attached to each hyaluronic chain are side chains of chondroitin sulfate and keratan sulfate[Wikipedia:Nucleus_pulposus]" -- [nucleus pulposus](http://purl.obolibrary.org/obo/UBERON_0002242) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we group two FMA classes together" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +### epicardium morphogenesis `http://purl.obolibrary.org/obo/GO_1905223` -- [nucleus pulposus](http://purl.obolibrary.org/obo/UBERON_0002242) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [notochord](http://purl.obolibrary.org/obo/UBERON_0002328) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0073040584" +#### Added +- [epicardium morphogenesis](http://purl.obolibrary.org/obo/GO_1905223) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [editor](http://www.geneontology.org/formats/oboInOwl#editor) "mah" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia" +### epidermal cell `http://purl.obolibrary.org/obo/CL_0000362` #### Added -- [nucleus pulposus](http://purl.obolibrary.org/obo/UBERON_0002242) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [epidermal cell](http://purl.obolibrary.org/obo/CL_0000362) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009183" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [nucleus pulposus](http://purl.obolibrary.org/obo/UBERON_0002242) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [notochord](http://purl.obolibrary.org/obo/UBERON_0002328) - -### obsolescence reason specification `http://purl.obolibrary.org/obo/IAO_0000225` +### epidermal cell (sensu Arthropoda) `http://purl.obolibrary.org/obo/CL_0000463` #### Removed -- [obsolescence reason specification](http://purl.obolibrary.org/obo/IAO_0000225) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "obsolescence reason specification"@en - -- [obsolescence reason specification](http://purl.obolibrary.org/obo/IAO_0000225) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) +- [epidermal cell (sensu Arthropoda)](http://purl.obolibrary.org/obo/CL_0000463) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007325" -- [obsolescence reason specification](http://purl.obolibrary.org/obo/IAO_0000225) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "PERSON: Alan Ruttenberg"@en +#### Added +- [epidermal cell (sensu Arthropoda)](http://purl.obolibrary.org/obo/CL_0000463) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007325" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [obsolescence reason specification](http://purl.obolibrary.org/obo/IAO_0000225) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "PERSON: Melanie Courtot"@en +### epidermal cell division `http://purl.obolibrary.org/obo/GO_0010481` +#### Added +- [epidermal cell division](http://purl.obolibrary.org/obo/GO_0010481) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### occipital bone `http://purl.obolibrary.org/obo/UBERON_0001676` -#### Removed -- [occipital bone](http://purl.obolibrary.org/obo/UBERON_0001676) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "formed from the sclerotome of the occipital somites. It is not present in living or fossil agnathans or cartilaginous fishes, but appears to have arisen in parallel in many bony fishes. Incorporation of the occipital ver- tebrae into the skull was associated with the annexation of the upper part of the spinal cord into the brain, together with the first 2 spinal nerves as cranial nerves XI and XII" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:11523816" -- [occipital bone](http://purl.obolibrary.org/obo/UBERON_0001676) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "fusion of basi-, exo- and supra-occipitals (and maybe tabular)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Kardong" +### epidermal stem cell homeostasis `http://purl.obolibrary.org/obo/GO_0036334` -- [occipital bone](http://purl.obolibrary.org/obo/UBERON_0001676) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [chondrocranium](http://purl.obolibrary.org/obo/UBERON_0002241) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MA-modified" +#### Added +- [epidermal stem cell homeostasis](http://purl.obolibrary.org/obo/GO_0036334) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "basi paired exo and supra occipital bones" -- [occipital bone](http://purl.obolibrary.org/obo/UBERON_0001676) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [dermatocranium](http://purl.obolibrary.org/obo/UBERON_0003113) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "interparietal (postparietal)" +### epidermoblast `http://purl.obolibrary.org/obo/CL_0000464` +#### Removed +- [epidermoblast](http://purl.obolibrary.org/obo/CL_0000464) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004994" #### Added -- [occipital bone](http://purl.obolibrary.org/obo/UBERON_0001676) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [chondrocranium](http://purl.obolibrary.org/obo/UBERON_0002241) - -- [occipital bone](http://purl.obolibrary.org/obo/UBERON_0001676) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [dermatocranium](http://purl.obolibrary.org/obo/UBERON_0003113) +- [epidermoblast](http://purl.obolibrary.org/obo/CL_0000464) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004994" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### occipital region `http://purl.obolibrary.org/obo/UBERON_0005902` +### epinephrine binding `http://purl.obolibrary.org/obo/GO_0051379` #### Removed -- [occipital region](http://purl.obolibrary.org/obo/UBERON_0005902) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D009778" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) +- [epinephrine binding](http://purl.obolibrary.org/obo/GO_0051379) EquivalentTo [binding](http://purl.obolibrary.org/obo/GO_0005488) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33568](http://purl.obolibrary.org/obo/CHEBI_33568)) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +- [epinephrine binding](http://purl.obolibrary.org/obo/GO_0051379) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33568](http://purl.obolibrary.org/obo/CHEBI_33568) -- [occipital region](http://purl.obolibrary.org/obo/UBERON_0005902) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An anatomical cluster that is located in the posterior region of the neurocranium and forms the margin of the foramen margin and occipital condyles.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [epinephrine binding](http://purl.obolibrary.org/obo/GO_0051379) EquivalentTo [binding](http://purl.obolibrary.org/obo/GO_0005488) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_71406](http://purl.obolibrary.org/obo/CHEBI_71406)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [epinephrine binding](http://purl.obolibrary.org/obo/GO_0051379) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_71406](http://purl.obolibrary.org/obo/CHEBI_71406) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010199" +- [epinephrine binding](http://purl.obolibrary.org/obo/GO_0051379) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [occipital region](http://purl.obolibrary.org/obo/UBERON_0005902) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster that is located in the posterior region of the cranium and forms the margin of the foramen magnum and occiptal condyle.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:MAH" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001414" +### epinephrine biosynthetic process `http://purl.obolibrary.org/obo/GO_0042418` +#### Removed +- [epinephrine biosynthetic process](http://purl.obolibrary.org/obo/GO_0042418) EquivalentTo [biosynthetic process](http://purl.obolibrary.org/obo/GO_0009058) and ([has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_33568](http://purl.obolibrary.org/obo/CHEBI_33568)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [epinephrine biosynthetic process](http://purl.obolibrary.org/obo/GO_0042418) SubClassOf [has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_33568](http://purl.obolibrary.org/obo/CHEBI_33568) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [epinephrine biosynthetic process](http://purl.obolibrary.org/obo/GO_0042418) EquivalentTo [biosynthetic process](http://purl.obolibrary.org/obo/GO_0009058) and ([has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_71406](http://purl.obolibrary.org/obo/CHEBI_71406)) +- [epinephrine biosynthetic process](http://purl.obolibrary.org/obo/GO_0042418) SubClassOf [has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_71406](http://purl.obolibrary.org/obo/CHEBI_71406) -### occurs in `http://purl.obolibrary.org/obo/BFO_0000066` +### epinephrine catabolic process `http://purl.obolibrary.org/obo/GO_0042419` #### Removed -- [occurs in](http://purl.obolibrary.org/obo/BFO_0000066) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "occurs_in"@en +- [epinephrine catabolic process](http://purl.obolibrary.org/obo/GO_0042419) EquivalentTo [catabolic process](http://purl.obolibrary.org/obo/GO_0009056) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33568](http://purl.obolibrary.org/obo/CHEBI_33568)) -- [occurs in](http://purl.obolibrary.org/obo/BFO_0000066) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "unfolds_in"@en +- [epinephrine catabolic process](http://purl.obolibrary.org/obo/GO_0042419) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33568](http://purl.obolibrary.org/obo/CHEBI_33568) -- [occurs in](http://purl.obolibrary.org/obo/BFO_0000066) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "occurs in"@en +#### Added +- [epinephrine catabolic process](http://purl.obolibrary.org/obo/GO_0042419) EquivalentTo [catabolic process](http://purl.obolibrary.org/obo/GO_0009056) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_71406](http://purl.obolibrary.org/obo/CHEBI_71406)) -- [occurs in](http://purl.obolibrary.org/obo/BFO_0000066) [isDefinedBy](http://www.w3.org/2000/01/rdf-schema#isDefinedBy) [bfo.owl](http://purl.obolibrary.org/obo/bfo.owl) +- [epinephrine catabolic process](http://purl.obolibrary.org/obo/GO_0042419) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_71406](http://purl.obolibrary.org/obo/CHEBI_71406) -- [occurs in](http://purl.obolibrary.org/obo/BFO_0000066) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "unfolds in"@en +### epinephrine metabolic process `http://purl.obolibrary.org/obo/GO_0042414` +#### Removed +- [epinephrine metabolic process](http://purl.obolibrary.org/obo/GO_0042414) EquivalentTo [metabolic process](http://purl.obolibrary.org/obo/GO_0008152) and ([has primary input or output](http://purl.obolibrary.org/obo/RO_0004007) some [CHEBI_33568](http://purl.obolibrary.org/obo/CHEBI_33568)) +- [epinephrine metabolic process](http://purl.obolibrary.org/obo/GO_0042414) SubClassOf [has primary input or output](http://purl.obolibrary.org/obo/RO_0004007) some [CHEBI_33568](http://purl.obolibrary.org/obo/CHEBI_33568) -### ocular refractive media `http://purl.obolibrary.org/obo/UBERON_0006312` -#### Removed -- [ocular refractive media](http://purl.obolibrary.org/obo/UBERON_0006312) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "ocular refraction" +#### Added +- [epinephrine metabolic process](http://purl.obolibrary.org/obo/GO_0042414) EquivalentTo [metabolic process](http://purl.obolibrary.org/obo/GO_0008152) and ([has primary input or output](http://purl.obolibrary.org/obo/RO_0004007) some [CHEBI_71406](http://purl.obolibrary.org/obo/CHEBI_71406)) +- [epinephrine metabolic process](http://purl.obolibrary.org/obo/GO_0042414) SubClassOf [has primary input or output](http://purl.obolibrary.org/obo/RO_0004007) some [CHEBI_71406](http://purl.obolibrary.org/obo/CHEBI_71406) +- [epinephrine metabolic process](http://purl.obolibrary.org/obo/GO_0042414) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### ocular surface region `http://purl.obolibrary.org/obo/UBERON_0010409` + +### epinephrine secreting cell `http://purl.obolibrary.org/obo/CL_0000454` #### Added -- [ocular surface region](http://purl.obolibrary.org/obo/UBERON_0010409) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [epinephrine secreting cell](http://purl.obolibrary.org/obo/CL_0000454) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009211" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### odontogenic papilla `http://purl.obolibrary.org/obo/UBERON_0001763` +### epinephrine secretion `http://purl.obolibrary.org/obo/GO_0048242` #### Removed -- [odontogenic papilla](http://purl.obolibrary.org/obo/UBERON_0001763) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "In humans, the dental papilla appears after 8-10 weeks intra uteral life" +- [epinephrine secretion](http://purl.obolibrary.org/obo/GO_0048242) EquivalentTo [secretion](http://purl.obolibrary.org/obo/GO_0046903) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33568](http://purl.obolibrary.org/obo/CHEBI_33568)) -- [odontogenic papilla](http://purl.obolibrary.org/obo/UBERON_0001763) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Teeth and tooth-like structures, together named odontodes, are repeated organs thought to share a common evolutionary origin. These structures can be found in gnathostomes at different locations along the body: oral teeth in the jaws, teeth and denticles in the oral-pharyngeal cavity, and dermal denticles on elasmobranch skin.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1186/1471-2148-11-307 The homology of odontodes in gnathostomes: insights from Dlx gene expression in the dogfish, Scyliorhinus canicula. BMC Evolutionary Biology (2011)" +#### Added +- [epinephrine secretion](http://purl.obolibrary.org/obo/GO_0048242) EquivalentTo [secretion](http://purl.obolibrary.org/obo/GO_0046903) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_71406](http://purl.obolibrary.org/obo/CHEBI_71406)) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### epinephrine secretion, neurotransmission `http://purl.obolibrary.org/obo/GO_0061529` +#### Removed +- [epinephrine secretion, neurotransmission](http://purl.obolibrary.org/obo/GO_0061529) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [epinephrine secretion, neurotransmission](http://purl.obolibrary.org/obo/GO_0061529) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2013-06-21T15:47:22Z" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001465" +- [epinephrine secretion, neurotransmission](http://purl.obolibrary.org/obo/GO_0061529) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The regulated release of epinephrine by a cell in which the epinephrine acts as a neurotransmitter." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:dph" -- [odontogenic papilla](http://purl.obolibrary.org/obo/UBERON_0001763) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cell condensation that is a well-defined population of densely organized mesenchymal cells that aggregates adjacent to an epithelium.[VSAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [epinephrine secretion, neurotransmission](http://purl.obolibrary.org/obo/GO_0061529) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0061529" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000025" +- [epinephrine secretion, neurotransmission](http://purl.obolibrary.org/obo/GO_0061529) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "adrenaline secretion, neurotransmission" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:dph" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" +- [epinephrine secretion, neurotransmission](http://purl.obolibrary.org/obo/GO_0061529) [label](http://www.w3.org/2000/01/rdf-schema#label) "epinephrine secretion, neurotransmission" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" +- [epinephrine secretion, neurotransmission](http://purl.obolibrary.org/obo/GO_0061529) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "dph" -- [odontogenic papilla](http://purl.obolibrary.org/obo/UBERON_0001763) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Tissue of the developing tooth. It is composed of pre-odontoblast and undiffentiated mesnchyme cells and connects to the basal lamina.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- Class: [epinephrine secretion, neurotransmission](http://purl.obolibrary.org/obo/GO_0061529) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [epinephrine secretion, neurotransmission](http://purl.obolibrary.org/obo/GO_0061529) EquivalentTo [neurotransmitter secretion](http://purl.obolibrary.org/obo/GO_0007269) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33568](http://purl.obolibrary.org/obo/CHEBI_33568)) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [epinephrine secretion, neurotransmission](http://purl.obolibrary.org/obo/GO_0061529) SubClassOf [neurotransmitter secretion](http://purl.obolibrary.org/obo/GO_0007269) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005140" +- [epinephrine secretion, neurotransmission](http://purl.obolibrary.org/obo/GO_0061529) SubClassOf [epinephrine secretion](http://purl.obolibrary.org/obo/GO_0048242) -### odontoid tissue `http://purl.obolibrary.org/obo/UBERON_0010365` +### epinephrine transport `http://purl.obolibrary.org/obo/GO_0048241` #### Removed -- [odontoid tissue](http://purl.obolibrary.org/obo/UBERON_0010365) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Classified as a portion of organism substance in FMA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [epinephrine transport](http://purl.obolibrary.org/obo/GO_0048241) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33568](http://purl.obolibrary.org/obo/CHEBI_33568)) -- [odontoid tissue](http://purl.obolibrary.org/obo/UBERON_0010365) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in many vertebrates, odontoid tissue is not restricted to the teeth" +- [epinephrine transport](http://purl.obolibrary.org/obo/GO_0048241) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33568](http://purl.obolibrary.org/obo/CHEBI_33568) #### Added -- [odontoid tissue](http://purl.obolibrary.org/obo/UBERON_0010365) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - +- [epinephrine transport](http://purl.obolibrary.org/obo/GO_0048241) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_71406](http://purl.obolibrary.org/obo/CHEBI_71406)) -### olfactory apparatus chamber `http://purl.obolibrary.org/obo/UBERON_0015788` +- [epinephrine transport](http://purl.obolibrary.org/obo/GO_0048241) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_71406](http://purl.obolibrary.org/obo/CHEBI_71406) -#### Added -- [olfactory apparatus chamber](http://purl.obolibrary.org/obo/UBERON_0015788) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [epinephrine transport](http://purl.obolibrary.org/obo/GO_0048241) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### olfactory bulb `http://purl.obolibrary.org/obo/UBERON_0002264` +### epinephrine uptake `http://purl.obolibrary.org/obo/GO_0051625` #### Removed -- [olfactory bulb](http://purl.obolibrary.org/obo/UBERON_0002264) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In most vertebrates, the olfactory bulb is the most rostral (forward) part of the brain. In humans, however, the olfactory bulb is on the inferior (bottom) side of the brain. The olfactory bulb is supported and protected by the cribriform plate which in mammals, separates it from the olfactory epithelium, and which is perforated by olfactory nerve axons. The bulb is divided into two distinct structures, the main olfactory bulb, and the accessory olfactory bulb" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" - -- [olfactory bulb](http://purl.obolibrary.org/obo/UBERON_0002264) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [hippocampal formation](http://purl.obolibrary.org/obo/UBERON_0002421) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +- [epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051625) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "adrenaline uptake" -- [olfactory bulb](http://purl.obolibrary.org/obo/UBERON_0002264) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Segment of neural tree organ which is continuous with a set of olfactory nerves and an olfactory tract[FMA:77624]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:77624" +- [epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051625) [label](http://www.w3.org/2000/01/rdf-schema#label) "epinephrine uptake" -- [olfactory bulb](http://purl.obolibrary.org/obo/UBERON_0002264) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [neocortex](http://purl.obolibrary.org/obo/UBERON_0001950) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +- [epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051625) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "adrenaline reuptake" -- [olfactory bulb](http://purl.obolibrary.org/obo/UBERON_0002264) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The part of the forebrain in which the olfactory nerves end and the olfactory tracts originate. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051625) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "epinephrine reuptake" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051625) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "epinephrine import" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:dph" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:tb" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000033" +- [epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051625) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0051625" -- [olfactory bulb](http://purl.obolibrary.org/obo/UBERON_0002264) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Note that in uberon 'main olfactory bulb' is a separate class, but some ontologies may treat this as partially synonymous. The distinction may only make sense in tetrapods with a vomeronasal organ (olfactory nerves terminate in OB in fishes and in main OB in tetrapods - Butler and Hodos)" +- [epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051625) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The directed movement of epinephrine into a cell, typically presynaptic neurons or glial cells. Epinephrine is a hormone produced by the medulla of the adrenal glands that increases heart activity, improves the power and prolongs the action of muscles, and increases the rate and depth of breathing. It is synthesized by the methylation of norepinephrine." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:ai" -- [olfactory bulb](http://purl.obolibrary.org/obo/UBERON_0002264) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the rostral part of the cerebrum where axons of olfactory cells from the nasal mucosa terminate. Projects onto olfactory parts of pallium via olfactory tracts" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0471888893" +- [epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051625) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -- [olfactory bulb](http://purl.obolibrary.org/obo/UBERON_0002264) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "the olfactory bulbs develop as bilateral evaginations from a region of the prosencephalic neural plate intercalated between the septal and the cortical anlagen (Cobos et al. 2001b, Rubenstein et al. 1998). Comparing the structure of the olfactory bulb among vertebrate species, such as the leopard frog and the lab mouse, reveals that they all share the same fundamental layout(WP)." +- Class: [epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051625) -- [olfactory bulb](http://purl.obolibrary.org/obo/UBERON_0002264) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The presence of paired evaginated hemispheres and olfactory bulbs in both agnathan and gnathostome radiations suggests that such hemispheres were also present in the common ancestor.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1146/annurev.ne.04.030181.001505 Northcutt RG, Evolution of the telencephalon in nonmammals. Ann. Rev. Neurosci. (1981)" +- [epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051625) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([has target start location](http://purl.obolibrary.org/obo/RO_0002338) some [extracellular region](http://purl.obolibrary.org/obo/GO_0005576)) and ([has target end location](http://purl.obolibrary.org/obo/RO_0002339) some [intracellular anatomical structure](http://purl.obolibrary.org/obo/GO_0005622)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33568](http://purl.obolibrary.org/obo/CHEBI_33568)) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051625) SubClassOf [has target end location](http://purl.obolibrary.org/obo/RO_0002339) some [intracellular anatomical structure](http://purl.obolibrary.org/obo/GO_0005622) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051625) SubClassOf [epinephrine transport](http://purl.obolibrary.org/obo/GO_0048241) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051625) SubClassOf [has target start location](http://purl.obolibrary.org/obo/RO_0002338) some [extracellular region](http://purl.obolibrary.org/obo/GO_0005576) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000033" -- [olfactory bulb](http://purl.obolibrary.org/obo/UBERON_0002264) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the telencephalon comprised of anterior outgrowths of either of the cerebral hemispheres in which the olfactory nerve exits.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +### epithelial cell `http://purl.obolibrary.org/obo/CL_0000066` +#### Removed +- [epithelial cell](http://purl.obolibrary.org/obo/CL_0000066) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000124" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010165" +#### Added +- [epithelial cell](http://purl.obolibrary.org/obo/CL_0000066) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000124" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [epithelial cell](http://purl.obolibrary.org/obo/CL_0000066) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009034" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### olfactory bulb mitral cell layer `http://purl.obolibrary.org/obo/UBERON_0004186` +### epithelial cell maturation involved in prostate gland development `http://purl.obolibrary.org/obo/GO_0060743` #### Removed -- [olfactory bulb mitral cell layer](http://purl.obolibrary.org/obo/UBERON_0004186) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "NIF divides this into main and accessory" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "NIF" +- [epithelial cell maturation involved in prostate gland development](http://purl.obolibrary.org/obo/GO_0060743) SubClassOf [developmental process involved in reproduction](http://purl.obolibrary.org/obo/GO_0003006) -### olfactory cortex `http://purl.obolibrary.org/obo/UBERON_0002894` -#### Removed -- [olfactory cortex](http://purl.obolibrary.org/obo/UBERON_0002894) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "That portion of the cerebral cortex that, with the palaeocortex, develops in association with the olfactory system, and which is phylogenetically older than the neocortex and lacks its layered structure. The embryonic archaeocortex corresponds to the cortex of the dentate gyrus and hippocampus in mature mammals[BTO:0001446]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "BTO:0001446" +### epithelial cell migration `http://purl.obolibrary.org/obo/GO_0010631` -- [olfactory cortex](http://purl.obolibrary.org/obo/UBERON_0002894) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The olfactory cortex is involved in the perception of smell. It receives input from the olfactory bulb and is responsible for the identification of odors[GO][GO:0021989]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO:0021989" +#### Added +- [epithelial cell migration](http://purl.obolibrary.org/obo/GO_0010631) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [olfactory cortex](http://purl.obolibrary.org/obo/UBERON_0002894) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(In mammals) Odorant detection is mediated by millions of olfactory sensory neurons located in the olfactory epithelium lining the nasal cavity. These neurons transmit sensory signals to the olfactory bulb of the brain, which in turn sends signals to the olfactory cortex.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1753-4887.2004.tb00097.x Buck LB, Olfactory receptors and odor coding in mammals. Nutrition Reviews (2008)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### epithelial cell of esophagus `http://purl.obolibrary.org/obo/CL_0002252` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [epithelial cell of esophagus](http://purl.obolibrary.org/obo/CL_0002252) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009400" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000325" +### epithelial cell of lower respiratory tract `http://purl.obolibrary.org/obo/CL_0002632` +#### Added +- [epithelial cell of lower respiratory tract](http://purl.obolibrary.org/obo/CL_0002632) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any respiratory epithelial cell that is part of some lower respiratory tract." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### olfactory epithelium `http://purl.obolibrary.org/obo/UBERON_0001997` -#### Removed -- [olfactory epithelium](http://purl.obolibrary.org/obo/UBERON_0001997) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of principal cavity (AAO:0000992)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### epithelial cell of pancreas `http://purl.obolibrary.org/obo/CL_0000083` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [epithelial cell of pancreas](http://purl.obolibrary.org/obo/CL_0000083) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009045" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010158" +- [epithelial cell of pancreas](http://purl.obolibrary.org/obo/CL_0000083) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [olfactory epithelium](http://purl.obolibrary.org/obo/UBERON_0001997) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Sensory lining of the medial wall, roof and anterior aspects of the main olfactory cavity (cavum principale).[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:DSM" +### epithelial cell of upper respiratory tract `http://purl.obolibrary.org/obo/CL_0002631` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [epithelial cell of upper respiratory tract](http://purl.obolibrary.org/obo/CL_0002631) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any respiratory epithelial cell that is part of some upper respiratory tract." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010158" -- [olfactory epithelium](http://purl.obolibrary.org/obo/UBERON_0001997) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) +### epithelial cell proliferation `http://purl.obolibrary.org/obo/GO_0050673` +#### Added +- [epithelial cell proliferation](http://purl.obolibrary.org/obo/GO_0050673) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### olfactory lobe `http://purl.obolibrary.org/obo/UBERON_0005366` +### epithelial cell proliferation involved in prostate gland development `http://purl.obolibrary.org/obo/GO_0060767` #### Removed -- [olfactory lobe](http://purl.obolibrary.org/obo/UBERON_0005366) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(In mammals) Odorant detection is mediated by millions of olfactory sensory neurons located in the olfactory epithelium lining the nasal cavity. These neurons transmit sensory signals to the olfactory bulb of the brain, which in turn sends signals to the olfactory cortex.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1753-4887.2004.tb00097.x Buck LB, Olfactory receptors and odor coding in mammals. Nutrition Reviews (2008)" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [epithelial cell proliferation involved in prostate gland development](http://purl.obolibrary.org/obo/GO_0060767) SubClassOf [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000833" -- [olfactory lobe](http://purl.obolibrary.org/obo/UBERON_0005366) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the telencephalon, comprised of paired anterior outgrowths of either of the cerebral hemispheres in which the olfactory nerve exits. In Xenopus,the olfactory bulbs begin to fuse at NF stage 50, fusion is complete around NF stage 58. The cerebral vein loops around the olfactory bulb by NF stage 43[XAO:0004180]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "XAO:0004180" +### epithelial tube `http://purl.obolibrary.org/obo/UBERON_0003914` +#### Added +- [epithelial tube](http://purl.obolibrary.org/obo/UBERON_0003914) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007474" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### olfactory nerve `http://purl.obolibrary.org/obo/UBERON_0001579` +### epithelial-mesenchymal signaling involved in prostate gland development `http://purl.obolibrary.org/obo/GO_0060738` #### Removed -- [olfactory nerve](http://purl.obolibrary.org/obo/UBERON_0001579) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Segment of neural tree organ which is continuous with the olfactory epithelium and an olfactory bulb[FMA:46787]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:46787" +- [epithelial-mesenchymal signaling involved in prostate gland development](http://purl.obolibrary.org/obo/GO_0060738) SubClassOf [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) -- [olfactory nerve](http://purl.obolibrary.org/obo/UBERON_0001579) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "connects to main OB (in taxa where main/accessory distinction is important)" -- [olfactory nerve](http://purl.obolibrary.org/obo/UBERON_0001579) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The 1st cranial nerve. The olfactory nerve conveys the sense of smell. It is formed by the axons of OLFACTORY RECEPTOR NEURONS which project from the olfactory epithelium (in the nasal epithelium) to the OLFACTORY BULB[MESH:A08.800.800.120.640]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MESH:A08.800.800.120.640" -- [olfactory nerve](http://purl.obolibrary.org/obo/UBERON_0001579) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (5) cranial nerves (...) (reference 1); Phylogenetically, the cranial nerves are thought to have evolved from dorsal and ventral nerves of a few anterior spinal nerves that became incorporated into the braincase. Dorsal and ventral nerves fuse in the trunk but not in the head, and they produce two series: dorsal cranial nerves (V, VII, IX, and X) and ventral cranial nerves (III, IV, VI, and XIII) (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### epithelium `http://purl.obolibrary.org/obo/UBERON_0000483` +#### Removed +- [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007005" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43, ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.625" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### epithelium of appendix `http://purl.obolibrary.org/obo/UBERON_0009697` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000703" +#### Added +- [epithelium of appendix](http://purl.obolibrary.org/obo/UBERON_0009697) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [olfactory nerve](http://purl.obolibrary.org/obo/UBERON_0001579) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Nerve that carries information from the olfactory epithelium through the olfactory bulb to the olfactory cortex of the telencephalon.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010088" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### erythroblast `http://purl.obolibrary.org/obo/CL_0000765` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:DSM" +#### Added +- [erythroblast](http://purl.obolibrary.org/obo/CL_0000765) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005237" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### erythroid lineage cell `http://purl.obolibrary.org/obo/CL_0000764` +#### Added +- [erythroid lineage cell](http://purl.obolibrary.org/obo/CL_0000764) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009325" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### olfactory organ `http://purl.obolibrary.org/obo/UBERON_0002268` -#### Removed -- [olfactory organ](http://purl.obolibrary.org/obo/UBERON_0002268) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "fma general anatomical term. xao has no subtypes (but Johnstons organ develops from this). An olfactory organ overlaps with the olfactory system, because some parts of the nose (e.g. nasal skeleton) are parts of the skeletal system, which is spatially disjoint" -- [olfactory organ](http://purl.obolibrary.org/obo/UBERON_0002268) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005158" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### erythroid progenitor cell `http://purl.obolibrary.org/obo/CL_0000038` +#### Added +- [erythroid progenitor cell](http://purl.obolibrary.org/obo/CL_0000038) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009015" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### olfactory pit `http://purl.obolibrary.org/obo/UBERON_0005870` +### erythroid progenitor cell, mammalian `http://purl.obolibrary.org/obo/CL_0001066` #### Removed -- [olfactory pit](http://purl.obolibrary.org/obo/UBERON_0005870) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "By the upgrowth of the surrounding parts the olfactory areas are converted into pits, the nasal pits or olfactory pits, which indent the fronto-nasal process and divide it into a medial and two lateral nasal processes[Wikipedia:Nasal_pit]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Nasal_pit" - - +- [erythroid progenitor cell, mammalian](http://purl.obolibrary.org/obo/CL_0001066) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### olfactory placode `http://purl.obolibrary.org/obo/UBERON_0003050` -#### Removed -- [olfactory placode](http://purl.obolibrary.org/obo/UBERON_0003050) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (2) neurogenic placodes (...).[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000186" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### erythrophore `http://purl.obolibrary.org/obo/CL_0000574` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [erythrophore](http://purl.obolibrary.org/obo/CL_0000574) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009263" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43" +- [erythrophore](http://purl.obolibrary.org/obo/CL_0000574) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [olfactory placode](http://purl.obolibrary.org/obo/UBERON_0003050) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0006222" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +### esophagus `http://purl.obolibrary.org/obo/UBERON_0001043` - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) +#### Added +- [esophagus](http://purl.obolibrary.org/obo/UBERON_0001043) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [olfactory placode](http://purl.obolibrary.org/obo/UBERON_0003050) SubClassOf [neurogenic placode](http://purl.obolibrary.org/obo/UBERON_0009955) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA" - - [contradicted_by](http://www.geneontology.org/formats/oboInOwl#contradicted_by) "NCBIBook:NBK53171" +### establishment of epithelial cell polarity `http://purl.obolibrary.org/obo/GO_0090162` #### Added -- [olfactory placode](http://purl.obolibrary.org/obo/UBERON_0003050) SubClassOf [neurogenic placode](http://purl.obolibrary.org/obo/UBERON_0009955) - +- [establishment of epithelial cell polarity](http://purl.obolibrary.org/obo/GO_0090162) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### olfactory region `http://purl.obolibrary.org/obo/UBERON_0003112` -#### Removed -- [olfactory region](http://purl.obolibrary.org/obo/UBERON_0003112) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster that is located in the anterior region of the cranium and provides structural support for the peripheral olfactory organ.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:MAH" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000351" +### establishment of localization in cell `http://purl.obolibrary.org/obo/GO_0051649` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [establishment of localization in cell](http://purl.obolibrary.org/obo/GO_0051649) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" -- [olfactory region](http://purl.obolibrary.org/obo/UBERON_0003112) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster that is located in the anterior region of the neurocranium and provides structural support for the olfactory organs.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" +### establishment of lymphocyte polarity `http://purl.obolibrary.org/obo/GO_0001767` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010206" +#### Added +- [establishment of lymphocyte polarity](http://purl.obolibrary.org/obo/GO_0001767) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### establishment of neuroblast polarity `http://purl.obolibrary.org/obo/GO_0045200` +#### Added +- [establishment of neuroblast polarity](http://purl.obolibrary.org/obo/GO_0045200) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### olfactory segment of nasal mucosa `http://purl.obolibrary.org/obo/UBERON_0005386` -#### Removed -- [olfactory segment of nasal mucosa](http://purl.obolibrary.org/obo/UBERON_0005386) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The olfactory mucosa is located in the upper region of the nasal cavity and is made up of the olfactory epithelium and the underlying lamina propria, connective tissue containing fibroblasts, blood vessels, Bowman's glands and bundles of fine axons from the olfactory neurons. The mucus protects the olfactory epithelium and allows odors to dissolve so that they can be detected by olfactory receptor neurons. Electron microscopy studies show that Bowman's glands contain cells with large secretory vesicles. The exact composition of the secretions from Bowman's glands is unclear, but there is evidence that Bowman's glands do not produce odorant binding protein[WP][Wikipedia:Olfactory_mucosa]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Olfactory_mucosa" +### estradiol binding `http://purl.obolibrary.org/obo/GO_1903924` +#### Added +- [estradiol binding](http://purl.obolibrary.org/obo/GO_1903924) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### olfactory system `http://purl.obolibrary.org/obo/UBERON_0005725` -#### Removed -- [olfactory system](http://purl.obolibrary.org/obo/UBERON_0005725) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The sensory system used for olfaction (the sense of smell).[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" +### estradiol secreting cell `http://purl.obolibrary.org/obo/CL_0000180` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [estradiol secreting cell](http://purl.obolibrary.org/obo/CL_0000180) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009110" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000978" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### ethmoid bone primordium `http://purl.obolibrary.org/obo/UBERON_0006227` -- [olfactory system](http://purl.obolibrary.org/obo/UBERON_0005725) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In mammals, the main olfactory system detects odorants that are inhaled through the nose, where they contact the main olfactory epithelium, which contains various olfactory receptors. These olfactory receptors are membrane proteins of bipolar olfactory receptor neurons in the olfactory epithelium. Rather than binding specific ligands like most receptors, olfactory receptors display affinity for a range of odor molecules. Olfactory neurons transduce receptor activation into electrical signals in neurons. The signals travel along the olfactory nerve, which belongs to the peripheral nervous system. This nerve terminates in the olfactory bulb, which belongs to the central nervous system. The complex set of olfactory receptors on different olfactory neurons can distinguish a new odor from the background environmental odors and determine the concentration of the odor[WP]." +#### Added +- [ethmoid bone primordium](http://purl.obolibrary.org/obo/UBERON_0006227) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [olfactory system](http://purl.obolibrary.org/obo/UBERON_0005725) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The olfactory system is the sensory system used for olfaction, or the sense of smell. Most mammals and reptiles have two distinct parts to their olfactory system: a main olfactory system and an accessory olfactory system. The main olfactory system detects volatile, airborne substances, while the accessory olfactory system senses fluid-phase stimuli. Behavioral evidence indicates that most often, the stimuli detected by the accessory olfactory system are pheromones. The olfactory system is often spoken of along with the gustatory system as the chemosensory senses because both transduce chemical signals into perception[WP][Wikipedia:Olfactory_system]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Olfactory_system" +### ethmoid region `http://purl.obolibrary.org/obo/UBERON_0011241` +#### Added +- [ethmoid region](http://purl.obolibrary.org/obo/UBERON_0011241) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### olfactory tract `http://purl.obolibrary.org/obo/UBERON_0002265` -#### Removed -- [olfactory tract](http://purl.obolibrary.org/obo/UBERON_0002265) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The olfactory tract is a bundle of axons connecting the mitral and tufted cells of the olfactory bulb to several target regions in the brain, including piriform cortex, amygdala, and entorhinal cortex. It is a narrow white band, triangular on coronal section, the apex being directed upward. It lies in the olfactory sulcus on the inferior surface of the frontal lobe, and divides posteriorly into two striæ, a medial olfactory stria and a lateral olfactory stria.[Wikipedia]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Olfactory_tract" -- [olfactory tract](http://purl.obolibrary.org/obo/UBERON_0002265) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "The definition was adapted from the NIFSTD class which has been retired. It has been generalized so it is applicable to various different kinds of olfactory tracts found in different taxa." - - [editor](http://www.geneontology.org/formats/oboInOwl#editor) "cjm" +### eukaryotic cell `http://purl.obolibrary.org/obo/CL_0000255` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0471888893" +#### Added +- [eukaryotic cell](http://purl.obolibrary.org/obo/CL_0000255) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any cell that only exists in Eukaryota." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [olfactory tract](http://purl.obolibrary.org/obo/UBERON_0002265) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A nervelike, white band composed primarily of nerve fibres originating from the mitral cells and tufted cells of the olfactory bulb but also containing the scattered cells of the anterior olfactory nucleus[BTO:0003647]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "BTO:0003647" -- [olfactory tract](http://purl.obolibrary.org/obo/UBERON_0002265) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Tract of brain which is continuous with olfactory bulb and the cerebral cortex.[FMA]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA" +### eurydendroid cell `http://purl.obolibrary.org/obo/CL_0000253` -- [olfactory tract](http://purl.obolibrary.org/obo/UBERON_0002265) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "White matter tract that contains projections from the olfactory bulb to the olfactory cortex (Maryann Martone)" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "deprecated class" +#### Added +- [eurydendroid cell](http://purl.obolibrary.org/obo/CL_0000253) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009153" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "BIRNLEX:1663" -- [olfactory tract](http://purl.obolibrary.org/obo/UBERON_0002265) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in animals with a long snout, the olfactory tract is long, whereas it is short in short-snouted animals such as primates. In some birds the tract per se does not exist as the bulb is connected directly to the cerebral hemisphere.[ISBN:0471888893]" +### excreta `http://purl.obolibrary.org/obo/UBERON_0000174` +#### Added +- [excreta](http://purl.obolibrary.org/obo/UBERON_0000174) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### olfactory tract linking bulb to ipsilateral dorsal telencephalon `http://purl.obolibrary.org/obo/UBERON_0034730` -#### Removed -- [olfactory tract linking bulb to ipsilateral dorsal telencephalon](http://purl.obolibrary.org/obo/UBERON_0034730) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Telencephalic white matter which extends between the olfactory bulb and the ipsilateral dorsal telencephalon and carries secondary olfactory fibers. From Neuroanatomy of the Zebrafish Brain." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA:0000229" +### execution phase of apoptosis `http://purl.obolibrary.org/obo/GO_0097194` +#### Added +- [execution phase of apoptosis](http://purl.obolibrary.org/obo/GO_0097194) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### olfactory tract linking bulb to ipsilateral ventral telencephalon `http://purl.obolibrary.org/obo/UBERON_2000238` -#### Removed -- [olfactory tract linking bulb to ipsilateral ventral telencephalon](http://purl.obolibrary.org/obo/UBERON_2000238) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (teleost_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/tao.owl" +### exocrine cell `http://purl.obolibrary.org/obo/CL_0000152` +#### Added +- [exocrine cell](http://purl.obolibrary.org/obo/CL_0000152) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009092" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### olfactory tubercle `http://purl.obolibrary.org/obo/UBERON_0001883` +### exocrine gland `http://purl.obolibrary.org/obo/UBERON_0002365` #### Removed -- [olfactory tubercle](http://purl.obolibrary.org/obo/UBERON_0001883) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The olfactory tubercle is a structure involved in Olfaction. It is present in humans, but much smaller than it is in some other animals. It is a frequent subject of research." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Olfactory_tubercle" - -- [olfactory tubercle](http://purl.obolibrary.org/obo/UBERON_0001883) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [Primates](http://purl.obolibrary.org/obo/NCBITaxon_9443) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP" - - - [comment](http://www.w3.org/2000/01/rdf-schema#comment) "EDITOR_NOTE check EHDAA2" - -- [olfactory tubercle](http://purl.obolibrary.org/obo/UBERON_0001883) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Absent in primates" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP" +- [exocrine gland](http://purl.obolibrary.org/obo/UBERON_0002365) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [olfactory tubercle](http://purl.obolibrary.org/obo/UBERON_0001883) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [nucleus accumbens](http://purl.obolibrary.org/obo/UBERON_0001882) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" - -### omentum `http://purl.obolibrary.org/obo/UBERON_0003688` +### exocrine system `http://purl.obolibrary.org/obo/UBERON_0002330` #### Removed -- [omentum](http://purl.obolibrary.org/obo/UBERON_0003688) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "omental" +- [exocrine system](http://purl.obolibrary.org/obo/UBERON_0002330) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -#### Added -- [omentum](http://purl.obolibrary.org/obo/UBERON_0003688) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) -### omentum preadipocyte `http://purl.obolibrary.org/obo/CL_0002579` +### exocytosis `http://purl.obolibrary.org/obo/GO_0006887` #### Added -- [omentum preadipocyte](http://purl.obolibrary.org/obo/CL_0002579) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A preadipocyte that is part of an omentum." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:21484051" - - -### ommatidium `http://purl.obolibrary.org/obo/UBERON_0000971` -#### Removed -- [ommatidium](http://purl.obolibrary.org/obo/UBERON_0000971) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004510" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [exocytosis](http://purl.obolibrary.org/obo/GO_0006887) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [ommatidium](http://purl.obolibrary.org/obo/UBERON_0000971) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "ommatidial" - - -### only in taxon `http://purl.obolibrary.org/obo/RO_0002160` +### external soft tissue zone `http://purl.obolibrary.org/obo/UBERON_0034929` #### Removed -- [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) [id](http://www.geneontology.org/formats/oboInOwl#id) "only_in_taxon" +- [external soft tissue zone](http://purl.obolibrary.org/obo/UBERON_0034929) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +#### Added +- [external soft tissue zone](http://purl.obolibrary.org/obo/UBERON_0034929) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002160" -- [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [17921072](http://www.ncbi.nlm.nih.gov/pubmed/17921072) +### extracellular matrix `http://purl.obolibrary.org/obo/GO_0031012` -- [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) +#### Added +- [extracellular matrix](http://purl.obolibrary.org/obo/GO_0031012) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -- [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" -- [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "lactation SubClassOf 'only in taxon' some 'Mammalia'" +### extracellular matrix binding `http://purl.obolibrary.org/obo/GO_0050840` -- [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "only_in_taxon" +#### Added +- [extracellular matrix binding](http://purl.obolibrary.org/obo/GO_0050840) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [20973947](http://www.ncbi.nlm.nih.gov/pubmed/20973947) +### extracellular matrix secreting cell `http://purl.obolibrary.org/obo/CL_0000327` +#### Added +- [extracellular matrix secreting cell](http://purl.obolibrary.org/obo/CL_0000327) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009162" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### ontology `http://www.geneontology.org/formats/oboInOwl#ontology` -#### Removed -- AnnotationProperty: [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) +### extracellular region `http://purl.obolibrary.org/obo/GO_0005576` +#### Added +- [extracellular region](http://purl.obolibrary.org/obo/GO_0005576) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) -### opaque `http://purl.obolibrary.org/obo/PATO_0000963` -#### Removed -- [opaque](http://purl.obolibrary.org/obo/PATO_0000963) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [transparent](http://purl.obolibrary.org/obo/PATO_0000964) +- [extracellular region](http://purl.obolibrary.org/obo/GO_0005576) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) +- [extracellular region](http://purl.obolibrary.org/obo/GO_0005576) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -### open `http://purl.obolibrary.org/obo/PATO_0000610` +### extracellular space `http://purl.obolibrary.org/obo/GO_0005615` #### Removed -- [open](http://purl.obolibrary.org/obo/PATO_0000610) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [closed](http://purl.obolibrary.org/obo/PATO_0000608) +- [extracellular space](http://purl.obolibrary.org/obo/GO_0005615) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote](http://purl.obolibrary.org/obo/go#goslim_prokaryote) -### open tracheal system `http://purl.obolibrary.org/obo/UBERON_0005155` -#### Removed -- [open tracheal system](http://purl.obolibrary.org/obo/UBERON_0005155) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005024" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### extracellular transport `http://purl.obolibrary.org/obo/GO_0006858` +#### Added +- [extracellular transport](http://purl.obolibrary.org/obo/GO_0006858) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### ophthalmic artery `http://purl.obolibrary.org/obo/UBERON_0001619` -#### Removed -- [ophthalmic artery](http://purl.obolibrary.org/obo/UBERON_0001619) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of internal carotid (AAO:0010219)[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010497" +### extraembryonic cell `http://purl.obolibrary.org/obo/CL_0000349` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [extraembryonic cell](http://purl.obolibrary.org/obo/CL_0000349) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any cell that is part of some extraembryonic structure." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [extraembryonic cell](http://purl.obolibrary.org/obo/CL_0000349) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009176" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [ophthalmic artery](http://purl.obolibrary.org/obo/UBERON_0001619) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of internal carotid which carries blood via branches to the eye, the eye muscles, and eyelids.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010497" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### extraembryonic structure `http://purl.obolibrary.org/obo/UBERON_0000478` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [extraembryonic structure](http://purl.obolibrary.org/obo/UBERON_0000478) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005835" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +### extramedullary cell `http://purl.obolibrary.org/obo/CL_0000251` +#### Added +- [extramedullary cell](http://purl.obolibrary.org/obo/CL_0000251) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009152" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### ophthalmic nerve `http://purl.obolibrary.org/obo/UBERON_0000348` -#### Removed -- [ophthalmic nerve](http://purl.obolibrary.org/obo/UBERON_0000348) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The profundus nerve is a distinct nerve only in fishes. (...) In mammals, the profundus nerve is the same as the most rostral (ophthalmic) branch of the trigeminal nerve.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001349" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### eye `http://purl.obolibrary.org/obo/UBERON_0000970` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [eye](http://purl.obolibrary.org/obo/UBERON_0000970) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005162" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0471210054 Butler AB and Hodos W, Comparative vertebrate neuroanatomy: Evolution and Adaptation (2005) p.177" +### eye photoreceptor cell `http://purl.obolibrary.org/obo/CL_0000287` -- [ophthalmic nerve](http://purl.obolibrary.org/obo/UBERON_0000348) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Sensory medial ramus of the trigeminal nerve.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" +#### Added +- [eye photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000287) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009154" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010648" +- [eye photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000287) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any photoreceptor cell that is part of some eye." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### face `http://purl.obolibrary.org/obo/UBERON_0001456` -- [ophthalmic nerve](http://purl.obolibrary.org/obo/UBERON_0000348) SubClassOf [branching part of](http://purl.obolibrary.org/obo/RO_0002380) some [trigeminal nerve](http://purl.obolibrary.org/obo/UBERON_0001645) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "multiple" +#### Added +- [face](http://purl.obolibrary.org/obo/UBERON_0001456) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "may be a distinct nerve in teleosts" -- [ophthalmic nerve](http://purl.obolibrary.org/obo/UBERON_0000348) SubClassOf [nerve](http://purl.obolibrary.org/obo/UBERON_0001021) +### face morphogenesis `http://purl.obolibrary.org/obo/GO_0060325` #### Added -- [ophthalmic nerve](http://purl.obolibrary.org/obo/UBERON_0000348) SubClassOf [nerve of head region](http://purl.obolibrary.org/obo/UBERON_0011779) +- [face morphogenesis](http://purl.obolibrary.org/obo/GO_0060325) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [ophthalmic nerve](http://purl.obolibrary.org/obo/UBERON_0000348) SubClassOf [branching part of](http://purl.obolibrary.org/obo/RO_0002380) some [trigeminal nerve](http://purl.obolibrary.org/obo/UBERON_0001645) +### facio-acoustic VII-VIII preganglion complex `http://purl.obolibrary.org/obo/UBERON_0006232` -### optic chiasma `http://purl.obolibrary.org/obo/UBERON_0000959` -#### Removed -- [optic chiasma](http://purl.obolibrary.org/obo/UBERON_0000959) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The point at which fibers of the optic nerves cross.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010622" +#### Added +- [facio-acoustic VII-VIII preganglion complex](http://purl.obolibrary.org/obo/UBERON_0006232) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:DSM" +### fast muscle cell `http://purl.obolibrary.org/obo/CL_0000190` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [fast muscle cell](http://purl.obolibrary.org/obo/CL_0000190) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009117" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [optic chiasma](http://purl.obolibrary.org/obo/UBERON_0000959) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The chiasm has been studied in great detail in some animals, while in others relatively little or nothing is known. Although there are some gross architectural features that are conserved within some animals, such as birds and fish, the general picture is one of diversity. This review will attempt to consider the key features of such diversity of chiasmatic organisation in vertebrates and the mechanisms that sculpt them from the limited literature that is available. However, as so much research has been undertaken on the structure and development of the chiasm in laboratory animals, any review must consider the information that has been gleaned from them and hope that future studies will determine whether the features revealed in these animals, and the underlying mechanisms that generate them, have a common vertebrate plan.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/j.preteyeres.2005.04.005 Jeffery G, Erskine L, Variations in the architecture and development of the vertebrate optic chiasm. Progress in retinal and eye research (2005)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### fast muscle myoblast `http://purl.obolibrary.org/obo/CL_0000858` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [fast muscle myoblast](http://purl.obolibrary.org/obo/CL_0000858) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009369" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000190" +### fat cell proliferation `http://purl.obolibrary.org/obo/GO_0070341` +#### Added +- [fat cell proliferation](http://purl.obolibrary.org/obo/GO_0070341) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### optic choroid `http://purl.obolibrary.org/obo/UBERON_0001776` +### female germ line stem cell `http://purl.obolibrary.org/obo/CL_0000022` #### Removed -- [optic choroid](http://purl.obolibrary.org/obo/UBERON_0001776) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MP treats posterior uvea and optic choroid as distinct" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MP" - -- [optic choroid](http://purl.obolibrary.org/obo/UBERON_0001776) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "choroidal" +- [female germ line stem cell](http://purl.obolibrary.org/obo/CL_0000022) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004873" +#### Added +- [female germ line stem cell](http://purl.obolibrary.org/obo/CL_0000022) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004873" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### optic cup `http://purl.obolibrary.org/obo/UBERON_0003072` +### female meiosis chromosome segregation `http://purl.obolibrary.org/obo/GO_0016321` #### Removed -- [optic cup](http://purl.obolibrary.org/obo/UBERON_0003072) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429" +- [female meiosis chromosome segregation](http://purl.obolibrary.org/obo/GO_0016321) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### female meiotic nuclear division `http://purl.obolibrary.org/obo/GO_0007143` +#### Removed +- [female meiotic nuclear division](http://purl.obolibrary.org/obo/GO_0007143) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000167" +### female organism `http://purl.obolibrary.org/obo/UBERON_0003100` -### optic eminence surface ectoderm `http://purl.obolibrary.org/obo/UBERON_0005216` -#### Removed -- [optic eminence surface ectoderm](http://purl.obolibrary.org/obo/UBERON_0005216) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VHOG:0000520" +#### Added +- [female organism](http://purl.obolibrary.org/obo/UBERON_0003100) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007011" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [optic eminence surface ectoderm](http://purl.obolibrary.org/obo/UBERON_0005216) [id](http://www.geneontology.org/formats/oboInOwl#id) "UBERON:0005216" -- [optic eminence surface ectoderm](http://purl.obolibrary.org/obo/UBERON_0005216) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:16539" +### female reproductive system `http://purl.obolibrary.org/obo/UBERON_0000474` -- [optic eminence surface ectoderm](http://purl.obolibrary.org/obo/UBERON_0005216) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RETIRED_EHDAA2:0001311" +#### Added +- [female reproductive system](http://purl.obolibrary.org/obo/UBERON_0000474) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004864" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [optic eminence surface ectoderm](http://purl.obolibrary.org/obo/UBERON_0005216) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" -- [optic eminence surface ectoderm](http://purl.obolibrary.org/obo/UBERON_0005216) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "An external ectoderm that is part of a optic eminence [Automatically generated definition]." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "OBOL:automatic" +### fenestrated cell `http://purl.obolibrary.org/obo/CL_0000666` -- [optic eminence surface ectoderm](http://purl.obolibrary.org/obo/UBERON_0005216) [label](http://www.w3.org/2000/01/rdf-schema#label) "optic eminence surface ectoderm" +#### Added +- [fenestrated cell](http://purl.obolibrary.org/obo/CL_0000666) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009286" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- Class: [optic eminence surface ectoderm](http://purl.obolibrary.org/obo/UBERON_0005216) -- [optic eminence surface ectoderm](http://purl.obolibrary.org/obo/UBERON_0005216) EquivalentTo [external ectoderm](http://purl.obolibrary.org/obo/UBERON_0000076) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [optic eminence](http://purl.obolibrary.org/obo/UBERON_0004348)) +### fertilization `http://purl.obolibrary.org/obo/GO_0009566` -- [optic eminence surface ectoderm](http://purl.obolibrary.org/obo/UBERON_0005216) SubClassOf [external ectoderm](http://purl.obolibrary.org/obo/UBERON_0000076) +#### Added +- [fertilization](http://purl.obolibrary.org/obo/GO_0009566) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [optic eminence surface ectoderm](http://purl.obolibrary.org/obo/UBERON_0005216) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [optic eminence ectoderm](http://purl.obolibrary.org/obo/UBERON_0005234) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships" - - [is_inferred](http://www.geneontology.org/formats/oboInOwl#is_inferred) "true" +### fetal derived definitive erythrocyte `http://purl.obolibrary.org/obo/CL_0002357` +#### Removed +- [fetal derived definitive erythrocyte](http://purl.obolibrary.org/obo/CL_0002357) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### optic foramen `http://purl.obolibrary.org/obo/UBERON_0005745` +### fetal liver hematopoietic progenitor cell `http://purl.obolibrary.org/obo/CL_0002353` #### Removed -- [optic foramen](http://purl.obolibrary.org/obo/UBERON_0005745) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An aperture in the root of the lesser wing of the sphenoid bone transmitting the optic nerve. [TFD][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001408" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [fetal liver hematopoietic progenitor cell](http://purl.obolibrary.org/obo/CL_0002353) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/optic+foramen" +### fibrillar collagen trimer `http://purl.obolibrary.org/obo/GO_0005583` -- [optic foramen](http://purl.obolibrary.org/obo/UBERON_0005745) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Foramen in the orbital region of the neurocranium for the passage of the optic nerve (cranial nerve II).[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002025" +#### Added +- [fibrillar collagen trimer](http://purl.obolibrary.org/obo/GO_0005583) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### fibrinogen complex `http://purl.obolibrary.org/obo/GO_0005577` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" +#### Added +- [fibrinogen complex](http://purl.obolibrary.org/obo/GO_0005577) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -- [optic foramen](http://purl.obolibrary.org/obo/UBERON_0005745) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The short canal through the orbitosphenoid bone at the apex of the orbit that gives passage to the optic nerve and the opthalmic artery" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "MP" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "MP:0010704" +### fibroblast `http://purl.obolibrary.org/obo/CL_0000057` #### Added -- [optic foramen](http://purl.obolibrary.org/obo/UBERON_0005745) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) +- [fibroblast](http://purl.obolibrary.org/obo/CL_0000057) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009026" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [optic foramen](http://purl.obolibrary.org/obo/UBERON_0005745) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [fibroblast](http://purl.obolibrary.org/obo/CL_0000057) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### optic neural crest `http://purl.obolibrary.org/obo/UBERON_0009920` -#### Removed -- [optic neural crest](http://purl.obolibrary.org/obo/UBERON_0009920) SubClassOf [head mesenchyme](http://purl.obolibrary.org/obo/UBERON_0005253) +### fibroblast activation `http://purl.obolibrary.org/obo/GO_0072537` #### Added -- [optic neural crest](http://purl.obolibrary.org/obo/UBERON_0009920) SubClassOf [mesenchyme derived from head neural crest](http://purl.obolibrary.org/obo/UBERON_0007213) +- [fibroblast activation](http://purl.obolibrary.org/obo/GO_0072537) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### optic stalk `http://purl.obolibrary.org/obo/UBERON_0003098` -#### Removed -- [optic stalk](http://purl.obolibrary.org/obo/UBERON_0003098) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429" +### fibroblast migration `http://purl.obolibrary.org/obo/GO_0010761` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [fibroblast migration](http://purl.obolibrary.org/obo/GO_0010761) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### fibroblast of dermis `http://purl.obolibrary.org/obo/CL_0002551` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000223" +#### Added +- [fibroblast of dermis](http://purl.obolibrary.org/obo/CL_0002551) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any skin fibroblast that is part of some dermis." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [optic stalk](http://purl.obolibrary.org/obo/UBERON_0003098) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The evagination from the neural tube of the developing embryo which develops the optic cup at its extremity; the stalk persists as the optic nerve. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/optic+stalk" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### fibroblast of gingiva `http://purl.obolibrary.org/obo/CL_0002552` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [fibroblast of gingiva](http://purl.obolibrary.org/obo/CL_0002552) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any fibroblast that is part of some gingiva." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000223" +### fibroblast proliferation `http://purl.obolibrary.org/obo/GO_0048144` +#### Added +- [fibroblast proliferation](http://purl.obolibrary.org/obo/GO_0048144) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### optic tract `http://purl.obolibrary.org/obo/UBERON_0001908` +### fibrocartilage `http://purl.obolibrary.org/obo/UBERON_0001995` #### Removed -- [optic tract](http://purl.obolibrary.org/obo/UBERON_0001908) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:16678" - +- [fibrocartilage](http://purl.obolibrary.org/obo/UBERON_0001995) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### optic vesicle `http://purl.obolibrary.org/obo/UBERON_0004128` -#### Removed -- [optic vesicle](http://purl.obolibrary.org/obo/UBERON_0004128) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### fibrous astrocyte `http://purl.obolibrary.org/obo/CL_4042008` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [fibrous astrocyte](http://purl.obolibrary.org/obo/CL_4042008) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A cell type located in the first layer of the neocortex with radial protrusions extending transversely into the deeper cortex layers, herby facilitating communication across neurons, astrocytes, capillaries, meninges and cerebrospinal fluid through contact with neurons, pia mater and capillaries." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:31435019" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34616062" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000165" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:28280934" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:19279265" -### oral cavity `http://purl.obolibrary.org/obo/UBERON_0000167` -#### Removed -- [oral cavity](http://purl.obolibrary.org/obo/UBERON_0000167) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D009055" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:22144298" - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +- [fibrous astrocyte](http://purl.obolibrary.org/obo/CL_4042008) [contributor](http://purl.org/dc/terms/contributor) [0000-0002-0098-8958](https://orcid.org/0000-0002-0098-8958) -- [oral cavity](http://purl.obolibrary.org/obo/UBERON_0000167) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The cavity of the mouth, bounded by the jaw bones and associated structures (muscles and mucosa). [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/oral+cavity" +- [fibrous astrocyte](http://purl.obolibrary.org/obo/CL_4042008) [date](http://purl.org/dc/terms/date) "2024-04-08T16:29:28Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [fibrous astrocyte](http://purl.obolibrary.org/obo/CL_4042008) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "In humans, a fibrous astrocyte diameter is circa 182 µm. In rodents, a fibrous astrocyte diameter is circa 85 µm." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:28280934" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [fibrous astrocyte](http://purl.obolibrary.org/obo/CL_4042008) [label](http://www.w3.org/2000/01/rdf-schema#label) "fibrous astrocyte"@en - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- Class: [fibrous astrocyte](http://purl.obolibrary.org/obo/CL_4042008) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000188" +- [fibrous astrocyte](http://purl.obolibrary.org/obo/CL_4042008) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [white matter](http://purl.obolibrary.org/obo/UBERON_0002316) -- [oral cavity](http://purl.obolibrary.org/obo/UBERON_0000167) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cavity bounded anteriorly by the mouth and posteriorly by the derivatives of the branchial arches.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000960" +- [fibrous astrocyte](http://purl.obolibrary.org/obo/CL_4042008) SubClassOf [neural crest derived neuron](http://purl.obolibrary.org/obo/CL_0000029) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" +- [fibrous astrocyte](http://purl.obolibrary.org/obo/CL_4042008) SubClassOf [central nervous system neuron](http://purl.obolibrary.org/obo/CL_2000029) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [fibrous astrocyte](http://purl.obolibrary.org/obo/CL_4042008) SubClassOf [has soma location](http://purl.obolibrary.org/obo/RO_0002100) some [white matter](http://purl.obolibrary.org/obo/UBERON_0002316) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [fibrous astrocyte](http://purl.obolibrary.org/obo/CL_4042008) SubClassOf [astrocyte](http://purl.obolibrary.org/obo/CL_0000127) -- [oral cavity](http://purl.obolibrary.org/obo/UBERON_0000167) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Echinoderms, hemichordates, and chordates are called deuterostomes because the mouth arises not from the blastopore but from a second invagination at the anterior end of the larva that pushes in to connect with the archenteron.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### fibrous membrane of synovial tendon sheath `http://purl.obolibrary.org/obo/UBERON_0011234` +#### Removed +- [fibrous membrane of synovial tendon sheath](http://purl.obolibrary.org/obo/UBERON_0011234) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.32" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000188" +### fibrous pericardium `http://purl.obolibrary.org/obo/UBERON_0002359` +#### Added +- [fibrous pericardium](http://purl.obolibrary.org/obo/UBERON_0002359) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### oral epithelium `http://purl.obolibrary.org/obo/UBERON_0002424` +### follicle cell of egg chamber `http://purl.obolibrary.org/obo/CL_0000477` #### Removed -- [oral epithelium](http://purl.obolibrary.org/obo/UBERON_0002424) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The epithelium that lines the oral cavity. The oral epithelium epithelial cells with many short microvilli as well as mucous cells, rodlet cells and taste buds[ZFIN:ZDB-PUB-060921-12, ZFIN:ZDB-PUB-091204-24]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA:0000816" +- [follicle cell of egg chamber](http://purl.obolibrary.org/obo/CL_0000477) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004904" -- [oral epithelium](http://purl.obolibrary.org/obo/UBERON_0002424) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "the avian oral epithelium has the developmental capacity to initiate tooth developmental programs with underlying grafts of non-avian oral ectomesenchyme" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:16488870" +#### Added +- [follicle cell of egg chamber](http://purl.obolibrary.org/obo/CL_0000477) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004904" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [follicle cell of egg chamber](http://purl.obolibrary.org/obo/CL_0000477) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### oral gland `http://purl.obolibrary.org/obo/UBERON_0010047` +### follicle cell of egg chamber development `http://purl.obolibrary.org/obo/GO_0030707` #### Removed -- [oral gland](http://purl.obolibrary.org/obo/UBERON_0010047) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Note that Kardong classifies lacrimal glands here. EHDAA2 includes pituitary primordium, as this develops from oral mucosa" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" +- [follicle cell of egg chamber development](http://purl.obolibrary.org/obo/GO_0030707) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) -### oral opening `http://purl.obolibrary.org/obo/UBERON_0000166` +### follicle cell of egg chamber migration `http://purl.obolibrary.org/obo/GO_0007297` #### Removed -- [oral opening](http://purl.obolibrary.org/obo/UBERON_0000166) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) mouth development is very similar in protostomes and 'basal' deuterostomes, whereas the chordate mouth seems to develop at a new position. Recent data for echinoderms and hemichordates further suggest that this change in mouth position may result from change in the influence of a conserved ectodermal patterning system on mouth development. It has been suggested that the mouths of vertebrates and urochordates may constitute a 'new' mouth.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [follicle cell of egg chamber migration](http://purl.obolibrary.org/obo/GO_0007297) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000280" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/j.semcdb.2007.06.002 Christiaen L, Jaszczyszyn Y, Kerfant M, Kanob S, Thermes V, Joly JS, Evolutionary modification of mouth position in deuterostomes. Seminars in Cell and Developmental Biology (2007)" +### follicle stem cell (sensu Arthropoda) `http://purl.obolibrary.org/obo/CL_0000441` +#### Removed +- [follicle stem cell (sensu Arthropoda)](http://purl.obolibrary.org/obo/CL_0000441) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004903" +#### Added +- [follicle stem cell (sensu Arthropoda)](http://purl.obolibrary.org/obo/CL_0000441) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004903" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### orbit of skull `http://purl.obolibrary.org/obo/UBERON_0001697` -#### Removed -- [orbit of skull](http://purl.obolibrary.org/obo/UBERON_0001697) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA, this overlaps with bones such as the maxilla and sphenoid; in ZFA, individual bones are part of the orbit" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" -- [orbit of skull](http://purl.obolibrary.org/obo/UBERON_0001697) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster that is a anterolateral part of the cranium and structurally supports the eye.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:MAH" +### follicular dendritic cell activation `http://purl.obolibrary.org/obo/GO_0002266` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001410" +#### Added +- [follicular dendritic cell activation](http://purl.obolibrary.org/obo/GO_0002266) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### follicular fluid `http://purl.obolibrary.org/obo/UBERON_0000038` #### Added -- [orbit of skull](http://purl.obolibrary.org/obo/UBERON_0001697) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) +- [follicular fluid](http://purl.obolibrary.org/obo/UBERON_0000038) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### orbital cavity `http://purl.obolibrary.org/obo/UBERON_0004867` -#### Removed -- [orbital cavity](http://purl.obolibrary.org/obo/UBERON_0004867) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "note that the AAO and ZFA class is a cavity" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "AAO" - - - [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "https://github.com/obophenotype/uberon/issues/462" +### folliculostellate cell `http://purl.obolibrary.org/obo/CL_0000642` +#### Added +- [folliculostellate cell](http://purl.obolibrary.org/obo/CL_0000642) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009281" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### orbital fissure `http://purl.obolibrary.org/obo/UBERON_0006271` +### forebrain morphogenesis `http://purl.obolibrary.org/obo/GO_0048853` #### Added -- [orbital fissure](http://purl.obolibrary.org/obo/UBERON_0006271) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) +- [forebrain morphogenesis](http://purl.obolibrary.org/obo/GO_0048853) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### orbital region `http://purl.obolibrary.org/obo/UBERON_0004088` -#### Removed -- [orbital region](http://purl.obolibrary.org/obo/UBERON_0004088) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in HP covers eyelid, eyebrow." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "HP:0000284" +### forebrain neuroblast `http://purl.obolibrary.org/obo/CL_1000042` +#### Added +- [forebrain neuroblast](http://purl.obolibrary.org/obo/CL_1000042) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any neuroblast (sensu Vertebrata) that is part of some forebrain." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### orbitosphenoid `http://purl.obolibrary.org/obo/UBERON_0002478` -#### Removed -- [orbitosphenoid](http://purl.obolibrary.org/obo/UBERON_0002478) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: overlaps orbitosphenoid-lateral ethmoid joint (TAO:0001941)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000253" +### forebrain radial glial cell `http://purl.obolibrary.org/obo/CL_0013000` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [forebrain radial glial cell](http://purl.obolibrary.org/obo/CL_0013000) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any radial glial cell that is part of some forebrain." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" -- [orbitosphenoid](http://purl.obolibrary.org/obo/UBERON_0002478) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: overlaps neurocranium (TAO:0001580) CHANGED TO: part_of neurocranium (UBERON:0001703)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000253" +### foregut `http://purl.obolibrary.org/obo/UBERON_0001041` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [foregut](http://purl.obolibrary.org/obo/UBERON_0001041) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005379" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" -- [orbitosphenoid](http://purl.obolibrary.org/obo/UBERON_0002478) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Large median unpaired cartilage bone consisting of two diverging plates. Positioned medial to the eye. The orbitosphenoid develops from the Trabeculae communis and forms the anterior and anterolateral boundary of the orbital foramen and constitutes a significant part of the sidewalls and floor of the cranial cavity. Bordered by the lateral ethmoid anteriorly, and the pterosphenoid posteriorly, The orbitosphenoid may extend ventrally to meet the parasphenoid. In the adult, the orbitosphenoid is fused ventrally to the parasphenoid via a thin sheet of bone.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +### foregut morphogenesis `http://purl.obolibrary.org/obo/GO_0007440` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000253" +#### Added +- [foregut morphogenesis](http://purl.obolibrary.org/obo/GO_0007440) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### foreskin melanocyte `http://purl.obolibrary.org/obo/CL_2000045` +#### Removed +- [foreskin melanocyte](http://purl.obolibrary.org/obo/CL_2000045) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any melanocyte that is part of a prepuce of penis." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:TermGenie" -- [orbitosphenoid](http://purl.obolibrary.org/obo/UBERON_0002478) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: overlaps neurocranium (TAO:0001580) CHANGED TO: develops_from neurocranium (UBERON:0001703)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000253" +- [foreskin melanocyte](http://purl.obolibrary.org/obo/CL_2000045) EquivalentTo [melanocyte](http://purl.obolibrary.org/obo/CL_0000148) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [prepuce of penis](http://purl.obolibrary.org/obo/UBERON_0001332)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [foreskin melanocyte](http://purl.obolibrary.org/obo/CL_2000045) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [prepuce of penis](http://purl.obolibrary.org/obo/UBERON_0001332) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [foreskin melanocyte](http://purl.obolibrary.org/obo/CL_2000045) SubClassOf [melanocyte](http://purl.obolibrary.org/obo/CL_0000148) -- [orbitosphenoid](http://purl.obolibrary.org/obo/UBERON_0002478) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: overlaps orbitosphenoid-prootic joint (TAO:0001794)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000253" +#### Added +- [foreskin melanocyte](http://purl.obolibrary.org/obo/CL_2000045) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any melanocyte of skin that is part of a skin of prepuce of penis." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:TermGenie" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [foreskin melanocyte](http://purl.obolibrary.org/obo/CL_2000045) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "melanocyte of foreskin" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [foreskin melanocyte](http://purl.obolibrary.org/obo/CL_2000045) [contributor](http://purl.org/dc/terms/contributor) [0009-0000-8480-9277](https://orcid.org/0009-0000-8480-9277) -- [orbitosphenoid](http://purl.obolibrary.org/obo/UBERON_0002478) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: overlaps pterosphenoid-orbitosphenoid joint (TAO:0001831)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000253" +- [foreskin melanocyte](http://purl.obolibrary.org/obo/CL_2000045) EquivalentTo [melanocyte of skin](http://purl.obolibrary.org/obo/CL_1000458) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [skin of prepuce of penis](http://purl.obolibrary.org/obo/UBERON_0001471)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [foreskin melanocyte](http://purl.obolibrary.org/obo/CL_2000045) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [skin of prepuce of penis](http://purl.obolibrary.org/obo/UBERON_0001471) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [foreskin melanocyte](http://purl.obolibrary.org/obo/CL_2000045) SubClassOf [melanocyte of skin](http://purl.obolibrary.org/obo/CL_1000458) -- [orbitosphenoid](http://purl.obolibrary.org/obo/UBERON_0002478) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of braincase and otic capsule skeleton (AAO:0000052)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000345" +### formation of anatomical boundary `http://purl.obolibrary.org/obo/GO_0048859` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [formation of anatomical boundary](http://purl.obolibrary.org/obo/GO_0048859) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [orbitosphenoid](http://purl.obolibrary.org/obo/UBERON_0002478) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Endochondral ossification of the lateral sides of the braincase.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### formation of primary germ layer `http://purl.obolibrary.org/obo/GO_0001704` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000345" +#### Added +- [formation of primary germ layer](http://purl.obolibrary.org/obo/GO_0001704) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" -- [orbitosphenoid](http://purl.obolibrary.org/obo/UBERON_0002478) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: develops_from taenia marginalis anterior (TAO:0001505)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000253" +### function `http://purl.obolibrary.org/obo/BFO_0000034` +#### Removed +- [function](http://purl.obolibrary.org/obo/BFO_0000034) [label](http://www.w3.org/2000/01/rdf-schema#label) "function"@en - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- Class: [function](http://purl.obolibrary.org/obo/BFO_0000034) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [function](http://purl.obolibrary.org/obo/BFO_0000034) SubClassOf [disposition](http://purl.obolibrary.org/obo/BFO_0000016) -### orbitosphenoid cartilage element `http://purl.obolibrary.org/obo/UBERON_0005687` +### function of `http://purl.obolibrary.org/obo/RO_0000079` +#### Removed +- [function of](http://purl.obolibrary.org/obo/RO_0000079) [editor note](http://purl.obolibrary.org/obo/IAO_0000116) "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists."@en -#### Added -- [orbitosphenoid cartilage element](http://purl.obolibrary.org/obo/UBERON_0005687) SubClassOf [mesenchyme derived from neural crest](http://purl.obolibrary.org/obo/UBERON_0014387) +- [function of](http://purl.obolibrary.org/obo/RO_0000079) [label](http://www.w3.org/2000/01/rdf-schema#label) "function of"@en +- [function of](http://purl.obolibrary.org/obo/RO_0000079) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence"@en -### order `http://www.geneontology.org/formats/oboInOwl#order` -#### Removed -- AnnotationProperty: [order](http://www.geneontology.org/formats/oboInOwl#order) +- [function of](http://purl.obolibrary.org/obo/RO_0000079) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." +- ObjectProperty: [function of](http://purl.obolibrary.org/obo/RO_0000079) +- [function of](http://purl.obolibrary.org/obo/RO_0000079) InverseOf [has function](http://purl.obolibrary.org/obo/RO_0000085) -### organ `http://purl.obolibrary.org/obo/UBERON_0000062` -#### Removed -- [organ](http://purl.obolibrary.org/obo/UBERON_0000062) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "CARO v1 does not include a generic 'organ' class, only simple and compound organ. CARO v2 may include organ, see https://github.com/obophenotype/caro/issues/4" +- [function of](http://purl.obolibrary.org/obo/RO_0000079) Domain [function](http://purl.obolibrary.org/obo/BFO_0000034) -- [organ](http://purl.obolibrary.org/obo/UBERON_0000062) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organs are commonly observed as visibly distinct structures, but may also exist as loosely associated clusters of cells that work together to perform a specific function or functions." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO:0048513" +- [function of](http://purl.obolibrary.org/obo/RO_0000079) SubPropertyOf: [characteristic of](http://purl.obolibrary.org/obo/RO_0000052) -### organ part `http://purl.obolibrary.org/obo/UBERON_0000064` -#### Removed -- [organ part](http://purl.obolibrary.org/obo/UBERON_0000064) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "currently defined in a very broad sense, may be replaced by more specific classes in the future" +### fundic gastric gland `http://purl.obolibrary.org/obo/UBERON_0010038` +#### Added +- [fundic gastric gland](http://purl.obolibrary.org/obo/UBERON_0010038) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### organ subunit `http://purl.obolibrary.org/obo/UBERON_0000063` +### fundus of stomach `http://purl.obolibrary.org/obo/UBERON_0001160` #### Removed -- [organ subunit](http://purl.obolibrary.org/obo/UBERON_0000063) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organ region with one or more anchored fiat boundaries. Examples: artery, trunk of nerve, cervical part of esophagus, pelvic part of vagina, horn of thyroid cartilage, anterior segment of eyeball." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:86140" - - - [version](http://www.geneontology.org/formats/oboInOwl#version) "3" +- [fundus of stomach](http://purl.obolibrary.org/obo/UBERON_0001160) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [organ subunit](http://purl.obolibrary.org/obo/UBERON_0000063) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organ region with one or more fixed or anchored fiat boundaries. Examples: artery, trunk of nerve, cervical part of esophagus, pelvic part of vagina, horn of thyroid cartilage, anterior segment of eyebal." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:86140" +#### Added +- [fundus of stomach](http://purl.obolibrary.org/obo/UBERON_0001160) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [version](http://www.geneontology.org/formats/oboInOwl#version) "1" +### fungal cell `http://purl.obolibrary.org/obo/CL_0000521` +#### Added +- [fungal cell](http://purl.obolibrary.org/obo/CL_0000521) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any cell that only exists in Fungi." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### organ system subdivision `http://purl.obolibrary.org/obo/UBERON_0011216` -#### Removed -- [organ system subdivision](http://purl.obolibrary.org/obo/UBERON_0011216) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007330" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### future central nervous system `http://purl.obolibrary.org/obo/UBERON_0016879` +#### Added +- [future central nervous system](http://purl.obolibrary.org/obo/UBERON_0016879) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### organism subdivision `http://purl.obolibrary.org/obo/UBERON_0000475` -#### Removed -- [organism subdivision](http://purl.obolibrary.org/obo/UBERON_0000475) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007009" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### future dermis `http://purl.obolibrary.org/obo/UBERON_0010083` +#### Added +- [future dermis](http://purl.obolibrary.org/obo/UBERON_0010083) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### organism substance `http://purl.obolibrary.org/obo/UBERON_0000463` -#### Removed -- [organism substance](http://purl.obolibrary.org/obo/UBERON_0000463) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007019" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [organism substance](http://purl.obolibrary.org/obo/UBERON_0000463) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [multicellular organism](http://purl.obolibrary.org/obo/UBERON_0000468) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "this relationship may be too strong and may be weakened in future" +### future diaphragm `http://purl.obolibrary.org/obo/UBERON_0010084` #### Added -- [organism substance](http://purl.obolibrary.org/obo/UBERON_0000463) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [multicellular organism](http://purl.obolibrary.org/obo/UBERON_0000468) +- [future diaphragm](http://purl.obolibrary.org/obo/UBERON_0010084) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### organizational term `http://purl.obolibrary.org/obo/IAO_0000121` -#### Removed -- [organizational term](http://purl.obolibrary.org/obo/IAO_0000121) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "organizational term"@en +### future lower lip `http://purl.obolibrary.org/obo/UBERON_0011596` +#### Added +- [future lower lip](http://purl.obolibrary.org/obo/UBERON_0011596) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### orifice `http://purl.obolibrary.org/obo/UBERON_0000161` -#### Removed -- [orifice](http://purl.obolibrary.org/obo/UBERON_0000161) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA, this is an anatomical conduit *space*, rather than anatomical conduit" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +### future meninx `http://purl.obolibrary.org/obo/UBERON_0007645` +#### Added +- [future meninx](http://purl.obolibrary.org/obo/UBERON_0007645) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### os clitoris `http://purl.obolibrary.org/obo/UBERON_0006440` +### future mouth `http://purl.obolibrary.org/obo/UBERON_0035804` #### Added -- [os clitoris](http://purl.obolibrary.org/obo/UBERON_0006440) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [future mouth](http://purl.obolibrary.org/obo/UBERON_0035804) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### os penis `http://purl.obolibrary.org/obo/UBERON_0006435` -#### Removed -- [os penis](http://purl.obolibrary.org/obo/UBERON_0006435) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "found in most mammals, with the exception of humans" +### future pituitary gland `http://purl.obolibrary.org/obo/UBERON_0034875` #### Added -- [os penis](http://purl.obolibrary.org/obo/UBERON_0006435) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [future pituitary gland](http://purl.obolibrary.org/obo/UBERON_0034875) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### osseus cochlea `http://purl.obolibrary.org/obo/UBERON_0007223` -#### Removed -- [osseus cochlea](http://purl.obolibrary.org/obo/UBERON_0007223) SubClassOf [anatomical structure](http://purl.obolibrary.org/obo/UBERON_0000061) +### future telencephalon `http://purl.obolibrary.org/obo/UBERON_0014371` #### Added -- [osseus cochlea](http://purl.obolibrary.org/obo/UBERON_0007223) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [future telencephalon](http://purl.obolibrary.org/obo/UBERON_0014371) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### osteoid `http://purl.obolibrary.org/obo/UBERON_0008883` -#### Removed -- [osteoid](http://purl.obolibrary.org/obo/UBERON_0008883) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Note that in VSAO this was classified both as tissue and acellular extracellular matrix. Consider also the AEO class 'bone condensation'. is_a intercellular matrix in FMA." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "VSAO" - -- [osteoid](http://purl.obolibrary.org/obo/UBERON_0008883) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Newly formed organic bone matrix secreted by osteoblasts, that exists prior to calcification; it is comprised mainly of type I collagen fibers, chondroitin sulfate and osteocalci[ISBN:0-683-40008-8]n" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0010924" +### future trigeminal ganglion `http://purl.obolibrary.org/obo/UBERON_0006304` - - [reference](http://www.geneontology.org/formats/oboInOwl#reference) "ISBN:0-683-40008-8" +#### Added +- [future trigeminal ganglion](http://purl.obolibrary.org/obo/UBERON_0006304) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [osteoid](http://purl.obolibrary.org/obo/UBERON_0008883) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Bone tissue that is an unmineralized bone matrix deposited by osteoblasts prior to the mineralization of bone tissue.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000046" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070" +### future upper lip `http://purl.obolibrary.org/obo/UBERON_0011592` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [future upper lip](http://purl.obolibrary.org/obo/UBERON_0011592) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" +### gallbladder primordium `http://purl.obolibrary.org/obo/UBERON_0006242` +#### Added +- [gallbladder primordium](http://purl.obolibrary.org/obo/UBERON_0006242) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### otic capsule `http://purl.obolibrary.org/obo/UBERON_0004637` +### gamete `http://purl.obolibrary.org/obo/CL_0000300` #### Removed -- [otic capsule](http://purl.obolibrary.org/obo/UBERON_0004637) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of occipito-petrosal (AAO:0010831)[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010143" +- [gamete](http://purl.obolibrary.org/obo/CL_0000300) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005412" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [gamete](http://purl.obolibrary.org/obo/CL_0000300) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005412" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [gamete](http://purl.obolibrary.org/obo/CL_0000300) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009156" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [otic capsule](http://purl.obolibrary.org/obo/UBERON_0004637) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0005981" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +### gamma-aminobutyric acid transport `http://purl.obolibrary.org/obo/GO_0015812` - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) +#### Added +- [gamma-aminobutyric acid transport](http://purl.obolibrary.org/obo/GO_0015812) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [otic capsule](http://purl.obolibrary.org/obo/UBERON_0004637) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in elasmobranchs, it remains cartilaginous in the adult; in the embryos of higher vertebrates, it is cartilaginous at first but later becomes bony (at approximately 23 weeks in humans)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Biology-Online" -- [otic capsule](http://purl.obolibrary.org/obo/UBERON_0004637) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of otic and occipital (AAO:0000993)[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010143" +### gamma-delta T cell `http://purl.obolibrary.org/obo/CL_0000798` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [gamma-delta T cell](http://purl.obolibrary.org/obo/CL_0000798) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009336" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" -- [otic capsule](http://purl.obolibrary.org/obo/UBERON_0004637) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Otic capsules develop around the parts of the ear that lie within the chondrocranium. This part of the ear, known as the inner ear, is composed of the semicircular ducts and associated sacs that contain the receptive cells for equilibrium and hearing (reference 1); (...) considerations have led to our rethinking issues related to the origin of several aspects of vertebrate hearing, and to the view that many basic auditory functions evolved very early in vertebrate history, and that the functions observed in more `advanced' vertebrates, such as birds and mammals, are frequently modifications of themes first encountered in fishes, and perhaps even more ancestral animals.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000854" +### gamma-delta intraepithelial T cell `http://purl.obolibrary.org/obo/CL_0000801` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.235, DOI:10.1016/S0378-5955(00)00168-4 Fay RR, Popper AN, Evolution of hearing in vertebrates: the inner ears and processing. Hearing research (2000)" +#### Added +- [gamma-delta intraepithelial T cell](http://purl.obolibrary.org/obo/CL_0000801) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009339" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### ganglion `http://purl.obolibrary.org/obo/UBERON_0000045` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [ganglion](http://purl.obolibrary.org/obo/UBERON_0000045) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [otic capsule](http://purl.obolibrary.org/obo/UBERON_0004637) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Skeletal elements surrounding the membranous labyrinth of the inner ear. Sensory capsules anterolateral to and confluent with occipital arch.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010143" +### ganglion formation `http://purl.obolibrary.org/obo/GO_0061554` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [ganglion formation](http://purl.obolibrary.org/obo/GO_0061554) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" -- [otic capsule](http://purl.obolibrary.org/obo/UBERON_0004637) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The cartilage capsule surrounding the inner ear mechanism; in the embryos of higher vertebrates, it is cartilaginous at first but later becomes bony. [Biology_online][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000854" +### ganglion interneuron `http://purl.obolibrary.org/obo/CL_0000397` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [ganglion interneuron](http://purl.obolibrary.org/obo/CL_0000397) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any interneuron that has its soma located in some ganglion." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### ganglion mother cell `http://purl.obolibrary.org/obo/CL_0000469` +#### Removed +- [ganglion mother cell](http://purl.obolibrary.org/obo/CL_0000469) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005149" #### Added -- [otic capsule](http://purl.obolibrary.org/obo/UBERON_0004637) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17596" +- [ganglion mother cell](http://purl.obolibrary.org/obo/CL_0000469) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005149" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [otic capsule](http://purl.obolibrary.org/obo/UBERON_0004637) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [ganglion mother cell](http://purl.obolibrary.org/obo/CL_0000469) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### otic pit `http://purl.obolibrary.org/obo/UBERON_0006273` +### garland cell `http://purl.obolibrary.org/obo/CL_0000486` #### Removed -- [otic pit](http://purl.obolibrary.org/obo/UBERON_0006273) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A depression appearing in each otic placode, marking the beginnning of embryonic development of the internal ear. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/Otic+pit" +- [garland cell](http://purl.obolibrary.org/obo/CL_0000486) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005059" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [garland cell](http://purl.obolibrary.org/obo/CL_0000486) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005059" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001147" +### gastric mucosal blood circulation `http://purl.obolibrary.org/obo/GO_1990768` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [gastric mucosal blood circulation](http://purl.obolibrary.org/obo/GO_1990768) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### gastrula `http://purl.obolibrary.org/obo/UBERON_0004734` -### otic placode `http://purl.obolibrary.org/obo/UBERON_0003069` -#### Removed -- [otic placode](http://purl.obolibrary.org/obo/UBERON_0003069) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Primordium of the ear epithelium before it hollows into the otic vesicle, present beside the hindbrain rudiment in the midsegmentation period. Kimmel et al, 1995. (Also see Anatomical Atlas entry for ear by T. Whitfield.)[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +#### Added +- [gastrula](http://purl.obolibrary.org/obo/UBERON_0004734) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005317" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000138" +- [gastrula](http://purl.obolibrary.org/obo/UBERON_0004734) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### gastrula cell `http://purl.obolibrary.org/obo/CL_0000361` -- [otic placode](http://purl.obolibrary.org/obo/UBERON_0003069) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "With the exception of the pigment cells of the stria vascularis and the secretory epithelium of the cochlea, which are of neural crest origin, all compo- nents of the inner ear derive from the otic placode. In most species the thickening of the ectoderm into a placode occurs in a region adjacent to rhombomere 5 (reviewed in Ohyama et al., 2007), while in amphibians the otic placode is centered onto rhombomere 4 (Ruiz i Altaba and Jessell, 1991)." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "NCBIBook:NBK53175" +#### Added +- [gastrula cell](http://purl.obolibrary.org/obo/CL_0000361) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009182" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [otic placode](http://purl.obolibrary.org/obo/UBERON_0003069) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (2) neurogenic placodes (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### gastrulation `http://purl.obolibrary.org/obo/GO_0007369` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000235" +#### Added +- [gastrulation](http://purl.obolibrary.org/obo/GO_0007369) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43" +### generation of precursor metabolites and energy `http://purl.obolibrary.org/obo/GO_0006091` -- [otic placode](http://purl.obolibrary.org/obo/UBERON_0003069) SubClassOf [dorsolateral placode](http://purl.obolibrary.org/obo/UBERON_0003067) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "invaginates" +#### Added +- [generation of precursor metabolites and energy](http://purl.obolibrary.org/obo/GO_0006091) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "NCBIBook:NBK53175" +- [generation of precursor metabolites and energy](http://purl.obolibrary.org/obo/GO_0006091) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -#### Added -- [otic placode](http://purl.obolibrary.org/obo/UBERON_0003069) SubClassOf [dorsolateral placode](http://purl.obolibrary.org/obo/UBERON_0003067) +- [generation of precursor metabolites and energy](http://purl.obolibrary.org/obo/GO_0006091) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) -### otic region `http://purl.obolibrary.org/obo/UBERON_0003110` +### generically dependent continuant `http://purl.obolibrary.org/obo/BFO_0000031` #### Removed -- [otic region](http://purl.obolibrary.org/obo/UBERON_0003110) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster that is a posterolateral part of the cranium and structurally supports the vestibuloauditory system.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:MAH" +- [generically dependent continuant](http://purl.obolibrary.org/obo/BFO_0000031) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "A continuant that is dependent on one or other independent continuant bearers. For every instance of A requires some instance of (an independent continuant type) B but which instance of B serves can change from time to time."@en - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [generically dependent continuant](http://purl.obolibrary.org/obo/BFO_0000031) [label](http://www.w3.org/2000/01/rdf-schema#label) "generically dependent continuant"@en - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [generically dependent continuant](http://purl.obolibrary.org/obo/BFO_0000031) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "b is a generically dependent continuant = Def. b is a continuant that g-depends_on one or more other entities. (axiom label in BFO2 Reference: [074-001])"@en - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000189" +- [generically dependent continuant](http://purl.obolibrary.org/obo/BFO_0000031) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [otic region](http://purl.obolibrary.org/obo/UBERON_0003110) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: overlaps hyomandibular-otic region joint (TAO:0001947)[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [generically dependent continuant](http://purl.obolibrary.org/obo/BFO_0000031) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) only [generically dependent continuant](http://purl.obolibrary.org/obo/BFO_0000031) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000189" -- [otic region](http://purl.obolibrary.org/obo/UBERON_0003110) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "UBERONREF:0000007 has this as a syn for otic capsule" +### genitourinary system `http://purl.obolibrary.org/obo/UBERON_0004122` -- [otic region](http://purl.obolibrary.org/obo/UBERON_0003110) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster that is a posterolateral part of the neurocranium and structurally supports the vestibuloauditory system.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" +#### Added +- [genitourinary system](http://purl.obolibrary.org/obo/UBERON_0004122) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010208" +### germ cell migration `http://purl.obolibrary.org/obo/GO_0008354` +#### Removed +- [germ cell migration](http://purl.obolibrary.org/obo/GO_0008354) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [germ cell migration](http://purl.obolibrary.org/obo/GO_0008354) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "pole cell migration" +- [germ cell migration](http://purl.obolibrary.org/obo/GO_0008354) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### otolith organ `http://purl.obolibrary.org/obo/UBERON_0002518` +### germ cell proliferation `http://purl.obolibrary.org/obo/GO_0036093` #### Removed -- [otolith organ](http://purl.obolibrary.org/obo/UBERON_0002518) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, as in other vertebrates, the vestibular end-organs are divided into a gravity receptor system, with three subdivisions and an angular acceleration receptor system. The gravity receptor system on each side consists of utricular, saccular, and lagenar maculae, each covered by an otolith (reference 1); (...)considerations have led to our rethinking issues related to the origin of several aspects of vertebrate hearing, and to the view that many basic auditory functions evolved very early in vertebrate history, and that the functions observed in more `advanced' vertebrates, such as birds and mammals, are frequently modifications of themes first encountered in fishes, and perhaps even more ancestral animals (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [germ cell proliferation](http://purl.obolibrary.org/obo/GO_0036093) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [germ cell proliferation](http://purl.obolibrary.org/obo/GO_0036093) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001676" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:11581521 Moorman SJ, Development of sensory systems in zebrafish (Danio rerio). ILAR Journal (2001), DOI:10.1016/S0378-5955(00)00168-4 Fay RR, Popper AN, Evolution of hearing in vertebrates: the inner ears and processing. Hearing research (2000)" +### germ layer `http://purl.obolibrary.org/obo/UBERON_0000923` #### Added -- [otolith organ](http://purl.obolibrary.org/obo/UBERON_0002518) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - +- [germ layer](http://purl.obolibrary.org/obo/UBERON_0000923) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000110" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### otolymph `http://purl.obolibrary.org/obo/UBERON_0006586` -#### Removed -- [otolymph](http://purl.obolibrary.org/obo/UBERON_0006586) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Fluids found within the osseous labyrinth (PERILYMPH) and the membranous labyrinth (ENDOLYMPH) of the inner ear. (From Gray's Anatomy, 30th American ed, p1328, 1332[MESH:A12.207.571])" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MESH:A12.207.571" +### germ layer / neural crest `http://purl.obolibrary.org/obo/UBERON_0010316` +#### Added +- [germ layer / neural crest](http://purl.obolibrary.org/obo/UBERON_0010316) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### out of scope `http://purl.obolibrary.org/obo/OMO_0001000` -#### Removed -- [out of scope](http://purl.obolibrary.org/obo/OMO_0001000) [IAO_0000234](http://purl.obolibrary.org/obo/IAO_0000234) "https://orcid.org/0000-0001-5208-3432" -- [out of scope](http://purl.obolibrary.org/obo/OMO_0001000) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0001-5208-3432](http://orcid.org/0000-0001-5208-3432) +### germ line cell `http://purl.obolibrary.org/obo/CL_0000039` +#### Added +- [germ line cell](http://purl.obolibrary.org/obo/CL_0000039) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009016" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### outer epithelial layer of tympanic membrane `http://purl.obolibrary.org/obo/UBERON_0010069` +### germ line stem cell `http://purl.obolibrary.org/obo/CL_0000014` +#### Removed +- [germ line stem cell](http://purl.obolibrary.org/obo/CL_0000014) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004861" #### Added -- [outer epithelial layer of tympanic membrane](http://purl.obolibrary.org/obo/UBERON_0010069) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) +- [germ line stem cell](http://purl.obolibrary.org/obo/CL_0000014) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004861" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [outer epithelial layer of tympanic membrane](http://purl.obolibrary.org/obo/UBERON_0010069) SubClassOf [endo-epithelium](http://purl.obolibrary.org/obo/UBERON_0005911) +- [germ line stem cell](http://purl.obolibrary.org/obo/CL_0000014) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005956" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### outer epithelium `http://purl.obolibrary.org/obo/UBERON_0007376` +### germ-line stem cell division `http://purl.obolibrary.org/obo/GO_0042078` #### Removed -- [outer epithelium](http://purl.obolibrary.org/obo/UBERON_0007376) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004993" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [outer epithelium](http://purl.obolibrary.org/obo/UBERON_0007376) SubClassOf [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) +- [germ-line stem cell division](http://purl.obolibrary.org/obo/GO_0042078) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) -#### Added -- [outer epithelium](http://purl.obolibrary.org/obo/UBERON_0007376) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) -### outer medulla vasa recta ascending limb `http://purl.obolibrary.org/obo/UBERON_0009093` -#### Removed -- [outer medulla vasa recta ascending limb](http://purl.obolibrary.org/obo/UBERON_0009093) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "This class was created in order to align KUPO with CL. The original class was undefined, and the intended meaning is not clear, may be obsoleted in future. The vasa recta is parallel to the loop of Henles, this may refer to the portion of the vasa recta in the outer medulla parallel to the ascending limb" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "CL" +### germinal center formation `http://purl.obolibrary.org/obo/GO_0002467` #### Added -- [outer medulla vasa recta ascending limb](http://purl.obolibrary.org/obo/UBERON_0009093) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [germinal center formation](http://purl.obolibrary.org/obo/GO_0002467) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### outer medulla vasa recta descending limb `http://purl.obolibrary.org/obo/UBERON_0009090` -#### Removed -- [outer medulla vasa recta descending limb](http://purl.obolibrary.org/obo/UBERON_0009090) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "This class was created in order to align KUPO with CL. The original class was undefined, and the intended meaning is not clear, may be obsoleted in future. The vasa recta is parallel to the loop of Henles, this may refer to the portion of the vasa recta in the outer medullar parallel to the descending limb" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "CL" +### ghrelin secreting cell `http://purl.obolibrary.org/obo/CL_0005018` #### Added -- [outer medulla vasa recta descending limb](http://purl.obolibrary.org/obo/UBERON_0009090) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [ghrelin secreting cell](http://purl.obolibrary.org/obo/CL_0005018) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005599" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### outer nuclear layer of retina `http://purl.obolibrary.org/obo/UBERON_0001789` -#### Removed -- [outer nuclear layer of retina](http://purl.obolibrary.org/obo/UBERON_0001789) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001170" +### gingival epithelial cell `http://purl.obolibrary.org/obo/CL_0002621` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429" +#### Added +- [gingival epithelial cell](http://purl.obolibrary.org/obo/CL_0002621) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any epithelial cell that is part of some gingival epithelium." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### gland `http://purl.obolibrary.org/obo/UBERON_0002530` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [gland](http://purl.obolibrary.org/obo/UBERON_0002530) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00100317" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [outer nuclear layer of retina](http://purl.obolibrary.org/obo/UBERON_0001789) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [eye photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000287) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "soma" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA" +### glial blood brain barrier `http://purl.obolibrary.org/obo/UBERON_0000202` #### Added -- [outer nuclear layer of retina](http://purl.obolibrary.org/obo/UBERON_0001789) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [eye photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000287) - +- [glial blood brain barrier](http://purl.obolibrary.org/obo/UBERON_0000202) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007091" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### outer plexiform layer of retina `http://purl.obolibrary.org/obo/UBERON_0001790` -#### Removed -- [outer plexiform layer of retina](http://purl.obolibrary.org/obo/UBERON_0001790) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The layer within the retina where the bipolar cells synapse with the photoreceptor cells.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [glial blood brain barrier](http://purl.obolibrary.org/obo/UBERON_0000202) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001330" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### glial cell `http://purl.obolibrary.org/obo/CL_0000125` +#### Removed +- [glial cell](http://purl.obolibrary.org/obo/CL_0000125) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005144" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [glial cell](http://purl.obolibrary.org/obo/CL_0000125) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009073" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [outer plexiform layer of retina](http://purl.obolibrary.org/obo/UBERON_0001790) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429" +- [glial cell](http://purl.obolibrary.org/obo/CL_0000125) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [human_reference_atlas](http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001171" +- [glial cell](http://purl.obolibrary.org/obo/CL_0000125) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005144" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [glial cell](http://purl.obolibrary.org/obo/CL_0000125) [present in taxon](http://purl.obolibrary.org/obo/RO_0002175) [Homo sapiens](http://purl.obolibrary.org/obo/NCBITaxon_9606) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### glial cell activation `http://purl.obolibrary.org/obo/GO_0061900` +#### Added +- [glial cell activation](http://purl.obolibrary.org/obo/GO_0061900) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### outflow tract `http://purl.obolibrary.org/obo/UBERON_0004145` -#### Removed -- [outflow tract](http://purl.obolibrary.org/obo/UBERON_0004145) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Depending on the species, attached at the cardiac outflow are described the conus arteriosus, the truncus arteriosus and, or the bulbus arteriosus. At the distal limit of these outflow structures, but lying outside the pericardial cavity, is the ventral aorta[PMID:20735616]" +### glial cell migration `http://purl.obolibrary.org/obo/GO_0008347` #### Added -- [outflow tract](http://purl.obolibrary.org/obo/UBERON_0004145) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [glial cell migration](http://purl.obolibrary.org/obo/GO_0008347) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### outflow tract endothelium `http://purl.obolibrary.org/obo/UBERON_0004699` -#### Removed -- [outflow tract endothelium](http://purl.obolibrary.org/obo/UBERON_0004699) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "It is assumed that during evolution, a circulatory system composed of the heart and endothelial tubular system first formed in vertebrates, medial smooth muscle then appeared for regulation of the system, and innervation of the muscle tissue took place. This sequence of development assumed for phylogenesis is actually realized in the ontogenetic processes.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1254/jjp.87.253 Shigei T, Tsuru H, Ishikawa N, Yoshioka K, Absence of endothelium in invertebrate blood vessels: significance of endothelium and sympathetic nerve/medial smooth muscle in the vertebrate vascular system. Japanese Journal of Pharmacology (2001)" +### glial cell proliferation `http://purl.obolibrary.org/obo/GO_0014009` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [glial cell proliferation](http://purl.obolibrary.org/obo/GO_0014009) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### glioblast `http://purl.obolibrary.org/obo/CL_0000030` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001524" +#### Added +- [glioblast](http://purl.obolibrary.org/obo/CL_0000030) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009010" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [glioblast](http://purl.obolibrary.org/obo/CL_0000030) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### outflow tract myocardium `http://purl.obolibrary.org/obo/UBERON_0004265` +### glioblast (sensu Nematoda and Protostomia) `http://purl.obolibrary.org/obo/CL_0000340` #### Removed -- [outflow tract myocardium](http://purl.obolibrary.org/obo/UBERON_0004265) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) (theme) is how the vertebrate cardiovascular system differs from that of the presumptive evolutionary chordate ancestor. (...) At best we can tell there are two essential new ingredients: (1) vertebrates all have a continuous endothelial lining to the heart and vessels and (2) vertebrates have developed a second chamber in the heart, one designed for generating high systemic blood pressure.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:9187138 Fishman MC, Chien KR, Fashioning the vertebrate heart: earliest embryonic decisions. Development (1997)" +- [glioblast (sensu Nematoda and Protostomia)](http://purl.obolibrary.org/obo/CL_0000340) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005145" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000603" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [glioblast (sensu Nematoda and Protostomia)](http://purl.obolibrary.org/obo/CL_0000340) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005145" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### glioblast (sensu Vertebrata) `http://purl.obolibrary.org/obo/CL_0000339` +#### Added +- [glioblast (sensu Vertebrata)](http://purl.obolibrary.org/obo/CL_0000339) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009169" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### outflow tract pericardium `http://purl.obolibrary.org/obo/UBERON_0004271` +### glioblast division `http://purl.obolibrary.org/obo/GO_0048860` #### Added -- [outflow tract pericardium](http://purl.obolibrary.org/obo/UBERON_0004271) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [glioblast division](http://purl.obolibrary.org/obo/GO_0048860) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### output of `http://purl.obolibrary.org/obo/RO_0002353` -#### Removed -- [output of](http://purl.obolibrary.org/obo/RO_0002353) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +### glomeral mesenchyme `http://purl.obolibrary.org/obo/UBERON_0007128` -- [output of](http://purl.obolibrary.org/obo/RO_0002353) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +#### Added +- [glomeral mesenchyme](http://purl.obolibrary.org/obo/UBERON_0007128) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +### glomerular capillary endothelial cell `http://purl.obolibrary.org/obo/CL_1001005` -### ovarian artery `http://purl.obolibrary.org/obo/UBERON_0001190` -#### Removed -- [ovarian artery](http://purl.obolibrary.org/obo/UBERON_0001190) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "In human anatomy, the ovarian artery is a blood vessel that supplies oxygenated blood to the ovary. It arises from the abdominal aorta below the renal artery, and does not pass out of the abdomiproperty_value external_definitioncavity. It can be found in the suspensory ligament of the ovary. [WP]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Ovarian_artery" +#### Added +- [glomerular capillary endothelial cell](http://purl.obolibrary.org/obo/CL_1001005) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney capillary endothelial cell that is part of some glomerular capillary endothelium." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" +### glomerular capsule `http://purl.obolibrary.org/obo/UBERON_0001230` + +#### Added +- [glomerular capsule](http://purl.obolibrary.org/obo/UBERON_0001230) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### ovarian follicle `http://purl.obolibrary.org/obo/UBERON_0001305` -#### Removed -- [ovarian follicle](http://purl.obolibrary.org/obo/UBERON_0001305) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "The somatic cell component of the follicle produces hormones important for oocyte development and proper endocrine function" -- [ovarian follicle](http://purl.obolibrary.org/obo/UBERON_0001305) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Examination of different vertebrate species shows that the adult gonad is remarkably similar in its morphology across different phylogenetic classes. Surprisingly, however, the cellular and molecular programs employed to create similar organs are not evolutionarily conserved.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### glomerular cell `http://purl.obolibrary.org/obo/CL_1000746` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [glomerular cell](http://purl.obolibrary.org/obo/CL_1000746) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney corpuscule cell that is part of some renal glomerulus." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1146/annurev.cellbio.042308.13350 DeFalco T, Capel B, Gonad morphogenesis in vertebrates: divergent means to a convergent end. Annual review of cell and developmental biology (2009)" +### glomerular filtration `http://purl.obolibrary.org/obo/GO_0003094` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001536" +#### Added +- [glomerular filtration](http://purl.obolibrary.org/obo/GO_0003094) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [ovarian follicle](http://purl.obolibrary.org/obo/UBERON_0001305) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Oocyte development of zebrafish has been divided into five stages based on morphological criteria and on physiological and biochemical events. Stage I follicles (less than 140 microns) are primary growth stage, stage II follicles (140-340 microns) are cortical alveolus stage, stage III (340-690 microns) are vitellogenesis, stage IV (690-730 microns) are oocyte maturation, and stage V follicles are matured egg. Selman et al, 1993.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### glomerulus morphogenesis `http://purl.obolibrary.org/obo/GO_0072102` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [glomerulus morphogenesis](http://purl.obolibrary.org/obo/GO_0072102) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001110" -- [ovarian follicle](http://purl.obolibrary.org/obo/UBERON_0001305) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "These structures are periodically initiated to grow and develop, culminating in ovulation of usually a single competent oocyte in humans. These eggs/ova are only developed once every menstrual cycle (e.g. once a month in humans)" +### glucagon secreting cell `http://purl.obolibrary.org/obo/CL_0000170` +#### Added +- [glucagon secreting cell](http://purl.obolibrary.org/obo/CL_0000170) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009103" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### ovarian medulla `http://purl.obolibrary.org/obo/UBERON_0013192` -#### Removed -- [ovarian medulla](http://purl.obolibrary.org/obo/UBERON_0013192) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "composed of loose connective tissue that contains blood vessels, lymph vessels and nerves" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "NCIT" +### glucan metabolic process `http://purl.obolibrary.org/obo/GO_0044042` +#### Added +- [glucan metabolic process](http://purl.obolibrary.org/obo/GO_0044042) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### ovary `http://purl.obolibrary.org/obo/UBERON_0000992` +### glucocorticoid receptor signaling pathway `http://purl.obolibrary.org/obo/GO_0042921` #### Removed -- [ovary](http://purl.obolibrary.org/obo/UBERON_0000992) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "ovarian" - -- [ovary](http://purl.obolibrary.org/obo/UBERON_0000992) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Female reproductive organ.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000403" +- [glucocorticoid receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0042921) [label](http://www.w3.org/2000/01/rdf-schema#label) "glucocorticoid receptor signaling pathway" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [glucocorticoid receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0042921) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The series of molecular signals initiated by glucocorticoid binding to its receptor." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:mah" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [glucocorticoid receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0042921) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "glucocorticoid receptor signalling pathway" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [glucocorticoid receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0042921) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "glucocorticoid receptor signaling pathway" -- [ovary](http://purl.obolibrary.org/obo/UBERON_0000992) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004865" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [glucocorticoid receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0042921) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "glucocorticoid receptor signalling pathway" -- [ovary](http://purl.obolibrary.org/obo/UBERON_0000992) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Either of paired female reproductive organs involved in production of ova and female sex hormones.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000371" +- [glucocorticoid receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0042921) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The series of molecular signals initiated by glucocorticoid binding to its nuclear receptor inside the cell, and ending with the regulation of a downstream cellular process, e.g. transcription." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:mah" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [glucocorticoid receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0042921) [label](http://www.w3.org/2000/01/rdf-schema#label) "intracellular glucocorticoid receptor signaling pathway" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +### glucocorticoid secreting cell `http://purl.obolibrary.org/obo/CL_0000460` -- [ovary](http://purl.obolibrary.org/obo/UBERON_0000992) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Ovaries of some kind are found in the female reproductive system of many animals that employ sexual reproduction, including invertebrates. However, they develop in a very different way in most invertebrates than they do in vertebrates, and are not truly homologous. Many of the features found in human ovaries are common to all vertebrates, including the presence of follicular cells, tunica albuginea, and so on. However, many species produce a far greater number of eggs during their lifetime than do humans, so that, in fish and amphibians, there may be hundreds, or even millions of fertile eggs present in the ovary at any given time. In these species, fresh eggs may be developing from the germinal epithelium throughout life. Corpora lutea are found only in mammals, and in some elasmobranch fish; in other species, the remnants of the follicle are quickly resorbed by the ovary. In birds, reptiles, and monotremes, the egg is relatively large, filling the follicle, and distorting the shape of the ovary at maturity. Amphibians and reptiles have no ovarian medulla; the central part of the ovary is a hollow, lymph-filled space. The ovary of teleosts is also often hollow, but in this case, the eggs are shed into the cavity, which opens into the oviduct. Although most normal female vertebrates have two ovaries, this is not the case in all species. In birds and platypuses, the right ovary never matures, so that only the left is functional. In some elasmobranchs, the reverse is true, with only the right ovary fully developing. In the primitive jawless fish, and some teleosts, there is only one ovary, formed by the fusion of the paired organs in the embryo" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" +#### Added +- [glucocorticoid secreting cell](http://purl.obolibrary.org/obo/CL_0000460) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any secretory cell that is capable of some glucocorticoid secretion." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [ovary](http://purl.obolibrary.org/obo/UBERON_0000992) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) while it is likely that Urbilateria lacked a complex somatic reproductive system, it is at present impossible to speculate on whether or not it possessed a true gonad, let alone any other somatic adaptations for reproduction (reference 1); Examination of different vertebrate species shows that the adult gonad is remarkably similar in its morphology across different phylogenetic classes. Surprisingly, however, the cellular and molecular programs employed to create similar organs are not evolutionarily conserved (reference 2).[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [glucocorticoid secreting cell](http://purl.obolibrary.org/obo/CL_0000460) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009215" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### gluconeogenesis `http://purl.obolibrary.org/obo/GO_0006094` +#### Removed +- [gluconeogenesis](http://purl.obolibrary.org/obo/GO_0006094) EquivalentTo [biosynthetic process](http://purl.obolibrary.org/obo/GO_0009058) and ([has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_17234](http://purl.obolibrary.org/obo/CHEBI_17234)) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000251" +- [gluconeogenesis](http://purl.obolibrary.org/obo/GO_0006094) SubClassOf [has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_17234](http://purl.obolibrary.org/obo/CHEBI_17234) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1093/icb/icm052 Extavour CGM, Gray anatomy: phylogenetic patterns of somatic gonad structures and reproductive strategies across the Bilateria. Integrative and Comparative Biology (2007), DOI:10.1146/annurev.cellbio.042308.13350 DeFalco T and Capel B, Gonad morphogenesis in vertebrates: divergent means to a convergent end. Annual review of cell and developmental biology (2009)" +#### Added +- [gluconeogenesis](http://purl.obolibrary.org/obo/GO_0006094) EquivalentTo [biosynthetic process](http://purl.obolibrary.org/obo/GO_0009058) and ([has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_4167](http://purl.obolibrary.org/obo/CHEBI_4167)) +- [gluconeogenesis](http://purl.obolibrary.org/obo/GO_0006094) SubClassOf [has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_4167](http://purl.obolibrary.org/obo/CHEBI_4167) -### overlaps `http://purl.obolibrary.org/obo/RO_0002131` +### glucose binding `http://purl.obolibrary.org/obo/GO_0005536` #### Removed -- [overlaps](http://purl.obolibrary.org/obo/RO_0002131) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) +- [glucose binding](http://purl.obolibrary.org/obo/GO_0005536) EquivalentTo [binding](http://purl.obolibrary.org/obo/GO_0005488) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_17234](http://purl.obolibrary.org/obo/CHEBI_17234)) -- [overlaps](http://purl.obolibrary.org/obo/RO_0002131) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +- [glucose binding](http://purl.obolibrary.org/obo/GO_0005536) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_17234](http://purl.obolibrary.org/obo/CHEBI_17234) -- [overlaps](http://purl.obolibrary.org/obo/RO_0002131) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) +#### Added +- [glucose binding](http://purl.obolibrary.org/obo/GO_0005536) EquivalentTo [binding](http://purl.obolibrary.org/obo/GO_0005488) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_4167](http://purl.obolibrary.org/obo/CHEBI_4167)) -- [has part](http://purl.obolibrary.org/obo/BFO_0000051) o [part_of](http://purl.obolibrary.org/obo/BFO_0000050) SubPropertyOf: [overlaps](http://purl.obolibrary.org/obo/RO_0002131) - - [is a defining property chain axiom where second argument is reflexive](http://purl.obolibrary.org/obo/RO_0002582) true +- [glucose binding](http://purl.obolibrary.org/obo/GO_0005536) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +- [glucose binding](http://purl.obolibrary.org/obo/GO_0005536) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_4167](http://purl.obolibrary.org/obo/CHEBI_4167) -### oviduct `http://purl.obolibrary.org/obo/UBERON_0000993` +### glucose catabolic process `http://purl.obolibrary.org/obo/GO_0006007` #### Removed -- [oviduct](http://purl.obolibrary.org/obo/UBERON_0000993) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "sometimes oviduct is used interchangeably with follaopian tube. Here they are different - the oviduct connects the gonad to the outside in a variety of animals. The mammal-class fallopian tube is derived from the mullerian duct and connects the gonads/infubdibulum to the uterus" - -- [oviduct](http://purl.obolibrary.org/obo/UBERON_0000993) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In all remaining vertebrates (i.e., coelacanths, lungfishes, amphibians, reptiles, birds, and mammals), the oviduct arises in ontogeny as a longitudinal, groovelike invagination of the coelomic epithelium on the lateral surface of the mesonephros.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.687-688" +- [glucose catabolic process](http://purl.obolibrary.org/obo/GO_0006007) EquivalentTo [catabolic process](http://purl.obolibrary.org/obo/GO_0009056) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_17234](http://purl.obolibrary.org/obo/CHEBI_17234)) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [glucose catabolic process](http://purl.obolibrary.org/obo/GO_0006007) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_17234](http://purl.obolibrary.org/obo/CHEBI_17234) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [glucose catabolic process](http://purl.obolibrary.org/obo/GO_0006007) EquivalentTo [catabolic process](http://purl.obolibrary.org/obo/GO_0009056) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_4167](http://purl.obolibrary.org/obo/CHEBI_4167)) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001136" +- [glucose catabolic process](http://purl.obolibrary.org/obo/GO_0006007) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_4167](http://purl.obolibrary.org/obo/CHEBI_4167) -- [oviduct](http://purl.obolibrary.org/obo/UBERON_0000993) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in birds divided into infundibulum, magnum, isthmus, uterus, and vagina" -- [oviduct](http://purl.obolibrary.org/obo/UBERON_0000993) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A passage through which ova leave the maternal body or pass to an organ communicating with the exterior of the body. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### glucose homeostasis `http://purl.obolibrary.org/obo/GO_0042593` +#### Removed +- [glucose homeostasis](http://purl.obolibrary.org/obo/GO_0042593) EquivalentTo [chemical homeostasis](http://purl.obolibrary.org/obo/GO_0048878) and ([regulates levels of](http://purl.obolibrary.org/obo/RO_0002332) some [CHEBI_17234](http://purl.obolibrary.org/obo/CHEBI_17234)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [glucose homeostasis](http://purl.obolibrary.org/obo/GO_0042593) SubClassOf [regulates levels of](http://purl.obolibrary.org/obo/RO_0002332) some [CHEBI_17234](http://purl.obolibrary.org/obo/CHEBI_17234) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [glucose homeostasis](http://purl.obolibrary.org/obo/GO_0042593) EquivalentTo [chemical homeostasis](http://purl.obolibrary.org/obo/GO_0048878) and ([regulates levels of](http://purl.obolibrary.org/obo/RO_0002332) some [CHEBI_4167](http://purl.obolibrary.org/obo/CHEBI_4167)) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001136" +- [glucose homeostasis](http://purl.obolibrary.org/obo/GO_0042593) SubClassOf [regulates levels of](http://purl.obolibrary.org/obo/RO_0002332) some [CHEBI_4167](http://purl.obolibrary.org/obo/CHEBI_4167) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/oviduct" -- [oviduct](http://purl.obolibrary.org/obo/UBERON_0000993) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The only female vertebrates to lack oviducts are the jawless fishes. In these species, the single fused ovary releases eggs directly into the body cavity. The fish eventually extrudes the eggs through small genital pores towards the rear of the body[WP]" +### glucose import across plasma membrane `http://purl.obolibrary.org/obo/GO_0098708` +#### Removed +- [glucose import across plasma membrane](http://purl.obolibrary.org/obo/GO_0098708) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([has target start location](http://purl.obolibrary.org/obo/RO_0002338) some [extracellular region](http://purl.obolibrary.org/obo/GO_0005576)) and ([has target end location](http://purl.obolibrary.org/obo/RO_0002339) some [cytosol](http://purl.obolibrary.org/obo/GO_0005829)) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [plasma membrane](http://purl.obolibrary.org/obo/GO_0005886)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_17234](http://purl.obolibrary.org/obo/CHEBI_17234)) +#### Added +- [glucose import across plasma membrane](http://purl.obolibrary.org/obo/GO_0098708) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([has target start location](http://purl.obolibrary.org/obo/RO_0002338) some [extracellular region](http://purl.obolibrary.org/obo/GO_0005576)) and ([has target end location](http://purl.obolibrary.org/obo/RO_0002339) some [cytosol](http://purl.obolibrary.org/obo/GO_0005829)) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [plasma membrane](http://purl.obolibrary.org/obo/GO_0005886)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_4167](http://purl.obolibrary.org/obo/CHEBI_4167)) -### oviduct epithelium `http://purl.obolibrary.org/obo/UBERON_0004804` +### glucose metabolic process `http://purl.obolibrary.org/obo/GO_0006006` #### Removed -- [oviduct epithelium](http://purl.obolibrary.org/obo/UBERON_0004804) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA, epithelium of uterine tube is a subclass of ciliated columnar epithelium. MA introduces subtypes: ciliated columnar and cuboidal. We map the FMA type according to its relationships, not its label" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [glucose metabolic process](http://purl.obolibrary.org/obo/GO_0006006) EquivalentTo [metabolic process](http://purl.obolibrary.org/obo/GO_0008152) and ([has primary input or output](http://purl.obolibrary.org/obo/RO_0004007) some [CHEBI_17234](http://purl.obolibrary.org/obo/CHEBI_17234)) -- [oviduct epithelium](http://purl.obolibrary.org/obo/UBERON_0004804) SubClassOf [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) +- [glucose metabolic process](http://purl.obolibrary.org/obo/GO_0006006) SubClassOf [has primary input or output](http://purl.obolibrary.org/obo/RO_0004007) some [CHEBI_17234](http://purl.obolibrary.org/obo/CHEBI_17234) #### Added -- [oviduct epithelium](http://purl.obolibrary.org/obo/UBERON_0004804) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) +- [glucose metabolic process](http://purl.obolibrary.org/obo/GO_0006006) EquivalentTo [metabolic process](http://purl.obolibrary.org/obo/GO_0008152) and ([has primary input or output](http://purl.obolibrary.org/obo/RO_0004007) some [CHEBI_4167](http://purl.obolibrary.org/obo/CHEBI_4167)) +- [glucose metabolic process](http://purl.obolibrary.org/obo/GO_0006006) SubClassOf [has primary input or output](http://purl.obolibrary.org/obo/RO_0004007) some [CHEBI_4167](http://purl.obolibrary.org/obo/CHEBI_4167) -### oviduct smooth muscle `http://purl.obolibrary.org/obo/UBERON_0004245` -#### Removed -- [oviduct smooth muscle](http://purl.obolibrary.org/obo/UBERON_0004245) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:29046" +### glucose transmembrane transport `http://purl.obolibrary.org/obo/GO_1904659` +#### Removed +- [glucose transmembrane transport](http://purl.obolibrary.org/obo/GO_1904659) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [membrane](http://purl.obolibrary.org/obo/GO_0016020)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_17234](http://purl.obolibrary.org/obo/CHEBI_17234)) +- [glucose transmembrane transport](http://purl.obolibrary.org/obo/GO_1904659) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_17234](http://purl.obolibrary.org/obo/CHEBI_17234) -### oxytocin receptor `http://purl.obolibrary.org/obo/PR_000001635` -#### Removed -- [oxytocin receptor](http://purl.obolibrary.org/obo/PR_000001635) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [oxytocin receptor (human)](http://purl.obolibrary.org/obo/PR_P30559) +#### Added +- [glucose transmembrane transport](http://purl.obolibrary.org/obo/GO_1904659) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [membrane](http://purl.obolibrary.org/obo/GO_0016020)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_4167](http://purl.obolibrary.org/obo/CHEBI_4167)) +- [glucose transmembrane transport](http://purl.obolibrary.org/obo/GO_1904659) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_4167](http://purl.obolibrary.org/obo/CHEBI_4167) -### pair of dorsal aortae `http://purl.obolibrary.org/obo/UBERON_0010190` +### glucose transmembrane transporter activity `http://purl.obolibrary.org/obo/GO_0005355` #### Removed -- [pair of dorsal aortae](http://purl.obolibrary.org/obo/UBERON_0010190) [label](http://www.w3.org/2000/01/rdf-schema#label) "pair of dorsal aortae" +- [glucose transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0005355) EquivalentTo [transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0022857) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_17234](http://purl.obolibrary.org/obo/CHEBI_17234)) -- [pair of dorsal aortae](http://purl.obolibrary.org/obo/UBERON_0010190) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MA:0000476" +- [glucose transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0005355) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_17234](http://purl.obolibrary.org/obo/CHEBI_17234) + +#### Added +- [glucose transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0005355) EquivalentTo [transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0022857) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_4167](http://purl.obolibrary.org/obo/CHEBI_4167)) -- [pair of dorsal aortae](http://purl.obolibrary.org/obo/UBERON_0010190) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The paired arterial structures of the embryo that supplies each developing somite via efferent segmental arteries; the dorsal aortae articulate with the umbilical arteries, which return mixed blood to the villi of the chorion for reoxygenation." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MP:0004787" +- [glucose transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0005355) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_4167](http://purl.obolibrary.org/obo/CHEBI_4167) - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ISBN:0-914294-08-3" -- [pair of dorsal aortae](http://purl.obolibrary.org/obo/UBERON_0010190) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EHDAA2:0000410" +### glutamate binding `http://purl.obolibrary.org/obo/GO_0016595` -- [pair of dorsal aortae](http://purl.obolibrary.org/obo/UBERON_0010190) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:18606" +#### Added +- [glutamate binding](http://purl.obolibrary.org/obo/GO_0016595) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [pair of dorsal aortae](http://purl.obolibrary.org/obo/UBERON_0010190) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "paired dorsal aortae" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EHDAA2:0000410" -- [pair of dorsal aortae](http://purl.obolibrary.org/obo/UBERON_0010190) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +### glutamate receptor activity `http://purl.obolibrary.org/obo/GO_0008066` -- [pair of dorsal aortae](http://purl.obolibrary.org/obo/UBERON_0010190) [id](http://www.geneontology.org/formats/oboInOwl#id) "UBERON:0010190" +#### Added +- [glutamate receptor activity](http://purl.obolibrary.org/obo/GO_0008066) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [pair of dorsal aortae](http://purl.obolibrary.org/obo/UBERON_0010190) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [pheno_slim](http://purl.obolibrary.org/obo/uberon/core#pheno_slim) -- Class: [pair of dorsal aortae](http://purl.obolibrary.org/obo/UBERON_0010190) +### glutamatergic neuron `http://purl.obolibrary.org/obo/CL_0000679` +#### Removed +- [glutamatergic neuron](http://purl.obolibrary.org/obo/CL_0000679) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00100291" -- [pair of dorsal aortae](http://purl.obolibrary.org/obo/UBERON_0010190) SubClassOf [multi-tissue structure](http://purl.obolibrary.org/obo/UBERON_0000481) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2" +#### Added +- [glutamatergic neuron](http://purl.obolibrary.org/obo/CL_0000679) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00100291" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [pair of dorsal aortae](http://purl.obolibrary.org/obo/UBERON_0010190) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +- [glutamatergic neuron](http://purl.obolibrary.org/obo/CL_0000679) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009290" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [pair of dorsal aortae](http://purl.obolibrary.org/obo/UBERON_0010190) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [aortic system](http://purl.obolibrary.org/obo/UBERON_0010191) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2" -- [pair of dorsal aortae](http://purl.obolibrary.org/obo/UBERON_0010190) SubClassOf [has part](http://purl.obolibrary.org/obo/BFO_0000051) some [dorsal aorta](http://purl.obolibrary.org/obo/UBERON_0005805) +### glycine binding `http://purl.obolibrary.org/obo/GO_0016594` +#### Added +- [glycine binding](http://purl.obolibrary.org/obo/GO_0016594) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### pair of nares `http://purl.obolibrary.org/obo/UBERON_0002109` +### glycinergic neuron `http://purl.obolibrary.org/obo/CL_1001509` #### Removed -- [pair of nares](http://purl.obolibrary.org/obo/UBERON_0002109) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "this is a 'set of anatomical planes' in FMA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [glycinergic neuron](http://purl.obolibrary.org/obo/CL_1001509) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00048032" +#### Added +- [glycinergic neuron](http://purl.obolibrary.org/obo/CL_1001509) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00048032" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [glycinergic neuron](http://purl.obolibrary.org/obo/CL_1001509) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009396" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### paired box protein PAX-5 `http://purl.obolibrary.org/obo/PR_000001903` -#### Removed -- [paired box protein PAX-5](http://purl.obolibrary.org/obo/PR_000001903) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [paired box protein Pax-5 (human)](http://purl.obolibrary.org/obo/PR_Q02548) +### glycogen binding `http://purl.obolibrary.org/obo/GO_2001069` +#### Added +- [glycogen binding](http://purl.obolibrary.org/obo/GO_2001069) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### paired limb/fin `http://purl.obolibrary.org/obo/UBERON_0004708` -#### Removed -- [paired limb/fin](http://purl.obolibrary.org/obo/UBERON_0004708) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class is the union of the classes limb, pectoral fin and pelvic fin." -- [paired limb/fin](http://purl.obolibrary.org/obo/UBERON_0004708) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [paired limb/fin bud](http://purl.obolibrary.org/obo/UBERON_0004357) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" +### glycogen biosynthetic process `http://purl.obolibrary.org/obo/GO_0005978` #### Added -- [paired limb/fin](http://purl.obolibrary.org/obo/UBERON_0004708) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [paired limb/fin bud](http://purl.obolibrary.org/obo/UBERON_0004357) +- [glycogen biosynthetic process](http://purl.obolibrary.org/obo/GO_0005978) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MetaCyc:PWY-7900" +- [glycogen biosynthetic process](http://purl.obolibrary.org/obo/GO_0005978) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MetaCyc:PWY-5067" -### paired limb/fin bud `http://purl.obolibrary.org/obo/UBERON_0004357` -#### Removed -- [paired limb/fin bud](http://purl.obolibrary.org/obo/UBERON_0004357) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The tetrapod limb is derived from a posterior part of the fin endoskeleton of elasmobranchs and basal bony fish, the so-called metapterygium, a series of endoskeletal elements that is the first to form in the developing paired fins. (...) In addition, there is an independent endoskeletal element called the protopterygium that develops anterior to the metapterygium in many basal fishes (e.g., the bichir and sturgeon). Teleosts have lost the metapterygium whereas the sarcopterygians, on the other hand, have lost the protopterygium. Sarcopterygians thus develop all their endoskeletal structures from the metapterygium and consequently the tetrapod limb skeleton is derived from the metapterygium.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1002/jez.1100 Wagner GP, Chiu C, The tetrapod limb: A hypothesis on its origin. J Exp Zool (Mol Dev Evol) (2001)" +- [glycogen biosynthetic process](http://purl.obolibrary.org/obo/GO_0005978) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27107"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### glycogen catabolic process `http://purl.obolibrary.org/obo/GO_0005980` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [glycogen catabolic process](http://purl.obolibrary.org/obo/GO_0005980) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MetaCyc:PWY-5941" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001258" +- [glycogen catabolic process](http://purl.obolibrary.org/obo/GO_0005980) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27107"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [glycogen catabolic process](http://purl.obolibrary.org/obo/GO_0005980) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MetaCyc:PWY-7662" -### paired limb/fin cartilage `http://purl.obolibrary.org/obo/UBERON_0007389` -#### Removed -- [paired limb/fin cartilage](http://purl.obolibrary.org/obo/UBERON_0007389) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cartilage which is part of one of the paired fins.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001543" +### glycoprotein metabolic process `http://purl.obolibrary.org/obo/GO_0009100` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +#### Added +- [glycoprotein metabolic process](http://purl.obolibrary.org/obo/GO_0009100) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### glycoprotein transport `http://purl.obolibrary.org/obo/GO_0034436` +#### Added +- [glycoprotein transport](http://purl.obolibrary.org/obo/GO_0034436) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### paired limb/fin field `http://purl.obolibrary.org/obo/UBERON_0005732` +### glycosaminoglycan metabolic process `http://purl.obolibrary.org/obo/GO_0030203` #### Added -- [paired limb/fin field](http://purl.obolibrary.org/obo/UBERON_0005732) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [glycosaminoglycan metabolic process](http://purl.obolibrary.org/obo/GO_0030203) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### paired limb/fin skeleton `http://purl.obolibrary.org/obo/UBERON_0011582` -#### Removed -- [paired limb/fin skeleton](http://purl.obolibrary.org/obo/UBERON_0011582) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Skeletal subdivision that is part of the paired limb/fin.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000301" +### glycosaminoglycan secreting cell `http://purl.obolibrary.org/obo/CL_0000153` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070" +#### Added +- [glycosaminoglycan secreting cell](http://purl.obolibrary.org/obo/CL_0000153) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009093" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" +### glycosphingolipid binding `http://purl.obolibrary.org/obo/GO_0043208` +#### Added +- [glycosphingolipid binding](http://purl.obolibrary.org/obo/GO_0043208) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### paired venous dural sinus `http://purl.obolibrary.org/obo/UBERON_0017635` +### glycosphingolipid metabolic process `http://purl.obolibrary.org/obo/GO_0006687` #### Added -- [paired venous dural sinus](http://purl.obolibrary.org/obo/UBERON_0017635) SubClassOf [head blood vessel](http://purl.obolibrary.org/obo/UBERON_0003496) +- [glycosphingolipid metabolic process](http://purl.obolibrary.org/obo/GO_0006687) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### palate bone `http://purl.obolibrary.org/obo/UBERON_0012071` -#### Removed -- [palate bone](http://purl.obolibrary.org/obo/UBERON_0012071) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this is distinct (but not disjoint) from palatine bone" +### goblet cell `http://purl.obolibrary.org/obo/CL_0000160` +#### Added +- [goblet cell](http://purl.obolibrary.org/obo/CL_0000160) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009094" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### palatoquadrate arch `http://purl.obolibrary.org/obo/UBERON_0011085` +### gocheck_do_not_manually_annotate `http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate` #### Removed -- [palatoquadrate arch](http://purl.obolibrary.org/obo/UBERON_0011085) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VHOG:0000511" +- AnnotationProperty: [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) + +- [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) SubPropertyOf: [subset_property](http://www.geneontology.org/formats/oboInOwl#SubsetProperty) + + + +### gonad `http://purl.obolibrary.org/obo/UBERON_0000991` + +#### Added +- [gonad](http://purl.obolibrary.org/obo/UBERON_0000991) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) + + +### gonadal ridge `http://purl.obolibrary.org/obo/UBERON_0005294` + +#### Added +- [gonadal ridge](http://purl.obolibrary.org/obo/UBERON_0005294) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [palatoquadrate arch](http://purl.obolibrary.org/obo/UBERON_0011085) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Subsequent vertebrate evolution has also involved major alterations to the pharynx; perhaps the most notable occurred with the evolution of the gnathostomes. This involved substantial modifications to the most anterior pharyngeal segments, with the jaw forming from the first, anterior, pharyngeal segment, while the second formed its supporting apparatus, the hyoid.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### gonadtroph `http://purl.obolibrary.org/obo/CL_0000437` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [gonadtroph](http://purl.obolibrary.org/obo/CL_0000437) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009202" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000511" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)" +### goslim_euk_cellular_processes_ribbon `http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon` #### Added -- [palatoquadrate arch](http://purl.obolibrary.org/obo/UBERON_0011085) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) +- AnnotationProperty: [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) +- [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) SubPropertyOf: [subset_property](http://www.geneontology.org/formats/oboInOwl#SubsetProperty) -### pallium `http://purl.obolibrary.org/obo/UBERON_0000203` -#### Removed -- [pallium](http://purl.obolibrary.org/obo/UBERON_0000203) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In the anatomy of animals, an avian pallium is the dorsal telencephalon of a bird's brain. Pallium of avian species tend to be relatively large, comprising ~75% of the telencephalic volume." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Avian_pallium" - - [taxon](http://www.geneontology.org/formats/oboInOwl#taxon) "NCBITaxon:8782" +### goslim_plant_ribbon `http://purl.obolibrary.org/obo/go#goslim_plant_ribbon` -- [pallium](http://purl.obolibrary.org/obo/UBERON_0000203) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans the cerebrum has three parts: the archipallium, the paleopallium and the neopallium. The developing telencephalon or forebrain is divided into pallium and subpallium. In amphibians, the cerebrum includes archipallium, paleopallium and some of the basal nuclei. Reptiles first developed a neopallium, which continued to develop in the brains of more recent species to become the neocortex of humans and Old World monkeys. In fish, the archipallium is the largest part of the cerebrum. Some researchers suggest the early archipallium gave rise to the human hippocampus" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" +#### Added +- AnnotationProperty: [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) +- [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) SubPropertyOf: [subset_property](http://www.geneontology.org/formats/oboInOwl#SubsetProperty) -### palmar/plantar sweat gland `http://purl.obolibrary.org/obo/UBERON_0014391` -#### Removed -- [palmar/plantar sweat gland](http://purl.obolibrary.org/obo/UBERON_0014391) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in mice these are the only sweat glands present" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0000675" +### goslim_prokaryote_ribbon `http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon` +#### Added +- AnnotationProperty: [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) +- [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) SubPropertyOf: [subset_property](http://www.geneontology.org/formats/oboInOwl#SubsetProperty) -### palpebral artery `http://purl.obolibrary.org/obo/UBERON_0014770` -#### Removed -- [palpebral artery](http://purl.obolibrary.org/obo/UBERON_0014770) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, the eyelids are supplied with blood by two arches on each upper and lower lid. The arches are formed by anastamoses of the lateral palpebral arteries and medial palpebral arteries, branching off from the lacrimal artery and ophthalmic artery, respectively. In amphibians, the eyelids may be supplied by branches of the lateral pretrosal arteries.[cjm]" +### granule cell `http://purl.obolibrary.org/obo/CL_0000120` +#### Added +- [granule cell](http://purl.obolibrary.org/obo/CL_0000120) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009070" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### panarthropod head `http://purl.obolibrary.org/obo/UBERON_6000004` + +### granulocyte `http://purl.obolibrary.org/obo/CL_0000094` #### Removed -- [panarthropod head](http://purl.obolibrary.org/obo/UBERON_6000004) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000004" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [granulocyte](http://purl.obolibrary.org/obo/CL_0000094) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +#### Added +- [granulocyte](http://purl.obolibrary.org/obo/CL_0000094) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009048" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### pancreas `http://purl.obolibrary.org/obo/UBERON_0001264` +### granulocyte monocyte progenitor cell `http://purl.obolibrary.org/obo/CL_0000557` #### Removed -- [pancreas](http://purl.obolibrary.org/obo/UBERON_0001264) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In the hagfish and lampreys (our most primitive vertebrate species of today), the first sign of 'a new organ' is found as collections of endocrine cells around the area of the bile duct connection with the duodenum. These endocrine organs are composed of 99% beta cells and 1% somatostatin-producing delta cells. Compared to the more primitive protochordates (e.g. amphioxus), this represents a stage where all previously scattered insulin-producing cells of the intestinal tissue have now quantitatively migrated to found a new organ involved in sensing blood glucose rather than gut glucose. Only later in evolution, the beta cells are joined by exocrine tissue and alpha cells (exemplified by the rat-, rabbit- and elephant-fishes). Finally, from sharks and onwards in evolution, we have the islet PP-cell entering to complete the pancreas.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [granulocyte monocyte progenitor cell](http://purl.obolibrary.org/obo/CL_0000557) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [granulocyte monocyte progenitor cell](http://purl.obolibrary.org/obo/CL_0000557) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009251" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000050" +### granulosa cell `http://purl.obolibrary.org/obo/CL_0000501` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/j.crvi.2007.03.006 Madsen OD, Pancreas phylogeny and ontogeny in relation to a 'pancreatic stem cell'. C.R. Biologies (2007)" +#### Added +- [granulosa cell](http://purl.obolibrary.org/obo/CL_0000501) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009227" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [pancreas](http://purl.obolibrary.org/obo/UBERON_0001264) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The zebrafish does not have a discrete pancreas. Exocrine pancreatic tissue can be found scattered along the intestinal tract. The acinar structure of the exocrine pancreas is very similar to that of mammals and comprises cells with a very dark, basophilic cytoplasm" -- [pancreas](http://purl.obolibrary.org/obo/UBERON_0001264) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "The mature pancreas of higher vertebrates and mammals comprises two major functional units: the exocrine pancreas, which is responsible for the production of digestive enzymes to be secreted into the gut lumen, and the endocrine pancreas, which has its role in the synthesis of several hormones with key regulatory functions in food uptake and metabolism. The exocrine portion constitutes the majority of the mass of the pancreas, and contains only two different cell types, the secretory acinar cells and the ductular cells. The endocrine portion, which comprises only 1-2% of the total mass, contains five different cell types, which are organized into mixed functional assemblies referred to as the islets of Langerhans" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:16417468" +### gravid organism `http://purl.obolibrary.org/obo/UBERON_0009097` -- [pancreas](http://purl.obolibrary.org/obo/UBERON_0001264) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "pancreatic" +#### Added +- [gravid organism](http://purl.obolibrary.org/obo/UBERON_0009097) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [pancreas](http://purl.obolibrary.org/obo/UBERON_0001264) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organ which secretes a fluid containing enzymes that aid in the digestion of food.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010112" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### gravity sensitive cell `http://purl.obolibrary.org/obo/CL_0000203` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [gravity sensitive cell](http://purl.obolibrary.org/obo/CL_0000203) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any neuronal receptor cell that is capable of some detection of mechanical stimulus involved in sensory perception of gravity." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" -- [pancreas](http://purl.obolibrary.org/obo/UBERON_0001264) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "As a secretory organ serving exocrine and endocrine functions, the pancreas is specific to the vertebrates[PMID:16417468] Hagfishes and lampreys are unique in the complete separation of their endocrine pancreas (islet or- gan) and their exocrine pancreas (50). The endocrine and exocrine pancreas are coassociated in crown gnathostomes (50). In Branchiostoma and Ciona, there is no diverticulum as there is in hagfishes, lampreys, and gnathostomes, only dispersed insulin-secreting cells in the walls of the gastrointestinal tract (51, 52)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:20959416" +### green sensitive photoreceptor cell `http://purl.obolibrary.org/obo/CL_0000496` +#### Added +- [green sensitive photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000496) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009223" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### pancreas left lobe `http://purl.obolibrary.org/obo/UBERON_0015280` +### growth plate cartilage chondrocyte `http://purl.obolibrary.org/obo/CL_1000217` #### Added -- [pancreas left lobe](http://purl.obolibrary.org/obo/UBERON_0015280) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - +- [growth plate cartilage chondrocyte](http://purl.obolibrary.org/obo/CL_1000217) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any chondrocyte that is part of some growth plate cartilage." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### pancreas primordium `http://purl.obolibrary.org/obo/UBERON_0003921` -#### Removed -- [pancreas primordium](http://purl.obolibrary.org/obo/UBERON_0003921) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "revisit after standardizing terms 'primordium', 'anlagen', 'bud'" -- [pancreas primordium](http://purl.obolibrary.org/obo/UBERON_0003921) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in EHDAA2 this has dorsal and ventral primordia as parts. the buds are part of the primordium, with the ducts developing from the buds; only parenchyma and ducts have contribution from buds" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" +### gustatory organ `http://purl.obolibrary.org/obo/UBERON_0003212` +#### Added +- [gustatory organ](http://purl.obolibrary.org/obo/UBERON_0003212) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005159" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### pancreas right lobe `http://purl.obolibrary.org/obo/UBERON_0015281` +### gustatory papilla of tongue `http://purl.obolibrary.org/obo/UBERON_0014389` #### Added -- [pancreas right lobe](http://purl.obolibrary.org/obo/UBERON_0015281) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) +- [gustatory papilla of tongue](http://purl.obolibrary.org/obo/UBERON_0014389) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### pancreas ventral primordium `http://purl.obolibrary.org/obo/UBERON_0010376` -#### Removed -- [pancreas ventral primordium](http://purl.obolibrary.org/obo/UBERON_0010376) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Starts at CS14 in human (EHDAA2) or CS13-14 (embryology.ch 'bud anlagen')" +### gut absorptive cell `http://purl.obolibrary.org/obo/CL_0000677` +#### Added +- [gut absorptive cell](http://purl.obolibrary.org/obo/CL_0000677) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009289" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### pancreatic acinus `http://purl.obolibrary.org/obo/UBERON_0001263` -#### Removed -- [pancreatic acinus](http://purl.obolibrary.org/obo/UBERON_0001263) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0000028" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### gut endothelial cell `http://purl.obolibrary.org/obo/CL_0000131` + +#### Added +- [gut endothelial cell](http://purl.obolibrary.org/obo/CL_0000131) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009078" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) +### hair follicle morphogenesis `http://purl.obolibrary.org/obo/GO_0031069` #### Added -- [pancreatic acinus](http://purl.obolibrary.org/obo/UBERON_0001263) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [hair follicle morphogenesis](http://purl.obolibrary.org/obo/GO_0031069) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### pancreatic duct `http://purl.obolibrary.org/obo/UBERON_0007329` +### has component activity `http://purl.obolibrary.org/obo/RO_0002017` #### Removed -- [pancreatic duct](http://purl.obolibrary.org/obo/UBERON_0007329) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class groups together accessory (dorsal) and main (ventral) pancreatic ducts" +- [has component activity](http://purl.obolibrary.org/obo/RO_0002017) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B." -- [pancreatic duct](http://purl.obolibrary.org/obo/UBERON_0007329) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "These data show that ducts within the zebrafish pancreas originally arise in situ from isolated progenitor cells rather than arising from reiterative branching of the pancreatic epithelium. This process of pancreatic duct formation in zebrafish may be analogous to the mechanism of duct formation in the mammalian mammary and salivary glands. (...) A related mechanism of duct formation has also been proposed to occur within the mammalian pancreatic epithelium.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [has component activity](http://purl.obolibrary.org/obo/RO_0002017) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [has component activity](http://purl.obolibrary.org/obo/RO_0002017) [label](http://www.w3.org/2000/01/rdf-schema#label) "has component activity" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [has component activity](http://purl.obolibrary.org/obo/RO_0002017) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2017-05-24T09:44:33Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000254" +- ObjectProperty: [has component activity](http://purl.obolibrary.org/obo/RO_0002017) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/j.ydbio.2005.04.035 Yee NS, Lorent K, Pack M, Exocrine pancreas development in zebrafish. Developmental Biology (2005)" +- [has component activity](http://purl.obolibrary.org/obo/RO_0002017) SubPropertyOf: [has component process](http://purl.obolibrary.org/obo/RO_0002018) -- [pancreatic duct](http://purl.obolibrary.org/obo/UBERON_0007329) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in EHDAA2, the dorsal and ventral ducts are classified as epithelial sacs - review after overhaul of duct/epithelia terms" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" -- [pancreatic duct](http://purl.obolibrary.org/obo/UBERON_0007329) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D010183" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) +### has component process `http://purl.obolibrary.org/obo/RO_0002018` +#### Removed +- [has component process](http://purl.obolibrary.org/obo/RO_0002018) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." + +- [has component process](http://purl.obolibrary.org/obo/RO_0002018) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +- [has component process](http://purl.obolibrary.org/obo/RO_0002018) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2017-05-24T09:49:21Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) -- [pancreatic duct](http://purl.obolibrary.org/obo/UBERON_0007329) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Duct connecting the pancreas with the intestine. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [has component process](http://purl.obolibrary.org/obo/RO_0002018) [label](http://www.w3.org/2000/01/rdf-schema#label) "has component process" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- ObjectProperty: [has component process](http://purl.obolibrary.org/obo/RO_0002018) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [has component process](http://purl.obolibrary.org/obo/RO_0002018) Domain [process](http://purl.obolibrary.org/obo/BFO_0000015) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000254" +- [has component process](http://purl.obolibrary.org/obo/RO_0002018) Range [process](http://purl.obolibrary.org/obo/BFO_0000015) +- [has component process](http://purl.obolibrary.org/obo/RO_0002018) SubPropertyOf: [has component](http://purl.obolibrary.org/obo/RO_0002180) -### pancreatic epithelial bud `http://purl.obolibrary.org/obo/UBERON_0003922` + +### has disposition `http://purl.obolibrary.org/obo/RO_0000091` #### Removed -- [pancreatic epithelial bud](http://purl.obolibrary.org/obo/UBERON_0003922) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [duodenum](http://purl.obolibrary.org/obo/UBERON_0002114) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Pancreatic_bud" +- [has disposition](http://purl.obolibrary.org/obo/RO_0000091) [label](http://www.w3.org/2000/01/rdf-schema#label) "has disposition"@en - - [exception](http://www.geneontology.org/formats/oboInOwl#exception) "zebrafish" +- [has disposition](http://purl.obolibrary.org/obo/RO_0000091) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence"@en -#### Added -- [pancreatic epithelial bud](http://purl.obolibrary.org/obo/UBERON_0003922) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [duodenum](http://purl.obolibrary.org/obo/UBERON_0002114) +- ObjectProperty: [has disposition](http://purl.obolibrary.org/obo/RO_0000091) +- [has disposition](http://purl.obolibrary.org/obo/RO_0000091) InverseOf [disposition of](http://purl.obolibrary.org/obo/RO_0000092) -### pancreatic lobule `http://purl.obolibrary.org/obo/UBERON_0007324` -#### Removed -- [pancreatic lobule](http://purl.obolibrary.org/obo/UBERON_0007324) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In mice many lobules lack islets, in contrast to other mammals including humans" +- [has disposition](http://purl.obolibrary.org/obo/RO_0000091) Domain [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -#### Added -- [pancreatic lobule](http://purl.obolibrary.org/obo/UBERON_0007324) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [has disposition](http://purl.obolibrary.org/obo/RO_0000091) Range [disposition](http://purl.obolibrary.org/obo/BFO_0000016) +- [has disposition](http://purl.obolibrary.org/obo/RO_0000091) SubPropertyOf: [bearer of](http://purl.obolibrary.org/obo/RO_0000053) -### papillary layer of dermis `http://purl.obolibrary.org/obo/UBERON_0001992` + + +### has effector activity `http://purl.obolibrary.org/obo/RO_0002025` #### Removed -- [papillary layer of dermis](http://purl.obolibrary.org/obo/UBERON_0001992) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Dense irregular connective tissue of the skin that consists of fibroblasts, various connective tissue cell types, and collagen, predominantly type III." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:64776" +- [has effector activity](http://purl.obolibrary.org/obo/RO_0002025) [label](http://www.w3.org/2000/01/rdf-schema#label) "has effector activity" -#### Added -- [papillary layer of dermis](http://purl.obolibrary.org/obo/UBERON_0001992) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [has effector activity](http://purl.obolibrary.org/obo/RO_0002025) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2017-09-22T14:14:36Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) +- [has effector activity](http://purl.obolibrary.org/obo/RO_0002025) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) -### parasympathetic ganglion `http://purl.obolibrary.org/obo/UBERON_0001808` -#### Removed -- [parasympathetic ganglion](http://purl.obolibrary.org/obo/UBERON_0001808) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D005726" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [has effector activity](http://purl.obolibrary.org/obo/RO_0002025) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) +- [has effector activity](http://purl.obolibrary.org/obo/RO_0002025) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations." - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +- ObjectProperty: [has effector activity](http://purl.obolibrary.org/obo/RO_0002025) +- Functional: [has effector activity](http://purl.obolibrary.org/obo/RO_0002025) +- [has effector activity](http://purl.obolibrary.org/obo/RO_0002025) SubPropertyOf: [has component activity](http://purl.obolibrary.org/obo/RO_0002017) -### parasympathetic nervous system `http://purl.obolibrary.org/obo/UBERON_0000011` -#### Removed -- [parasympathetic nervous system](http://purl.obolibrary.org/obo/UBERON_0000011) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the autonomic nervous system which has opposing physiological effects of the sympathetic nervous system. Examples include decreasing the heart rate or dilating the blood vessels.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010488" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### has function `http://purl.obolibrary.org/obo/RO_0000085` +#### Removed +- [has function](http://purl.obolibrary.org/obo/RO_0000085) [label](http://www.w3.org/2000/01/rdf-schema#label) "has function"@en - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +- [has function](http://purl.obolibrary.org/obo/RO_0000085) [editor note](http://purl.obolibrary.org/obo/IAO_0000116) "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists."@en -- [parasympathetic nervous system](http://purl.obolibrary.org/obo/UBERON_0000011) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In mammals, the autonomic nervous system is divided into two contrasting, antagonistic systems of control over visceral activity: the sympathetic system and the parasympathetic system (reference 1); In general, the teleosts may be considered phylogenetically the first class of vertebrates in which the heart is regulated by both sympathetic and parasympathetic neural pathways (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [has function](http://purl.obolibrary.org/obo/RO_0000085) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence"@en - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- ObjectProperty: [has function](http://purl.obolibrary.org/obo/RO_0000085) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [has function](http://purl.obolibrary.org/obo/RO_0000085) Domain [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.634, DOI:10.1016/S0306-4530(98)00057-2 Porges SW, Love: an emergent property of the mammalian autonomic nervous system. Psychoneuroendocrinology (1998)" +- [has function](http://purl.obolibrary.org/obo/RO_0000085) Range [function](http://purl.obolibrary.org/obo/BFO_0000034) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000755" +- [has function](http://purl.obolibrary.org/obo/RO_0000085) SubPropertyOf: [bearer of](http://purl.obolibrary.org/obo/RO_0000053) -### parathyroid gland `http://purl.obolibrary.org/obo/UBERON_0001132` +### has member `http://purl.obolibrary.org/obo/RO_0002351` #### Removed -- [parathyroid gland](http://purl.obolibrary.org/obo/UBERON_0001132) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Either of the two pairs of small, spherical, encapsulated glands which develop from ventral growths of the third and fourth pharyngeal pouches and are closely associated with the external jugular veins. Calcitonin and parathyroid hormone are secreted by these glands.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- Irreflexive: [has member](http://purl.obolibrary.org/obo/RO_0002351) + - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010545" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### has negative regulatory component activity `http://purl.obolibrary.org/obo/RO_0002014` +#### Removed +- [has negative regulatory component activity](http://purl.obolibrary.org/obo/RO_0002014) [label](http://www.w3.org/2000/01/rdf-schema#label) "has negative regulatory component activity" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +- [has negative regulatory component activity](http://purl.obolibrary.org/obo/RO_0002014) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002014" -- [parathyroid gland](http://purl.obolibrary.org/obo/UBERON_0001132) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Any one of several small structures, usually four, attached to the dorsal surfaces of the lateral lobes of the thyroid gland. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [has negative regulatory component activity](http://purl.obolibrary.org/obo/RO_0002014) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "external" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [has negative regulatory component activity](http://purl.obolibrary.org/obo/RO_0002014) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "has_negative_regulatory_component_activity" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [has negative regulatory component activity](http://purl.obolibrary.org/obo/RO_0002014) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/parathyroid+gland" +- [has negative regulatory component activity](http://purl.obolibrary.org/obo/RO_0002014) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001188" +- [has negative regulatory component activity](http://purl.obolibrary.org/obo/RO_0002014) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'." -- [parathyroid gland](http://purl.obolibrary.org/obo/UBERON_0001132) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "In humans and chick it emerges from pouches 3 and 4, but in mice it is exclusively generated by the third pouch" +- [has negative regulatory component activity](http://purl.obolibrary.org/obo/RO_0002014) [id](http://www.geneontology.org/formats/oboInOwl#id) "has_negative_regulatory_component_activity" -- [parathyroid gland](http://purl.obolibrary.org/obo/UBERON_0001132) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "table 13.1 of Kardong is used to create the taxon-specific developmental relationships here, although some omissions are made for simplicity." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:16313389" +- [has negative regulatory component activity](http://purl.obolibrary.org/obo/RO_0002014) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2017-05-24T09:31:01Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) -- [parathyroid gland](http://purl.obolibrary.org/obo/UBERON_0001132) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The evolution of the tetrapods, and the shift from an aquatic to a terrestrial environment, was believed to have required new controls for regulating calcium homeostasis, and thus the evolution of parathyroid glands (...) both the tetrapod parathyroid and the gills of fish contribute to the regulation of extracellular calcium levels. It is therefore reasonable to suggest that the parathyroid gland evolved as a result of the transformation of the gills into the parathyroid glands of tetrapods and the transition from an aquatic to a terrestrial environment. This interpretation would also explain the positioning of the parathyroid gland within the pharynx in the tetrapod body. Were the parathyroid gland to have emerged de novo with the evolution of the tetrapods it could, as an endocrine organ, have been placed anywhere in the body and still exert its effect.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- ObjectProperty: [has negative regulatory component activity](http://purl.obolibrary.org/obo/RO_0002014) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [has negative regulatory component activity](http://purl.obolibrary.org/obo/RO_0002014) SubPropertyOf: [negatively regulated by](http://purl.obolibrary.org/obo/RO_0002335) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [has negative regulatory component activity](http://purl.obolibrary.org/obo/RO_0002014) SubPropertyOf: [has regulatory component activity](http://purl.obolibrary.org/obo/RO_0002013) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M, Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001188" -- [parathyroid gland](http://purl.obolibrary.org/obo/UBERON_0001132) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Parathyroid glands are found in all adult tetrapods, although they vary in their number, and in their exact position. Mammals typically have four parathyroids, while other groups typically have six. Fish do not possess parathyroid glands, although the ultimobranchial glands, which are found close to the oesophagus, may have a similar function and could even be homologous with the tetrapod parathyroids. Even these glands are absent in the most primitive vertebrates, the jawless fish, but as these species have no bone in their skeletons, only cartilage, it may be that they have less need to regulate calcium metabolism. The conserved homology of genes and calcium-sensing receptors in fish gills with those in the parathryroid glands of birds and mammals is recognized by evolutionary developmental biology as evolution-using genes and gene networks in novel ways to generate new structures with some similar functions and novel functions[WP]" +### has positive regulatory component activity `http://purl.obolibrary.org/obo/RO_0002015` +#### Removed +- [has positive regulatory component activity](http://purl.obolibrary.org/obo/RO_0002015) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'." +- [has positive regulatory component activity](http://purl.obolibrary.org/obo/RO_0002015) [label](http://www.w3.org/2000/01/rdf-schema#label) "has positive regulatory component activity" +- [has positive regulatory component activity](http://purl.obolibrary.org/obo/RO_0002015) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) -### paraventricular nucleus of hypothalamus `http://purl.obolibrary.org/obo/UBERON_0001930` -#### Removed -- [paraventricular nucleus of hypothalamus](http://purl.obolibrary.org/obo/UBERON_0001930) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [arcuate nucleus of hypothalamus](http://purl.obolibrary.org/obo/UBERON_0001932) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +- [has positive regulatory component activity](http://purl.obolibrary.org/obo/RO_0002015) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." -- [paraventricular nucleus of hypothalamus](http://purl.obolibrary.org/obo/UBERON_0001930) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0001929](http://purl.obolibrary.org/obo/UBERON_0001929) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +- [has positive regulatory component activity](http://purl.obolibrary.org/obo/RO_0002015) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2017-05-24T09:31:17Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) +- ObjectProperty: [has positive regulatory component activity](http://purl.obolibrary.org/obo/RO_0002015) +- [has positive regulatory component activity](http://purl.obolibrary.org/obo/RO_0002015) SubPropertyOf: [positively regulated by](http://purl.obolibrary.org/obo/RO_0002336) -### paravertebral ganglion `http://purl.obolibrary.org/obo/UBERON_0001807` -#### Removed -- [paravertebral ganglion](http://purl.obolibrary.org/obo/UBERON_0001807) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_80128](http://purl.obolibrary.org/obo/FMA_80128) +- [has positive regulatory component activity](http://purl.obolibrary.org/obo/RO_0002015) SubPropertyOf: [has regulatory component activity](http://purl.obolibrary.org/obo/RO_0002013) -### paraxial mesoderm `http://purl.obolibrary.org/obo/UBERON_0003077` +### has regulatory component activity `http://purl.obolibrary.org/obo/RO_0002013` #### Removed -- [paraxial mesoderm](http://purl.obolibrary.org/obo/UBERON_0003077) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Mesoderm lateral to the neural tube and notochord that is divided into cranial and post-cranial portions. The trunk portions further segment into somites.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" +- [has regulatory component activity](http://purl.obolibrary.org/obo/RO_0002013) [label](http://www.w3.org/2000/01/rdf-schema#label) "has regulatory component activity" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [has regulatory component activity](http://purl.obolibrary.org/obo/RO_0002013) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002013" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [has regulatory component activity](http://purl.obolibrary.org/obo/RO_0002013) [id](http://www.geneontology.org/formats/oboInOwl#id) "has_regulatory_component_activity" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010568" +- [has regulatory component activity](http://purl.obolibrary.org/obo/RO_0002013) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) -- [paraxial mesoderm](http://purl.obolibrary.org/obo/UBERON_0003077) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "note that all AOs differ in the relationship between this structure and the mesoderm; in ZFA it is a subclass (and this is implied by the GO definition and GO relationships), in AAO it is part of, and in EHDAA2 it develops from the mesoderm (but in EHDAA2 the naming convention is to use 'paraxial mesenchyme', rather than 'paraxial mesoderm'). Also in ZFA it is part of the trunk whereas this conflicts with the division into head and trunk in ehdaa2 (which we follow here)" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" +- [has regulatory component activity](http://purl.obolibrary.org/obo/RO_0002013) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." -- [paraxial mesoderm](http://purl.obolibrary.org/obo/UBERON_0003077) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Presently, Cephalochordata, Urochordata, and Vertebrata are placed as subphyla of the phylum Chordata, in which the overall organization of embryonic tissues (dorsal hollow nerve cord, ventral digestive tract, axial notochord, and bilateral paraxial mesoderm) is largely conserved. In contrast, the echinoderms and hemichordates are sister groups of the chordates and they lack the notochord and paraxial mesoderm. Thus, the basic mesodermal organization of vertebrates must have appeared first in the common ancestor of the chordates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1002/dvdy.21177 Kusakabe R and Kuratani S. Evolutionary perspectives from development of mesodermal components in the lamprey. Developmental dynamics (2007)" +- [has regulatory component activity](http://purl.obolibrary.org/obo/RO_0002013) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2017-05-24T09:30:46Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [has regulatory component activity](http://purl.obolibrary.org/obo/RO_0002013) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "has_regulatory_component_activity" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [has regulatory component activity](http://purl.obolibrary.org/obo/RO_0002013) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "external" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- ObjectProperty: [has regulatory component activity](http://purl.obolibrary.org/obo/RO_0002013) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000114" +- [has regulatory component activity](http://purl.obolibrary.org/obo/RO_0002013) SubPropertyOf: [has component activity](http://purl.obolibrary.org/obo/RO_0002017) +- [has regulatory component activity](http://purl.obolibrary.org/obo/RO_0002013) SubPropertyOf: [regulated by](http://purl.obolibrary.org/obo/RO_0002334) -### parenchyma `http://purl.obolibrary.org/obo/UBERON_0000353` + +### has role `http://purl.obolibrary.org/obo/RO_0000087` #### Removed -- [parenchyma](http://purl.obolibrary.org/obo/UBERON_0000353) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Early in development the mammalian embryo has three distinct layers: ectoderm (external layer), endoderm (internal layer) and in between those two layers the middle layer or mesoderm. The parenchyma of most organs is of ectodermal (brain, skin) or endodermal origin (lungs, gastrointestinal tract, liver, pancreas). The parenchyma of a few organs (spleen, kidneys, heart) is of mesodermal origin. The stroma of all organs is of mesodermal origin" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" +- [has role](http://purl.obolibrary.org/obo/RO_0000087) [label](http://www.w3.org/2000/01/rdf-schema#label) "has role"@en -- [parenchyma](http://purl.obolibrary.org/obo/UBERON_0000353) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "parenchymal" +- [has role](http://purl.obolibrary.org/obo/RO_0000087) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence"@en -- [parenchyma](http://purl.obolibrary.org/obo/UBERON_0000353) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "the FMA definition is more restrictive, and limits this to solid organs. This would seem to cause problems for the lung parenchyma, except FMA classifies Lung as solid rather than cavitated" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [has role](http://purl.obolibrary.org/obo/RO_0000087) [editor note](http://purl.obolibrary.org/obo/IAO_0000116) "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists."@en -- [parenchyma](http://purl.obolibrary.org/obo/UBERON_0000353) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0001539" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- ObjectProperty: [has role](http://purl.obolibrary.org/obo/RO_0000087) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +- [has role](http://purl.obolibrary.org/obo/RO_0000087) Domain [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) +- [has role](http://purl.obolibrary.org/obo/RO_0000087) Range [role](http://purl.obolibrary.org/obo/BFO_0000023) -- [parenchyma](http://purl.obolibrary.org/obo/UBERON_0000353) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0000999" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [has role](http://purl.obolibrary.org/obo/RO_0000087) SubPropertyOf: [bearer of](http://purl.obolibrary.org/obo/RO_0000053) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) +### has skeleton `http://purl.obolibrary.org/obo/RO_0002551` +#### Removed +- Irreflexive: [has skeleton](http://purl.obolibrary.org/obo/RO_0002551) -### parenchyma of central nervous system `http://purl.obolibrary.org/obo/UBERON_0005158` + +### hatching gland cell `http://purl.obolibrary.org/obo/CL_0000249` #### Added -- [parenchyma of central nervous system](http://purl.obolibrary.org/obo/UBERON_0005158) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [hatching gland cell](http://purl.obolibrary.org/obo/CL_0000249) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009151" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### parenchyma of mammary gland `http://purl.obolibrary.org/obo/UBERON_0036245` +### head connective tissue `http://purl.obolibrary.org/obo/UBERON_0003566` #### Added -- [parenchyma of mammary gland](http://purl.obolibrary.org/obo/UBERON_0036245) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [head connective tissue](http://purl.obolibrary.org/obo/UBERON_0003566) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### parenchyma of spleen `http://purl.obolibrary.org/obo/UBERON_1000024` +### head morphogenesis `http://purl.obolibrary.org/obo/GO_0060323` #### Added -- [parenchyma of spleen](http://purl.obolibrary.org/obo/UBERON_1000024) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [head morphogenesis](http://purl.obolibrary.org/obo/GO_0060323) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### parenchyma of thyroid gland `http://purl.obolibrary.org/obo/UBERON_0001747` +### head sensillum `http://purl.obolibrary.org/obo/UBERON_0000963` #### Added -- [parenchyma of thyroid gland](http://purl.obolibrary.org/obo/UBERON_0001747) SubClassOf [structure with developmental contribution from neural crest](http://purl.obolibrary.org/obo/UBERON_0010314) - -- [parenchyma of thyroid gland](http://purl.obolibrary.org/obo/UBERON_0001747) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - +- [head sensillum](http://purl.obolibrary.org/obo/UBERON_0000963) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004114" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### parietal cortex `http://purl.obolibrary.org/obo/UBERON_0016530` -#### Removed -- [parietal cortex](http://purl.obolibrary.org/obo/UBERON_0016530) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D010296" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +### heart capillary growth `http://purl.obolibrary.org/obo/GO_0003248` +#### Added +- [heart capillary growth](http://purl.obolibrary.org/obo/GO_0003248) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### parietal organ `http://purl.obolibrary.org/obo/UBERON_0004869` +### heart development `http://purl.obolibrary.org/obo/GO_0007507` #### Added -- [parietal organ](http://purl.obolibrary.org/obo/UBERON_0004869) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [heart development](http://purl.obolibrary.org/obo/GO_0007507) [present in taxon](http://purl.obolibrary.org/obo/RO_0002175) [NCBITaxon_7227](http://purl.obolibrary.org/obo/NCBITaxon_7227) -### parietal peritoneum `http://purl.obolibrary.org/obo/UBERON_0001366` -#### Removed -- [parietal peritoneum](http://purl.obolibrary.org/obo/UBERON_0001366) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Peritoneum attached to the abdominal wall.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:JMG" +### heart primordium `http://purl.obolibrary.org/obo/UBERON_0003084` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [heart primordium](http://purl.obolibrary.org/obo/UBERON_0003084) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010816" +### heart rudiment formation `http://purl.obolibrary.org/obo/GO_0003315` +#### Added +- [heart rudiment formation](http://purl.obolibrary.org/obo/GO_0003315) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### parietal pleura `http://purl.obolibrary.org/obo/UBERON_0002400` +### heart valve formation `http://purl.obolibrary.org/obo/GO_0003188` #### Added -- [parietal pleura](http://purl.obolibrary.org/obo/UBERON_0002400) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [heart valve formation](http://purl.obolibrary.org/obo/GO_0003188) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### parietal serous membrane `http://purl.obolibrary.org/obo/UBERON_0022351` +### heart valve morphogenesis `http://purl.obolibrary.org/obo/GO_0003179` #### Added -- [parietal serous membrane](http://purl.obolibrary.org/obo/UBERON_0022351) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [heart valve morphogenesis](http://purl.obolibrary.org/obo/GO_0003179) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### pars distalis of adenohypophysis `http://purl.obolibrary.org/obo/UBERON_0006964` +### helper property (not for use in curation) `http://purl.obolibrary.org/obo/RO_0002464` #### Removed -- [pars distalis of adenohypophysis](http://purl.obolibrary.org/obo/UBERON_0006964) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The anterior part of the adenohypophysis. [TFD][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000244" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [helper property (not for use in curation)](http://purl.obolibrary.org/obo/RO_0002464) [label](http://www.w3.org/2000/01/rdf-schema#label) "helper property (not for use in curation)" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- ObjectProperty: [helper property (not for use in curation)](http://purl.obolibrary.org/obo/RO_0002464) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://www.thefreedictionary.com/pars+anterior" -- [pars distalis of adenohypophysis](http://purl.obolibrary.org/obo/UBERON_0006964) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "It (the hypophysis) develops embryonically in all vertebrates from two ectodermal evaginations that meet and unite. An infundibulum grows ventrally from the diencephalon of the brain, and Rathke's pouch extends dorsally from the roof of the developing mouth, or stomodaeum. The infundibulum remains connected to the floor of the diencephalon, which becomes the hypothalamus, and gives rise to the part of the gland known as the neurohypophysis. (...) Rathke's pouch loses its connection with the stomodaeum in most adult vertebrates and gives rise to the rest of the gland, the adenohypophysis. (...) A well-developed hypophyseal system with functional connections to the hypothalamus is unique to craniates.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000244" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### hemangioblast `http://purl.obolibrary.org/obo/CL_0002418` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.510 and Figure 15-5" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [hemangioblast](http://purl.obolibrary.org/obo/CL_0002418) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [pars distalis of adenohypophysis](http://purl.obolibrary.org/obo/UBERON_0006964) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Region of the adenohypophysis which produces the follicle-stimulating hormone, luteinizing hormone, prolactin, thyrotropin, and adrenocorticotropin.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010542" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### hematopoietic cell `http://purl.obolibrary.org/obo/CL_0000988` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [hematopoietic cell](http://purl.obolibrary.org/obo/CL_0000988) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005830" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" -- [pars distalis of adenohypophysis](http://purl.obolibrary.org/obo/UBERON_0006964) SubClassOf [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2" +### hematopoietic lineage restricted progenitor cell `http://purl.obolibrary.org/obo/CL_0002031` #### Added -- [pars distalis of adenohypophysis](http://purl.obolibrary.org/obo/UBERON_0006964) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) +- [hematopoietic lineage restricted progenitor cell](http://purl.obolibrary.org/obo/CL_0002031) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### part of developmental precursor of `http://purl.obolibrary.org/obo/RO_0002287` +### hematopoietic multipotent progenitor cell `http://purl.obolibrary.org/obo/CL_0000837` #### Removed -- [part of developmental precursor of](http://purl.obolibrary.org/obo/RO_0002287) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "'hypopharyngeal eminence' SubClassOf 'part of precursor of' some tongue" - -- [part of developmental precursor of](http://purl.obolibrary.org/obo/RO_0002287) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) - -- [part of developmental precursor of](http://purl.obolibrary.org/obo/RO_0002287) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - - +- [hematopoietic multipotent progenitor cell](http://purl.obolibrary.org/obo/CL_0000837) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### part of structure that is capable of `http://purl.obolibrary.org/obo/RO_0002329` -#### Removed -- [part of structure that is capable of](http://purl.obolibrary.org/obo/RO_0002329) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +#### Added +- [hematopoietic multipotent progenitor cell](http://purl.obolibrary.org/obo/CL_0000837) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009354" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [part of structure that is capable of](http://purl.obolibrary.org/obo/RO_0002329) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) false +- [hematopoietic multipotent progenitor cell](http://purl.obolibrary.org/obo/CL_0000837) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [part_of](http://purl.obolibrary.org/obo/BFO_0000050) o [capable of](http://purl.obolibrary.org/obo/RO_0002215) SubPropertyOf: [part of structure that is capable of](http://purl.obolibrary.org/obo/RO_0002329) - - [is a defining property chain axiom](http://purl.obolibrary.org/obo/RO_0002581) true +### hematopoietic oligopotent progenitor cell `http://purl.obolibrary.org/obo/CL_0002032` +#### Added +- [hematopoietic oligopotent progenitor cell](http://purl.obolibrary.org/obo/CL_0002032) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### part_of `http://purl.obolibrary.org/obo/BFO_0000050` -#### Removed -- [part_of](http://purl.obolibrary.org/obo/BFO_0000050) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "is part of"@en -- [part_of](http://purl.obolibrary.org/obo/BFO_0000050) [RO_0040042](http://purl.obolibrary.org/obo/RO_0040042) [specifically dependent continuant](http://purl.obolibrary.org/obo/BFO_0000020) +### hematopoietic stem cell `http://purl.obolibrary.org/obo/CL_0000037` -- [part_of](http://purl.obolibrary.org/obo/BFO_0000050) [RO_0040042](http://purl.obolibrary.org/obo/RO_0040042) [realizable entity](http://purl.obolibrary.org/obo/BFO_0000017) +#### Added +- [hematopoietic stem cell](http://purl.obolibrary.org/obo/CL_0000037) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009014" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [part_of](http://purl.obolibrary.org/obo/BFO_0000050) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) -- [part_of](http://purl.obolibrary.org/obo/BFO_0000050) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this day is part of this year (occurrent parthood)"@en +### hematopoietic stem cell homeostasis `http://purl.obolibrary.org/obo/GO_0061484` -- [part_of](http://purl.obolibrary.org/obo/BFO_0000050) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +#### Added +- [hematopoietic stem cell homeostasis](http://purl.obolibrary.org/obo/GO_0061484) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [part_of](http://purl.obolibrary.org/obo/BFO_0000050) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "my brain is part of my body (continuant parthood, two material entities)"@en -- [part_of](http://purl.obolibrary.org/obo/BFO_0000050) [RO_0040042](http://purl.obolibrary.org/obo/RO_0040042) [quality](http://purl.obolibrary.org/obo/BFO_0000019) +### hematopoietic stem cell migration `http://purl.obolibrary.org/obo/GO_0035701` -- [part_of](http://purl.obolibrary.org/obo/BFO_0000050) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "part_of"@en +#### Added +- [hematopoietic stem cell migration](http://purl.obolibrary.org/obo/GO_0035701) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [part_of](http://purl.obolibrary.org/obo/BFO_0000050) [RO_0040042](http://purl.obolibrary.org/obo/RO_0040042) [generically dependent continuant](http://purl.obolibrary.org/obo/BFO_0000031) -- [part_of](http://purl.obolibrary.org/obo/BFO_0000050) [RO_0040042](http://purl.obolibrary.org/obo/RO_0040042) [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### hemocyte (sensu Arthropoda) `http://purl.obolibrary.org/obo/CL_0000387` +#### Removed +- [hemocyte (sensu Arthropoda)](http://purl.obolibrary.org/obo/CL_0000387) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005063" -- [part_of](http://purl.obolibrary.org/obo/BFO_0000050) [RO_0040042](http://purl.obolibrary.org/obo/RO_0040042) [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) +#### Added +- [hemocyte (sensu Arthropoda)](http://purl.obolibrary.org/obo/CL_0000387) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005063" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [part_of](http://purl.obolibrary.org/obo/BFO_0000050) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "my stomach cavity is part of my stomach (continuant parthood, immaterial entity is part of material entity)"@en +- [hemocyte (sensu Arthropoda)](http://purl.obolibrary.org/obo/CL_0000387) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [part_of](http://purl.obolibrary.org/obo/BFO_0000050) [RO_0040042](http://purl.obolibrary.org/obo/RO_0040042) [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +### hemocyte migration `http://purl.obolibrary.org/obo/GO_0035099` +#### Added +- [hemocyte migration](http://purl.obolibrary.org/obo/GO_0035099) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### participates in `http://purl.obolibrary.org/obo/RO_0000056` -#### Removed -- [participates in](http://purl.obolibrary.org/obo/RO_0000056) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "participates in"@en -- [participates in](http://purl.obolibrary.org/obo/RO_0000056) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this input material (or this output material) participates in this process"@en +### hemocyte proliferation `http://purl.obolibrary.org/obo/GO_0035172` -- [participates in](http://purl.obolibrary.org/obo/RO_0000056) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this investigator participates in this investigation"@en +#### Added +- [hemocyte proliferation](http://purl.obolibrary.org/obo/GO_0035172) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [participates in](http://purl.obolibrary.org/obo/RO_0000056) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" -- [participates in](http://purl.obolibrary.org/obo/RO_0000056) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this blood clot participates in this blood coagulation"@en +### hemopoiesis `http://purl.obolibrary.org/obo/GO_0030097` -- [participates in](http://purl.obolibrary.org/obo/RO_0000056) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "participates_in"@en +#### Added +- [hemopoiesis](http://purl.obolibrary.org/obo/GO_0030097) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Eumetazoa](http://purl.obolibrary.org/obo/NCBITaxon_6072) +- [hemopoiesis](http://purl.obolibrary.org/obo/GO_0030097) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) only [Eumetazoa](http://purl.obolibrary.org/obo/NCBITaxon_6072) -### parvalbumin alpha `http://purl.obolibrary.org/obo/PR_000013502` -#### Removed -- [parvalbumin alpha](http://purl.obolibrary.org/obo/PR_000013502) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [parvalbumin alpha (human)](http://purl.obolibrary.org/obo/PR_P20472) +### heparin binding `http://purl.obolibrary.org/obo/GO_0008201` +#### Added +- [heparin binding](http://purl.obolibrary.org/obo/GO_0008201) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### patella `http://purl.obolibrary.org/obo/UBERON_0002446` -#### Removed -- [patella](http://purl.obolibrary.org/obo/UBERON_0002446) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "patellar" +### heparin metabolic process `http://purl.obolibrary.org/obo/GO_0030202` +#### Added +- [heparin metabolic process](http://purl.obolibrary.org/obo/GO_0030202) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### patella cartilage element `http://purl.obolibrary.org/obo/UBERON_0012080` +### hepatic immune response `http://purl.obolibrary.org/obo/GO_0002384` #### Added -- [patella cartilage element](http://purl.obolibrary.org/obo/UBERON_0012080) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [hepatic immune response](http://purl.obolibrary.org/obo/GO_0002384) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### patella pre-cartilage condensation `http://purl.obolibrary.org/obo/UBERON_0012081` +### hepatic stellate cell `http://purl.obolibrary.org/obo/CL_0000632` +#### Removed +- [hepatic stellate cell](http://purl.obolibrary.org/obo/CL_0000632) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) #### Added -- [patella pre-cartilage condensation](http://purl.obolibrary.org/obo/UBERON_0012081) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [hepatic stellate cell](http://purl.obolibrary.org/obo/CL_0000632) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009279" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### pectinate line `http://purl.obolibrary.org/obo/UBERON_0006574` +### hepatobiliary system `http://purl.obolibrary.org/obo/UBERON_0002423` #### Removed -- [pectinate line](http://purl.obolibrary.org/obo/UBERON_0006574) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA also has FMA:29321 but it's not clear how this differs" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [hepatobiliary system](http://purl.obolibrary.org/obo/UBERON_0002423) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) #### Added -- [pectinate line](http://purl.obolibrary.org/obo/UBERON_0006574) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [hepatobiliary system](http://purl.obolibrary.org/obo/UBERON_0002423) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### pectoral appendage `http://purl.obolibrary.org/obo/UBERON_0004710` -#### Removed -- [pectoral appendage](http://purl.obolibrary.org/obo/UBERON_0004710) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "While the skeletons of teleost pectoral fins and tetrapod forelimbs are homologous at the level of endoskeletal radials, teleosts and tetrapods do not share homologous skeletal elements at the level of 'individuated' pro-, meso-, and metapterygia. Among osteichthyans, only basal actinopterygians retain the full complement of elements present in non-osteichthyan gnathostomes.[uncertain][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001753" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### hepatocyte `http://purl.obolibrary.org/obo/CL_0000182` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [hepatocyte](http://purl.obolibrary.org/obo/CL_0000182) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009111" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [hepatocyte](http://purl.obolibrary.org/obo/CL_0000182) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1002/jmor.10264 Davis MC, Shubin NH, Force A, Pectoral fin and girdle development in the basal actinopterygians Polyodon spathula and Acipenser transmontanus. Journal of Morphology (2004)" -- [pectoral appendage](http://purl.obolibrary.org/obo/UBERON_0004710) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [pectoral appendage bud](http://purl.obolibrary.org/obo/UBERON_0005419) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" +### hepatocyte homeostasis `http://purl.obolibrary.org/obo/GO_0036333` #### Added -- [pectoral appendage](http://purl.obolibrary.org/obo/UBERON_0004710) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [pectoral appendage bud](http://purl.obolibrary.org/obo/UBERON_0005419) +- [hepatocyte homeostasis](http://purl.obolibrary.org/obo/GO_0036333) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### pectoral appendage apical ectodermal ridge `http://purl.obolibrary.org/obo/UBERON_0005421` +### heterocycle biosynthetic process `http://purl.obolibrary.org/obo/GO_0018130` #### Removed -- [pectoral appendage apical ectodermal ridge](http://purl.obolibrary.org/obo/UBERON_0005421) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Pectoral and pelvic fins are homologous to the tetrapod fore and hindlimb, respectively. (...) The zebrafish AER [apical ectodermal ridge] is an apical ectodermal thickening at the distal tip of the fin bud and consists of wedge-shaped cells of the basal stratum. The AER is observed only transiently, and from 36 hpf onwards the cells of this region form the apical fold (AF), which consists of a dorsal and a ventral layer of cylindrically-shaped ectodermal cells extending from the anterior to the posterior fin margin. Despite the change in shape, the AF still carries out the same functions as the AER. Indeed, although the AER receives its name from its characteristic shape, being composed of a pseudostratified ectoderm in the chicken and a polystratified ectoderm in the mouse, this independence of AER morphology from its function is also observed in tetrapods. The AF also expresses similar molecular markers to the tetrapod AER, suggesting that it fulfills similar functions in the fin as the AER does in tetrapod limbs.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1440-169X.2007.00942.x" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [heterocycle biosynthetic process](http://purl.obolibrary.org/obo/GO_0018130) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "heterocycle synthesis" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [heterocycle biosynthetic process](http://purl.obolibrary.org/obo/GO_0018130) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [heterocycle biosynthetic process](http://purl.obolibrary.org/obo/GO_0018130) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The chemical reactions and pathways resulting in the formation of heterocyclic compounds, those with a cyclic molecular structure and at least two different atoms in the ring (or rings)." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ISBN:0198547684" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001064" +- [heterocycle biosynthetic process](http://purl.obolibrary.org/obo/GO_0018130) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "heterocycle formation" -- [pectoral appendage apical ectodermal ridge](http://purl.obolibrary.org/obo/UBERON_0005421) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An ectodermal thickening at the end of the forelimb bud in the developing embryo. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [heterocycle biosynthetic process](http://purl.obolibrary.org/obo/GO_0018130) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "heterocycle anabolism" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [heterocycle biosynthetic process](http://purl.obolibrary.org/obo/GO_0018130) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "heterocycle biosynthesis" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [heterocycle biosynthetic process](http://purl.obolibrary.org/obo/GO_0018130) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0018130" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001064" +- [heterocycle biosynthetic process](http://purl.obolibrary.org/obo/GO_0018130) [label](http://www.w3.org/2000/01/rdf-schema#label) "heterocycle biosynthetic process" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/apical+ectodermal+ridge" +- Class: [heterocycle biosynthetic process](http://purl.obolibrary.org/obo/GO_0018130) -- [pectoral appendage apical ectodermal ridge](http://purl.obolibrary.org/obo/UBERON_0005421) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Apical ectodermal ridge that is part of the pectoral fin bud.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [heterocycle biosynthetic process](http://purl.obolibrary.org/obo/GO_0018130) EquivalentTo [biosynthetic process](http://purl.obolibrary.org/obo/GO_0009058) and ([has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_5686](http://purl.obolibrary.org/obo/CHEBI_5686)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [heterocycle biosynthetic process](http://purl.obolibrary.org/obo/GO_0018130) SubClassOf [heterocycle metabolic process](http://purl.obolibrary.org/obo/GO_0046483) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [heterocycle biosynthetic process](http://purl.obolibrary.org/obo/GO_0018130) SubClassOf [cellular biosynthetic process](http://purl.obolibrary.org/obo/GO_0044249) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000085" +- [heterocycle biosynthetic process](http://purl.obolibrary.org/obo/GO_0018130) SubClassOf [has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_5686](http://purl.obolibrary.org/obo/CHEBI_5686) -### pectoral appendage bud `http://purl.obolibrary.org/obo/UBERON_0005419` +### heterocycle catabolic process `http://purl.obolibrary.org/obo/GO_0046700` #### Removed -- [pectoral appendage bud](http://purl.obolibrary.org/obo/UBERON_0005419) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "While the skeletons of teleost pectoral fins and tetrapod forelimbs are homologous at the level of endoskeletal radials, teleosts and tetrapods do not share homologous skeletal elements at the level of 'individuated' pro-, meso-, and metapterygia. Among osteichthyans, only basal actinopterygians retain the full complement of elements present in non-osteichthyan gnathostomes.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [heterocycle catabolic process](http://purl.obolibrary.org/obo/GO_0046700) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "heterocycle breakdown" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [heterocycle catabolic process](http://purl.obolibrary.org/obo/GO_0046700) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "heterocycle degradation" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001754" +- [heterocycle catabolic process](http://purl.obolibrary.org/obo/GO_0046700) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0046700" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [heterocycle catabolic process](http://purl.obolibrary.org/obo/GO_0046700) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1002/jmor.10264 Davis MC, Shubin NH, Force A, Pectoral fin and girdle development in the basal actinopterygians Polyodon spathula and Acipenser transmontanus. Journal of Morphology (2004)" +- [heterocycle catabolic process](http://purl.obolibrary.org/obo/GO_0046700) [label](http://www.w3.org/2000/01/rdf-schema#label) "heterocycle catabolic process" -- [pectoral appendage bud](http://purl.obolibrary.org/obo/UBERON_0005419) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Fin bud that develops into the pectoral fin.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [heterocycle catabolic process](http://purl.obolibrary.org/obo/GO_0046700) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "heterocycle catabolism" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000141" +- [heterocycle catabolic process](http://purl.obolibrary.org/obo/GO_0046700) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The chemical reactions and pathways resulting in the breakdown of heterocyclic compounds, those with a cyclic molecular structure and at least two different atoms in the ring (or rings)." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:ai" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- Class: [heterocycle catabolic process](http://purl.obolibrary.org/obo/GO_0046700) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [heterocycle catabolic process](http://purl.obolibrary.org/obo/GO_0046700) EquivalentTo [catabolic process](http://purl.obolibrary.org/obo/GO_0009056) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_5686](http://purl.obolibrary.org/obo/CHEBI_5686)) +- [heterocycle catabolic process](http://purl.obolibrary.org/obo/GO_0046700) SubClassOf [cellular catabolic process](http://purl.obolibrary.org/obo/GO_0044248) +- [heterocycle catabolic process](http://purl.obolibrary.org/obo/GO_0046700) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_5686](http://purl.obolibrary.org/obo/CHEBI_5686) -### pectoral appendage bud ectoderm `http://purl.obolibrary.org/obo/UBERON_0003372` +- [heterocycle catabolic process](http://purl.obolibrary.org/obo/GO_0046700) SubClassOf [heterocycle metabolic process](http://purl.obolibrary.org/obo/GO_0046483) -#### Added -- [pectoral appendage bud ectoderm](http://purl.obolibrary.org/obo/UBERON_0003372) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) -### pectoral appendage bud mesenchyme `http://purl.obolibrary.org/obo/UBERON_0003413` +### heterocycle metabolic process `http://purl.obolibrary.org/obo/GO_0046483` #### Removed -- [pectoral appendage bud mesenchyme](http://purl.obolibrary.org/obo/UBERON_0003413) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Mesoderm that is part of the pectoral fin bud.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [heterocycle metabolic process](http://purl.obolibrary.org/obo/GO_0046483) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0046483" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000789" +- [heterocycle metabolic process](http://purl.obolibrary.org/obo/GO_0046483) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_pir](http://purl.obolibrary.org/obo/go#goslim_pir) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [heterocycle metabolic process](http://purl.obolibrary.org/obo/GO_0046483) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The chemical reactions and pathways involving heterocyclic compounds, those with a cyclic molecular structure and at least two different atoms in the ring (or rings)." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ISBN:0198506732" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [heterocycle metabolic process](http://purl.obolibrary.org/obo/GO_0046483) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" +- [heterocycle metabolic process](http://purl.obolibrary.org/obo/GO_0046483) [label](http://www.w3.org/2000/01/rdf-schema#label) "heterocycle metabolic process" +- [heterocycle metabolic process](http://purl.obolibrary.org/obo/GO_0046483) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "heterocycle metabolism" -### pectoral appendage cartilage tissue `http://purl.obolibrary.org/obo/UBERON_0007390` -#### Removed -- [pectoral appendage cartilage tissue](http://purl.obolibrary.org/obo/UBERON_0007390) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cartilage which is part of the pectoral fin.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- Class: [heterocycle metabolic process](http://purl.obolibrary.org/obo/GO_0046483) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000257" +- [heterocycle metabolic process](http://purl.obolibrary.org/obo/GO_0046483) EquivalentTo [metabolic process](http://purl.obolibrary.org/obo/GO_0008152) and ([has primary input or output](http://purl.obolibrary.org/obo/RO_0004007) some [CHEBI_5686](http://purl.obolibrary.org/obo/CHEBI_5686)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [heterocycle metabolic process](http://purl.obolibrary.org/obo/GO_0046483) SubClassOf [has primary input or output](http://purl.obolibrary.org/obo/RO_0004007) some [CHEBI_5686](http://purl.obolibrary.org/obo/CHEBI_5686) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [heterocycle metabolic process](http://purl.obolibrary.org/obo/GO_0046483) SubClassOf [cellular metabolic process](http://purl.obolibrary.org/obo/GO_0044237) -#### Added -- [pectoral appendage cartilage tissue](http://purl.obolibrary.org/obo/UBERON_0007390) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) -### pectoral appendage field `http://purl.obolibrary.org/obo/UBERON_0005729` +### heterocyclic compound binding `http://purl.obolibrary.org/obo/GO_1901363` #### Removed -- [pectoral appendage field](http://purl.obolibrary.org/obo/UBERON_0005729) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Embryonic region that develops into the pectoral fin bud.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001453" +- [heterocyclic compound binding](http://purl.obolibrary.org/obo/GO_1901363) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "bf" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [heterocyclic compound binding](http://purl.obolibrary.org/obo/GO_1901363) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2012-09-14T13:53:50Z" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [heterocyclic compound binding](http://purl.obolibrary.org/obo/GO_1901363) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Binding to heterocyclic compound." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:TermGenie" +- [heterocyclic compound binding](http://purl.obolibrary.org/obo/GO_1901363) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "molecular_function" +- [heterocyclic compound binding](http://purl.obolibrary.org/obo/GO_1901363) [label](http://www.w3.org/2000/01/rdf-schema#label) "heterocyclic compound binding" -### pectoral appendage skeleton `http://purl.obolibrary.org/obo/UBERON_0007272` -#### Removed -- [pectoral appendage skeleton](http://purl.obolibrary.org/obo/UBERON_0007272) [RO_0002475](http://purl.obolibrary.org/obo/RO_0002475) [pelvic appendage skeleton](http://purl.obolibrary.org/obo/UBERON_0007273) +- [heterocyclic compound binding](http://purl.obolibrary.org/obo/GO_1901363) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:1901363" +- Class: [heterocyclic compound binding](http://purl.obolibrary.org/obo/GO_1901363) +- [heterocyclic compound binding](http://purl.obolibrary.org/obo/GO_1901363) EquivalentTo [small molecule binding](http://purl.obolibrary.org/obo/GO_0036094) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_5686](http://purl.obolibrary.org/obo/CHEBI_5686)) -### pectoral complex `http://purl.obolibrary.org/obo/UBERON_0010708` -#### Removed -- [pectoral complex](http://purl.obolibrary.org/obo/UBERON_0010708) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "note that the FMA uses the terms 'upper limb' and 'lower limb' to refer to the entire appendage complex (free limb plus girdle region)" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [heterocyclic compound binding](http://purl.obolibrary.org/obo/GO_1901363) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_5686](http://purl.obolibrary.org/obo/CHEBI_5686) -- [pectoral complex](http://purl.obolibrary.org/obo/UBERON_0010708) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Appendage girdle complex that when present, encompasses the pectoral appendage and half of the pectoral girdle.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000213" +- [heterocyclic compound binding](http://purl.obolibrary.org/obo/GO_1901363) SubClassOf [small molecule binding](http://purl.obolibrary.org/obo/GO_0036094) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "VSAO:MAH" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" +### hexose metabolic process `http://purl.obolibrary.org/obo/GO_0019318` +#### Added +- [hexose metabolic process](http://purl.obolibrary.org/obo/GO_0019318) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### pectoral complex muscle `http://purl.obolibrary.org/obo/UBERON_0010891` -#### Removed -- [pectoral complex muscle](http://purl.obolibrary.org/obo/UBERON_0010891) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Muscles of the pectoral girdle, arm, forearm, and hand (brachium, antebrachium, manus respectively).[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" +### hindbrain formation `http://purl.obolibrary.org/obo/GO_0021576` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [hindbrain formation](http://purl.obolibrary.org/obo/GO_0021576) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010687" +### hindbrain morphogenesis `http://purl.obolibrary.org/obo/GO_0021575` +#### Added +- [hindbrain morphogenesis](http://purl.obolibrary.org/obo/GO_0021575) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### pectoral girdle region `http://purl.obolibrary.org/obo/UBERON_0001421` -#### Removed -- [pectoral girdle region](http://purl.obolibrary.org/obo/UBERON_0001421) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An organism subdivision that includes the pectoral girdle skeleton. Note that this includes both the skeletal elements and associated tissues (integument, muscle, etc). There is only one instance of the pectoral girdle region per organism.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000305" +### hindgut `http://purl.obolibrary.org/obo/UBERON_0001046` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://orcid.org/0000-0002-6601-2165" +#### Added +- [hindgut](http://purl.obolibrary.org/obo/UBERON_0001046) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005384" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [hindgut](http://purl.obolibrary.org/obo/UBERON_0001046) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" -- [pectoral girdle region](http://purl.obolibrary.org/obo/UBERON_0001421) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [pelvic girdle region](http://purl.obolibrary.org/obo/UBERON_0001271) +### hindgut morphogenesis `http://purl.obolibrary.org/obo/GO_0007442` -- [pectoral girdle region](http://purl.obolibrary.org/obo/UBERON_0001421) [UBPROP_0000005](http://purl.obolibrary.org/obo/UBPROP_0000005) "Note that this class describes the central subdivision of the pectoral girdle complex, NOT the skeleton within.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000305" +#### Added +- [hindgut morphogenesis](http://purl.obolibrary.org/obo/GO_0007442) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-06" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Curator" +### hip connective tissue `http://purl.obolibrary.org/obo/UBERON_0003576` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" +#### Added +- [hip connective tissue](http://purl.obolibrary.org/obo/UBERON_0003576) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [pectoral girdle region](http://purl.obolibrary.org/obo/UBERON_0001421) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class describes the organism subdivision, NOT the skeleton within. See also: skeleton of pectoral girdle (UBERON:0007831)." +### hippocampal pyramidal neuron `http://purl.obolibrary.org/obo/CL_1001571` +#### Added +- [hippocampal pyramidal neuron](http://purl.obolibrary.org/obo/CL_1001571) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### pectoral girdle skeleton `http://purl.obolibrary.org/obo/UBERON_0007831` -#### Removed -- [pectoral girdle skeleton](http://purl.obolibrary.org/obo/UBERON_0007831) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Girdle skeleton consisting of a set of bones linking the axial series to the forelimb/fin skeleton and offering anchoring areas for forelimb/fin and caudal musculature.[VSAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://orcid.org/0000-0002-6601-2165" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### histamine binding `http://purl.obolibrary.org/obo/GO_0051381` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000156" +#### Added +- [histamine binding](http://purl.obolibrary.org/obo/GO_0051381) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" -- [pectoral girdle skeleton](http://purl.obolibrary.org/obo/UBERON_0007831) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Skeletal structure immediately behind the head attached to the vertebral column by muscles and supporting the forelimbs.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000422" +### histamine transmembrane transporter activity `http://purl.obolibrary.org/obo/GO_0160173` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" +#### Added +- [histamine transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0160173) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27277"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [histamine transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0160173) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "molecular_function" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [histamine transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0160173) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0160173" -- [pectoral girdle skeleton](http://purl.obolibrary.org/obo/UBERON_0007831) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The pectoral girdle is clearly of dual origin, composed of dermal as well as endochondral bones. The endochondral component, the scapulocoracoid, evolved by fusion or enlargment of several basal fin elements. (...) The dermal component of the shoulder girdle evolved from dermal bones of the body's surface. (...) Like endochondral bones, these dermal bones were passed along to tetrapods (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.336 and Figure 9.18" +- [histamine transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0160173) [label](http://www.w3.org/2000/01/rdf-schema#label) "histamine transmembrane transporter activity" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [histamine transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0160173) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Enables the transfer of histamine from one side of a membrane to the other." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:36288320" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [histamine transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0160173) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2024-03-15T16:40:36Z" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001156" +- [histamine transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0160173) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "rynl" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- Class: [histamine transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0160173) -- [pectoral girdle skeleton](http://purl.obolibrary.org/obo/UBERON_0007831) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Note that the VSAO and many ontologies use the label 'pectoral girdle' to denote the skeletal region specifically." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "VSAO" +- [histamine transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0160173) EquivalentTo [transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0022857) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_58432](http://purl.obolibrary.org/obo/CHEBI_58432)) -- [pectoral girdle skeleton](http://purl.obolibrary.org/obo/UBERON_0007831) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster of paired dermal and endochondral bones that attaches to the dorso-posterior part of the cranium, and support the radials and pectoral fin. It consists of two components: the primary pectoral girdle consisting of the endochondral coracoid, scapula and mesocoracoid bones, and the secondary pectoral girdle consisting of the dermal posttemporal, supracleithrum, cleithrum and poscleithrum(thra) bones.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000407" +- [histamine transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0160173) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_58432](http://purl.obolibrary.org/obo/CHEBI_58432) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [histamine transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0160173) SubClassOf [transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0022857) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" +### histamine transport `http://purl.obolibrary.org/obo/GO_0051608` +#### Added +- [histamine transport](http://purl.obolibrary.org/obo/GO_0051608) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### pectoral muscle `http://purl.obolibrary.org/obo/UBERON_0001495` +### histaminergic neuron `http://purl.obolibrary.org/obo/CL_0011110` #### Removed -- [pectoral muscle](http://purl.obolibrary.org/obo/UBERON_0001495) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Muscle which is comprised of three heads. The anterior head is the portio epicoracoidea that originates on the epicoracoid cartilage and inserts on the deltoid crest of the humerus. The next more posterior head, portio sternalis, originates on the sternum and inserts in the groove next to the deltoid crest of the humerus. The most posterior head, portio abdominalis, arises from the M. rectus abdominis and inserts on the deltoid crest of the humerus.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:MEJ" +- [histaminergic neuron](http://purl.obolibrary.org/obo/CL_0011110) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007367" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010727" +#### Added +- [histaminergic neuron](http://purl.obolibrary.org/obo/CL_0011110) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007367" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### histoblast `http://purl.obolibrary.org/obo/CL_0000373` +#### Removed +- [histoblast](http://purl.obolibrary.org/obo/CL_0000373) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001789" #### Added -- [pectoral muscle](http://purl.obolibrary.org/obo/UBERON_0001495) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [histoblast](http://purl.obolibrary.org/obo/CL_0000373) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001789" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### pectoral pre-muscle mass `http://purl.obolibrary.org/obo/UBERON_0010984` +### hormone-mediated signaling pathway `http://purl.obolibrary.org/obo/GO_0009755` #### Added -- [pectoral pre-muscle mass](http://purl.obolibrary.org/obo/UBERON_0010984) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [hormone-mediated signaling pathway](http://purl.obolibrary.org/obo/GO_0009755) [never in taxon](http://purl.obolibrary.org/obo/RO_0002161) [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751) +- [hormone-mediated signaling pathway](http://purl.obolibrary.org/obo/GO_0009755) DisjointWith [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751) -### pectoralis major `http://purl.obolibrary.org/obo/UBERON_0002381` -#### Removed -- [pectoralis major](http://purl.obolibrary.org/obo/UBERON_0002381) SubClassOf [axial muscle](http://purl.obolibrary.org/obo/UBERON_0003897) +- [hormone-mediated signaling pathway](http://purl.obolibrary.org/obo/GO_0009755) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some (not ([Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751))) + +- [hormone-mediated signaling pathway](http://purl.obolibrary.org/obo/GO_0009755) SubClassOf not ([in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751)) -- [pectoralis major](http://purl.obolibrary.org/obo/UBERON_0002381) SubClassOf [innervated_by](http://purl.obolibrary.org/obo/RO_0002005) some [thoracic nerve](http://purl.obolibrary.org/obo/UBERON_0003726) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "lateral pectoral nerve and medial pectoral nerveClavicular head: C5 and C6Sternocostal head: C7 C8 and T1" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" +### hyaline cartilage tissue `http://purl.obolibrary.org/obo/UBERON_0001994` +#### Removed +- [hyaline cartilage tissue](http://purl.obolibrary.org/obo/UBERON_0001994) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [pectoralis major](http://purl.obolibrary.org/obo/UBERON_0002381) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [sternum](http://purl.obolibrary.org/obo/UBERON_0000975) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "anterior surface of the sternum and the superior six costal cartilages and the aponeurosis of the external oblique muscle" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" -- [pectoralis major](http://purl.obolibrary.org/obo/UBERON_0002381) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [clavicle bone](http://purl.obolibrary.org/obo/UBERON_0001105) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "anterior surface of the medial half of the clavicle" +### hyaluronan catabolic process `http://purl.obolibrary.org/obo/GO_0030214` + +#### Added +- [hyaluronan catabolic process](http://purl.obolibrary.org/obo/GO_0030214) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27107"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" +- [hyaluronan catabolic process](http://purl.obolibrary.org/obo/GO_0030214) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MetaCyc:PWY-7645" -- [pectoralis major](http://purl.obolibrary.org/obo/UBERON_0002381) SubClassOf [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) some [humerus](http://purl.obolibrary.org/obo/UBERON_0000976) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "Lateral lip of intertubercular groove of the humerus" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" +### hyaluronan metabolic process `http://purl.obolibrary.org/obo/GO_0030212` #### Added -- [pectoralis major](http://purl.obolibrary.org/obo/UBERON_0002381) SubClassOf [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) some [humerus](http://purl.obolibrary.org/obo/UBERON_0000976) +- [hyaluronan metabolic process](http://purl.obolibrary.org/obo/GO_0030212) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [pectoralis major](http://purl.obolibrary.org/obo/UBERON_0002381) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [sternum](http://purl.obolibrary.org/obo/UBERON_0000975) -- [pectoralis major](http://purl.obolibrary.org/obo/UBERON_0002381) SubClassOf [innervated_by](http://purl.obolibrary.org/obo/RO_0002005) some [thoracic nerve](http://purl.obolibrary.org/obo/UBERON_0003726) +### hyaluronic acid binding `http://purl.obolibrary.org/obo/GO_0005540` -- [pectoralis major](http://purl.obolibrary.org/obo/UBERON_0002381) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [clavicle bone](http://purl.obolibrary.org/obo/UBERON_0001105) +#### Added +- [hyaluronic acid binding](http://purl.obolibrary.org/obo/GO_0005540) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### pectoralis minor `http://purl.obolibrary.org/obo/UBERON_0001100` -#### Removed -- [pectoralis minor](http://purl.obolibrary.org/obo/UBERON_0001100) SubClassOf [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) some [medial border of scapula](http://purl.obolibrary.org/obo/UBERON_0007174) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "medial border and superior surface of the coracoid process of the scapula" +### hydroxyapatite binding `http://purl.obolibrary.org/obo/GO_0046848` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" +#### Added +- [hydroxyapatite binding](http://purl.obolibrary.org/obo/GO_0046848) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [pectoralis minor](http://purl.obolibrary.org/obo/UBERON_0001100) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [rib](http://purl.obolibrary.org/obo/UBERON_0002228) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "third to fifth ribs near their costal cartilages" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" +### hyoid arch skeleton `http://purl.obolibrary.org/obo/UBERON_0005884` #### Added -- [pectoralis minor](http://purl.obolibrary.org/obo/UBERON_0001100) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [rib](http://purl.obolibrary.org/obo/UBERON_0002228) +- [hyoid arch skeleton](http://purl.obolibrary.org/obo/UBERON_0005884) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [pectoralis minor](http://purl.obolibrary.org/obo/UBERON_0001100) SubClassOf [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) some [medial border of scapula](http://purl.obolibrary.org/obo/UBERON_0007174) +### hypertrophic chondrocyte `http://purl.obolibrary.org/obo/CL_0000743` -### pedal acropodium region `http://purl.obolibrary.org/obo/UBERON_0012356` -#### Removed -- [pedal acropodium region](http://purl.obolibrary.org/obo/UBERON_0012356) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "class refers to an entire limb segment, not just the bones" - +#### Added +- [hypertrophic chondrocyte](http://purl.obolibrary.org/obo/CL_0000743) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009313" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### pedal digit bone `http://purl.obolibrary.org/obo/UBERON_0004248` -#### Removed -- [pedal digit bone](http://purl.obolibrary.org/obo/UBERON_0004248) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Skeleton-partonomy-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +### hypocretin-secreting neuron `http://purl.obolibrary.org/obo/CL_0011109` +#### Added +- [hypocretin-secreting neuron](http://purl.obolibrary.org/obo/CL_0011109) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005778" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### pedal digit digitopodial skeleton `http://purl.obolibrary.org/obo/UBERON_5101466` +### hypodermis `http://purl.obolibrary.org/obo/UBERON_0002072` #### Removed -- [pedal digit digitopodial skeleton](http://purl.obolibrary.org/obo/UBERON_5101466) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class represents a series of phalanges plus a metapodial element. In comparative anatomy terminology we would call this a 'digit', but the label 'digit' is sometimes used to exclude metapodials and to include soft tissue. This series of elements is hypothesized to be homologous to radials." +- [hypodermis](http://purl.obolibrary.org/obo/UBERON_0002072) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### pedal digit epithelium `http://purl.obolibrary.org/obo/UBERON_0005226` +### hypophysis formation `http://purl.obolibrary.org/obo/GO_0048851` #### Added -- [pedal digit epithelium](http://purl.obolibrary.org/obo/UBERON_0005226) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) +- [hypophysis formation](http://purl.obolibrary.org/obo/GO_0048851) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### pedal digit mesenchyme `http://purl.obolibrary.org/obo/UBERON_0005255` +### ice binding `http://purl.obolibrary.org/obo/GO_0050825` #### Added -- [pedal digit mesenchyme](http://purl.obolibrary.org/obo/UBERON_0005255) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [ice binding](http://purl.obolibrary.org/obo/GO_0050825) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### pedal digit plus metapodial segment `http://purl.obolibrary.org/obo/UBERON_5001466` -#### Removed -- [pedal digit plus metapodial segment](http://purl.obolibrary.org/obo/UBERON_5001466) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class represents a series of phalanges plus a metapodial element plus associated soft tissues. Instances of this class typically do not form a distinct unit." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://github.com/obophenotype/uberon/issues/458" +### imaginal disc `http://purl.obolibrary.org/obo/UBERON_0000939` +#### Added +- [imaginal disc](http://purl.obolibrary.org/obo/UBERON_0000939) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001761" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### pedal digitopodium bone `http://purl.obolibrary.org/obo/UBERON_0012359` +### imaginal disc cell `http://purl.obolibrary.org/obo/CL_0000429` #### Removed -- [pedal digitopodium bone](http://purl.obolibrary.org/obo/UBERON_0012359) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) [Skeleton-partonomy-Design-Pattern](https://github.com/obophenotype/uberon/wiki/Skeleton-partonomy-Design-Pattern) +- [imaginal disc cell](http://purl.obolibrary.org/obo/CL_0000429) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007108" +#### Added +- [imaginal disc cell](http://purl.obolibrary.org/obo/CL_0000429) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007108" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### pedal digitopodium region `http://purl.obolibrary.org/obo/UBERON_0012142` -#### Removed -- [pedal digitopodium region](http://purl.obolibrary.org/obo/UBERON_0012142) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "some sources call this the acropodium. see https://github.com/obophenotype/uberon/wiki/Subdivisions-of-the-autopod" +### imaginal disc growth `http://purl.obolibrary.org/obo/GO_0007446` +#### Added +- [imaginal disc growth](http://purl.obolibrary.org/obo/GO_0007446) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### pelvic appendage `http://purl.obolibrary.org/obo/UBERON_0004709` +### imidazole-containing compound catabolic process `http://purl.obolibrary.org/obo/GO_0052805` #### Removed -- [pelvic appendage](http://purl.obolibrary.org/obo/UBERON_0004709) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [pelvic appendage bud](http://purl.obolibrary.org/obo/UBERON_0005420) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" +- [imidazole-containing compound catabolic process](http://purl.obolibrary.org/obo/GO_0052805) SubClassOf [cellular nitrogen compound catabolic process](http://purl.obolibrary.org/obo/GO_0044270) #### Added -- [pelvic appendage](http://purl.obolibrary.org/obo/UBERON_0004709) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [pelvic appendage bud](http://purl.obolibrary.org/obo/UBERON_0005420) +- [imidazole-containing compound catabolic process](http://purl.obolibrary.org/obo/GO_0052805) SubClassOf [catabolic process](http://purl.obolibrary.org/obo/GO_0009056) -### pelvic appendage apical ectodermal ridge `http://purl.obolibrary.org/obo/UBERON_0005422` +### imidazole-containing compound metabolic process `http://purl.obolibrary.org/obo/GO_0052803` #### Removed -- [pelvic appendage apical ectodermal ridge](http://purl.obolibrary.org/obo/UBERON_0005422) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An ectodermal thickening at the end of the hindlimb bud in the developing embryo. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [imidazole-containing compound metabolic process](http://purl.obolibrary.org/obo/GO_0052803) SubClassOf [cellular nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0034641) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [imidazole-containing compound metabolic process](http://purl.obolibrary.org/obo/GO_0052803) SubClassOf [cellular aromatic compound metabolic process](http://purl.obolibrary.org/obo/GO_0006725) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001066" +- [imidazole-containing compound metabolic process](http://purl.obolibrary.org/obo/GO_0052803) SubClassOf [heterocycle metabolic process](http://purl.obolibrary.org/obo/GO_0046483) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/apical+ectodermal+ridge" -- [pelvic appendage apical ectodermal ridge](http://purl.obolibrary.org/obo/UBERON_0005422) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Apical ectodermal ridge that is part of the pelvic fin bud.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZIFIN:curator" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### immaterial anatomical entity `http://purl.obolibrary.org/obo/UBERON_0000466` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [immaterial anatomical entity](http://purl.obolibrary.org/obo/UBERON_0000466) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007015" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001385" -- [pelvic appendage apical ectodermal ridge](http://purl.obolibrary.org/obo/UBERON_0005422) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Pectoral and pelvic fins are homologous to the tetrapod fore and hindlimb, respectively. (...) The zebrafish AER [apical ectodermal ridge] is an apical ectodermal thickening at the distal tip of the fin bud and consists of wedge-shaped cells of the basal stratum. The AER is observed only transiently, and from 36 hpf onwards the cells of this region form the apical fold (AF), which consists of a dorsal and a ventral layer of cylindrically-shaped ectodermal cells extending from the anterior to the posterior fin margin. Despite the change in shape, the AF still carries out the same functions as the AER. Indeed, although the AER receives its name from its characteristic shape, being composed of a pseudostratified ectoderm in the chicken and a polystratified ectoderm in the mouse, this independence of AER morphology from its function is also observed in tetrapods. The AF also expresses similar molecular markers to the tetrapod AER, suggesting that it fulfills similar functions in the fin as the AER does in tetrapod limbs.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1440-169X.2007.00942.x" +### immaterial entity `http://purl.obolibrary.org/obo/BFO_0000141` +#### Removed +- [immaterial entity](http://purl.obolibrary.org/obo/BFO_0000141) [label](http://www.w3.org/2000/01/rdf-schema#label) "immaterial entity"@en - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [immaterial entity](http://purl.obolibrary.org/obo/BFO_0000141) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001066" +### immature B cell `http://purl.obolibrary.org/obo/CL_0000816` +#### Added +- [immature B cell](http://purl.obolibrary.org/obo/CL_0000816) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009343" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### pelvic appendage bud `http://purl.obolibrary.org/obo/UBERON_0005420` +### immature Schwann cell `http://purl.obolibrary.org/obo/CL_0002377` #### Removed -- [pelvic appendage bud](http://purl.obolibrary.org/obo/UBERON_0005420) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Most anatomists now agree that the three proximal bones of the tetrapod limbs are homologous to the two or three proximal elements of the paired fin skeleton of other sarcopterygians, that is the humerus-femur, radius-tibia, and ulna-fibula.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [immature Schwann cell](http://purl.obolibrary.org/obo/CL_0002377) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0001725" + +#### Added +- [immature Schwann cell](http://purl.obolibrary.org/obo/CL_0002377) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0001725" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### immature eye `http://purl.obolibrary.org/obo/UBERON_0010312` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001260" +#### Added +- [immature eye](http://purl.obolibrary.org/obo/UBERON_0010312) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0198540472 Janvier P, Early vertebrates (1996) p.268" -- [pelvic appendage bud](http://purl.obolibrary.org/obo/UBERON_0005420) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Fin bud that develops into the pelvic fin.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +### immature gamma-delta T cell `http://purl.obolibrary.org/obo/CL_0000799` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [immature gamma-delta T cell](http://purl.obolibrary.org/obo/CL_0000799) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009337" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001384" +### immature natural killer cell `http://purl.obolibrary.org/obo/CL_0000823` +#### Added +- [immature natural killer cell](http://purl.obolibrary.org/obo/CL_0000823) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009346" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### pelvic appendage bud ectoderm `http://purl.obolibrary.org/obo/UBERON_0003371` +### immature neutrophil `http://purl.obolibrary.org/obo/CL_0000776` #### Added -- [pelvic appendage bud ectoderm](http://purl.obolibrary.org/obo/UBERON_0003371) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) +- [immature neutrophil](http://purl.obolibrary.org/obo/CL_0000776) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009328" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### pelvic appendage bud mesenchyme `http://purl.obolibrary.org/obo/UBERON_0003412` +### immediately causally downstream of `http://purl.obolibrary.org/obo/RO_0002405` #### Removed -- [pelvic appendage bud mesenchyme](http://purl.obolibrary.org/obo/UBERON_0003412) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Mesoderm part of pelvic fin bud.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [immediately causally downstream of](http://purl.obolibrary.org/obo/RO_0002405) [label](http://www.w3.org/2000/01/rdf-schema#label) "immediately causally downstream of" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [immediately causally downstream of](http://purl.obolibrary.org/obo/RO_0002405) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002405" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [immediately causally downstream of](http://purl.obolibrary.org/obo/RO_0002405) [label](http://www.w3.org/2000/01/rdf-schema#label) "immediately causally downstream of"@en - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001386" +- [immediately causally downstream of](http://purl.obolibrary.org/obo/RO_0002405) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "external" +- [immediately causally downstream of](http://purl.obolibrary.org/obo/RO_0002405) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "immediately_causally_downstream_of" +- [immediately causally downstream of](http://purl.obolibrary.org/obo/RO_0002405) [id](http://www.geneontology.org/formats/oboInOwl#id) "immediately_causally_downstream_of" -### pelvic appendage cartilage tissue `http://purl.obolibrary.org/obo/UBERON_0007391` -#### Removed -- [pelvic appendage cartilage tissue](http://purl.obolibrary.org/obo/UBERON_0007391) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cartilage which is part of the pelvic fin.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001459" +- ObjectProperty: [immediately causally downstream of](http://purl.obolibrary.org/obo/RO_0002405) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [immediately causally downstream of](http://purl.obolibrary.org/obo/RO_0002405) InverseOf [immediately causally upstream of](http://purl.obolibrary.org/obo/RO_0002412) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [immediately causally downstream of](http://purl.obolibrary.org/obo/RO_0002405) SubPropertyOf: [immediately preceded by](http://purl.obolibrary.org/obo/RO_0002087) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [immediately causally downstream of](http://purl.obolibrary.org/obo/RO_0002405) SubPropertyOf: [causally downstream of](http://purl.obolibrary.org/obo/RO_0002404) -#### Added -- [pelvic appendage cartilage tissue](http://purl.obolibrary.org/obo/UBERON_0007391) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) -### pelvic appendage field `http://purl.obolibrary.org/obo/UBERON_0005730` +### immediately causally upstream of `http://purl.obolibrary.org/obo/RO_0002412` #### Removed -- [pelvic appendage field](http://purl.obolibrary.org/obo/UBERON_0005730) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Embryonic region that develops into the pelvic fin bud.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [immediately causally upstream of](http://purl.obolibrary.org/obo/RO_0002412) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "immediately_causally_upstream_of" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001454" +- [immediately causally upstream of](http://purl.obolibrary.org/obo/RO_0002412) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [immediately causally upstream of](http://purl.obolibrary.org/obo/RO_0002412) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "external" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [immediately causally upstream of](http://purl.obolibrary.org/obo/RO_0002412) [label](http://www.w3.org/2000/01/rdf-schema#label) "immediately causally upstream of"@en +- [immediately causally upstream of](http://purl.obolibrary.org/obo/RO_0002412) [label](http://www.w3.org/2000/01/rdf-schema#label) "immediately causally upstream of" +- [immediately causally upstream of](http://purl.obolibrary.org/obo/RO_0002412) [id](http://www.geneontology.org/formats/oboInOwl#id) "immediately_causally_upstream_of" -### pelvic appendage musculature `http://purl.obolibrary.org/obo/UBERON_0007270` -#### Removed -- [pelvic appendage musculature](http://purl.obolibrary.org/obo/UBERON_0007270) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Musculature that is part of the pelvic fin.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000258" +- [immediately causally upstream of](http://purl.obolibrary.org/obo/RO_0002412) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002412" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:curator" +- ObjectProperty: [immediately causally upstream of](http://purl.obolibrary.org/obo/RO_0002412) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [immediately causally upstream of](http://purl.obolibrary.org/obo/RO_0002412) SubPropertyOf: [immediately precedes](http://purl.obolibrary.org/obo/RO_0002090) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [immediately causally upstream of](http://purl.obolibrary.org/obo/RO_0002412) SubPropertyOf: [causally upstream of](http://purl.obolibrary.org/obo/RO_0002411) -### pelvic complex `http://purl.obolibrary.org/obo/UBERON_0010709` -#### Removed -- [pelvic complex](http://purl.obolibrary.org/obo/UBERON_0010709) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [pectoral complex](http://purl.obolibrary.org/obo/UBERON_0010708) +### immune response in gut-associated lymphoid tissue `http://purl.obolibrary.org/obo/GO_0002387` + +#### Added +- [immune response in gut-associated lymphoid tissue](http://purl.obolibrary.org/obo/GO_0002387) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) + + +### immune system `http://purl.obolibrary.org/obo/UBERON_0002405` + +#### Added +- [immune system](http://purl.obolibrary.org/obo/UBERON_0002405) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -- [pelvic complex](http://purl.obolibrary.org/obo/UBERON_0010709) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Appendage girdle complex that when present, encompasses the pelvic appendage and the pelvic girdle.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000215" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### immunoglobulin complex, circulating `http://purl.obolibrary.org/obo/GO_0042571` + +#### Added +- [immunoglobulin complex, circulating](http://purl.obolibrary.org/obo/GO_0042571) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "VSAO:MAH" +- [immunoglobulin complex, circulating](http://purl.obolibrary.org/obo/GO_0042571) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" -- [pelvic complex](http://purl.obolibrary.org/obo/UBERON_0010709) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "note that the FMA uses the terms 'upper limb' and 'lower limb' to refer to the entire appendage complex (free limb plus girdle region). Note the MA class 'hindlimb' may also belong here" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +### import into cell `http://purl.obolibrary.org/obo/GO_0098657` +#### Added +- [import into cell](http://purl.obolibrary.org/obo/GO_0098657) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### pelvic complex muscle `http://purl.obolibrary.org/obo/UBERON_0010890` +### independent continuant `http://purl.obolibrary.org/obo/BFO_0000004` #### Removed -- [pelvic complex muscle](http://purl.obolibrary.org/obo/UBERON_0010890) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Muscles of the pelvic girdle, thigh, leg (crus), and foot (pes).[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000218" +- [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything."@en - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" +- [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) [label](http://www.w3.org/2000/01/rdf-schema#label) "independent continuant"@en - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])"@en - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) DisjointWith [generically dependent continuant](http://purl.obolibrary.org/obo/BFO_0000031) +- [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) DisjointWith [specifically dependent continuant](http://purl.obolibrary.org/obo/BFO_0000020) + +- [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) + +- [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) only [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -### pelvic girdle bone/zone `http://purl.obolibrary.org/obo/UBERON_0007830` -#### Removed -- [pelvic girdle bone/zone](http://purl.obolibrary.org/obo/UBERON_0007830) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "typically the ilium, ischium and pubis. These can alternately be considered individual bones, or zones of a single fused bone" -- [pelvic girdle bone/zone](http://purl.obolibrary.org/obo/UBERON_0007830) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:18028" +### indirect pathway medium spiny neuron `http://purl.obolibrary.org/obo/CL_4023029` #### Added -- [pelvic girdle bone/zone](http://purl.obolibrary.org/obo/UBERON_0007830) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [indirect pathway medium spiny neuron](http://purl.obolibrary.org/obo/CL_4023029) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### pelvic girdle region `http://purl.obolibrary.org/obo/UBERON_0001271` +### indirectly causally upstream of `http://purl.obolibrary.org/obo/RO_0012011` #### Removed -- [pelvic girdle region](http://purl.obolibrary.org/obo/UBERON_0001271) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class describes the subdivision of the limb/fin, NOT the skeleton within. See also: skeleton of pectoral girdle (UBERON:0007831). See also comments on obo-anatomy mail list. Note that even though the class includes soft tissue it is more restrictive than 'pelvis' which also includes structures in cavities etc. TODO this needs to be better documented" +- [indirectly causally upstream of](http://purl.obolibrary.org/obo/RO_0012011) [label](http://www.w3.org/2000/01/rdf-schema#label) "indirectly causally upstream of"@en + +- [indirectly causally upstream of](http://purl.obolibrary.org/obo/RO_0012011) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) [0000-0003-1813-6857](https://orcid.org/0000-0003-1813-6857) -- [pelvic girdle region](http://purl.obolibrary.org/obo/UBERON_0001271) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Subdivision of lower limb or fin which links the limb/fin to the body[FMA,modified]. There is only one instance of the pelvic girdle region per organism.[VSAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://orcid.org/0000-0002-6601-2165" +- [indirectly causally upstream of](http://purl.obolibrary.org/obo/RO_0012011) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000304" +- [indirectly causally upstream of](http://purl.obolibrary.org/obo/RO_0012011) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2022-09-26T06:07:17Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- ObjectProperty: [indirectly causally upstream of](http://purl.obolibrary.org/obo/RO_0012011) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" +- [indirectly causally upstream of](http://purl.obolibrary.org/obo/RO_0012011) SubPropertyOf: [causally upstream of](http://purl.obolibrary.org/obo/RO_0002411) -### pelvic girdle skeleton `http://purl.obolibrary.org/obo/UBERON_0007832` +### indirectly negatively regulates `http://purl.obolibrary.org/obo/RO_0002409` #### Removed -- [pelvic girdle skeleton](http://purl.obolibrary.org/obo/UBERON_0007832) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Girdle skeleton consisting of a set of bones linking the axial series to the hindlimb/fin skeleton and offering anchoring areas for hindlimb/fin and caudal musculature.[VSAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://orcid.org/0000-0002-6601-2165" +- [indirectly negatively regulates](http://purl.obolibrary.org/obo/RO_0002409) [label](http://www.w3.org/2000/01/rdf-schema#label) "indirectly negatively regulates"@en + +- [indirectly negatively regulates](http://purl.obolibrary.org/obo/RO_0002409) [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "https://wiki.geneontology.org/Indirectly_negatively_regulates"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [indirectly negatively regulates](http://purl.obolibrary.org/obo/RO_0002409) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000155" +- ObjectProperty: [indirectly negatively regulates](http://purl.obolibrary.org/obo/RO_0002409) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" +- [indirectly negatively regulates](http://purl.obolibrary.org/obo/RO_0002409) SubPropertyOf: [indirectly regulates](http://purl.obolibrary.org/obo/RO_0012012) -- [pelvic girdle skeleton](http://purl.obolibrary.org/obo/UBERON_0007832) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster by which the hind limbs are supported and attached to the vertebral column.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" +- [indirectly negatively regulates](http://purl.obolibrary.org/obo/RO_0002409) SubPropertyOf: [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) o [indirectly negatively regulates](http://purl.obolibrary.org/obo/RO_0002409) SubPropertyOf: [indirectly negatively regulates](http://purl.obolibrary.org/obo/RO_0002409) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [indirectly negatively regulates](http://purl.obolibrary.org/obo/RO_0002409) o [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) SubPropertyOf: [indirectly negatively regulates](http://purl.obolibrary.org/obo/RO_0002409) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000426" +- [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) o [directly negatively regulates](http://purl.obolibrary.org/obo/RO_0002630) SubPropertyOf: [indirectly negatively regulates](http://purl.obolibrary.org/obo/RO_0002409) -- [pelvic girdle skeleton](http://purl.obolibrary.org/obo/UBERON_0007832) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The pelvic girdle is never joined by contributions of dermal bone. From its first appearance in placoderms, the pelvic girdle is exclusively endoskeletal. It arose from pterygiophores, perhaps several times, in support of the fin.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- Transitive: [indirectly negatively regulates](http://purl.obolibrary.org/obo/RO_0002409) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.333" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### indirectly positively regulates `http://purl.obolibrary.org/obo/RO_0002407` +#### Removed +- [indirectly positively regulates](http://purl.obolibrary.org/obo/RO_0002407) [label](http://www.w3.org/2000/01/rdf-schema#label) "indirectly positively regulates"@en - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000305" +- [indirectly positively regulates](http://purl.obolibrary.org/obo/RO_0002407) [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "https://wiki.geneontology.org/Indirectly_positively_regulates"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [pelvic girdle skeleton](http://purl.obolibrary.org/obo/UBERON_0007832) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster that consists of the paired basipterygia which support the pelvic fin.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000565" +- [indirectly positively regulates](http://purl.obolibrary.org/obo/RO_0002407) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- ObjectProperty: [indirectly positively regulates](http://purl.obolibrary.org/obo/RO_0002407) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [indirectly positively regulates](http://purl.obolibrary.org/obo/RO_0002407) SubPropertyOf: [positively regulates](http://purl.obolibrary.org/obo/RO_0002213) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" +- [indirectly positively regulates](http://purl.obolibrary.org/obo/RO_0002407) SubPropertyOf: [indirectly regulates](http://purl.obolibrary.org/obo/RO_0012012) -- [pelvic girdle skeleton](http://purl.obolibrary.org/obo/UBERON_0007832) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Note that the VSAO and many ontologies use the label 'pelvic girdle' to denote the skeletal region specifically. We place the EHDAA2 class here, note that this includes the pre-cartilage condensation as parts" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "VSAO" +- [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) o [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) SubPropertyOf: [indirectly positively regulates](http://purl.obolibrary.org/obo/RO_0002407) -#### Added -- [pelvic girdle skeleton](http://purl.obolibrary.org/obo/UBERON_0007832) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [indirectly positively regulates](http://purl.obolibrary.org/obo/RO_0002407) o [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) SubPropertyOf: [indirectly positively regulates](http://purl.obolibrary.org/obo/RO_0002407) +- [directly positively regulates](http://purl.obolibrary.org/obo/RO_0002629) o [indirectly positively regulates](http://purl.obolibrary.org/obo/RO_0002407) SubPropertyOf: [indirectly positively regulates](http://purl.obolibrary.org/obo/RO_0002407) -### pelvic region of trunk `http://purl.obolibrary.org/obo/UBERON_0002355` -#### Removed -- [pelvic region of trunk](http://purl.obolibrary.org/obo/UBERON_0002355) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "pelvic" +- [indirectly negatively regulates](http://purl.obolibrary.org/obo/RO_0002409) o [indirectly negatively regulates](http://purl.obolibrary.org/obo/RO_0002409) SubPropertyOf: [indirectly positively regulates](http://purl.obolibrary.org/obo/RO_0002407) -- [pelvic region of trunk](http://purl.obolibrary.org/obo/UBERON_0002355) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MA and FMA differ in what they consider to be parts of the pelvis. MA includes ureter, urethra, urinary bladder, reproductive organs" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +- Transitive: [indirectly positively regulates](http://purl.obolibrary.org/obo/RO_0002407) -### pending final vetting `http://purl.obolibrary.org/obo/IAO_0000125` +### indirectly regulates `http://purl.obolibrary.org/obo/RO_0012012` #### Removed -- [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "pending final vetting"@en +- [indirectly regulates](http://purl.obolibrary.org/obo/RO_0012012) [label](http://www.w3.org/2000/01/rdf-schema#label) "indirectly regulates"@en +- [indirectly regulates](http://purl.obolibrary.org/obo/RO_0012012) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) [0000-0003-1813-6857](https://orcid.org/0000-0003-1813-6857) +- [indirectly regulates](http://purl.obolibrary.org/obo/RO_0012012) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2022-09-26T06:08:01Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) -### penis `http://purl.obolibrary.org/obo/UBERON_0000989` -#### Removed -- [penis](http://purl.obolibrary.org/obo/UBERON_0000989) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "phallic" +- [indirectly regulates](http://purl.obolibrary.org/obo/RO_0012012) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." -- [penis](http://purl.obolibrary.org/obo/UBERON_0000989) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Most male birds (e.g., roosters and turkeys) have a cloaca (also present on the female), but not a penis. Among bird species with a penis are paleognathes (tinamous and ratites), Anatidae (ducks, geese and swans), and a very few other species (such as flamingoes). A bird penis is different in structure from mammal penises, being an erectile expansion of the cloacal wall and being erected by lymph, not blood. It is usually partially feathered and in some species features spines and brush-like filaments, and in flaccid state curls up inside the cloaca" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" +- ObjectProperty: [indirectly regulates](http://purl.obolibrary.org/obo/RO_0012012) -- [penis](http://purl.obolibrary.org/obo/UBERON_0000989) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "penile" +- [indirectly regulates](http://purl.obolibrary.org/obo/RO_0012012) SubPropertyOf: [indirectly causally upstream of](http://purl.obolibrary.org/obo/RO_0012011) +- [indirectly regulates](http://purl.obolibrary.org/obo/RO_0012012) SubPropertyOf: [regulates](http://purl.obolibrary.org/obo/RO_0002211) -### penis epithelium `http://purl.obolibrary.org/obo/UBERON_0004803` + +### indole-containing compound biosynthetic process `http://purl.obolibrary.org/obo/GO_0042435` #### Removed -- [penis epithelium](http://purl.obolibrary.org/obo/UBERON_0004803) SubClassOf [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) +- [indole-containing compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0042435) SubClassOf [cellular nitrogen compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0044271) -#### Added -- [penis epithelium](http://purl.obolibrary.org/obo/UBERON_0004803) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) +- [indole-containing compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0042435) SubClassOf [heterocycle biosynthetic process](http://purl.obolibrary.org/obo/GO_0018130) +- [indole-containing compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0042435) SubClassOf [organonitrogen compound biosynthetic process](http://purl.obolibrary.org/obo/GO_1901566) -### perforin-1 `http://purl.obolibrary.org/obo/PR_000003466` +- [indole-containing compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0042435) SubClassOf [aromatic compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0019438) + + + +### indole-containing compound catabolic process `http://purl.obolibrary.org/obo/GO_0042436` #### Removed -- [perforin-1](http://purl.obolibrary.org/obo/PR_000003466) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [perforin-1 (human)](http://purl.obolibrary.org/obo/PR_P14222) +- [indole-containing compound catabolic process](http://purl.obolibrary.org/obo/GO_0042436) SubClassOf [cellular nitrogen compound catabolic process](http://purl.obolibrary.org/obo/GO_0044270) +#### Added +- [indole-containing compound catabolic process](http://purl.obolibrary.org/obo/GO_0042436) SubClassOf [catabolic process](http://purl.obolibrary.org/obo/GO_0009056) -### periarterial lymphatic sheath `http://purl.obolibrary.org/obo/UBERON_0001960` +### indole-containing compound metabolic process `http://purl.obolibrary.org/obo/GO_0042430` #### Removed -- [periarterial lymphatic sheath](http://purl.obolibrary.org/obo/UBERON_0001960) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA distinguishes periarterial (PALS) from periarteriolar (FMA:62806)" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [indole-containing compound metabolic process](http://purl.obolibrary.org/obo/GO_0042430) SubClassOf [cellular aromatic compound metabolic process](http://purl.obolibrary.org/obo/GO_0006725) -- [periarterial lymphatic sheath](http://purl.obolibrary.org/obo/UBERON_0001960) SubClassOf [digestive system element](http://purl.obolibrary.org/obo/UBERON_0013765) +- [indole-containing compound metabolic process](http://purl.obolibrary.org/obo/GO_0042430) SubClassOf [cellular nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0034641) +- [indole-containing compound metabolic process](http://purl.obolibrary.org/obo/GO_0042430) SubClassOf [heterocycle metabolic process](http://purl.obolibrary.org/obo/GO_0046483) -### pericardial cavity `http://purl.obolibrary.org/obo/UBERON_0001074` -#### Removed -- [pericardial cavity](http://purl.obolibrary.org/obo/UBERON_0001074) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In hagfishes a transverse septum extends upward from the ventral body wall posterior to the heart, partly separating an anterior pericardial cavity from a larger peritoneal cavity. (...) These basic relationships have not been modified by urodeles. The small pericardial cavity remains far forward where it is separated by a transverse septum from the principal coelom, which may now be called a pleuroperitoneal cavity because slender lungs are present. (...) The heart (of other tetrapods) is separated from the lungs (and liver if present) by more or less horizontal partitions that have their origin in the embryo as folds on the serous membrane of the right and left lateral body walls. These grow out to join in the midline of the body. They are called lateral mesocardia (birds) or pleuropericardial membranes. Posteriorly they join the transverse septum to form the adult pericardial membrane, or pericardium. (...) In their partitioning of their coelom, embryonic mammals resemble first early fishes (incomplete partition, posterior to heart, consisting of the transverse septum) and then reptiles (pericardium derived from transverse septum and pleuropericardial membranes). Mammals then separate paired pleural cavities from the peritoneal cavity by a diaphragm. The ventral portion of this organ comes from the transverse septum. The dorsal portion is derived from the dorsal mesentery and from still another pair of outgrowths from the lateral body wall, the pleuroperitoneal membranes.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0471090588 Hildebrand M, Analysis of vertebrate structure (1983) p.205-206" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### inhibitory interneuron `http://purl.obolibrary.org/obo/CL_0000498` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [inhibitory interneuron](http://purl.obolibrary.org/obo/CL_0000498) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009225" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000556" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### innate immune response in mucosa `http://purl.obolibrary.org/obo/GO_0002227` -- [pericardial cavity](http://purl.obolibrary.org/obo/UBERON_0001074) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "check ZFA, should actually be thoracic cavity. Note that Hyman defines the cavity as the space between the heart and the sac (but defines the sac as parietal)" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" +#### Added +- [innate immune response in mucosa](http://purl.obolibrary.org/obo/GO_0002227) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [pericardial cavity](http://purl.obolibrary.org/obo/UBERON_0001074) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical space in which the heart is located and is surrounded by the pericardium.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### inner cell mass `http://purl.obolibrary.org/obo/UBERON_0000087` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [inner cell mass](http://purl.obolibrary.org/obo/UBERON_0000087) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002220" +### inner cell mass cell proliferation `http://purl.obolibrary.org/obo/GO_0001833` +#### Added +- [inner cell mass cell proliferation](http://purl.obolibrary.org/obo/GO_0001833) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### pericardial fluid `http://purl.obolibrary.org/obo/UBERON_0002409` -#### Removed -- [pericardial fluid](http://purl.obolibrary.org/obo/UBERON_0002409) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D000069236" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) +### inner cell mass derived epiblast `http://purl.obolibrary.org/obo/UBERON_0008780` - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +#### Added +- [inner cell mass derived epiblast](http://purl.obolibrary.org/obo/UBERON_0008780) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +### inner ear morphogenesis `http://purl.obolibrary.org/obo/GO_0042472` -### pericardial sac `http://purl.obolibrary.org/obo/UBERON_0002406` -#### Removed -- [pericardial sac](http://purl.obolibrary.org/obo/UBERON_0002406) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "TAO:0000054" +#### Added +- [inner ear morphogenesis](http://purl.obolibrary.org/obo/GO_0042472) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### inner medulla vasa recta ascending limb cell `http://purl.obolibrary.org/obo/CL_1001209` -### pericardium `http://purl.obolibrary.org/obo/UBERON_0002407` -#### Removed -- [pericardium](http://purl.obolibrary.org/obo/UBERON_0002407) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:16133" +#### Added +- [inner medulla vasa recta ascending limb cell](http://purl.obolibrary.org/obo/CL_1001209) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any vasa recta ascending limb cell that is part of some inner medulla vasa recta ascending limb." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [pericardium](http://purl.obolibrary.org/obo/UBERON_0002407) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "TAO:0000054" -- [pericardium](http://purl.obolibrary.org/obo/UBERON_0002407) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Peritoneum that surrounds the heart.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:JMG" +### inner medulla vasa recta descending limb cell `http://purl.obolibrary.org/obo/CL_1001286` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [inner medulla vasa recta descending limb cell](http://purl.obolibrary.org/obo/CL_1001286) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any vasa recta descending limb cell that is part of some inner medulla vasa recta descending limb." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010817" +### inner renal cortex cell `http://purl.obolibrary.org/obo/CL_1000596` -- [pericardium](http://purl.obolibrary.org/obo/UBERON_0002407) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "this class denotes a combination of fibrous PC + PC sac (itself a combination of cavity, epithelium and connective tissue). Many sources use the term 'pericardium' to denote either just the serous membrane (ZFA) or the epithelium (GO)" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" +#### Added +- [inner renal cortex cell](http://purl.obolibrary.org/obo/CL_1000596) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney cell that is part of some juxtamedullary cortex." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [pericardium](http://purl.obolibrary.org/obo/UBERON_0002407) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we follow FMA in dividing pericardium into pericardial sac and fibrous pericardium" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" -- [pericardium](http://purl.obolibrary.org/obo/UBERON_0002407) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "pericardial" +### inner renal medulla vasa recta cell `http://purl.obolibrary.org/obo/CL_1001126` -- [pericardium](http://purl.obolibrary.org/obo/UBERON_0002407) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "In GO the concept of pericardium is developmental implicitly epithelial, but here it represents a multi-tissue structure encompassing the sac (epithelium plus connective) and cavity" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +#### Added +- [inner renal medulla vasa recta cell](http://purl.obolibrary.org/obo/CL_1001126) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any vasa recta cell that is part of some inner renal medulla vasa recta." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" +### insect adult head `http://purl.obolibrary.org/obo/UBERON_6003007` -### perichondrium `http://purl.obolibrary.org/obo/UBERON_0002222` -#### Removed -- [perichondrium](http://purl.obolibrary.org/obo/UBERON_0002222) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of connective tissue which surrounds cartilage.[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [insect adult head](http://purl.obolibrary.org/obo/UBERON_6003007) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00003007" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" +### insect adult tagma `http://purl.obolibrary.org/obo/UBERON_6003005` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001643" +#### Added +- [insect adult tagma](http://purl.obolibrary.org/obo/UBERON_6003005) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00003005" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### insect embryonic/larval head sense organ `http://purl.obolibrary.org/obo/UBERON_6007280` -### perichordal bone `http://purl.obolibrary.org/obo/UBERON_0008909` -#### Removed -- [perichordal bone](http://purl.obolibrary.org/obo/UBERON_0008909) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Replacement bone that forms within the connective tissue surrounding the notochord.[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [insect embryonic/larval head sense organ](http://purl.obolibrary.org/obo/UBERON_6007280) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007280" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" +### insect embryonic/larval head sensillum `http://purl.obolibrary.org/obo/UBERON_6007242` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001639" +#### Added +- [insect embryonic/larval head sensillum](http://purl.obolibrary.org/obo/UBERON_6007242) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007242" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [perichordal bone](http://purl.obolibrary.org/obo/UBERON_0008909) SubClassOf [replacement bone](http://purl.obolibrary.org/obo/UBERON_0012075) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "not in VSAO" +### insect embryonic/larval sensillum `http://purl.obolibrary.org/obo/UBERON_6007240` #### Added -- [perichordal bone](http://purl.obolibrary.org/obo/UBERON_0008909) SubClassOf [replacement bone](http://purl.obolibrary.org/obo/UBERON_0012075) +- [insect embryonic/larval sensillum](http://purl.obolibrary.org/obo/UBERON_6007240) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007240" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### periderm `http://purl.obolibrary.org/obo/UBERON_0003055` +### insect flight muscle cell `http://purl.obolibrary.org/obo/CL_0000196` #### Removed -- [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Originally the epidermis is one layer thick, in most vertebrates it soon becomes a two-layered structure. The outer layer gives rise to the periderm. The periderm goes through distinct developmental phases and is ultimately sloughed into the amniotic fluid when differentiation of the underlying epidermal layers is complete. The function of the periderm is not known, but is thought to be related to transport/exchange between the fetus and the amniotic fluid (http://courses.washington.edu/hubio567/devbio/periderm.html)" +- [insect flight muscle cell](http://purl.obolibrary.org/obo/CL_0000196) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00003360" + +#### Added +- [insect flight muscle cell](http://purl.obolibrary.org/obo/CL_0000196) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00003360" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) + -- [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The outermost epidermal layer covering the fish at embryonic stages; derived from the EVL and thought to eventually be replaced by the superficial stratum of the epidermis. Sometimes used synonymously with EVL. Le Guellec et al, 2004.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001185" +### insect larval head `http://purl.obolibrary.org/obo/UBERON_6001730` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +#### Added +- [insect larval head](http://purl.obolibrary.org/obo/UBERON_6001730) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001730" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### insect larval sense organ `http://purl.obolibrary.org/obo/UBERON_6002639` -- [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0003377" +#### Added +- [insect larval sense organ](http://purl.obolibrary.org/obo/UBERON_6002639) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00002639" - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) -- [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: OBO_REL:part_of ectoderm (TAO:0000016) CHANGED TO: develops_from ectoderm (UBERON:0000924)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001185" +### insect larval tagma `http://purl.obolibrary.org/obo/UBERON_6001728` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [insect larval tagma](http://purl.obolibrary.org/obo/UBERON_6001728) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001728" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" -- [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "periderm" +### insulating cell `http://purl.obolibrary.org/obo/CL_0000217` -- [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "epidermis outer layer" +#### Added +- [insulating cell](http://purl.obolibrary.org/obo/CL_0000217) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009134" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "skin periderm" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EHDAA2:0001846" -- [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In mice, the first non-basal layer formed at ~E9.5; it is a temporary structure composed of simple squamous epithelium that serves as the first barrier to the embryo's physical environment, exists throughout the entire keratinocyte stratification process, and sheds off at ~E17, when it is replaced by corneocytes[MP]" +### insulin secreting cell `http://purl.obolibrary.org/obo/CL_0000168` -- [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "EVL" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0001185" +#### Added +- [insulin secreting cell](http://purl.obolibrary.org/obo/CL_0000168) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009101" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A temporary epithelium that derives from the outer layer of the ectdoerm and is shed once the inner layer differentiates to form a true epidermis." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ISBN:9780878932504" +- [insulin secreting cell](http://purl.obolibrary.org/obo/CL_0000168) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any secretory cell that is capable of some insulin secretion." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "In some mammals, Eyelid Fusion is thought to be driven by a population of cells which are derived from the periderm, the outermost layer of the developing epidermis" -- [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "epitrichium" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MP:0013530" +### integument `http://purl.obolibrary.org/obo/UBERON_0002199` +#### Removed +- [integument](http://purl.obolibrary.org/obo/UBERON_0002199) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "epidermis epithelial layer" +#### Added +- [integument](http://purl.obolibrary.org/obo/UBERON_0002199) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [integument](http://purl.obolibrary.org/obo/UBERON_0002199) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2" -- [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [enveloping layer of ectoderm](http://purl.obolibrary.org/obo/UBERON_0007383) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA" +### integumental system `http://purl.obolibrary.org/obo/UBERON_0002416` +#### Removed +- [integumental system](http://purl.obolibrary.org/obo/UBERON_0002416) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) #### Added -- [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "epitrichium" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:28722897" - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MP:0013530" +- [integumental system](http://purl.obolibrary.org/obo/UBERON_0002416) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004969" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "EVL" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0001185" +- [integumental system](http://purl.obolibrary.org/obo/UBERON_0002416) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) -- [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The outermost layer (or layers, depending on the species) of embryonic skin, essential for the development of the epidermis and establishment of the barrier functions. The periderm derives from the outer layer of the ectoderm." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:25133425" +### interaction relation helper property `http://purl.obolibrary.org/obo/RO_0002563` +#### Removed +- [interaction relation helper property](http://purl.obolibrary.org/obo/RO_0002563) [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) [Submissions:N-Ary_Relation_Pattern_%28OWL_2%29](http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29) - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:35582825" +- [interaction relation helper property](http://purl.obolibrary.org/obo/RO_0002563) [label](http://www.w3.org/2000/01/rdf-schema#label) "interaction relation helper property" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ISBN:9780878932504" +- [interaction relation helper property](http://purl.obolibrary.org/obo/RO_0002563) [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "enveloping layer" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0001185" +- ObjectProperty: [interaction relation helper property](http://purl.obolibrary.org/obo/RO_0002563) -- [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) SubClassOf [outer epithelium](http://purl.obolibrary.org/obo/UBERON_0007376) +- [interaction relation helper property](http://purl.obolibrary.org/obo/RO_0002563) SubPropertyOf: [helper property (not for use in curation)](http://purl.obolibrary.org/obo/RO_0002464) -- [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) SubClassOf [external integument structure](http://purl.obolibrary.org/obo/UBERON_3000961) -### perilymphatic channel `http://purl.obolibrary.org/obo/UBERON_0011060` +### interacts with `http://purl.obolibrary.org/obo/RO_0002434` #### Removed -- [perilymphatic channel](http://purl.obolibrary.org/obo/UBERON_0011060) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Duct that contains perilymph[ZFA:0005461, ZFIN:curator]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA:0005461, ZFIN:curator" +- [interacts with](http://purl.obolibrary.org/obo/RO_0002434) [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -#### Added -- [perilymphatic channel](http://purl.obolibrary.org/obo/UBERON_0011060) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [interacts with](http://purl.obolibrary.org/obo/RO_0002434) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." +- [interacts with](http://purl.obolibrary.org/obo/RO_0002434) [editor note](http://purl.obolibrary.org/obo/IAO_0000116) "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." -### perineurium `http://purl.obolibrary.org/obo/UBERON_0000121` -#### Removed -- [perineurium](http://purl.obolibrary.org/obo/UBERON_0000121) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Connective tissue surrounding a fascicle[Wikipedia:Perineurium]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Perineurium" +- [interacts with](http://purl.obolibrary.org/obo/RO_0002434) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [ro-eco](http://purl.obolibrary.org/obo/ro/subsets#ro-eco) -- [perineurium](http://purl.obolibrary.org/obo/UBERON_0000121) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "perineurial" +- [interacts with](http://purl.obolibrary.org/obo/RO_0002434) [editor note](http://purl.obolibrary.org/obo/IAO_0000116) "Considering relabeling as 'pairwise interacts with'"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [perineurium](http://purl.obolibrary.org/obo/UBERON_0000121) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "consider FBbt:00007090 (perineurium): The outer two layers of glial cells that cover the central nervous system and the nerves. The outer layer is the perineurial sheath (sometimes referred to as the perineurial sheath outer layer); the inner layer is the sub-perineural glial sheath (sometimes referred to as the perineurial sheath inner layer)" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FBbt" +- [interacts with](http://purl.obolibrary.org/obo/RO_0002434) [label](http://www.w3.org/2000/01/rdf-schema#label) "interacts with" +- [interacts with](http://purl.obolibrary.org/obo/RO_0002434) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "in pairwise interaction with" +- ObjectProperty: [interacts with](http://purl.obolibrary.org/obo/RO_0002434) -### periodontal ligament `http://purl.obolibrary.org/obo/UBERON_0008266` -#### Removed -- [periodontal ligament](http://purl.obolibrary.org/obo/UBERON_0008266) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The collagen fibers, running from the cementum to the alveolar bone, that suspend a tooth in its socket; they include apical, oblique, horizontal, and alveolar crest fibers, indicating that the orientation of the fibers varies at different levels[http://www.drugs.com/dict/desmodentium.html]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://www.drugs.com/dict/desmodentium.html" +- [interacts with](http://purl.obolibrary.org/obo/RO_0002434) Domain [material entity](http://purl.obolibrary.org/obo/BFO_0000040) -- [periodontal ligament](http://purl.obolibrary.org/obo/UBERON_0008266) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The fibrous connective tissue that surrounds the root of a tooth, separating it from and attaching it to the alveolar bone. It extends from the base of the gingival mucosa to the fundus of the bony socket, and its main function is to hold the tooth in its socket[BTO]. It consist of cells, extracellular compartment of fibers. The cells are fibroblast, epithelial, undifferentiated mesenchymal cells, bone and cementum cells. The extracellular compartment consists of collagen fibers bundles embedded in ground substance. The PDL substance has been estimated to be 70% water and is thought to have a significant effect on the tooth's ability to withstand stress loads[WP][BTO:0001020, Wikipedia:Periodontal_fiber, https://github.com/obophenotype/uberon/issues/21]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Periodontal_fiber" +- [interacts with](http://purl.obolibrary.org/obo/RO_0002434) Range [material entity](http://purl.obolibrary.org/obo/BFO_0000040) -- [periodontal ligament](http://purl.obolibrary.org/obo/UBERON_0008266) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D010513" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- Symmetric: [interacts with](http://purl.obolibrary.org/obo/RO_0002434) - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" -- [periodontal ligament](http://purl.obolibrary.org/obo/UBERON_0008266) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA treats periodontium and periodontal ligament as the same; it has a separate class desmodentium, which we place here even though it is classified as fetal in FMA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +### intercellular transport `http://purl.obolibrary.org/obo/GO_0010496` +#### Added +- [intercellular transport](http://purl.obolibrary.org/obo/GO_0010496) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### periodontium `http://purl.obolibrary.org/obo/UBERON_0001758` +### interfollicle cell `http://purl.obolibrary.org/obo/CL_0000674` #### Removed -- [periodontium](http://purl.obolibrary.org/obo/UBERON_0001758) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA treats periodontium and periodontal ligament as the same" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - +- [interfollicle cell](http://purl.obolibrary.org/obo/CL_0000674) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004910" +#### Added +- [interfollicle cell](http://purl.obolibrary.org/obo/CL_0000674) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004910" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### periosteum `http://purl.obolibrary.org/obo/UBERON_0002515` -#### Removed -- [periosteum](http://purl.obolibrary.org/obo/UBERON_0002515) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "periosteal" +### interlaminar astrocyte `http://purl.obolibrary.org/obo/CL_4042009` +#### Added +- [interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042009) [date](http://purl.org/dc/terms/date) "2024-04-08T16:33:45Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) -### peripheral nervous system `http://purl.obolibrary.org/obo/UBERON_0000010` -#### Removed -- [peripheral nervous system](http://purl.obolibrary.org/obo/UBERON_0000010) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) specific vertebrate traits within the chordate phylum such as skeletal tissues, PNS, and spectacular head and brain development, are linked to the NC (neural crest) and its derivatives.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042009) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "An astrocyte type that presents radial protrusions across the layers of a cortex. The soma of this astrocyte is part of the first layer of a neocortex. This astrocyte extents its protrusions transversally to the deeper layers of a cortex and it creates contact with neurons, the pia matter and capillaries. This astrocyte is involved in facilitating the communication across neurons, astrocytes, capillaries, meninges and the cerebrospinal fluid." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:31435019" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34616062" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000399" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:32930323" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1007/978-0-387-46954-6_6 Dupin E, Creuzet S, Le Douarin NM, The contribution of the neural crest to the vertebrate body. Advances in experimental medicine and biology (2006)" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:30552685" -- [peripheral nervous system](http://purl.obolibrary.org/obo/UBERON_0000010) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of nervous system in which nerves extend throughout the body outside of the brain and spinal cord.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:19279265" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042009) [label](http://www.w3.org/2000/01/rdf-schema#label) "interlaminar astrocyte"@en - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +- [interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042009) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "ILA" + - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000429" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:30552685" -- [peripheral nervous system](http://purl.obolibrary.org/obo/UBERON_0000010) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The peripheral nervous system (PNS) is the part of the nervous system connected to the CNS which contains cranial nerves III - XII, spinal, peripheral and autonomic nerves. (CUMBO)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://neurolex.org/wiki/Cumbo_terms" +- [interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042009) [contributor](http://purl.org/dc/terms/contributor) [0000-0002-0098-8958](https://orcid.org/0000-0002-0098-8958) -- [peripheral nervous system](http://purl.obolibrary.org/obo/UBERON_0000010) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005098" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- Class: [interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042009) -- [peripheral nervous system](http://purl.obolibrary.org/obo/UBERON_0000010) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Nervous structures including ganglia outside of the central nervous system. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042009) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [neocortex](http://purl.obolibrary.org/obo/UBERON_0001950) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000142" +- [interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042009) SubClassOf [has soma location](http://purl.obolibrary.org/obo/RO_0002100) some [neocortex](http://purl.obolibrary.org/obo/UBERON_0001950) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042009) SubClassOf [neural crest derived neuron](http://purl.obolibrary.org/obo/CL_0000029) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042009) SubClassOf [cerebral cortex neuron](http://purl.obolibrary.org/obo/CL_0010012) +- [interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042009) SubClassOf [astrocyte of the cerebral cortex](http://purl.obolibrary.org/obo/CL_0002605) -### perirenal preadipocyte `http://purl.obolibrary.org/obo/CL_0002581` +### interlobular artery cell `http://purl.obolibrary.org/obo/CL_1001138` #### Added -- [perirenal preadipocyte](http://purl.obolibrary.org/obo/CL_0002581) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A preadipocyte that is part of a perirenal fat tissue." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:20106964" +- [interlobular artery cell](http://purl.obolibrary.org/obo/CL_1001138) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney cortex artery cell that is part of some interlobular artery." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:31079959" +### interlobular vein cell `http://purl.obolibrary.org/obo/CL_1001145` -### peritoneal cavity `http://purl.obolibrary.org/obo/UBERON_0001179` -#### Removed -- [peritoneal cavity](http://purl.obolibrary.org/obo/UBERON_0001179) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In hagfishes a transverse septum extends upward from the ventral body wall posterior to the heart, partly separating an anterior pericardial cavity from a larger peritoneal cavity. (...) These basic relationships have not been modified by urodeles. The small pericardial cavity remains far forward where it is separated by a transverse septum from the principal coelom, which may now be called a pleuroperitoneal cavity because slender lungs are present. (...) The heart [of other tetrapods] is separated from the lungs (and liver if present) by more or less horizontal partitions that have their origin in the embryo as folds on the serous membrane of the right and left lateral body walls. These grow out to join in the midline of the body. They are called lateral mesocardia (birds) or pleuropericardial membranes. Posteriorly they join the transverse septum to form the adult pericardial membrane, or pericardium. (...) In their partitioning of their coelom, embryonic mammals resemble first early fishes (incomplete partition, posterior to heart, consisting of the transverse septum) and then reptiles (pericardium derived from transverse septum and pleuropericardial membranes) Mammals then separate paired pleural cavities from the peritoneal cavity by a diaphragm. The ventral portion of this organ comes from the transverse septum. The dorsal portion is derived from the dorsal mesentery and from still another pair of outgrowths from the lateral body wall, the pleuroperitoneal membranes.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0471090588 Hildebrand M, Analysis of vertebrate structure (1983) p.205-206" +#### Added +- [interlobular vein cell](http://purl.obolibrary.org/obo/CL_1001145) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney cortex vein cell that is part of some renal interlobular vein." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### interlobulary artery endothelial cell `http://purl.obolibrary.org/obo/CL_1001216` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [interlobulary artery endothelial cell](http://purl.obolibrary.org/obo/CL_1001216) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any endothelial cell that is part of some interlobular artery." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000852" -- [peritoneal cavity](http://purl.obolibrary.org/obo/UBERON_0001179) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The potential space between the parietal and visceral layers of the peritoneum, which are normally in contact. The peritoneal cavity is divided into the greater and lesser sac. The greater sac is the peritoneal cavity, and the lesser sac is the omental bursa. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/peritoneal+cavity" +### interlobulary artery smooth muscle cell `http://purl.obolibrary.org/obo/CL_1001217` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [interlobulary artery smooth muscle cell](http://purl.obolibrary.org/obo/CL_1001217) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any smooth muscle cell that is part of some interlobular artery." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### interlobulary vein endothelial cell `http://purl.obolibrary.org/obo/CL_1001223` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000852" +#### Added +- [interlobulary vein endothelial cell](http://purl.obolibrary.org/obo/CL_1001223) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any endothelial cell that is part of some renal interlobular vein." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" +### interlobulary vein smooth muscle cell `http://purl.obolibrary.org/obo/CL_1001224` -### peritoneal cavity mesothelium `http://purl.obolibrary.org/obo/UBERON_0005669` -#### Removed -- [peritoneal cavity mesothelium](http://purl.obolibrary.org/obo/UBERON_0005669) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we believe that this corresponds to EMAPA:16139 based on synonyms and parenthood" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EMAPA" +#### Added +- [interlobulary vein smooth muscle cell](http://purl.obolibrary.org/obo/CL_1001224) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any smooth muscle cell that is part of some renal interlobular vein." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" +### intermaxillary process `http://purl.obolibrary.org/obo/UBERON_0009714` -### peritoneal fluid `http://purl.obolibrary.org/obo/UBERON_0001268` -#### Removed -- [peritoneal fluid](http://purl.obolibrary.org/obo/UBERON_0001268) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D001202" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) +#### Added +- [intermaxillary process](http://purl.obolibrary.org/obo/UBERON_0009714) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +### intermediate cell of urothelium `http://purl.obolibrary.org/obo/CL_4030055` +#### Added +- [intermediate cell of urothelium](http://purl.obolibrary.org/obo/CL_4030055) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [human_reference_atlas](http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas) -### peritoneum `http://purl.obolibrary.org/obo/UBERON_0002358` -#### Removed -- [peritoneum](http://purl.obolibrary.org/obo/UBERON_0002358) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An epithelium that lines the peritoneal cavity.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005120" +- [intermediate cell of urothelium](http://purl.obolibrary.org/obo/CL_4030055) [present in taxon](http://purl.obolibrary.org/obo/RO_0002175) [Homo sapiens](http://purl.obolibrary.org/obo/NCBITaxon_9606) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### intermediate filament binding `http://purl.obolibrary.org/obo/GO_0019215` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [intermediate filament binding](http://purl.obolibrary.org/obo/GO_0019215) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [peritoneum](http://purl.obolibrary.org/obo/UBERON_0002358) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "todo: check MA/EMAPA." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" -- [peritoneum](http://purl.obolibrary.org/obo/UBERON_0002358) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Serous membrane that forms the lining of the abdominal cavity or the coelom. It covers most of the intra-abdominal organs, supports the abdominal organs, and serves as a conduit for their blood and lymph vessels and nerves. It is composed of a layer of mesothelium.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010814" +### intermediate mesoderm `http://purl.obolibrary.org/obo/UBERON_0003064` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:JMG" +#### Added +- [intermediate mesoderm](http://purl.obolibrary.org/obo/UBERON_0003064) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### interneuromast cell `http://purl.obolibrary.org/obo/CL_0000854` -- [peritoneum](http://purl.obolibrary.org/obo/UBERON_0002358) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "peritoneal" +#### Added +- [interneuromast cell](http://purl.obolibrary.org/obo/CL_0000854) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009365" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [interneuromast cell](http://purl.obolibrary.org/obo/CL_0000854) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### perivascular macrophage `http://purl.obolibrary.org/obo/CL_0000881` +### interneuron `http://purl.obolibrary.org/obo/CL_0000099` #### Removed -- [perivascular macrophage](http://purl.obolibrary.org/obo/CL_0000881) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A central nervous system macrophage found in small blood vessels in the brain. Markers include CD14+CD16+CD163+." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:tfm" - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GO_REF:0000031" +- [interneuron](http://purl.obolibrary.org/obo/CL_0000099) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005125" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:16507898" +#### Added +- [interneuron](http://purl.obolibrary.org/obo/CL_0000099) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005125" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [perivascular macrophage](http://purl.obolibrary.org/obo/CL_0000881) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Markers: Human/monkey, mice: CD163. Human: CD14+CD16+CD163+." +- [interneuron](http://purl.obolibrary.org/obo/CL_0000099) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009051" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [perivascular macrophage](http://purl.obolibrary.org/obo/CL_0000881) EquivalentTo [central nervous system macrophage](http://purl.obolibrary.org/obo/CL_0000878) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [blood vessel](http://purl.obolibrary.org/obo/UBERON_0001981)) and ([has plasma membrane part](http://purl.obolibrary.org/obo/RO_0002104) some [low affinity immunoglobulin gamma Fc region receptor III](http://purl.obolibrary.org/obo/PR_000001483)) and ([has plasma membrane part](http://purl.obolibrary.org/obo/RO_0002104) some [CD14 molecule](http://purl.obolibrary.org/obo/PR_000001889)) and ([has plasma membrane part](http://purl.obolibrary.org/obo/RO_0002104) some [scavenger receptor cysteine-rich type 1 protein M130](http://purl.obolibrary.org/obo/PR_000001925)) -- [perivascular macrophage](http://purl.obolibrary.org/obo/CL_0000881) SubClassOf [central nervous system macrophage](http://purl.obolibrary.org/obo/CL_0000878) - - [is_inferred](http://www.geneontology.org/formats/oboInOwl#is_inferred) "true" +### interplexiform cell `http://purl.obolibrary.org/obo/CL_0011104` #### Added -- [perivascular macrophage](http://purl.obolibrary.org/obo/CL_0000881) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "pvMΦ" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37232741" +- [interplexiform cell](http://purl.obolibrary.org/obo/CL_0011104) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [perivascular macrophage](http://purl.obolibrary.org/obo/CL_0000881) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A border associated macrophage that is adjacent to a small blood vessel of a brain. A perivascular macrophage expresses the markers CD14, CD16 and CD163. In homeostatic conditions, this central nervous system macrophage has a non-motile cell body with extending and retracting projections through the blood vessel wall." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:tfm" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GO_REF:0000031" +### interstitial extravillous trophoblast cell `http://purl.obolibrary.org/obo/CL_4033062` - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:16507898" - - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37232741" +#### Added +- [interstitial extravillous trophoblast cell](http://purl.obolibrary.org/obo/CL_4033062) [present in taxon](http://purl.obolibrary.org/obo/RO_0002175) [Homo sapiens](http://purl.obolibrary.org/obo/NCBITaxon_9606) -- [perivascular macrophage](http://purl.obolibrary.org/obo/CL_0000881) EquivalentTo [border associated macrophage](http://purl.obolibrary.org/obo/CL_4042003) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [blood vessel](http://purl.obolibrary.org/obo/UBERON_0001981)) and ([has plasma membrane part](http://purl.obolibrary.org/obo/RO_0002104) some [low affinity immunoglobulin gamma Fc region receptor III](http://purl.obolibrary.org/obo/PR_000001483)) and ([has plasma membrane part](http://purl.obolibrary.org/obo/RO_0002104) some [CD14 molecule](http://purl.obolibrary.org/obo/PR_000001889)) and ([has plasma membrane part](http://purl.obolibrary.org/obo/RO_0002104) some [scavenger receptor cysteine-rich type 1 protein M130](http://purl.obolibrary.org/obo/PR_000001925)) +- [interstitial extravillous trophoblast cell](http://purl.obolibrary.org/obo/CL_4033062) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [human_reference_atlas](http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas) -- [perivascular macrophage](http://purl.obolibrary.org/obo/CL_0000881) SubClassOf [border associated macrophage](http://purl.obolibrary.org/obo/CL_4042003) - - [is_inferred](http://www.geneontology.org/formats/oboInOwl#is_inferred) "true" +- [interstitial extravillous trophoblast cell](http://purl.obolibrary.org/obo/CL_4033062) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### periventricular nucleus `http://purl.obolibrary.org/obo/UBERON_0002322` +### intervertebral disk `http://purl.obolibrary.org/obo/UBERON_0001066` #### Removed -- [periventricular nucleus](http://purl.obolibrary.org/obo/UBERON_0002322) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Diencephalic nucleus which is the periventricular part of the ventral hypothalamic zone. From Neuroanatomy of the Zebrafish Brain." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA:0000260, GOC:MAH, ISBN:3764351209" +- [intervertebral disk](http://purl.obolibrary.org/obo/UBERON_0001066) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### periventricular zone of hypothalamus `http://purl.obolibrary.org/obo/UBERON_0002271` +### intestinal epithelial cell `http://purl.obolibrary.org/obo/CL_0002563` #### Added -- [periventricular zone of hypothalamus](http://purl.obolibrary.org/obo/UBERON_0002271) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [intestinal epithelial cell](http://purl.obolibrary.org/obo/CL_0002563) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009399" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### pes `http://purl.obolibrary.org/obo/UBERON_0002387` +### intestinal villus `http://purl.obolibrary.org/obo/UBERON_0001213` #### Removed -- [pes](http://purl.obolibrary.org/obo/UBERON_0002387) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "pedal" +- [intestinal villus](http://purl.obolibrary.org/obo/UBERON_0001213) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +#### Added +- [intestinal villus](http://purl.obolibrary.org/obo/UBERON_0001213) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### pes bone `http://purl.obolibrary.org/obo/UBERON_0005899` +### intracellular amino acid homeostasis `http://purl.obolibrary.org/obo/GO_0080144` #### Removed -- [pes bone](http://purl.obolibrary.org/obo/UBERON_0005899) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Skeleton-partonomy-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - +- [intracellular amino acid homeostasis](http://purl.obolibrary.org/obo/GO_0080144) EquivalentTo [intracellular chemical homeostasis](http://purl.obolibrary.org/obo/GO_0055082) and ([regulates levels of](http://purl.obolibrary.org/obo/RO_0002332) some [CHEBI_33709](http://purl.obolibrary.org/obo/CHEBI_33709)) - -### pes connective tissue `http://purl.obolibrary.org/obo/UBERON_0003595` +- [intracellular amino acid homeostasis](http://purl.obolibrary.org/obo/GO_0080144) SubClassOf [regulates levels of](http://purl.obolibrary.org/obo/RO_0002332) some [CHEBI_33709](http://purl.obolibrary.org/obo/CHEBI_33709) #### Added -- [pes connective tissue](http://purl.obolibrary.org/obo/UBERON_0003595) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [intracellular amino acid homeostasis](http://purl.obolibrary.org/obo/GO_0080144) EquivalentTo [intracellular chemical homeostasis](http://purl.obolibrary.org/obo/GO_0055082) and ([regulates levels of](http://purl.obolibrary.org/obo/RO_0002332) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238)) + +- [intracellular amino acid homeostasis](http://purl.obolibrary.org/obo/GO_0080144) SubClassOf [regulates levels of](http://purl.obolibrary.org/obo/RO_0002332) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238) -### pes joint `http://purl.obolibrary.org/obo/UBERON_0001487` +### intracellular glucose homeostasis `http://purl.obolibrary.org/obo/GO_0001678` #### Removed -- [pes joint](http://purl.obolibrary.org/obo/UBERON_0001487) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_71349](http://purl.obolibrary.org/obo/FMA_71349) +- [intracellular glucose homeostasis](http://purl.obolibrary.org/obo/GO_0001678) EquivalentTo [cellular homeostasis](http://purl.obolibrary.org/obo/GO_0019725) and ([regulates levels of](http://purl.obolibrary.org/obo/RO_0002332) some [CHEBI_17234](http://purl.obolibrary.org/obo/CHEBI_17234)) +- [intracellular glucose homeostasis](http://purl.obolibrary.org/obo/GO_0001678) SubClassOf [regulates levels of](http://purl.obolibrary.org/obo/RO_0002332) some [CHEBI_17234](http://purl.obolibrary.org/obo/CHEBI_17234) +#### Added +- [intracellular glucose homeostasis](http://purl.obolibrary.org/obo/GO_0001678) EquivalentTo [cellular homeostasis](http://purl.obolibrary.org/obo/GO_0019725) and ([regulates levels of](http://purl.obolibrary.org/obo/RO_0002332) some [CHEBI_4167](http://purl.obolibrary.org/obo/CHEBI_4167)) + +- [intracellular glucose homeostasis](http://purl.obolibrary.org/obo/GO_0001678) SubClassOf [regulates levels of](http://purl.obolibrary.org/obo/RO_0002332) some [CHEBI_4167](http://purl.obolibrary.org/obo/CHEBI_4167) -### petrous part of temporal bone `http://purl.obolibrary.org/obo/UBERON_0001694` + +### intracellular steroid hormone receptor signaling pathway `http://purl.obolibrary.org/obo/GO_0030518` #### Removed -- [petrous part of temporal bone](http://purl.obolibrary.org/obo/UBERON_0001694) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "derivative of prootic and opisthotic" +- [intracellular steroid hormone receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0030518) SubClassOf [intracellular receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0030522) + +#### Added +- [intracellular steroid hormone receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0030518) SubClassOf [nuclear receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0141193) + -- [petrous part of temporal bone](http://purl.obolibrary.org/obo/UBERON_0001694) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The petrosal bone arises from the two otic bones on the lateral wall of the chondrocranium and encases the inner ear of mammals. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Grande_L, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF, p.258, see_Liem_KF][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001553" +### intraembryonic coelom `http://purl.obolibrary.org/obo/UBERON_0003887` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [intraembryonic coelom](http://purl.obolibrary.org/obo/UBERON_0003887) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### intrahepatic cholangiocyte `http://purl.obolibrary.org/obo/CL_0002538` +#### Added +- [intrahepatic cholangiocyte](http://purl.obolibrary.org/obo/CL_0002538) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009379" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### phalanx `http://purl.obolibrary.org/obo/UBERON_0003221` +### intratelencephalic-projecting glutamatergic cortical neuron `http://purl.obolibrary.org/obo/CL_4023008` #### Removed -- [phalanx](http://purl.obolibrary.org/obo/UBERON_0003221) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In primates such as humans and monkeys, the thumb and big toe have two phalanges, while the other fingers and toes consist of three" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" +- [intratelencephalic-projecting glutamatergic cortical neuron](http://purl.obolibrary.org/obo/CL_4023008) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A glutamatergic neuron located in the cerebral cortex that projects to structures of telencephalic origins." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "DOI:10.1101/2020.10.19.343129" -- [phalanx](http://purl.obolibrary.org/obo/UBERON_0003221) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "phalangeal" +- [intratelencephalic-projecting glutamatergic cortical neuron](http://purl.obolibrary.org/obo/CL_4023008) [symbol](http://purl.obolibrary.org/obo/IAO_0000028) "IT glut" +- [intratelencephalic-projecting glutamatergic cortical neuron](http://purl.obolibrary.org/obo/CL_4023008) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "IT projecting neuron" +#### Added +- [intratelencephalic-projecting glutamatergic cortical neuron](http://purl.obolibrary.org/obo/CL_4023008) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A glutamatergic neuron located in the cerebral cortex that projects to structures of telencephalic origins." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34616075" -### phalanx of manus `http://purl.obolibrary.org/obo/UBERON_0001436` -#### Removed -- [phalanx of manus](http://purl.obolibrary.org/obo/UBERON_0001436) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Dumb-bell shaped bones of endochondral origin with cartilaginous epiphyses that make the four digits of the manus. The terminal phalanges are much smaller than the proximal and penultimate phalanges. The typical phalangeal formula of the manus, in a medial to lateral sequence, is 2-2-3-3.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" +- [intratelencephalic-projecting glutamatergic cortical neuron](http://purl.obolibrary.org/obo/CL_4023008) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "IT neuron" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "doi:10.1038/s41467-021-24565-z" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [intratelencephalic-projecting glutamatergic cortical neuron](http://purl.obolibrary.org/obo/CL_4023008) [symbol](http://purl.obolibrary.org/obo/IAO_0000028) "IT neuron" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000947" +### intromittent organ `http://purl.obolibrary.org/obo/UBERON_0008811` +#### Added +- [intromittent organ](http://purl.obolibrary.org/obo/UBERON_0008811) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004850" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### phalanx of pes `http://purl.obolibrary.org/obo/UBERON_0001449` +### invertebrate nurse cell `http://purl.obolibrary.org/obo/CL_0000026` #### Removed -- [phalanx of pes](http://purl.obolibrary.org/obo/UBERON_0001449) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Dumb-bell shaped bones of endochondral origin with cartilaginous epiphyses that make the five digits of the pes. The terminal phalanges are much smaller than the proximal and penultimate phalanges. The typical phalangeal formula of the pes, in a medial to lateral sequence, is 2(1)-2-3-4(3)-3(2).[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" +- [invertebrate nurse cell](http://purl.obolibrary.org/obo/CL_0000026) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004878" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [invertebrate nurse cell](http://purl.obolibrary.org/obo/CL_0000026) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004878" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000930" +- [invertebrate nurse cell](http://purl.obolibrary.org/obo/CL_0000026) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### involved in `http://purl.obolibrary.org/obo/RO_0002331` +#### Removed +- [involved in](http://purl.obolibrary.org/obo/RO_0002331) [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "https://wiki.geneontology.org/Involved_in"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [involved in](http://purl.obolibrary.org/obo/RO_0002331) [label](http://www.w3.org/2000/01/rdf-schema#label) "involved in"@en -### pharyngeal arch `http://purl.obolibrary.org/obo/UBERON_0002539` -#### Removed -- [pharyngeal arch](http://purl.obolibrary.org/obo/UBERON_0002539) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "Numbered cranial to caudal. different in mammals. branchial arch = ZFA:0001613 pharyngeal arch 3-7. generally gill arch 1 = pharyngeal arch 3. terminology varies as to whether branchial arch follows gill or pharyngeal numbering" +- [involved in](http://purl.obolibrary.org/obo/RO_0002331) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "c involved_in p if and only if c enables some process p', and p' is part of p" -- [pharyngeal arch](http://purl.obolibrary.org/obo/UBERON_0002539) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- ObjectProperty: [involved in](http://purl.obolibrary.org/obo/RO_0002331) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [involved in](http://purl.obolibrary.org/obo/RO_0002331) SubPropertyOf: [involved in or involved in regulation of](http://purl.obolibrary.org/obo/RO_0002431) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M and Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)" +- [involved in](http://purl.obolibrary.org/obo/RO_0002331) SubPropertyOf: [participates in](http://purl.obolibrary.org/obo/RO_0000056) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [involved in](http://purl.obolibrary.org/obo/RO_0002331) o [part of](http://purl.obolibrary.org/obo/BFO_0000050) SubPropertyOf: [involved in](http://purl.obolibrary.org/obo/RO_0002331) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000155" +- [enables](http://purl.obolibrary.org/obo/RO_0002327) o [part of](http://purl.obolibrary.org/obo/BFO_0000050) SubPropertyOf: [involved in](http://purl.obolibrary.org/obo/RO_0002331) -- [pharyngeal arch](http://purl.obolibrary.org/obo/UBERON_0002539) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of a series of bony or cartilaginous arches that develop in the walls of the mouth cavity and pharynx of the embryo.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "NLM:branchial+arch" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010359" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### involved in negative regulation of `http://purl.obolibrary.org/obo/RO_0002430` +#### Removed +- [involved in negative regulation of](http://purl.obolibrary.org/obo/RO_0002430) [label](http://www.w3.org/2000/01/rdf-schema#label) "involved in negative regulation of" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [involved in negative regulation of](http://purl.obolibrary.org/obo/RO_0002430) [is negative form of](http://purl.obolibrary.org/obo/RO_0004050) [involved in regulation of](http://purl.obolibrary.org/obo/RO_0002428) +- [involved in negative regulation of](http://purl.obolibrary.org/obo/RO_0002430) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" +- ObjectProperty: [involved in negative regulation of](http://purl.obolibrary.org/obo/RO_0002430) -### pharyngeal arch 1 `http://purl.obolibrary.org/obo/UBERON_0004362` -#### Removed -- [pharyngeal arch 1](http://purl.obolibrary.org/obo/UBERON_0004362) [UBPROP_0000103](http://purl.obolibrary.org/obo/UBPROP_0000103) "1"^^[nonNegativeInteger](http://www.w3.org/2001/XMLSchema#nonNegativeInteger) +- [involved in negative regulation of](http://purl.obolibrary.org/obo/RO_0002430) SubPropertyOf: [involved in regulation of](http://purl.obolibrary.org/obo/RO_0002428) -- [pharyngeal arch 1](http://purl.obolibrary.org/obo/UBERON_0004362) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "the first arch which contributes to development of mastication muscles, maxilla, mandible, incus, malleus, Meckel's cartilage, trigeminal nerve, and maxillary artery" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0006337,MGI:smb" +- [enables](http://purl.obolibrary.org/obo/RO_0002327) o [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) SubPropertyOf: [involved in negative regulation of](http://purl.obolibrary.org/obo/RO_0002430) -- [pharyngeal arch 1](http://purl.obolibrary.org/obo/UBERON_0004362) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [involved in](http://purl.obolibrary.org/obo/RO_0002331) o [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) SubPropertyOf: [involved in negative regulation of](http://purl.obolibrary.org/obo/RO_0002430) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M and Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000296" +### involved in positive regulation of `http://purl.obolibrary.org/obo/RO_0002429` +#### Removed +- [involved in positive regulation of](http://purl.obolibrary.org/obo/RO_0002429) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [involved in positive regulation of](http://purl.obolibrary.org/obo/RO_0002429) [label](http://www.w3.org/2000/01/rdf-schema#label) "involved in positive regulation of" -- [pharyngeal arch 1](http://purl.obolibrary.org/obo/UBERON_0004362) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The first of the series of bony or cartilaginous arches that develop in the walls of the mouth cavity and pharynx of the embryo.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010364" +- ObjectProperty: [involved in positive regulation of](http://purl.obolibrary.org/obo/RO_0002429) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [involved in positive regulation of](http://purl.obolibrary.org/obo/RO_0002429) SubPropertyOf: [involved in regulation of](http://purl.obolibrary.org/obo/RO_0002428) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [enables](http://purl.obolibrary.org/obo/RO_0002327) o [positively regulates](http://purl.obolibrary.org/obo/RO_0002213) SubPropertyOf: [involved in positive regulation of](http://purl.obolibrary.org/obo/RO_0002429) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "XAO:EJS" +- [involved in](http://purl.obolibrary.org/obo/RO_0002331) o [positively regulates](http://purl.obolibrary.org/obo/RO_0002213) SubPropertyOf: [involved in positive regulation of](http://purl.obolibrary.org/obo/RO_0002429) -### pharyngeal arch 2 `http://purl.obolibrary.org/obo/UBERON_0003066` +### involved in regulation of `http://purl.obolibrary.org/obo/RO_0002428` #### Removed -- [pharyngeal arch 2](http://purl.obolibrary.org/obo/UBERON_0003066) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [involved in](http://purl.obolibrary.org/obo/RO_0002331) o [regulates](http://purl.obolibrary.org/obo/RO_0002211) SubPropertyOf: [involved in regulation of](http://purl.obolibrary.org/obo/RO_0002428) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [enables](http://purl.obolibrary.org/obo/RO_0002327) o [regulates](http://purl.obolibrary.org/obo/RO_0002211) SubPropertyOf: [involved in regulation of](http://purl.obolibrary.org/obo/RO_0002428) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M and Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000297" +### ionocyte `http://purl.obolibrary.org/obo/CL_0005006` -- [pharyngeal arch 2](http://purl.obolibrary.org/obo/UBERON_0003066) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The second of the series of bony or cartilaginous arches that develop in the walls of the mouth cavity and pharynx of the embryo.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010363" +#### Added +- [ionocyte](http://purl.obolibrary.org/obo/CL_0005006) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005323" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### iridoblast `http://purl.obolibrary.org/obo/CL_0005001` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "XAO:EJS" +#### Added +- [iridoblast](http://purl.obolibrary.org/obo/CL_0005001) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005328" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [pharyngeal arch 2](http://purl.obolibrary.org/obo/UBERON_0003066) [UBPROP_0000103](http://purl.obolibrary.org/obo/UBPROP_0000103) "2"^^[nonNegativeInteger](http://www.w3.org/2001/XMLSchema#nonNegativeInteger) -- [pharyngeal arch 2](http://purl.obolibrary.org/obo/UBERON_0003066) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in XAO, develops from visceral pouch 2" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "XAO" +### iridocorneal angle `http://purl.obolibrary.org/obo/UBERON_0006206` +#### Added +- [iridocorneal angle](http://purl.obolibrary.org/obo/UBERON_0006206) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -### pharyngeal arch 3 `http://purl.obolibrary.org/obo/UBERON_0003114` -#### Removed -- [pharyngeal arch 3](http://purl.obolibrary.org/obo/UBERON_0003114) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in XAO, called branchial arch 1 and df VP3" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "XAO" +### iridophore `http://purl.obolibrary.org/obo/CL_0000431` -- [pharyngeal arch 3](http://purl.obolibrary.org/obo/UBERON_0003114) [UBPROP_0000103](http://purl.obolibrary.org/obo/UBPROP_0000103) "3"^^[nonNegativeInteger](http://www.w3.org/2001/XMLSchema#nonNegativeInteger) +#### Added +- [iridophore](http://purl.obolibrary.org/obo/CL_0000431) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009199" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [pharyngeal arch 3](http://purl.obolibrary.org/obo/UBERON_0003114) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The most anterior, or first, pharygeal/branchial arch, composed of the mandibular process, forming the posterior border of the stomodeum, and the maxillary process anterior to the stomodeum, contains the first aortic arch.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0-02-377110-0" +- [iridophore](http://purl.obolibrary.org/obo/CL_0000431) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010365" +### iris morphogenesis `http://purl.obolibrary.org/obo/GO_0061072` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [iris morphogenesis](http://purl.obolibrary.org/obo/GO_0061072) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [pharyngeal arch 3](http://purl.obolibrary.org/obo/UBERON_0003114) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### iron ion binding `http://purl.obolibrary.org/obo/GO_0005506` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M and Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)" +#### Added +- [iron ion binding](http://purl.obolibrary.org/obo/GO_0005506) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000298" +### iron ion transport `http://purl.obolibrary.org/obo/GO_0006826` +#### Added +- [iron ion transport](http://purl.obolibrary.org/obo/GO_0006826) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### pharyngeal arch 4 `http://purl.obolibrary.org/obo/UBERON_0003115` +### is active in `http://purl.obolibrary.org/obo/RO_0002432` #### Removed -- [pharyngeal arch 4](http://purl.obolibrary.org/obo/UBERON_0003115) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The second pharyngeal/branchial arch; arises as a thickening of the pharygeal wall between the first and second branchial clefts; contains the second aortic arch; forms part of the hyoid bone, tongue and facial musculature.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0-02-377110-0" +- [is active in](http://purl.obolibrary.org/obo/RO_0002432) [label](http://www.w3.org/2000/01/rdf-schema#label) "is active in" + +- [is active in](http://purl.obolibrary.org/obo/RO_0002432) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [is active in](http://purl.obolibrary.org/obo/RO_0002432) [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "https://wiki.geneontology.org/Is_active_in"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010366" +- [is active in](http://purl.obolibrary.org/obo/RO_0002432) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "enables activity in" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [is active in](http://purl.obolibrary.org/obo/RO_0002432) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) -- [pharyngeal arch 4](http://purl.obolibrary.org/obo/UBERON_0003115) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in XAO, called branchial arch 2 and df VP4" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "XAO" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) -- [pharyngeal arch 4](http://purl.obolibrary.org/obo/UBERON_0003115) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- ObjectProperty: [is active in](http://purl.obolibrary.org/obo/RO_0002432) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [is active in](http://purl.obolibrary.org/obo/RO_0002432) SubPropertyOf: [overlaps](http://purl.obolibrary.org/obo/RO_0002131) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M and Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)" +- [is active in](http://purl.obolibrary.org/obo/RO_0002432) SubPropertyOf: [functionally related to](http://purl.obolibrary.org/obo/RO_0002328) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000299" -- [pharyngeal arch 4](http://purl.obolibrary.org/obo/UBERON_0003115) [UBPROP_0000103](http://purl.obolibrary.org/obo/UBPROP_0000103) "4"^^[nonNegativeInteger](http://www.w3.org/2001/XMLSchema#nonNegativeInteger) +### is kinase activity `http://purl.obolibrary.org/obo/RO_0002481` +#### Removed +- [is kinase activity](http://purl.obolibrary.org/obo/RO_0002481) [label](http://www.w3.org/2000/01/rdf-schema#label) "is kinase activity" +- ObjectProperty: [is kinase activity](http://purl.obolibrary.org/obo/RO_0002481) +- [is kinase activity](http://purl.obolibrary.org/obo/RO_0002481) SubPropertyOf: [molecular interaction relation helper property](http://purl.obolibrary.org/obo/RO_0002564) -### pharyngeal arch 5 `http://purl.obolibrary.org/obo/UBERON_0003116` -#### Removed -- [pharyngeal arch 5](http://purl.obolibrary.org/obo/UBERON_0003116) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The third in a series of paired bars in the wall of the pharynx, within which are formed the third aortic arch and the cartilage bar of the visceral skeleton, forms and supports the gills.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0-02-377110-0" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010367" +### jejunum `http://purl.obolibrary.org/obo/UBERON_0002115` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [jejunum](http://purl.obolibrary.org/obo/UBERON_0002115) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [pharyngeal arch 5](http://purl.obolibrary.org/obo/UBERON_0003116) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in XAO, called branchial arch 3 and df VP5" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "XAO" -- [pharyngeal arch 5](http://purl.obolibrary.org/obo/UBERON_0003116) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "A fifth arch never establishes itself in amniotes" +### juvenile hormone binding `http://purl.obolibrary.org/obo/GO_0005500` -- [pharyngeal arch 5](http://purl.obolibrary.org/obo/UBERON_0003116) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001204" +#### Added +- [juvenile hormone binding](http://purl.obolibrary.org/obo/GO_0005500) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### juvenile hormone metabolic process `http://purl.obolibrary.org/obo/GO_0006716` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [juvenile hormone metabolic process](http://purl.obolibrary.org/obo/GO_0006716) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M, Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)" -- [pharyngeal arch 5](http://purl.obolibrary.org/obo/UBERON_0003116) [UBPROP_0000103](http://purl.obolibrary.org/obo/UBPROP_0000103) "5"^^[nonNegativeInteger](http://www.w3.org/2001/XMLSchema#nonNegativeInteger) +### juvenile hormone secreting cell `http://purl.obolibrary.org/obo/CL_0000482` +#### Removed +- [juvenile hormone secreting cell](http://purl.obolibrary.org/obo/CL_0000482) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00058020" +#### Added +- [juvenile hormone secreting cell](http://purl.obolibrary.org/obo/CL_0000482) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00058020" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### pharyngeal arch 6 `http://purl.obolibrary.org/obo/UBERON_0003117` +### juxtaglomerular apparatus `http://purl.obolibrary.org/obo/UBERON_0002303` #### Removed -- [pharyngeal arch 6](http://purl.obolibrary.org/obo/UBERON_0003117) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The forth in a series of paired bars in the wall of the pharynx, within which are formed the forth aortic arch and the cartilage bar of the visceral skeleton, forms and supports the gills.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0-02-377110-0" +- [juxtaglomerular apparatus](http://purl.obolibrary.org/obo/UBERON_0002303) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) + +#### Added +- [juxtaglomerular apparatus](http://purl.obolibrary.org/obo/UBERON_0002303) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010368" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### juxtaglomerular complex cell `http://purl.obolibrary.org/obo/CL_1000618` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [juxtaglomerular complex cell](http://purl.obolibrary.org/obo/CL_1000618) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney cortical cell that is part of some juxtaglomerular apparatus." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [pharyngeal arch 6](http://purl.obolibrary.org/obo/UBERON_0003117) [UBPROP_0000103](http://purl.obolibrary.org/obo/UBPROP_0000103) "6"^^[nonNegativeInteger](http://www.w3.org/2001/XMLSchema#nonNegativeInteger) -- [pharyngeal arch 6](http://purl.obolibrary.org/obo/UBERON_0003117) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001205" +### keratan sulfate metabolic process `http://purl.obolibrary.org/obo/GO_0042339` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [keratan sulfate metabolic process](http://purl.obolibrary.org/obo/GO_0042339) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### keratin accumulating cell `http://purl.obolibrary.org/obo/CL_0000311` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M, Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)" +#### Added +- [keratin accumulating cell](http://purl.obolibrary.org/obo/CL_0000311) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009157" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +### keratinization `http://purl.obolibrary.org/obo/GO_0031424` -### pharyngeal arch artery `http://purl.obolibrary.org/obo/UBERON_0004363` -#### Removed -- [pharyngeal arch artery](http://purl.obolibrary.org/obo/UBERON_0004363) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "When vertebrates first appeared, they must have possessed a ventral and dorsal aorta with aortic arches between them.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [keratinization](http://purl.obolibrary.org/obo/GO_0031424) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000122" +### keratinocyte `http://purl.obolibrary.org/obo/CL_0000312` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [keratinocyte](http://purl.obolibrary.org/obo/CL_0000312) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009158" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620" -- [pharyngeal arch artery](http://purl.obolibrary.org/obo/UBERON_0004363) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The third, fourth, and sixth arches, along with the seventh intersegmental arteries and the left dorsal aorta, are the primary contributors to the normal aortic arch and its major thoracic branches" +### keratinocyte activation `http://purl.obolibrary.org/obo/GO_0032980` -- [pharyngeal arch artery](http://purl.obolibrary.org/obo/UBERON_0004363) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Paired vessels arching from the ventral to the dorsal aorta through the pharyngeal arches. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [keratinocyte activation](http://purl.obolibrary.org/obo/GO_0032980) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000122" +### kidney `http://purl.obolibrary.org/obo/UBERON_0002113` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [kidney](http://purl.obolibrary.org/obo/UBERON_0002113) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/aortic+arches" -- [pharyngeal arch artery](http://purl.obolibrary.org/obo/UBERON_0004363) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Do not confuse with arch of aorta." +### kidney afferent arteriole cell `http://purl.obolibrary.org/obo/CL_1001006` -- [pharyngeal arch artery](http://purl.obolibrary.org/obo/UBERON_0004363) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Number varies - Lampreys have 8, hagfishes 15; only up to 6 appear in embryonic development in most gnathostome fishes and all tetrapods" +#### Added +- [kidney afferent arteriole cell](http://purl.obolibrary.org/obo/CL_1001006) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney arterial blood vessel cell that is part of some renal afferent arteriole." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" +### kidney afferent arteriole endothelial cell `http://purl.obolibrary.org/obo/CL_1001096` -### pharyngeal arch artery 1 `http://purl.obolibrary.org/obo/UBERON_0003118` -#### Removed -- [pharyngeal arch artery 1](http://purl.obolibrary.org/obo/UBERON_0003118) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "ZFA states that The paired aortic arch 1 arteries branch off of the ventral aorta, and empty into the right and left lateral dorsal aortas" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" +#### Added +- [kidney afferent arteriole endothelial cell](http://purl.obolibrary.org/obo/CL_1001096) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any endothelial cell that is part of some renal afferent arteriole." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [pharyngeal arch artery 1](http://purl.obolibrary.org/obo/UBERON_0003118) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Disappears early in development in tetrapods" +### kidney afferent arteriole smooth muscle cell `http://purl.obolibrary.org/obo/CL_1001097` +#### Added +- [kidney afferent arteriole smooth muscle cell](http://purl.obolibrary.org/obo/CL_1001097) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any smooth muscle cell that is part of some renal afferent arteriole." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### pharyngeal arch artery 2 `http://purl.obolibrary.org/obo/UBERON_0003119` -#### Removed -- [pharyngeal arch artery 2](http://purl.obolibrary.org/obo/UBERON_0003119) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The second in a series paired arterial connections between the dorsal and ventral aortae. Aortic arch 2 that is part of hyoid arch.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0-02-377110-0" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### kidney arterial blood vessel cell `http://purl.obolibrary.org/obo/CL_1000891` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [kidney arterial blood vessel cell](http://purl.obolibrary.org/obo/CL_1000891) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney blood vessel cell that is part of some kidney arterial blood vessel." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010418" -- [pharyngeal arch artery 2](http://purl.obolibrary.org/obo/UBERON_0003119) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The first and second arches disappear early, but the dorsal end of the second gives origin to the stapedial artery, a vessel which atrophies in humans but persists in some mammals. It passes through the ring of the stapes and divides into supraorbital, infraorbital, and mandibular branches which follow the three divisions of the trigeminal nerve. The infraorbital and mandibular arise from a common stem, the terminal part of which anastomoses with the external carotid. On the obliteration of the stapedial artery this anastomosis enlarges and forms the internal maxillary artery, and the branches of the stapedial artery are now branches of this vessel. The common stem of the infraorbital and mandibular branches passes between the two roots of the auriculotemporal nerve and becomes the middle meningeal artery; the original supraorbital branch of the stapedial is represented by the orbital twigs of the middle meningeal[WP][Wikipedia:Aortic_arches#Arches_1_and_2]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Aortic_arches#Arches_1_and_2" +### kidney blood vessel cell `http://purl.obolibrary.org/obo/CL_1000854` +#### Added +- [kidney blood vessel cell](http://purl.obolibrary.org/obo/CL_1000854) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### pharyngeal arch artery 3 `http://purl.obolibrary.org/obo/UBERON_0003120` -#### Removed -- [pharyngeal arch artery 3](http://purl.obolibrary.org/obo/UBERON_0003120) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The third in a series paired arterial connections between the dorsal and ventral aortae. Aortic arch 3 lies within the 3rd branchial arch and branches directly from the ventral aorta to the lateral dorsal aorta, and are retained as the branchial arteries providing circulation through the gills in the adult.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010419" +### kidney capillary endothelial cell `http://purl.obolibrary.org/obo/CL_1000892` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0-02-377110-0" +#### Added +- [kidney capillary endothelial cell](http://purl.obolibrary.org/obo/CL_1000892) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney blood vessel cell that is part of some kidney capillary." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### kidney cell `http://purl.obolibrary.org/obo/CL_1000497` -- [pharyngeal arch artery 3](http://purl.obolibrary.org/obo/UBERON_0003120) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The third aortic arch constitutes the commencement of the internal carotid artery, and is therefore named the carotid arch[WP][Wikipedia:Aortic_arches#Arch_3]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Aortic_arches#Arch_3" +#### Added +- [kidney cell](http://purl.obolibrary.org/obo/CL_1000497) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009389" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [pharyngeal arch artery 3](http://purl.obolibrary.org/obo/UBERON_0003120) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Aortic arches 3 and 4 are not remodeled but are retained largely intact as the branchial arteries providing circulation through the gills. These areches are direct branches from the ventral aorta to the lateral dorsal aorta. Isogai et al. 2001.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005007" +### kidney collecting duct intercalated cell `http://purl.obolibrary.org/obo/CL_1001432` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [kidney collecting duct intercalated cell](http://purl.obolibrary.org/obo/CL_1001432) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any renal intercalated cell that is part of some collecting duct of renal tubule." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### kidney collecting duct principal cell `http://purl.obolibrary.org/obo/CL_1001431` +#### Added +- [kidney collecting duct principal cell](http://purl.obolibrary.org/obo/CL_1001431) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any renal principal cell that is part of some collecting duct of renal tubule." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### pharyngeal arch artery 4 `http://purl.obolibrary.org/obo/UBERON_0003121` -#### Removed -- [pharyngeal arch artery 4](http://purl.obolibrary.org/obo/UBERON_0003121) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The fourth right arch forms the right subclavian as far as the origin of its internal mammary branch; while the fourth left arch constitutes the arch of the aorta between the origin of the left carotid artery and the termination of the ductus arteriosus[WP][Wikipedia:Aortic_arches#Arch_4]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Aortic_arches#Arch_4" -- [pharyngeal arch artery 4](http://purl.obolibrary.org/obo/UBERON_0003121) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Aortic arches 3 and 4 are not remodeled but are retained largely intact as the branchial arteries providing circulation through the gills. These areches are direct branches from the ventral aorta to the lateral dorsal aorta. Isogai et al. 2001.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +### kidney connecting tubule epithelial cell `http://purl.obolibrary.org/obo/CL_1000768` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005008" +#### Added +- [kidney connecting tubule epithelial cell](http://purl.obolibrary.org/obo/CL_1000768) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any nephron tubule epithelial cell that is part of some renal connecting tubule." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### kidney corpuscule cell `http://purl.obolibrary.org/obo/CL_1000612` -- [pharyngeal arch artery 4](http://purl.obolibrary.org/obo/UBERON_0003121) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The forth in a series paired arterial connections between the dorsal and ventral aortae, lies within the 4th branchial arch. The paired aortic arch 4 arteries branch directly from the ventral aorta to the lateral dorsal aorta, and are retained as the branchial arteries providing circulation through the gills in the adult.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010420" +#### Added +- [kidney corpuscule cell](http://purl.obolibrary.org/obo/CL_1000612) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any renal cortical epithelial cell that is part of some renal corpuscle." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0-02-377110-0" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### kidney cortex artery cell `http://purl.obolibrary.org/obo/CL_1001045` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [kidney cortex artery cell](http://purl.obolibrary.org/obo/CL_1001045) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney arterial blood vessel cell that is part of some renal cortex artery." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [pharyngeal arch artery 4](http://purl.obolibrary.org/obo/UBERON_0003121) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Normally, the left fourth arch becomes the aortic arch, the right fourth arch contributes to the innominate artery[http://emedicine.medscape.com/article/899609-overview] in birds it is the right fourth arch which forms the permanent aorta" +### kidney cortex collecting duct intercalated cell `http://purl.obolibrary.org/obo/CL_1000715` +#### Added +- [kidney cortex collecting duct intercalated cell](http://purl.obolibrary.org/obo/CL_1000715) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any renal intercalated cell that is part of some cortical collecting duct." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### pharyngeal arch artery 5 `http://purl.obolibrary.org/obo/UBERON_0003122` -#### Removed -- [pharyngeal arch artery 5](http://purl.obolibrary.org/obo/UBERON_0003122) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans the 5th arch disappears on both sides" -- [pharyngeal arch artery 5](http://purl.obolibrary.org/obo/UBERON_0003122) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The fifth and sixth arches, which come on-line at approximately 2.5 dpf, have a common trunk from the ventral aorta and drain to the midline dorsal aorta via an independent route. The fifth and sixth aortic arches supply the trunk and tail with oxigenated blood. Isogai et al. 2001.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +### kidney cortex collecting duct principal cell `http://purl.obolibrary.org/obo/CL_1000714` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005009" +#### Added +- [kidney cortex collecting duct principal cell](http://purl.obolibrary.org/obo/CL_1000714) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any renal principal cell that is part of some cortical collecting duct." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### kidney cortex peritubular capillary cell `http://purl.obolibrary.org/obo/CL_1001124` -- [pharyngeal arch artery 5](http://purl.obolibrary.org/obo/UBERON_0003122) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The fifth arch disappears on both sides[WP][Wikipedia:Aortic_arches#Arch_5]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Aortic_arches#Arch_5" +#### Added +- [kidney cortex peritubular capillary cell](http://purl.obolibrary.org/obo/CL_1001124) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any peritubular capillary endothelial cell that is part of some renal cortex peritubular capillary." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [pharyngeal arch artery 5](http://purl.obolibrary.org/obo/UBERON_0003122) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The fifth in a series paired arterial connections between the dorsal and ventral aortae. Aortic arch 5 artery is paired and has a common trunk with aortic arch 6 from the ventral aorta, and drains via a separate branch of the lateral dorsal aorta. Aortic arches 5 and 6 supply the trunk and tail with oxygenated blood.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010421" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0-02-377110-0" +### kidney cortex tubule cell `http://purl.obolibrary.org/obo/CL_1000615` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [kidney cortex tubule cell](http://purl.obolibrary.org/obo/CL_1000615) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney tubule cell that is part of some renal cortex tubule." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### kidney cortex vein cell `http://purl.obolibrary.org/obo/CL_1001052` +#### Added +- [kidney cortex vein cell](http://purl.obolibrary.org/obo/CL_1001052) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney venous blood vessel cell that is part of some renal cortex vein." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### pharyngeal arch artery 6 `http://purl.obolibrary.org/obo/UBERON_0003123` -#### Removed -- [pharyngeal arch artery 6](http://purl.obolibrary.org/obo/UBERON_0003123) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The sixth right arch disappears; the sixth left arch gives off the pulmonary arteries and forms the ductus arteriosus; this duct remains pervious during the whole of fetal life, but then closes within the first few days after birth due to increased O2 concentration. Oxygen concentration causes the production of bradykinin which causes the ductus to constrict occluding all flow. Within 1-3 months, the ductus is obliterated and becomes the ligamentum arteriosus. His showed that in the early embryo the right and left arches each gives a branch to the lungs, but that later both pulmonary arteries take origin from the left arch[WP][Wikipedia:Aortic_arches#Arch_6]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Aortic_arches#Arch_6" -- [pharyngeal arch artery 6](http://purl.obolibrary.org/obo/UBERON_0003123) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "the distal left sixth arch becomes the ductus arteriosus, the proximal sixth arches bilaterally contribute to the proximal branch pulmonary arteries" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://emedicine.medscape.com/article/899609-overview" +### kidney distal convoluted tubule epithelial cell `http://purl.obolibrary.org/obo/CL_1000849` -- [pharyngeal arch artery 6](http://purl.obolibrary.org/obo/UBERON_0003123) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The sixth in a series paired arterial connections between the dorsal and ventral aortae. Aortic arch 6 artery is paired and has a common trunk with aortic arch 5 from the ventral aorta, and drains via a separate branch of the lateral dorsal aorta. It forms part of the pulmonary arteries, and in the later embryo, the ductus arteriosis. Aortic arches 5 and 6 together supply the trunk and tail with oxygenated blood.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0-02-377110-0" +#### Added +- [kidney distal convoluted tubule epithelial cell](http://purl.obolibrary.org/obo/CL_1000849) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any epithelial cell of distal tubule that is part of some distal convoluted tubule." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### kidney efferent arteriole cell `http://purl.obolibrary.org/obo/CL_1001009` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010422" +#### Added +- [kidney efferent arteriole cell](http://purl.obolibrary.org/obo/CL_1001009) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney arterial blood vessel cell that is part of some renal efferent arteriole." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [pharyngeal arch artery 6](http://purl.obolibrary.org/obo/UBERON_0003123) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The fifth and sixth arches, which come on-line at approximately 2.5 dpf, have a common trunk from the ventral aorta and drain to the midline dorsal aorta via an independent route. The fifth and sixth aortic arches supply the trunk and tail with oxigenated blood. Isogai et al. 2001.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005016" +### kidney efferent arteriole endothelial cell `http://purl.obolibrary.org/obo/CL_1001099` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [kidney efferent arteriole endothelial cell](http://purl.obolibrary.org/obo/CL_1001099) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any endothelial cell that is part of some renal efferent arteriole." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### kidney efferent arteriole smooth muscle cell `http://purl.obolibrary.org/obo/CL_1001100` +#### Added +- [kidney efferent arteriole smooth muscle cell](http://purl.obolibrary.org/obo/CL_1001100) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any smooth muscle cell that is part of some renal efferent arteriole." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### pharyngeal arch cartilage `http://purl.obolibrary.org/obo/UBERON_0011004` -#### Removed -- [pharyngeal arch cartilage](http://purl.obolibrary.org/obo/UBERON_0011004) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0006051" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +### kidney epithelial cell `http://purl.obolibrary.org/obo/CL_0002518` - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) +#### Added +- [kidney epithelial cell](http://purl.obolibrary.org/obo/CL_0002518) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009374" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +### kidney glomerular epithelial cell `http://purl.obolibrary.org/obo/CL_1000510` -### pharyngeal cleft `http://purl.obolibrary.org/obo/UBERON_0005879` -#### Removed -- [pharyngeal cleft](http://purl.obolibrary.org/obo/UBERON_0005879) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "EMAPA distinguishes between the groove ectoderm and epithelium, with the latter arising after the former" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EMAPA" +#### Added +- [kidney glomerular epithelial cell](http://purl.obolibrary.org/obo/CL_1000510) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney epithelial cell that is part of some glomerular epithelium." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" +### kidney granular cell `http://purl.obolibrary.org/obo/CL_0000648` -### pharyngeal epithelium `http://purl.obolibrary.org/obo/UBERON_0003351` -#### Removed -- [pharyngeal epithelium](http://purl.obolibrary.org/obo/UBERON_0003351) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Epithelium lining the pharynx consisting largely of simple columnar epithelium with a short segment (1mm) of stratified squamous epithelium on the ventral side. Chen et al, 2007.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +#### Added +- [kidney granular cell](http://purl.obolibrary.org/obo/CL_0000648) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005238" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001174" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### kidney inner medulla cell `http://purl.obolibrary.org/obo/CL_1000617` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [kidney inner medulla cell](http://purl.obolibrary.org/obo/CL_1000617) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney medulla cell that is part of some inner medulla of kidney." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" +### kidney inner medulla collecting duct intercalated cell `http://purl.obolibrary.org/obo/CL_1000719` -### pharyngeal membrane `http://purl.obolibrary.org/obo/UBERON_0009210` -#### Removed -- [pharyngeal membrane](http://purl.obolibrary.org/obo/UBERON_0009210) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In all vertebrates, the endodermal epithelium lining each pouch contacts the surface ectoderm of the clefts to form a series of bilayered branchial membranes, that break down in fish to form the gill openings.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0124020603 Kaufman MH, Bard JBL, The anatomical basis of mouse development (1999) p.72" +#### Added +- [kidney inner medulla collecting duct intercalated cell](http://purl.obolibrary.org/obo/CL_1000719) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any renal intercalated cell that is part of some inner medullary collecting duct." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### kidney inner medulla collecting duct principal cell `http://purl.obolibrary.org/obo/CL_1000718` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [kidney inner medulla collecting duct principal cell](http://purl.obolibrary.org/obo/CL_1000718) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any renal principal cell that is part of some inner medullary collecting duct." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001427" +### kidney interstitial cell `http://purl.obolibrary.org/obo/CL_1000500` +#### Added +- [kidney interstitial cell](http://purl.obolibrary.org/obo/CL_1000500) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009390" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### pharyngeal pouch `http://purl.obolibrary.org/obo/UBERON_0004117` -#### Removed -- [pharyngeal pouch](http://purl.obolibrary.org/obo/UBERON_0004117) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Outpocketings of pharyngeal endoderm that interdigitate with the neural crest derived pharyngeal arches. The pouches later fuse with the surface ectoderm to form the gill slits. Crump et al, 2004.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### kidney interstitium `http://purl.obolibrary.org/obo/UBERON_0005215` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [kidney interstitium](http://purl.obolibrary.org/obo/UBERON_0005215) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001106" -- [pharyngeal pouch](http://purl.obolibrary.org/obo/UBERON_0004117) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "EMAPA also includes a distinct pouch endoderm" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EMAPA" +### kidney loop of Henle ascending limb epithelial cell `http://purl.obolibrary.org/obo/CL_1001016` -- [pharyngeal pouch](http://purl.obolibrary.org/obo/UBERON_0004117) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001203" +#### Added +- [kidney loop of Henle ascending limb epithelial cell](http://purl.obolibrary.org/obo/CL_1001016) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney loop of Henle epithelial cell that is part of some ascending limb of loop of Henle." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### kidney loop of Henle descending limb epithelial cell `http://purl.obolibrary.org/obo/CL_1001021` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [kidney loop of Henle descending limb epithelial cell](http://purl.obolibrary.org/obo/CL_1001021) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney loop of Henle epithelial cell that is part of some descending limb of loop of Henle." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M, Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)" +### kidney loop of Henle epithelial cell `http://purl.obolibrary.org/obo/CL_1000909` +#### Added +- [kidney loop of Henle epithelial cell](http://purl.obolibrary.org/obo/CL_1000909) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any nephron tubule epithelial cell that is part of some loop of Henle." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### pharyngeal pouch 1 `http://purl.obolibrary.org/obo/UBERON_0007122` -#### Removed -- [pharyngeal pouch 1](http://purl.obolibrary.org/obo/UBERON_0007122) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The endoderm lines the future auditory tube (Pharyngotympanic Eustachian tube) , middle ear, mastoid antrum, and inner layer of the tympanic membrane. & origin of Mandibular nerve & Maxillary artery" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" -- [pharyngeal pouch 1](http://purl.obolibrary.org/obo/UBERON_0007122) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In all jawed vertebrates the first arch forms the jaw, while the second arch forms the hyoid apparatus. These two arches are separated by the first pharyngeal pouch and cleft.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### kidney medulla cell `http://purl.obolibrary.org/obo/CL_1000504` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [kidney medulla cell](http://purl.obolibrary.org/obo/CL_1000504) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009391" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000970" +### kidney nerve cell `http://purl.obolibrary.org/obo/CL_1000606` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/j.semcdb.2010.01.022 Grevellec A, Tucker AS, The pharyngeal pouches and clefts: development, evolution, structure and derivatives. Seminars in Cell and Developmental Biology (2010)" +#### Added +- [kidney nerve cell](http://purl.obolibrary.org/obo/CL_1000606) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any neuron that has its soma located in some kidney." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [pharyngeal pouch 1](http://purl.obolibrary.org/obo/UBERON_0007122) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) ". [][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [kidney nerve cell](http://purl.obolibrary.org/obo/CL_1000606) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### kidney outer medulla cell `http://purl.obolibrary.org/obo/CL_1000616` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000970" +#### Added +- [kidney outer medulla cell](http://purl.obolibrary.org/obo/CL_1000616) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney medulla cell that is part of some outer medulla of kidney." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [pharyngeal pouch 1](http://purl.obolibrary.org/obo/UBERON_0007122) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we use adjacency relations rather than part_of, as in EHDAA2." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" +### kidney outer medulla peritubular capillary cell `http://purl.obolibrary.org/obo/CL_1001123` +#### Added +- [kidney outer medulla peritubular capillary cell](http://purl.obolibrary.org/obo/CL_1001123) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any peritubular capillary endothelial cell that is part of some outer renal medulla peritubular capillary." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### pharyngeal pouch 2 `http://purl.obolibrary.org/obo/UBERON_0007123` -#### Removed -- [pharyngeal pouch 2](http://purl.obolibrary.org/obo/UBERON_0007123) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A pouch that is situated between the 2nd and 3rd pharyngeal arch. [ISBN:0124020607][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### kidney papillary duct intercalated cell `http://purl.obolibrary.org/obo/CL_1000720` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [kidney papillary duct intercalated cell](http://purl.obolibrary.org/obo/CL_1000720) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any renal intercalated cell that is part of some papillary duct." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000967" -- [pharyngeal pouch 2](http://purl.obolibrary.org/obo/UBERON_0007123) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Second of the pharyngeal (endodermal) evaginations between the visceral arches from which the Eustachian tube is derived; pouches 2-4 open as gill slits.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0011115" +### kidney papillary duct principal cell `http://purl.obolibrary.org/obo/CL_1000721` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0-226-55763-4" +#### Added +- [kidney papillary duct principal cell](http://purl.obolibrary.org/obo/CL_1000721) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any renal principal cell that is part of some papillary duct." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### kidney papillary duct principal epithelial cell `http://purl.obolibrary.org/obo/CL_1000550` -- [pharyngeal pouch 2](http://purl.obolibrary.org/obo/UBERON_0007123) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Contributes to the middle ear, epithelial lining of Crypts (spaces) of the palatine tonsils, supplied by the facial nerve" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" +#### Added +- [kidney papillary duct principal epithelial cell](http://purl.obolibrary.org/obo/CL_1000550) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney cell that is part of some papillary duct." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [pharyngeal pouch 2](http://purl.obolibrary.org/obo/UBERON_0007123) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:16276" -- [pharyngeal pouch 2](http://purl.obolibrary.org/obo/UBERON_0007123) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### kidney pelvis smooth muscle cell `http://purl.obolibrary.org/obo/CL_1000702` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [kidney pelvis smooth muscle cell](http://purl.obolibrary.org/obo/CL_1000702) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any smooth muscle cell that is part of some kidney pelvis smooth muscle." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M and Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### kidney pelvis urothelial cell `http://purl.obolibrary.org/obo/CL_1000703` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000967" +#### Added +- [kidney pelvis urothelial cell](http://purl.obolibrary.org/obo/CL_1000703) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney epithelial cell that is part of some kidney pelvis urothelium." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [pharyngeal pouch 2](http://purl.obolibrary.org/obo/UBERON_0007123) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "the dorsal elongation of the second pouch endoderm of all mammals, with the exception of rodents, gives rise to the epithelial lining of palatine tonsils; in rodents, the ventral portion of the second pouch appears to degenerate whereas the remaining part is incorporated into the lateral border of the pharynx; it appears that rodents no longer require tonsils as their function is carried out by the NALT (Nose/Nasal-Associated Lymphoid Tissue) system in the upper respiratory tract." +### kidney proximal convoluted tubule epithelial cell `http://purl.obolibrary.org/obo/CL_1000838` +#### Added +- [kidney proximal convoluted tubule epithelial cell](http://purl.obolibrary.org/obo/CL_1000838) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any epithelial cell of proximal tubule that is part of some proximal convoluted tubule." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### pharyngeal pouch 3 `http://purl.obolibrary.org/obo/UBERON_0007124` -#### Removed -- [pharyngeal pouch 3](http://purl.obolibrary.org/obo/UBERON_0007124) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### kidney proximal straight tubule epithelial cell `http://purl.obolibrary.org/obo/CL_1000839` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M and Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)" +#### Added +- [kidney proximal straight tubule epithelial cell](http://purl.obolibrary.org/obo/CL_1000839) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any epithelial cell of proximal tubule that is part of some proximal straight tubule." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000966" +### kidney rudiment `http://purl.obolibrary.org/obo/UBERON_0005095` -- [pharyngeal pouch 3](http://purl.obolibrary.org/obo/UBERON_0007124) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The third pouch possesses Dorsal and Ventral wings. Derivatives of the dorsal wings include the inferior parathyroid glands, while the ventral wings fuse to form the cytoreticular cells of the thymus. The main nerve supply to the derivatives of this pouch is Cranial Nerve IX, glossopharyngeal nerve" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" +#### Added +- [kidney rudiment](http://purl.obolibrary.org/obo/UBERON_0005095) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [pharyngeal pouch 3](http://purl.obolibrary.org/obo/UBERON_0007124) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A pouch that is situated between the 3rd and 4th pharyngeal arch. [ISBN:0124020607][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### kidney rudiment formation `http://purl.obolibrary.org/obo/GO_0072003` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [kidney rudiment formation](http://purl.obolibrary.org/obo/GO_0072003) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000966" -- [pharyngeal pouch 3](http://purl.obolibrary.org/obo/UBERON_0007124) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Third of the pharyngeal (endodermal) evaginations between the visceral arches from which the Eustachian tube is derived; pouches 2-4 open as gill slits.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0011116" +### kidney vasculature morphogenesis `http://purl.obolibrary.org/obo/GO_0061439` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0-226-55763-4" +#### Added +- [kidney vasculature morphogenesis](http://purl.obolibrary.org/obo/GO_0061439) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### kidney venous blood vessel cell `http://purl.obolibrary.org/obo/CL_1000893` +#### Added +- [kidney venous blood vessel cell](http://purl.obolibrary.org/obo/CL_1000893) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any kidney blood vessel cell that is part of some renal vein." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### pharyngeal pouch 4 `http://purl.obolibrary.org/obo/UBERON_0007125` +### kinase activity `http://purl.obolibrary.org/obo/GO_0016301` #### Removed -- [pharyngeal pouch 4](http://purl.obolibrary.org/obo/UBERON_0007125) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A pouch that is situated between the 4th and 5th pharyngeal arch. [ISBN:0124020607][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [kinase activity](http://purl.obolibrary.org/obo/GO_0016301) SubClassOf [is kinase activity](http://purl.obolibrary.org/obo/RO_0002481) Self + +#### Added +- [kinase activity](http://purl.obolibrary.org/obo/GO_0016301) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### kisspeptin neuron `http://purl.obolibrary.org/obo/CL_4023130` + +#### Added +- [kisspeptin neuron](http://purl.obolibrary.org/obo/CL_4023130) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000971" -- [pharyngeal pouch 4](http://purl.obolibrary.org/obo/UBERON_0007125) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### knee joint `http://purl.obolibrary.org/obo/UBERON_0001485` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [knee joint](http://purl.obolibrary.org/obo/UBERON_0001485) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M and Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### labyrinthine layer formation `http://purl.obolibrary.org/obo/GO_0060714` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000971" +#### Added +- [labyrinthine layer formation](http://purl.obolibrary.org/obo/GO_0060714) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [pharyngeal pouch 4](http://purl.obolibrary.org/obo/UBERON_0007125) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Fourth of the pharyngeal (endodermal) evaginations between the visceral arches from which the Eustachian tube is derived; pouches 2-4 open as gill slits.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0011117" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0-226-55763-4" +### labyrinthine layer morphogenesis `http://purl.obolibrary.org/obo/GO_0060713` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [labyrinthine layer morphogenesis](http://purl.obolibrary.org/obo/GO_0060713) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" -- [pharyngeal pouch 4](http://purl.obolibrary.org/obo/UBERON_0007125) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Derivatives include: superior parathyroid glands and ultimobranchial body which forms the parafollicular C-Cells of the thyroid gland. Musculature and cartilage of larynx (along with the sixth pharyngeal pouch)[WP] in most mammals, excluding rodents, the dorsal part of each fourth pouch develops into a superior parathyroid gland (parathyroid IV), which lies on the dorsal surface of the thyroid gland (the parathyroid glands derived from the third pouches descend with the thymus and are carried to a more inferior position than the parathyroid glands that are derived from the fourth pouches); the elongated ventral part of each fourth pouch develops into the ultimopharyngeal body, which fuses with the thyroid gland, giving rise to the calcitonin-producing parafollicular or C-cells of the thyroid gland. In the mouse, but also in the rat and hamster, the dorsal fourth pouch does not generate a parathyroid. Thus, rodents develop only one pair of parathyroid glands." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP" +### lactoferrin receptor activity `http://purl.obolibrary.org/obo/GO_0033568` +#### Added +- [lactoferrin receptor activity](http://purl.obolibrary.org/obo/GO_0033568) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### pharyngula stage `http://purl.obolibrary.org/obo/UBERON_0004707` +### lamellocyte `http://purl.obolibrary.org/obo/CL_0000396` #### Removed -- [pharyngula stage](http://purl.obolibrary.org/obo/UBERON_0004707) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Corresponds to E7-E11 in Mouse (Galis et al, TREE, 2001)" +- [lamellocyte](http://purl.obolibrary.org/obo/CL_0000396) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001687" +#### Added +- [lamellocyte](http://purl.obolibrary.org/obo/CL_0000396) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001687" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### pharynx `http://purl.obolibrary.org/obo/UBERON_0006562` +### lamp5 GABAergic cortical interneuron `http://purl.obolibrary.org/obo/CL_4023011` #### Removed -- [pharynx](http://purl.obolibrary.org/obo/UBERON_0006562) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "currently this is an extremely generic class, encompassing both protostomes and deuterostomes." - -- [pharynx](http://purl.obolibrary.org/obo/UBERON_0006562) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "pharyngeal" +- [lamp5 GABAergic cortical interneuron](http://purl.obolibrary.org/obo/CL_4023011) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A GABAergic neuron located in the cerebral cortex that expresses Lamp5" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:30382198" -- [pharynx](http://purl.obolibrary.org/obo/UBERON_0006562) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "branchial" +#### Added +- [lamp5 GABAergic cortical interneuron](http://purl.obolibrary.org/obo/CL_4023011) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A GABAergic neuron located in the cerebral cortex that expresses Lamp5" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" -- [pharynx](http://purl.obolibrary.org/obo/UBERON_0006562) [IAO_0006012](http://purl.obolibrary.org/obo/IAO_0006012) "2023-04-20" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:30382198" +- [lamp5 GABAergic cortical interneuron](http://purl.obolibrary.org/obo/CL_4023011) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### phosphorylates `http://purl.obolibrary.org/obo/RO_0002447` -#### Removed -- [phosphorylates](http://purl.obolibrary.org/obo/RO_0002447) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "An interaction relation between x and y in which x catalyzes a reaction in which a phosphate group is added to y." +### larva `http://purl.obolibrary.org/obo/UBERON_0002548` -- [phosphorylates](http://purl.obolibrary.org/obo/RO_0002447) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +#### Added +- [larva](http://purl.obolibrary.org/obo/UBERON_0002548) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001727" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### late embryo `http://purl.obolibrary.org/obo/UBERON_0000323` -### photoreceptor array `http://purl.obolibrary.org/obo/UBERON_0005388` -#### Removed -- [photoreceptor array](http://purl.obolibrary.org/obo/UBERON_0005388) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004200" +#### Added +- [late embryo](http://purl.obolibrary.org/obo/UBERON_0000323) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005333" - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### lateral ganglionic eminence derived neuron `http://purl.obolibrary.org/obo/CL_4023035` + +#### Added +- [lateral ganglionic eminence derived neuron](http://purl.obolibrary.org/obo/CL_4023035) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### photoreceptor layer of retina `http://purl.obolibrary.org/obo/UBERON_0001787` -#### Removed -- [photoreceptor layer of retina](http://purl.obolibrary.org/obo/UBERON_0001787) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### lateral line nerve glial cell `http://purl.obolibrary.org/obo/CL_1000050` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [lateral line nerve glial cell](http://purl.obolibrary.org/obo/CL_1000050) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any glial cell that is part of some lateral line nerve." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001165" +### lateral line system `http://purl.obolibrary.org/obo/UBERON_0002540` -- [photoreceptor layer of retina](http://purl.obolibrary.org/obo/UBERON_0001787) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we follow MA and ZFA in subdividing this into inner and outer segments" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +#### Added +- [lateral line system](http://purl.obolibrary.org/obo/UBERON_0002540) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +### lateral lingual swelling `http://purl.obolibrary.org/obo/UBERON_0006757` -### phrenic artery `http://purl.obolibrary.org/obo/UBERON_0002057` -#### Removed -- [phrenic artery](http://purl.obolibrary.org/obo/UBERON_0002057) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans this includes the superior and inferior phrenic arteries" +#### Added +- [lateral lingual swelling](http://purl.obolibrary.org/obo/UBERON_0006757) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +### lateral nasal prominence `http://purl.obolibrary.org/obo/UBERON_0004067` -### phrenic nerve `http://purl.obolibrary.org/obo/UBERON_0001884` -#### Removed -- [phrenic nerve](http://purl.obolibrary.org/obo/UBERON_0001884) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A nerve that arises from the caudal cervical nerves and is primarily the motor nerve of the diaphragm but also sends sensory fibers to the pericardium. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [lateral nasal prominence](http://purl.obolibrary.org/obo/UBERON_0004067) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### layer of muscle tissue `http://purl.obolibrary.org/obo/UBERON_0018260` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000728" +#### Added +- [layer of muscle tissue](http://purl.obolibrary.org/obo/UBERON_0018260) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/phrenic+nerve" +### lens fiber cell `http://purl.obolibrary.org/obo/CL_0011004` +#### Added +- [lens fiber cell](http://purl.obolibrary.org/obo/CL_0011004) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009401" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### pia mater `http://purl.obolibrary.org/obo/UBERON_0002361` -#### Removed -- [pia mater](http://purl.obolibrary.org/obo/UBERON_0002361) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "delicate innermost layer of the meninges-the membranes surrounding the brain and spinal cord. The thin, mesh-like pia mater closely envelops the entire surface of the brain, running down into the fissures of the cortex. It joins with the ependyma which lines the ventricles to form choroid plexuses that produce cerebrospinal fluid. In the spinal cord, the pia mater attaches to the dura mater by the denticular ligaments through the arachnoid membrane. The pia mater is a neural crest derivative[Wikipedia:Pia_mater]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Pia_mater" -- [pia mater](http://purl.obolibrary.org/obo/UBERON_0002361) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EV:0100315" +### lens morphogenesis in camera-type eye `http://purl.obolibrary.org/obo/GO_0002089` + +#### Added +- [lens morphogenesis in camera-type eye](http://purl.obolibrary.org/obo/GO_0002089) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [pia mater](http://purl.obolibrary.org/obo/UBERON_0002361) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Mammalia](http://purl.obolibrary.org/obo/NCBITaxon_40674) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0073040584" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "check-aves" +### leptomeningeal cell `http://purl.obolibrary.org/obo/CL_0000708` #### Added -- [pia mater](http://purl.obolibrary.org/obo/UBERON_0002361) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Mammalia](http://purl.obolibrary.org/obo/NCBITaxon_40674) +- [leptomeningeal cell](http://purl.obolibrary.org/obo/CL_0000708) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009305" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### pigmented layer of retina `http://purl.obolibrary.org/obo/UBERON_0001782` -#### Removed -- [pigmented layer of retina](http://purl.obolibrary.org/obo/UBERON_0001782) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429" +### leucoblast `http://purl.obolibrary.org/obo/CL_0005003` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [leucoblast](http://purl.obolibrary.org/obo/CL_0005003) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005329" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### leucophore `http://purl.obolibrary.org/obo/CL_0000571` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000536" +#### Added +- [leucophore](http://purl.obolibrary.org/obo/CL_0000571) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009261" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [pigmented layer of retina](http://purl.obolibrary.org/obo/UBERON_0001782) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A monolayer of pigmented epithelium covering the neural retina; develops from the outer of the two layers of the optic cup. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [leucophore](http://purl.obolibrary.org/obo/CL_0000571) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000144" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### leukocyte `http://purl.obolibrary.org/obo/CL_0000738` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [leukocyte](http://purl.obolibrary.org/obo/CL_0000738) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009309" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [pigmented layer of retina](http://purl.obolibrary.org/obo/UBERON_0001782) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The monolayer of pigmented epithelium covering the neural retina.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [leukocyte](http://purl.obolibrary.org/obo/CL_0000738) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA:0000144" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### leukocyte activation `http://purl.obolibrary.org/obo/GO_0045321` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0011096" +#### Added +- [leukocyte activation](http://purl.obolibrary.org/obo/GO_0045321) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [pigmented layer of retina](http://purl.obolibrary.org/obo/UBERON_0001782) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) +### leukocyte cell-cell adhesion `http://purl.obolibrary.org/obo/GO_0007159` +#### Added +- [leukocyte cell-cell adhesion](http://purl.obolibrary.org/obo/GO_0007159) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### pineal body `http://purl.obolibrary.org/obo/UBERON_0001905` -#### Removed -- [pineal body](http://purl.obolibrary.org/obo/UBERON_0001905) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "epiphysial" -- [pineal body](http://purl.obolibrary.org/obo/UBERON_0001905) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0001942](http://purl.obolibrary.org/obo/UBERON_0001942) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +### leukocyte homeostasis `http://purl.obolibrary.org/obo/GO_0001776` -- [pineal body](http://purl.obolibrary.org/obo/UBERON_0001905) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The pineal gland has evolved from a part of the epiphyseal complex of anamniotes, which includes a median light-receptive pineal eye, parietal eye, or both.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [leukocyte homeostasis](http://purl.obolibrary.org/obo/GO_0001776) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### leukocyte migration `http://purl.obolibrary.org/obo/GO_0050900` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000051" +#### Added +- [leukocyte migration](http://purl.obolibrary.org/obo/GO_0050900) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.516" -- [pineal body](http://purl.obolibrary.org/obo/UBERON_0001905) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A circumscribed swelling, includes the pineal primordium that appears late in the segmentation period in the dorsal midline of the diencephalon. Kimmel et al, 1995.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000019" +### leukocyte proliferation `http://purl.obolibrary.org/obo/GO_0070661` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +#### Added +- [leukocyte proliferation](http://purl.obolibrary.org/obo/GO_0070661) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### ligament cell `http://purl.obolibrary.org/obo/CL_0000384` -- [pineal body](http://purl.obolibrary.org/obo/UBERON_0001905) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "epiphyseal" +#### Added +- [ligament cell](http://purl.obolibrary.org/obo/CL_0000384) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009188" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [pineal body](http://purl.obolibrary.org/obo/UBERON_0001905) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "lobulated in humans, homogeneous in mouse. Calcifies with age in humans." -- [pineal body](http://purl.obolibrary.org/obo/UBERON_0001905) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical structure which is a medial outgrowth of the thalamus on the dorsal surface of the brain. This structure is light sensitive and secretes melatonin when exposed to prolonged darkness.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### limb bud formation `http://purl.obolibrary.org/obo/GO_0060174` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [limb bud formation](http://purl.obolibrary.org/obo/GO_0060174) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010549" +### limb connective tissue `http://purl.obolibrary.org/obo/UBERON_0003587` -- [pineal body](http://purl.obolibrary.org/obo/UBERON_0001905) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of pineal complex (TAO:0001359)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000019" +#### Added +- [limb connective tissue](http://purl.obolibrary.org/obo/UBERON_0003587) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### limb joint morphogenesis `http://purl.obolibrary.org/obo/GO_0036022` -- [pineal body](http://purl.obolibrary.org/obo/UBERON_0001905) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0001941](http://purl.obolibrary.org/obo/UBERON_0001941) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +#### Added +- [limb joint morphogenesis](http://purl.obolibrary.org/obo/GO_0036022) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### limb segment `http://purl.obolibrary.org/obo/UBERON_0002529` -### pineal complex `http://purl.obolibrary.org/obo/UBERON_0015238` -#### Removed -- [pineal complex](http://purl.obolibrary.org/obo/UBERON_0015238) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [Mammalia](http://purl.obolibrary.org/obo/NCBITaxon_40674) +#### Added +- [limb segment](http://purl.obolibrary.org/obo/UBERON_0002529) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +### lingual swellings `http://purl.obolibrary.org/obo/UBERON_0006260` -### pinna `http://purl.obolibrary.org/obo/UBERON_0001757` -#### Removed -- [pinna](http://purl.obolibrary.org/obo/UBERON_0001757) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Mammals have a third type of tympanic ear. An external flap, the auricle or pinna, helps funnel sound waves down the external acoustic meatus to the tympanic membrane.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000460" +#### Added +- [lingual swellings](http://purl.obolibrary.org/obo/UBERON_0006260) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### lining cell `http://purl.obolibrary.org/obo/CL_0000213` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [lining cell](http://purl.obolibrary.org/obo/CL_0000213) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009130" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.420" -- [pinna](http://purl.obolibrary.org/obo/UBERON_0001757) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The external expanded part of the ear characterized by a funnel-shaped structure through which the sound vibrations are received. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000460" +### lipid binding `http://purl.obolibrary.org/obo/GO_0008289` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [lipid binding](http://purl.obolibrary.org/obo/GO_0008289) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [lipid binding](http://purl.obolibrary.org/obo/GO_0008289) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [lipid binding](http://purl.obolibrary.org/obo/GO_0008289) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) -- [pinna](http://purl.obolibrary.org/obo/UBERON_0001757) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "The purpose of the pinna is to collect sound. It does so by acting as a funnel, amplifying the sound and directing it to the ear canal. While reflecting from the pinna, sound also goes through a filtering process which adds directional information to the sound (see sound localization, head-related transfer function, pinna notch)." +- [lipid binding](http://purl.obolibrary.org/obo/GO_0008289) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [pinna](http://purl.obolibrary.org/obo/UBERON_0001757) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In various species, the pinna can also signal mood and radiate heat" +### lipid localization `http://purl.obolibrary.org/obo/GO_0010876` +#### Added +- [lipid localization](http://purl.obolibrary.org/obo/GO_0010876) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### piriform cortex `http://purl.obolibrary.org/obo/UBERON_0004725` -#### Removed -- [piriform cortex](http://purl.obolibrary.org/obo/UBERON_0004725) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Piriform cortical regions are present in the brains of amphibians, reptiles and mammals. The piriform cortex is among three areas that emerge in the telencephalon of amphibians, situated caudally to a dorsal area, which is caudal to a hippocampal area. Farther along the phylogenic timeline, the telencephalic bulb of reptiles as viewed in a cross section of the transverse plane extends with the archipallial hippocampus folding toward the midline and down as the dorsal area begins to form a recognizable cortex. As mammalian cerebrums developed, volume of the dorsal cortex increased in slightly greater proportion, as compared proportionally with increased overall brain volume, until it enveloped the hippocampal regions. Recognized as neopallium or neocortex, enlarged dorsal areas envelop the paleopallial piriform cortex in humans and Old World monkeys. Among taxonomic groupings of mammals, the piriform cortex and the olfactory bulb become proportionally smaller in the brains of phylogenically younger species. The piriform cortex occupies a greater proportion of the overall brain and of the telencephalic brains of insectivores than in primates. The piriform cortex continues to occupy a consistent albeit small and declining proportion of the increasingly large telencephalon in the most recent primate species while the volume of the olfactory bulb becomes less in proportion" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" +### lipid metabolic process `http://purl.obolibrary.org/obo/GO_0006629` +#### Added +- [lipid metabolic process](http://purl.obolibrary.org/obo/GO_0006629) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -### pituitary gland `http://purl.obolibrary.org/obo/UBERON_0000007` -#### Removed -- [pituitary gland](http://purl.obolibrary.org/obo/UBERON_0000007) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An endocrine gland located ventral to the diencephalon and derived from mixed neuroectodermal and non neuroectodermal origin.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [lipid metabolic process](http://purl.obolibrary.org/obo/GO_0006629) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000118" +- [lipid metabolic process](http://purl.obolibrary.org/obo/GO_0006629) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### lipid transmembrane transporter activity `http://purl.obolibrary.org/obo/GO_0170055` -- [pituitary gland](http://purl.obolibrary.org/obo/UBERON_0000007) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "It (the hypophysis) develops embryonically in all vertebrates from two ectodermal evaginations that meet and unite. (...) A well-developed hypophyseal system with functional connections to the hypothalamus is unique to craniates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [lipid transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0170055) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0170055" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [lipid transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0170055) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "ew" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [lipid transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0170055) [label](http://www.w3.org/2000/01/rdf-schema#label) "lipid transmembrane transporter activity" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000143" +- [lipid transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0170055) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27252"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.510" +- [lipid transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0170055) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2024-03-15T18:47:58Z" -- [pituitary gland](http://purl.obolibrary.org/obo/UBERON_0000007) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The lamprey possesses a distinct pituitary organ and hormones, the ascidian does not show distinct evidence of them [Sower S, Freamat M, Kavanaugh S. The origins of the vertebrate hypothalamic-pituitary-gonadal (HPG) and hypothalamic-pituitary-thyroid (HPT) endocrine systems: new insights from lampreys. Gen Comp Endocrinol 2009;161:20-9]" +- [lipid transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0170055) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "molecular_function" -- [pituitary gland](http://purl.obolibrary.org/obo/UBERON_0000007) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An endocrine gland derived from infundibulum of the floor of the diencephalon and an ectodermal dorsal protrusion from the buccal cavity which controls the secretion of many hormones influencing the function of various organs of the body.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [lipid transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0170055) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Enables the transfer of a lipid from one side of a membrane to the other." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:curators" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [lipid transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0170055) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +- Class: [lipid transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0170055) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010536" +- [lipid transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0170055) EquivalentTo [transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0022857) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_18059](http://purl.obolibrary.org/obo/CHEBI_18059)) -- [pituitary gland](http://purl.obolibrary.org/obo/UBERON_0000007) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [lipid transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0170055) SubClassOf [lipid transporter activity](http://purl.obolibrary.org/obo/GO_0005319) -#### Added -- [pituitary gland](http://purl.obolibrary.org/obo/UBERON_0000007) SubClassOf [structure with developmental contribution from neural crest](http://purl.obolibrary.org/obo/UBERON_0010314) +- [lipid transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0170055) SubClassOf [transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0022857) -### placeholder removed `http://purl.obolibrary.org/obo/IAO_0000226` -#### Removed -- [placeholder removed](http://purl.obolibrary.org/obo/IAO_0000226) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "placeholder removed"@en +### lipid transport `http://purl.obolibrary.org/obo/GO_0006869` +#### Added +- [lipid transport](http://purl.obolibrary.org/obo/GO_0006869) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### placenta `http://purl.obolibrary.org/obo/UBERON_0001987` -#### Removed -- [placenta](http://purl.obolibrary.org/obo/UBERON_0001987) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Eutherians: In eutherians, the chorioallantoic membrane of the fetus establishes intimate contact with the adjacent vascular wall of the mother's uterus to produce the placenta, a composite structure formed in part from tissues of the fetus and in part from tissues of the mother [ISBN:0073040584 (Vertebrates, Kardong)]. TODO - is taxon restriction too strict, even if we restrict def to allantoic placenta? - WP says: also found in some snakes and lizards with varying levels of development up to mammalian levels. Pough et al. 1992. Herpetology: Third Edition. Pearson Prentice Hall:Pearson Education, Inc., 2002. // See also: DOI:10.1002/jmor.11011" +### lipid transporter activity `http://purl.obolibrary.org/obo/GO_0005319` -- [placenta](http://purl.obolibrary.org/obo/UBERON_0001987) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Phylogenetic analyses of the concatenated data set using maximum parsimony, maximum likelihood and distance based (neighbour joining) methods all converged on a nearly identical, well supported topology defining four principal eutherian lineages. The results affirm monophyly of traditional placental orders (except Artiodactyla and Insectivora), and also support some previously proposed, as well as new, superordinal clades.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [lipid transporter activity](http://purl.obolibrary.org/obo/GO_0005319) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### lipoprotein localization `http://purl.obolibrary.org/obo/GO_0044872` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1038/35054550 Murphy WJ, Eizirik E, Johnson WE, Zhang YP, Ryder OA, O'Brien SJ, Molecular phylogenetics and the origins of placental mammals. Nature (2001)" +#### Added +- [lipoprotein localization](http://purl.obolibrary.org/obo/GO_0044872) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001266" -- [placenta](http://purl.obolibrary.org/obo/UBERON_0001987) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "placental" +### lipoprotein metabolic process `http://purl.obolibrary.org/obo/GO_0042157` #### Added -- [placenta](http://purl.obolibrary.org/obo/UBERON_0001987) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [lipoprotein metabolic process](http://purl.obolibrary.org/obo/GO_0042157) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### placenta labyrinth `http://purl.obolibrary.org/obo/UBERON_0003946` -#### Removed -- [placenta labyrinth](http://purl.obolibrary.org/obo/UBERON_0003946) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Mouse-human differences: The mouse and human placentas have labyrinthine and villous types of interdigitation between maternal and fetal tissues, respectively ... The mouse placental labyrinth is composed of an intricate network of maternal blood spaces and embryonal blood vessels. Maternal and embryonal blood is separated by a placental barrier that consists of four cellular layers: layer I trophoblasts line the maternal lacunae, trophoblasts in layers II and III form syncytial-like layers, and endothelial cells line the embryonic vessels[DOI: 10.1073/pnas.96.14.8138 ]" +### lipoprotein particle receptor activity `http://purl.obolibrary.org/obo/GO_0030228` #### Added -- [placenta labyrinth](http://purl.obolibrary.org/obo/UBERON_0003946) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [lipoprotein particle receptor activity](http://purl.obolibrary.org/obo/GO_0030228) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### placental disc `http://purl.obolibrary.org/obo/UBERON_8600038` -#### Removed -- [placental disc](http://purl.obolibrary.org/obo/UBERON_8600038) SubClassOf [anatomical structure](http://purl.obolibrary.org/obo/UBERON_0000061) +### localization `http://purl.obolibrary.org/obo/GO_0051179` #### Added -- [placental disc](http://purl.obolibrary.org/obo/UBERON_8600038) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [localization](http://purl.obolibrary.org/obo/GO_0051179) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27052"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [localization](http://purl.obolibrary.org/obo/GO_0051179) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -### placental labyrinth villous `http://purl.obolibrary.org/obo/UBERON_0010005` -#### Removed -- [placental labyrinth villous](http://purl.obolibrary.org/obo/UBERON_0010005) SubClassOf [anatomical structure](http://purl.obolibrary.org/obo/UBERON_0000061) + +### localization of cell `http://purl.obolibrary.org/obo/GO_0051674` #### Added -- [placental labyrinth villous](http://purl.obolibrary.org/obo/UBERON_0010005) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [localization of cell](http://purl.obolibrary.org/obo/GO_0051674) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### placental villous stroma `http://purl.obolibrary.org/obo/UBERON_8600023` +### locus ceruleus formation `http://purl.obolibrary.org/obo/GO_0021705` #### Added -- [placental villous stroma](http://purl.obolibrary.org/obo/UBERON_8600023) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - +- [locus ceruleus formation](http://purl.obolibrary.org/obo/GO_0021705) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### plantar part of pes `http://purl.obolibrary.org/obo/UBERON_0008338` -#### Removed -- [plantar part of pes](http://purl.obolibrary.org/obo/UBERON_0008338) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans is the sole of the foot anatomically referred to as the plantar aspect. The equivalent surface in ungulates is the hoof" +### locus ceruleus morphogenesis `http://purl.obolibrary.org/obo/GO_0021704` +#### Added +- [locus ceruleus morphogenesis](http://purl.obolibrary.org/obo/GO_0021704) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### platelet glycoprotein 4 `http://purl.obolibrary.org/obo/PR_000001905` -#### Removed -- [platelet glycoprotein 4](http://purl.obolibrary.org/obo/PR_000001905) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [platelet glycoprotein 4 (human)](http://purl.obolibrary.org/obo/PR_P16671) +### loose mesenchyme tissue `http://purl.obolibrary.org/obo/UBERON_0007529` +#### Added +- [loose mesenchyme tissue](http://purl.obolibrary.org/obo/UBERON_0007529) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### platelet glycoprotein Ib alpha chain `http://purl.obolibrary.org/obo/PR_000001907` -#### Removed -- [platelet glycoprotein Ib alpha chain](http://purl.obolibrary.org/obo/PR_000001907) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [platelet glycoprotein Ib alpha chain (human)](http://purl.obolibrary.org/obo/PR_P07359) +### lower digestive tract `http://purl.obolibrary.org/obo/UBERON_0004907` +#### Added +- [lower digestive tract](http://purl.obolibrary.org/obo/UBERON_0004907) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### pleura `http://purl.obolibrary.org/obo/UBERON_0000977` -#### Removed -- [pleura](http://purl.obolibrary.org/obo/UBERON_0000977) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "pleural" -- [pleura](http://purl.obolibrary.org/obo/UBERON_0000977) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "In MA, is_a cavity lining (which we equate to parietal). In FMA, is_a (viscous) serous membrane (which includes mesothelium plus connective tissue). Note the MA structure should probably be associated with the mesothelium of pleura in FMA. JB/EHDAA2 argues the term 'pleura' is best used for the mesothelial lining (thus excluding connective tissue). See https://github.com/obophenotype/uberon/issues/86" +### lower lip `http://purl.obolibrary.org/obo/UBERON_0001835` -- [pleura](http://purl.obolibrary.org/obo/UBERON_0000977) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The serous membrane that covers the lungs and lines the pleural cavity. [Kaufman_MH_and_Bard_JBL, The_anatomical_basis_of_mouse_development_(1999)_San_Diego:_Academic_Press, p.264][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [lower lip](http://purl.obolibrary.org/obo/UBERON_0001835) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### lower motor neuron `http://purl.obolibrary.org/obo/CL_0008039` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0124020607" +#### Added +- [lower motor neuron](http://purl.obolibrary.org/obo/CL_0008039) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000394" -- [pleura](http://purl.obolibrary.org/obo/UBERON_0000977) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:16775" +### lower urinary tract `http://purl.obolibrary.org/obo/UBERON_0001556` #### Added -- [pleura](http://purl.obolibrary.org/obo/UBERON_0000977) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [lower urinary tract](http://purl.obolibrary.org/obo/UBERON_0001556) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### pleural cavity `http://purl.obolibrary.org/obo/UBERON_0002402` -#### Removed -- [pleural cavity](http://purl.obolibrary.org/obo/UBERON_0002402) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In hagfishes a transverse septum extends upward from the ventral body wall posterior to the heart, partly separating an anterior pericardial cavity from a larger peritoneal cavity. (...) These basic relationships have not been modified by urodeles. The small pericardial cavity remains far forward where it is separated by a transverse septum from the principal coelom, which may now be called a pleuroperitoneal cavity because slender lungs are present. (...) The heart [of other tetrapods] is separated from the lungs (and liver if present) by more or less horizontal partitions that have their origin in the embryo as folds on the serous membrane of the right and left lateral body walls. These grow out to join in the midline of the body. They are called lateral mesocardia (birds) or pleuropericardial membranes. Posteriorly they join the transverse septum to form the adult pericardial membrane, or pericardium. (...) In their partitioning of their coelom, embryonic mammals resemble first early fishes (incomplete partition, posterior to heart, consisting of the transverse septum) and then reptiles (pericardium derived from transverse septum and pleuropericardial membranes). Mammals then separate paired pleural cavities from the peritoneal cavity by a diaphragm. The ventral portion of this organ comes from the transverse septum. The dorsal portion is derived from the dorsal mesentery and from still another pair of outgrowths from the lateral body wall, the pleuroperitoneal membranes.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0471090588 Hildebrand M, Analysis of vertebrate structure (1983) p.205-206" +### lower urinary tract cell `http://purl.obolibrary.org/obo/CL_1000600` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [lower urinary tract cell](http://purl.obolibrary.org/obo/CL_1000600) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any cell that is part of some lower urinary tract." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000581" +### lumen of central canal of spinal cord `http://purl.obolibrary.org/obo/UBERON_0009572` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [lumen of central canal of spinal cord](http://purl.obolibrary.org/obo/UBERON_0009572) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [pleural cavity](http://purl.obolibrary.org/obo/UBERON_0002402) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "the EHDAA2 class of the same is not equivalent. See https://github.com/obophenotype/uberon/issues/86" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" -- [pleural cavity](http://purl.obolibrary.org/obo/UBERON_0002402) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "The contraction of the diaphragm creates a negative pressure within the pleural cavity which forces the lungs to expand resulting in passive exhalation and active inhalation. This breathing process can be made forceful through the contraction of the external intercostal muscles which forces the rib cage to expand and add to the negative pressure in the pleural cavity causing the lungs to fill with air. The fluid in the cavity provides lubrication and cushioning" +### lumen of open tracheal system trachea `http://purl.obolibrary.org/obo/UBERON_0006832` +#### Added +- [lumen of open tracheal system trachea](http://purl.obolibrary.org/obo/UBERON_0006832) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007410" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### pleural sac `http://purl.obolibrary.org/obo/UBERON_0009778` -#### Removed -- [pleural sac](http://purl.obolibrary.org/obo/UBERON_0009778) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "despite its name the class EHDAA2:0004737 is not a true cavity, it corresponds to what we call the sac" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" +### luminal epithelial cell of mammary gland `http://purl.obolibrary.org/obo/CL_0002326` #### Added -- [pleural sac](http://purl.obolibrary.org/obo/UBERON_0009778) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [luminal epithelial cell of mammary gland](http://purl.obolibrary.org/obo/CL_0002326) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### pleuroperitoneal canal `http://purl.obolibrary.org/obo/UBERON_0006279` +### luminal hormone-sensing cell of mammary gland `http://purl.obolibrary.org/obo/CL_4033058` #### Removed -- [pleuroperitoneal canal](http://purl.obolibrary.org/obo/UBERON_0006279) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Each of the canal that links the peritoneal cavity and the caudal part of a pleural cavity. [ISBN:0124020607][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [luminal hormone-sensing cell of mammary gland](http://purl.obolibrary.org/obo/CL_4033058) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001505" - -- [pleuroperitoneal canal](http://purl.obolibrary.org/obo/UBERON_0006279) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17704" +### lung ciliated cell `http://purl.obolibrary.org/obo/CL_1000271` +#### Added +- [lung ciliated cell](http://purl.obolibrary.org/obo/CL_1000271) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any ciliated cell that is part of some lung." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### pleuroperitoneal membrane `http://purl.obolibrary.org/obo/UBERON_0009133` -#### Removed -- [pleuroperitoneal membrane](http://purl.obolibrary.org/obo/UBERON_0009133) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In hagfishes a transverse septum extends upward from the ventral body wall posterior to the heart, partly separating an anterior pericardial cavity from a larger peritoneal cavity. (...) These basic relationships have not been modified by urodeles. The small pericardial cavity remains far forward where it is separated by a transverse septum from the principal coelom, which may now be called a pleuroperitoneal cavity because slender lungs are present. (...) The heart [of other tetrapods] is separated from the lungs (and liver if present) by more or less horizontal partitions that have their origin in the embryo as folds on the serous membrane of the right and left lateral body walls. These grow out to join in the midline of the body. They are called lateral mesocardia (birds) or pleuropericardial membranes. Posteriorly they join the transverse septum to form the adult pericardial membrane, or pericardium. (...) In their partitioning of their coelom, embryonic mammals resemble first early fishes (incomplete partition, posterior to heart, consisting of the transverse septum) and then reptiles (pericardium derived from transverse septum and pleuropericardial membranes). Mammals then separate paired pleural cavities from the peritoneal cavity by a diaphragm. The ventral portion of this organ comes from the transverse septum. The dorsal portion is derived from the dorsal mesentery and from still another pair of outgrowths from the lateral body wall, the pleuroperitoneal membranes.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0471090588 Hildebrand M, Analysis of vertebrate structure (1983) p.205-206" +### lung endothelial cell `http://purl.obolibrary.org/obo/CL_1001567` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000757" +#### Added +- [lung endothelial cell](http://purl.obolibrary.org/obo/CL_1001567) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any endothelial cell of vascular tree that is part of some lung." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### lung goblet cell `http://purl.obolibrary.org/obo/CL_1000143` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [lung goblet cell](http://purl.obolibrary.org/obo/CL_1000143) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any goblet cell that is part of some lung." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" +### lung lobe formation `http://purl.obolibrary.org/obo/GO_0060464` -### plural form `http://purl.obolibrary.org/obo/OMO_0003004` -#### Removed -- [plural form](http://purl.obolibrary.org/obo/OMO_0003004) [created](http://purl.org/dc/terms/created) "2023-03-03"^^[date](http://www.w3.org/2001/XMLSchema#date) +#### Added +- [lung lobe formation](http://purl.obolibrary.org/obo/GO_0060464) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [plural form](http://purl.obolibrary.org/obo/OMO_0003004) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "CHEBI:23367 (molecular entity) has an exact synonym (molecular entities), which is of the type OMO:0003004 (plural form)" +### lung lobe morphogenesis `http://purl.obolibrary.org/obo/GO_0060463` +#### Added +- [lung lobe morphogenesis](http://purl.obolibrary.org/obo/GO_0060463) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### pneumatized bone `http://purl.obolibrary.org/obo/UBERON_0008193` -#### Removed -- [pneumatized bone](http://purl.obolibrary.org/obo/UBERON_0008193) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Skeletal pneumaticity is the presence of air spaces within bones. Skeletal pneumaticity exists only in synapsids and archosaurs. It is generally produced during development by excavation of bone by pneumatic diverticula (air sacs) from an air-filled space such as the lungs or nasal cavity. Pneumatization is highly variable between individuals, and bones not normally pneumatized can become pneumatized in pathological development. Pneumatization occurs in the skulls of mammals, crocodilians and birds among extant groups, as well as extinct archosaurs including the dinosaurs and pterosaurs. Pneumatic spaces include the paranasal sinuses and some of the mastoid cells[WP]. [Wikipedia:Skeletal_pneumaticity]" +### lung primordium `http://purl.obolibrary.org/obo/UBERON_0005597` +#### Added +- [lung primordium](http://purl.obolibrary.org/obo/UBERON_0005597) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### pons `http://purl.obolibrary.org/obo/UBERON_0000988` -#### Removed -- [pons](http://purl.obolibrary.org/obo/UBERON_0000988) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "During the embryonic development of birds and mammals, neuroblasts migrate from the cerebellum into the ventral part of the rhombencephalon and differentiate into pontine and other nuclei, which relay information from between the cerebrum and cerebellum, and a conspicuous band of transverse fibers. This region is known as the pons. A pons does not differentiate in reptiles and anamniotes (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### lung secretory cell `http://purl.obolibrary.org/obo/CL_1000272` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [lung secretory cell](http://purl.obolibrary.org/obo/CL_1000272) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any secretory cell that is part of some lung." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.474" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001176" +### lutein metabolic process `http://purl.obolibrary.org/obo/GO_0062170` -- [pons](http://purl.obolibrary.org/obo/UBERON_0000988) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The part of the central nervous system lying between the medulla oblongata and the midbrain, ventral to the cerebellum. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/pons" +#### Added +- [lutein metabolic process](http://purl.obolibrary.org/obo/GO_0062170) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### luteinizing hormone secreting cell `http://purl.obolibrary.org/obo/CL_0000438` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [luteinizing hormone secreting cell](http://purl.obolibrary.org/obo/CL_0000438) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009203" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001176" -- [pons](http://purl.obolibrary.org/obo/UBERON_0000988) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [NCBITaxon_7955](http://purl.obolibrary.org/obo/NCBITaxon_7955) +### lymph `http://purl.obolibrary.org/obo/UBERON_0002391` +#### Added +- [lymph](http://purl.obolibrary.org/obo/UBERON_0002391) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### pontine raphe nucleus `http://purl.obolibrary.org/obo/UBERON_0002047` +### lymph gland hemocyte `http://purl.obolibrary.org/obo/CL_0000735` #### Removed -- [pontine raphe nucleus](http://purl.obolibrary.org/obo/UBERON_0002047) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002267](http://purl.obolibrary.org/obo/UBERON_0002267) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +- [lymph gland hemocyte](http://purl.obolibrary.org/obo/CL_0000735) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005917" -- [pontine raphe nucleus](http://purl.obolibrary.org/obo/UBERON_0002047) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0003004](http://purl.obolibrary.org/obo/UBERON_0003004) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +#### Added +- [lymph gland hemocyte](http://purl.obolibrary.org/obo/CL_0000735) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005917" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [pontine raphe nucleus](http://purl.obolibrary.org/obo/UBERON_0002047) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002587](http://purl.obolibrary.org/obo/UBERON_0002587) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" -- [pontine raphe nucleus](http://purl.obolibrary.org/obo/UBERON_0002047) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [locus ceruleus](http://purl.obolibrary.org/obo/UBERON_0002148) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +### lymph node `http://purl.obolibrary.org/obo/UBERON_0000029` +#### Removed +- [lymph node](http://purl.obolibrary.org/obo/UBERON_0000029) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +#### Added +- [lymph node](http://purl.obolibrary.org/obo/UBERON_0000029) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### pontine tegmentum `http://purl.obolibrary.org/obo/UBERON_0003023` +### lymph node macrophage `http://purl.obolibrary.org/obo/CL_0000868` #### Removed -- [pontine tegmentum](http://purl.obolibrary.org/obo/UBERON_0003023) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "involved in the initiation of REM sleep [Wikipedia:Pontine_tegmentum]" +- [lymph node macrophage](http://purl.obolibrary.org/obo/CL_0000868) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [pontine tegmentum](http://purl.obolibrary.org/obo/UBERON_0003023) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D065821" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +### lymph vasculature `http://purl.obolibrary.org/obo/UBERON_0004536` #### Added -- [pontine tegmentum](http://purl.obolibrary.org/obo/UBERON_0003023) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [lymph vasculature](http://purl.obolibrary.org/obo/UBERON_0004536) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### portal lobule `http://purl.obolibrary.org/obo/UBERON_0001171` +### lymph vessel morphogenesis `http://purl.obolibrary.org/obo/GO_0036303` #### Added -- [portal lobule](http://purl.obolibrary.org/obo/UBERON_0001171) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [lymph vessel morphogenesis](http://purl.obolibrary.org/obo/GO_0036303) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### portal triad `http://purl.obolibrary.org/obo/UBERON_0001279` -#### Removed -- [portal triad](http://purl.obolibrary.org/obo/UBERON_0001279) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "The misnomer 'portal triad' traditionally has included only the first three structures, and was named before lymphatic vessels were discovered in the structure. It can refer both to the largest branch of each of these vessels running inside the hepatoduodenal ligament, and to the smaller branches of these vessels inside the liver." +### lymphangioblast `http://purl.obolibrary.org/obo/CL_0005020` #### Added -- [portal triad](http://purl.obolibrary.org/obo/UBERON_0001279) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [lymphangioblast](http://purl.obolibrary.org/obo/CL_0005020) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009393" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### portion of cartilage tissue in tibia `http://purl.obolibrary.org/obo/UBERON_0000313` -#### Removed -- [portion of cartilage tissue in tibia](http://purl.obolibrary.org/obo/UBERON_0000313) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "This class represents a portion of cartilage tissue located in the tibia, *not* the cartilaginous condensation of an emrbyonic tibia" +### lymphangiogenesis `http://purl.obolibrary.org/obo/GO_0001946` +#### Added +- [lymphangiogenesis](http://purl.obolibrary.org/obo/GO_0001946) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### positively regulated by `http://purl.obolibrary.org/obo/RO_0002336` -#### Removed -- [positively regulated by](http://purl.obolibrary.org/obo/RO_0002336) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +### lymphatic vessel `http://purl.obolibrary.org/obo/UBERON_0001473` +#### Added +- [lymphatic vessel](http://purl.obolibrary.org/obo/UBERON_0001473) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### positively regulates `http://purl.obolibrary.org/obo/RO_0002213` +### lymphocyte `http://purl.obolibrary.org/obo/CL_0000542` #### Removed -- [positively regulates](http://purl.obolibrary.org/obo/RO_0002213) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [causal-relations](http://purl.obolibrary.org/obo/ro/docs/causal-relations) +- [lymphocyte](http://purl.obolibrary.org/obo/CL_0000542) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [positively regulates](http://purl.obolibrary.org/obo/RO_0002213) [RO_0004049](http://purl.obolibrary.org/obo/RO_0004049) [regulates](http://purl.obolibrary.org/obo/RO_0002211) +#### Added +- [lymphocyte](http://purl.obolibrary.org/obo/CL_0000542) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009250" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [positively regulates](http://purl.obolibrary.org/obo/RO_0002213) [IAO_0000589](http://purl.obolibrary.org/obo/IAO_0000589) "positively regulates (process to process)" -- [positively regulates](http://purl.obolibrary.org/obo/RO_0002213) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +### lymphocyte anergy `http://purl.obolibrary.org/obo/GO_0002249` +#### Added +- [lymphocyte anergy](http://purl.obolibrary.org/obo/GO_0002249) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### possible_exception `http://www.geneontology.org/formats/oboInOwl#possible_exception` +### lymphocyte domain `http://purl.obolibrary.org/obo/UBERON_0010394` #### Removed -- AnnotationProperty: [possible_exception](http://www.geneontology.org/formats/oboInOwl#possible_exception) - +- [lymphocyte domain](http://purl.obolibrary.org/obo/UBERON_0010394) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +#### Added +- [lymphocyte domain](http://purl.obolibrary.org/obo/UBERON_0010394) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### post-anal tail `http://purl.obolibrary.org/obo/UBERON_0007812` -#### Removed -- [post-anal tail](http://purl.obolibrary.org/obo/UBERON_0007812) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organism subdivision which is the part of the body posterior to the vent which includes the anal and caudal fins.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001117" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### lymphoid lineage cell migration `http://purl.obolibrary.org/obo/GO_0097534` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [lymphoid lineage cell migration](http://purl.obolibrary.org/obo/GO_0097534) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [post-anal tail](http://purl.obolibrary.org/obo/UBERON_0007812) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical structure that is the terminal, flexible posterior appendage of the organism.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010338" +### lymphoid lineage restricted progenitor cell `http://purl.obolibrary.org/obo/CL_0000838` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [lymphoid lineage restricted progenitor cell](http://purl.obolibrary.org/obo/CL_0000838) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009355" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" -- [post-anal tail](http://purl.obolibrary.org/obo/UBERON_0007812) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "present at some time in chordate life history (eg in Urochordates, present only in free-swimming larvae). Function: propellor locomotion (in some species)" +### lymphoid tissue `http://purl.obolibrary.org/obo/UBERON_0001744` +#### Removed +- [lymphoid tissue](http://purl.obolibrary.org/obo/UBERON_0001744) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [post-anal tail](http://purl.obolibrary.org/obo/UBERON_0007812) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:16748" +#### Added +- [lymphoid tissue](http://purl.obolibrary.org/obo/UBERON_0001744) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [post-anal tail](http://purl.obolibrary.org/obo/UBERON_0007812) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Chordata](http://purl.obolibrary.org/obo/NCBITaxon_7711) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "cjm" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "possible exception in hemichordates" +### lysosomal transport `http://purl.obolibrary.org/obo/GO_0007041` #### Added -- [post-anal tail](http://purl.obolibrary.org/obo/UBERON_0007812) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Chordata](http://purl.obolibrary.org/obo/NCBITaxon_7711) +- [lysosomal transport](http://purl.obolibrary.org/obo/GO_0007041) [never in taxon](http://purl.obolibrary.org/obo/RO_0002161) [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751) +- [lysosomal transport](http://purl.obolibrary.org/obo/GO_0007041) DisjointWith [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751) -### post-anal tail bud `http://purl.obolibrary.org/obo/UBERON_0002533` -#### Removed -- [post-anal tail bud](http://purl.obolibrary.org/obo/UBERON_0002533) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (5) a larva or embryo with a postanal tail.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [lysosomal transport](http://purl.obolibrary.org/obo/GO_0007041) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some (not ([Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751))) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [lysosomal transport](http://purl.obolibrary.org/obo/GO_0007041) SubClassOf not ([in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751)) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28" +### lysosome organization `http://purl.obolibrary.org/obo/GO_0007040` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000201" +#### Added +- [lysosome organization](http://purl.obolibrary.org/obo/GO_0007040) [never in taxon](http://purl.obolibrary.org/obo/RO_0002161) [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751) -- [post-anal tail bud](http://purl.obolibrary.org/obo/UBERON_0002533) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Rapidly proliferating mass of cells at the caudal extremity of the embryo. Its formation is reflected in a caudal carving of the posterior portion of the archenteric canal at NF stage 22. With its further outgrowth, the postanal gut primordium becomes stretched. Its lumen is in broad communication with the hindgut at NF stage 25.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0011104" +- [lysosome organization](http://purl.obolibrary.org/obo/GO_0007040) DisjointWith [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [lysosome organization](http://purl.obolibrary.org/obo/GO_0007040) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some (not ([Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751))) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0815318960" +- [lysosome organization](http://purl.obolibrary.org/obo/GO_0007040) SubClassOf not ([in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "OMD:tail+bud" +### macroglial cell `http://purl.obolibrary.org/obo/CL_0000126` +#### Added +- [macroglial cell](http://purl.obolibrary.org/obo/CL_0000126) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009074" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### post-anal tail muscle `http://purl.obolibrary.org/obo/UBERON_0003665` -#### Removed -- [post-anal tail muscle](http://purl.obolibrary.org/obo/UBERON_0003665) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "the BTO class may possibly refer to an invertebrate structure" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "BTO" +### macromolecule biosynthetic process `http://purl.obolibrary.org/obo/GO_0009059` +#### Added +- [macromolecule biosynthetic process](http://purl.obolibrary.org/obo/GO_0009059) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) +- [macromolecule biosynthetic process](http://purl.obolibrary.org/obo/GO_0009059) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." -### post-embryonic stage `http://purl.obolibrary.org/obo/UBERON_0000092` -#### Removed -- [post-embryonic stage](http://purl.obolibrary.org/obo/UBERON_0000092) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In birds, the postnatal stage begins when the beak penetrates the shell (i.e., external pipping) (Brown et al. 1997)" +- [macromolecule biosynthetic process](http://purl.obolibrary.org/obo/GO_0009059) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27189"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +### macromolecule metabolic process `http://purl.obolibrary.org/obo/GO_0043170` -### post-hyoid pharyngeal arch `http://purl.obolibrary.org/obo/UBERON_0008896` -#### Removed -- [post-hyoid pharyngeal arch](http://purl.obolibrary.org/obo/UBERON_0008896) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Posterior-most stream of cranial neural crest, which sub-divides during migration.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" +#### Added +- [macromolecule metabolic process](http://purl.obolibrary.org/obo/GO_0043170) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010362" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### macromolecule modification `http://purl.obolibrary.org/obo/GO_0043412` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [macromolecule modification](http://purl.obolibrary.org/obo/GO_0043412) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/26424"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [post-hyoid pharyngeal arch](http://purl.obolibrary.org/obo/UBERON_0008896) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "SCTID:308766004" +- [macromolecule modification](http://purl.obolibrary.org/obo/GO_0043412) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) +### macrophage `http://purl.obolibrary.org/obo/CL_0000235` -### postaxialmost part of `http://purl.obolibrary.org/obo/BSPO_0001115` -#### Removed -- [postaxialmost part of](http://purl.obolibrary.org/obo/BSPO_0001115) [label](http://www.w3.org/2000/01/rdf-schema#label) "postaxialmost part of" +#### Added +- [macrophage](http://purl.obolibrary.org/obo/CL_0000235) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009141" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [postaxialmost part of](http://purl.obolibrary.org/obo/BSPO_0001115) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" -- [postaxialmost part of](http://purl.obolibrary.org/obo/BSPO_0001115) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0001115" +### macrophage antigen processing and presentation `http://purl.obolibrary.org/obo/GO_0002472` -- [postaxialmost part of](http://purl.obolibrary.org/obo/BSPO_0001115) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "postaxialmost_part_of" +#### Added +- [macrophage antigen processing and presentation](http://purl.obolibrary.org/obo/GO_0002472) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [postaxialmost part of](http://purl.obolibrary.org/obo/BSPO_0001115) [id](http://www.geneontology.org/formats/oboInOwl#id) "postaxialmost_part_of" +### macrophage derived foam cell `http://purl.obolibrary.org/obo/CL_0000517` +#### Added +- [macrophage derived foam cell](http://purl.obolibrary.org/obo/CL_0000517) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### postcranial axial cartilage `http://purl.obolibrary.org/obo/UBERON_2001457` -#### Removed -- [postcranial axial cartilage](http://purl.obolibrary.org/obo/UBERON_2001457) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (teleost_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/tao.owl" +### macrophage tolerance induction `http://purl.obolibrary.org/obo/GO_0010931` +#### Added +- [macrophage tolerance induction](http://purl.obolibrary.org/obo/GO_0010931) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### postcranial axial skeleton `http://purl.obolibrary.org/obo/UBERON_0002090` -#### Removed -- [postcranial axial skeleton](http://purl.obolibrary.org/obo/UBERON_0002090) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The axial skeleton is formed by the vertebral column, a metameric, semi-flexible, arched bar located in the dorsal part of the trunk, and is formed by a series of cartilaginous or bony vertebrae. It provides suspension for the appendicular skeleton and protection for the spinal nerve cord.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### macula densa epithelial cell `http://purl.obolibrary.org/obo/CL_1000850` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [macula densa epithelial cell](http://purl.obolibrary.org/obo/CL_1000850) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any epithelial cell of distal tubule that is part of some macula densa." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000034" -- [postcranial axial skeleton](http://purl.obolibrary.org/obo/UBERON_0002090) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D013131" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) +### maintenance of location in cell `http://purl.obolibrary.org/obo/GO_0051651` - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +#### Added +- [maintenance of location in cell](http://purl.obolibrary.org/obo/GO_0051651) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [postcranial axial skeleton](http://purl.obolibrary.org/obo/UBERON_0002090) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Skeletal subdivision of the central body axis including vertebrae, notochord, ribs, and sternum.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000093" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### male anatomical structure morphogenesis `http://purl.obolibrary.org/obo/GO_0090598` +#### Removed +- [male anatomical structure morphogenesis](http://purl.obolibrary.org/obo/GO_0090598) SubClassOf [developmental process involved in reproduction](http://purl.obolibrary.org/obo/GO_0003006) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" +#### Added +- [male anatomical structure morphogenesis](http://purl.obolibrary.org/obo/GO_0090598) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" -- [postcranial axial skeleton](http://purl.obolibrary.org/obo/UBERON_0002090) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The post-cranial structural components forming the long axis of the vertebrate body; usually consists of the notochord, vertebrae, ribs, supraneurals, intermuscular bones, and unpaired median fins.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +### male gamete `http://purl.obolibrary.org/obo/CL_0000408` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [male gamete](http://purl.obolibrary.org/obo/CL_0000408) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any male germ cell that has characteristic some haploid and is capable of some fertilization." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000317" +### male germ line stem cell `http://purl.obolibrary.org/obo/CL_0000016` +#### Removed +- [male germ line stem cell](http://purl.obolibrary.org/obo/CL_0000016) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004929" -- [postcranial axial skeleton](http://purl.obolibrary.org/obo/UBERON_0002090) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17214" +#### Added +- [male germ line stem cell](http://purl.obolibrary.org/obo/CL_0000016) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004929" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [postcranial axial skeleton](http://purl.obolibrary.org/obo/UBERON_0002090) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The axial musculoskeletal system represents the plesiomorphic locomotor engine of the vertebrate body, playing a central role in locomotion. In craniates, the evolution of the postcranial skeleton is characterized by two major transformations. First, the axial skeleton became increasingly functionally and morphologically regionalized. Second, the axial-based locomotion plesiomorphic for craniates became progressively appendage-based with the evolution of extremities in tetrapods.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### male meiotic nuclear division `http://purl.obolibrary.org/obo/GO_0007140` +#### Removed +- [male meiotic nuclear division](http://purl.obolibrary.org/obo/GO_0007140) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1186/1742-9994-8-4 Schilling N, Evolution of the axial system in craniates: morphology and function of the perivertebral musculature. Frontiers in Zoology (2011)" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000317" +### male organism `http://purl.obolibrary.org/obo/UBERON_0003101` +#### Added +- [male organism](http://purl.obolibrary.org/obo/UBERON_0003101) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007004" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### posterior communicating artery `http://purl.obolibrary.org/obo/UBERON_0001628` +### male pronucleus assembly `http://purl.obolibrary.org/obo/GO_0035039` #### Removed -- [posterior communicating artery](http://purl.obolibrary.org/obo/UBERON_0001628) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "todo - verify ZFA link: An artery that connects caudal division of the internal carotid artery and the basal communicating artery to the basilar artery" - -- [posterior communicating artery](http://purl.obolibrary.org/obo/UBERON_0001628) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An artery that connects caudal division of the internal carotid artery and the basal communicating artery to the basilar artery. Isogai et al. 2001.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [male pronucleus assembly](http://purl.obolibrary.org/obo/GO_0035039) SubClassOf [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005001" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### male reproductive system `http://purl.obolibrary.org/obo/UBERON_0000079` +#### Added +- [male reproductive system](http://purl.obolibrary.org/obo/UBERON_0000079) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004927" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### posterior lateral line `http://purl.obolibrary.org/obo/UBERON_0006334` -#### Removed -- [posterior lateral line](http://purl.obolibrary.org/obo/UBERON_0006334) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of eight distinct lateral lines in the 4-day larva. A sensory system on the surface of the fish, consisting of small sensory patches (neuromasts) distributed in discrete lines over the body surface. The lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance. (See Anatomical Atlas entry for lateral line by T. Whitfield.)[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +### malpighian tubule tip cell `http://purl.obolibrary.org/obo/CL_1000182` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000944" +#### Added +- [malpighian tubule tip cell](http://purl.obolibrary.org/obo/CL_1000182) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any tip cell that is part of some Malpighian tubule." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### mammary gland formation `http://purl.obolibrary.org/obo/GO_0060592` -- [posterior lateral line](http://purl.obolibrary.org/obo/UBERON_0006334) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of posterior lateral line system (TAO:0001471)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000944" +#### Added +- [mammary gland formation](http://purl.obolibrary.org/obo/GO_0060592) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### mammary placode `http://purl.obolibrary.org/obo/UBERON_0005311` -- [posterior lateral line](http://purl.obolibrary.org/obo/UBERON_0006334) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: develops_from posterior lateral line primordium (TAO:0001157)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000944" +#### Added +- [mammary placode](http://purl.obolibrary.org/obo/UBERON_0005311) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### mammary ridge `http://purl.obolibrary.org/obo/UBERON_0008425` +#### Added +- [mammary ridge](http://purl.obolibrary.org/obo/UBERON_0008425) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### posterior lateral line ganglion `http://purl.obolibrary.org/obo/UBERON_2001314` -#### Removed -- [posterior lateral line ganglion](http://purl.obolibrary.org/obo/UBERON_2001314) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (teleost_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/tao.owl" +### mandibular prominence `http://purl.obolibrary.org/obo/UBERON_0005867` +#### Added +- [mandibular prominence](http://purl.obolibrary.org/obo/UBERON_0005867) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### posterior lateral line nerve `http://purl.obolibrary.org/obo/UBERON_2000175` -#### Removed -- [posterior lateral line nerve](http://purl.obolibrary.org/obo/UBERON_2000175) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (teleost_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/tao.owl" +### mapping_justification `https://w3id.org/sssom/mapping_justification` +#### Added +- AnnotationProperty: [mapping_justification](https://w3id.org/sssom/mapping_justification) -### posterior lateral line neuromast `http://purl.obolibrary.org/obo/UBERON_2000940` +### mast cell `http://purl.obolibrary.org/obo/CL_0000097` #### Removed -- [posterior lateral line neuromast](http://purl.obolibrary.org/obo/UBERON_2000940) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (teleost_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/tao.owl" +- [mast cell](http://purl.obolibrary.org/obo/CL_0000097) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### posterior lateral line placode `http://purl.obolibrary.org/obo/UBERON_2001156` +### mast cell progenitor `http://purl.obolibrary.org/obo/CL_0000831` #### Removed -- [posterior lateral line placode](http://purl.obolibrary.org/obo/UBERON_2001156) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (teleost_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/tao.owl" +- [mast cell progenitor](http://purl.obolibrary.org/obo/CL_0000831) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### posterior lateral line primordium `http://purl.obolibrary.org/obo/UBERON_2001157` -#### Removed -- [posterior lateral line primordium](http://purl.obolibrary.org/obo/UBERON_2001157) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (teleost_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/tao.owl" +### material anatomical entity `http://purl.obolibrary.org/obo/UBERON_0000465` +#### Added +- [material anatomical entity](http://purl.obolibrary.org/obo/UBERON_0000465) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007016" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### posterior lateral line system `http://purl.obolibrary.org/obo/UBERON_2001471` +### material entity `http://purl.obolibrary.org/obo/BFO_0000040` #### Removed -- [posterior lateral line system](http://purl.obolibrary.org/obo/UBERON_2001471) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (teleost_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/tao.owl" +- [material entity](http://purl.obolibrary.org/obo/BFO_0000040) [label](http://www.w3.org/2000/01/rdf-schema#label) "material entity"@en +- [material entity](http://purl.obolibrary.org/obo/BFO_0000040) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time."@en +- [material entity](http://purl.obolibrary.org/obo/BFO_0000040) DisjointWith [immaterial entity](http://purl.obolibrary.org/obo/BFO_0000141) -### posterior nasal aperture `http://purl.obolibrary.org/obo/UBERON_0004771` -#### Removed -- [posterior nasal aperture](http://purl.obolibrary.org/obo/UBERON_0004771) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Fish don't have choanae, instead they have two pairs of external nostrils" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" +- [material entity](http://purl.obolibrary.org/obo/BFO_0000040) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -- [posterior nasal aperture](http://purl.obolibrary.org/obo/UBERON_0004771) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In addition to tetrapods, the lungfish has internal nostrils too. In tetrapods the exhalant nostril (choana) empties into the buccal cavity." -- [posterior nasal aperture](http://purl.obolibrary.org/obo/UBERON_0004771) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of the paired openings from the nasal cavities into the pharynx. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-6, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000545" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### mature B cell `http://purl.obolibrary.org/obo/CL_0000785` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [mature B cell](http://purl.obolibrary.org/obo/CL_0000785) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009331" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" -- [posterior nasal aperture](http://purl.obolibrary.org/obo/UBERON_0004771) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Opening between the nasal cavity and the nasopharynx.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" +### mature gamma-delta T cell `http://purl.obolibrary.org/obo/CL_0000800` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [mature gamma-delta T cell](http://purl.obolibrary.org/obo/CL_0000800) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009338" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000093" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### mature natural killer cell `http://purl.obolibrary.org/obo/CL_0000824` -- [posterior nasal aperture](http://purl.obolibrary.org/obo/UBERON_0004771) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The choana, a unique 'internal nostril' opening from the nasal sac into the roof of the mouth, is a key part of the tetrapod (land vertebrate) respiratory system. It was the first component of the tetrapod body plan to evolve, well before the origin of limbs, and is therefore crucial to our understanding of the beginning of the fish-tetrapod transition. (...) Here we present new material of Kenichthys, a 395-million-year-old fossil fish from China, that provides direct evidence for the origin of the choana and establishes its homology: it is indeed a displaced posterior external nostril that, during a brief transitional stage illustrated by Kenichthys, separated the maxilla from the premaxilla.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000545" +#### Added +- [mature natural killer cell](http://purl.obolibrary.org/obo/CL_0000824) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009347" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### mature neutrophil `http://purl.obolibrary.org/obo/CL_0000096` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [mature neutrophil](http://purl.obolibrary.org/obo/CL_0000096) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009049" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1038/nature02843 Zhu M, Ahlberg PE, The origin of the internal nostril in tetrapodes. Nature (2004)" +### maxillary prominence `http://purl.obolibrary.org/obo/UBERON_0005868` +#### Added +- [maxillary prominence](http://purl.obolibrary.org/obo/UBERON_0005868) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### posterior neural tube `http://purl.obolibrary.org/obo/UBERON_0003076` -#### Removed -- [posterior neural tube](http://purl.obolibrary.org/obo/UBERON_0003076) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### mechanoreceptor cell `http://purl.obolibrary.org/obo/CL_0000199` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [mechanoreceptor cell](http://purl.obolibrary.org/obo/CL_0000199) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009120" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001383" +### medial border of scapula `http://purl.obolibrary.org/obo/UBERON_0007174` +#### Added +- [medial border of scapula](http://purl.obolibrary.org/obo/UBERON_0007174) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### posterior segment of eyeball `http://purl.obolibrary.org/obo/UBERON_0001802` +### medial ganglionic eminence derived interneuron `http://purl.obolibrary.org/obo/CL_4023063` #### Added -- [posterior segment of eyeball](http://purl.obolibrary.org/obo/UBERON_0001802) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [medial ganglionic eminence derived interneuron](http://purl.obolibrary.org/obo/CL_4023063) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### posterior stroma of cornea `http://purl.obolibrary.org/obo/UBERON_0003953` +### medial nasal prominence `http://purl.obolibrary.org/obo/UBERON_0004068` #### Added -- [posterior stroma of cornea](http://purl.obolibrary.org/obo/UBERON_0003953) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) +- [medial nasal prominence](http://purl.obolibrary.org/obo/UBERON_0004068) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### posterior to `http://purl.obolibrary.org/obo/BSPO_0000099` -#### Removed -- [posterior to](http://purl.obolibrary.org/obo/BSPO_0000099) [label](http://www.w3.org/2000/01/rdf-schema#label) "posterior to" +### median lingual swelling `http://purl.obolibrary.org/obo/UBERON_0006756` -- [posterior to](http://purl.obolibrary.org/obo/BSPO_0000099) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0000099" +#### Added +- [median lingual swelling](http://purl.obolibrary.org/obo/UBERON_0006756) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [posterior to](http://purl.obolibrary.org/obo/BSPO_0000099) [id](http://www.geneontology.org/formats/oboInOwl#id) "posterior_to" -- [posterior to](http://purl.obolibrary.org/obo/BSPO_0000099) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "posterior_to" +### medulla oblongata formation `http://purl.obolibrary.org/obo/GO_0021580` -- [posterior to](http://purl.obolibrary.org/obo/BSPO_0000099) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +#### Added +- [medulla oblongata formation](http://purl.obolibrary.org/obo/GO_0021580) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### medulla oblongata morphogenesis `http://purl.obolibrary.org/obo/GO_0021579` -### posterior vena cava `http://purl.obolibrary.org/obo/UBERON_0001072` -#### Removed -- [posterior vena cava](http://purl.obolibrary.org/obo/UBERON_0001072) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Phylogenetic modifications within this basic pattern of arteries and veins are largely correlated with functional changes. In the transition from water to land, gills gave way to lungs, accompanied by the establishment of a pulmonary circulation. In some fishes and certainly in tetrapods, the cardinal veins become less involved in blood return. Instead, the composite, prominent postcava (posterior vena cava) arose to drain the posterior part of the body and the precava (anterior vena cava) developed to drain the anterior part of the body.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001194" +#### Added +- [medulla oblongata morphogenesis](http://purl.obolibrary.org/obo/GO_0021579) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### medulla oblongata sulcus limitans `http://purl.obolibrary.org/obo/UBERON_0009576` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [medulla oblongata sulcus limitans](http://purl.obolibrary.org/obo/UBERON_0009576) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.454-455" -- [posterior vena cava](http://purl.obolibrary.org/obo/UBERON_0001072) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Trunk of systemic vein which is formed by the union of the right common iliac vein and the left common iliac vein and terminates in the right atrium[FMA]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:10951" +### megakaryocyte-erythroid progenitor cell `http://purl.obolibrary.org/obo/CL_0000050` +#### Added +- [megakaryocyte-erythroid progenitor cell](http://purl.obolibrary.org/obo/CL_0000050) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009022" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### posterior wall of nasopharynx `http://purl.obolibrary.org/obo/UBERON_0035401` +### meiotic cell cycle `http://purl.obolibrary.org/obo/GO_0051321` #### Added -- [posterior wall of nasopharynx](http://purl.obolibrary.org/obo/UBERON_0035401) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [meiotic cell cycle](http://purl.obolibrary.org/obo/GO_0051321) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### pre-cartilage condensation `http://purl.obolibrary.org/obo/UBERON_0005866` +### meiotic cell cycle process involved in oocyte maturation `http://purl.obolibrary.org/obo/GO_1903537` #### Removed -- [pre-cartilage condensation](http://purl.obolibrary.org/obo/UBERON_0005866) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A closely packed aggregation of mesenchymal cells just prior to their differentiation into embryonic cartilage." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://dictionary.reference.com/browse/precartilage" - +- [meiotic cell cycle process involved in oocyte maturation](http://purl.obolibrary.org/obo/GO_1903537) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) -### pre-chordal neural plate `http://purl.obolibrary.org/obo/UBERON_0003056` -#### Removed -- [pre-chordal neural plate](http://purl.obolibrary.org/obo/UBERON_0003056) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### meis2 expressing cortical GABAergic cell `http://purl.obolibrary.org/obo/CL_4023065` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [meis2 expressing cortical GABAergic cell](http://purl.obolibrary.org/obo/CL_4023065) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001200" +### melanoblast `http://purl.obolibrary.org/obo/CL_0000541` #### Added -- [pre-chordal neural plate](http://purl.obolibrary.org/obo/UBERON_0003056) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [melanoblast](http://purl.obolibrary.org/obo/CL_0000541) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009249" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### pre-dentine `http://purl.obolibrary.org/obo/UBERON_0011587` -#### Removed -- [pre-dentine](http://purl.obolibrary.org/obo/UBERON_0011587) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) +### melanocyte `http://purl.obolibrary.org/obo/CL_0000148` + +#### Added +- [melanocyte](http://purl.obolibrary.org/obo/CL_0000148) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009091" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [melanocyte](http://purl.obolibrary.org/obo/CL_0000148) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### preaxialmost part of `http://purl.obolibrary.org/obo/BSPO_0001113` +### melanocyte of foreskin `http://purl.obolibrary.org/obo/CL_2000082` #### Removed -- [preaxialmost part of](http://purl.obolibrary.org/obo/BSPO_0001113) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "preaxialmost_part_of" +- [melanocyte of foreskin](http://purl.obolibrary.org/obo/CL_2000082) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any melanocyte of skin that is part of a skin of prepuce of penis." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:TermGenie" -- [preaxialmost part of](http://purl.obolibrary.org/obo/BSPO_0001113) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0001113" +- [melanocyte of foreskin](http://purl.obolibrary.org/obo/CL_2000082) [label](http://www.w3.org/2000/01/rdf-schema#label) "melanocyte of foreskin" -- [preaxialmost part of](http://purl.obolibrary.org/obo/BSPO_0001113) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +- [melanocyte of foreskin](http://purl.obolibrary.org/obo/CL_2000082) EquivalentTo [melanocyte of skin](http://purl.obolibrary.org/obo/CL_1000458) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [skin of prepuce of penis](http://purl.obolibrary.org/obo/UBERON_0001471)) -- [preaxialmost part of](http://purl.obolibrary.org/obo/BSPO_0001113) [id](http://www.geneontology.org/formats/oboInOwl#id) "preaxialmost_part_of" +- [melanocyte of foreskin](http://purl.obolibrary.org/obo/CL_2000082) SubClassOf [melanocyte of skin](http://purl.obolibrary.org/obo/CL_1000458) -- [preaxialmost part of](http://purl.obolibrary.org/obo/BSPO_0001113) [label](http://www.w3.org/2000/01/rdf-schema#label) "preaxialmost part of" +- [melanocyte of foreskin](http://purl.obolibrary.org/obo/CL_2000082) SubClassOf [foreskin melanocyte](http://purl.obolibrary.org/obo/CL_2000045) +- [melanocyte of foreskin](http://purl.obolibrary.org/obo/CL_2000082) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [skin of prepuce of penis](http://purl.obolibrary.org/obo/UBERON_0001471) +#### Added +- [melanocyte of foreskin](http://purl.obolibrary.org/obo/CL_2000082) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "OBSOLETE. Any melanocyte of skin that is part of a skin of prepuce of penis." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:TermGenie" -### preceded by `http://purl.obolibrary.org/obo/BFO_0000062` -#### Removed -- [preceded by](http://purl.obolibrary.org/obo/BFO_0000062) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "preceded_by"@en +- [melanocyte of foreskin](http://purl.obolibrary.org/obo/CL_2000082) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) [1562](https://github.com/obophenotype/cell-ontology/issues/1562) -- [preceded by](http://purl.obolibrary.org/obo/BFO_0000062) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "is preceded by"@en +- [melanocyte of foreskin](http://purl.obolibrary.org/obo/CL_2000082) [term replaced by](http://purl.obolibrary.org/obo/IAO_0100001) [foreskin melanocyte](http://purl.obolibrary.org/obo/CL_2000045) -- [preceded by](http://purl.obolibrary.org/obo/BFO_0000062) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "preceded by"@en +- [melanocyte of foreskin](http://purl.obolibrary.org/obo/CL_2000082) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Term was merged into foreskin melanocyte CL_2000045" -- [preceded by](http://purl.obolibrary.org/obo/BFO_0000062) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +- [melanocyte of foreskin](http://purl.obolibrary.org/obo/CL_2000082) [deprecated](http://www.w3.org/2002/07/owl#deprecated) true -- [preceded by](http://purl.obolibrary.org/obo/BFO_0000062) [source](http://purl.org/dc/terms/source) "http://www.obofoundry.org/ro/#OBO_REL:preceded_by" +- [melanocyte of foreskin](http://purl.obolibrary.org/obo/CL_2000082) [label](http://www.w3.org/2000/01/rdf-schema#label) "obsolete melanocyte of foreskin" +### melanocyte stimulating hormone secreting cell `http://purl.obolibrary.org/obo/CL_0000440` -### precedes `http://purl.obolibrary.org/obo/BFO_0000063` -#### Removed -- [precedes](http://purl.obolibrary.org/obo/BFO_0000063) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +#### Added +- [melanocyte stimulating hormone secreting cell](http://purl.obolibrary.org/obo/CL_0000440) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009205" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [precedes](http://purl.obolibrary.org/obo/BFO_0000063) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "precedes"@en +### melatonin binding `http://purl.obolibrary.org/obo/GO_1904408` +#### Added +- [melatonin binding](http://purl.obolibrary.org/obo/GO_1904408) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### prechordal plate `http://purl.obolibrary.org/obo/UBERON_0003063` -#### Removed -- [prechordal plate](http://purl.obolibrary.org/obo/UBERON_0003063) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Axial mesoderm that lies anterior to the notochord and that underlies the forebrain. [Amphioxus_goosecoid_and_the_evolution_of_the_head_organizer_and_prechordal_plate._Evolution_and_Development_(2008)_2(6):303-310, Neidert_AH, Panopoulou_G_and_Langeland_JA][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### membrane biogenesis `http://purl.obolibrary.org/obo/GO_0044091` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [membrane biogenesis](http://purl.obolibrary.org/obo/GO_0044091) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000086" -- [prechordal plate](http://purl.obolibrary.org/obo/UBERON_0003063) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "There are two opposing models that can potentially explain the differences in gsc (goosecoid) expression between amphioxus and vertebrates. In one model, the vertebrate gsc expression pattern more closely resembles the common ancestral state and the amphioxus gsc expression pattern is a derivation associated with its unique morphology. (...) In an alternate model, the amphioxus gsc expression pattern most closely represents the common ancestral state and the vertebrate pattern is derived. This model suggests that the evolution of vertebrates was accompanied by the segregation of gsc expression, from a more general domain underlying the entire brain anlage to a distinct forebrain organizer domain and subsequent prechordal plate. We feel this second model is more parsimonious than the first model in that what would be novel anterior gsc expression in vertebrates directly correlates with a novel vertebrate anterior structure, the prechordal plate.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### membrane organ `http://purl.obolibrary.org/obo/UBERON_0000094` +#### Removed +- [membrane organ](http://purl.obolibrary.org/obo/UBERON_0000094) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1525-142x.2000.00073.x Neidert AH, Panopoulou G and Langeland JA, Amphioxus goosecoid and the evolution of the head organizer and prechordal plate. Evolution and Development (2008)" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### membrane protein complex `http://purl.obolibrary.org/obo/GO_0098796` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000086" +#### Added +- [membrane protein complex](http://purl.obolibrary.org/obo/GO_0098796) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -- [prechordal plate](http://purl.obolibrary.org/obo/UBERON_0003063) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Axial hypoblast located anterior to the chorda mesoderm; the polster is its most anterior region. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### membranous septum morphogenesis `http://purl.obolibrary.org/obo/GO_0003149` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [membranous septum morphogenesis](http://purl.obolibrary.org/obo/GO_0003149) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000060" -- [prechordal plate](http://purl.obolibrary.org/obo/UBERON_0003063) SubClassOf [transformation of](http://purl.obolibrary.org/obo/RO_0002494) some [prechordal mesoderm](http://purl.obolibrary.org/obo/UBERON_0034878) - - [todo](http://www.geneontology.org/formats/oboInOwl#todo) "PMID:16313393" +### memory B cell `http://purl.obolibrary.org/obo/CL_0000787` #### Added -- [prechordal plate](http://purl.obolibrary.org/obo/UBERON_0003063) SubClassOf [transformation of](http://purl.obolibrary.org/obo/RO_0002494) some [prechordal mesoderm](http://purl.obolibrary.org/obo/UBERON_0034878) +- [memory B cell](http://purl.obolibrary.org/obo/CL_0000787) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009333" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### preoptic area `http://purl.obolibrary.org/obo/UBERON_0001928` -#### Removed -- [preoptic area](http://purl.obolibrary.org/obo/UBERON_0001928) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Area of the forebrain anterior to the posterior tuberculum and the hypothalamus and ventral to the ventral thalamus. See Figure 7, Atlas of Early Zebrafish Brain Development.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000470" +### memory T cell `http://purl.obolibrary.org/obo/CL_0000813` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [memory T cell](http://purl.obolibrary.org/obo/CL_0000813) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009342" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" -- [preoptic area](http://purl.obolibrary.org/obo/UBERON_0001928) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Located in the hypothalamus in amniotes[PMC4038951]" +### meningeal cluster `http://purl.obolibrary.org/obo/UBERON_0010743` +#### Removed +- [meningeal cluster](http://purl.obolibrary.org/obo/UBERON_0010743) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +#### Added +- [meningeal cluster](http://purl.obolibrary.org/obo/UBERON_0010743) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +- [meningeal cluster](http://purl.obolibrary.org/obo/UBERON_0010743) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -### preoptic nucleus `http://purl.obolibrary.org/obo/UBERON_0007251` -#### Removed -- [preoptic nucleus](http://purl.obolibrary.org/obo/UBERON_0007251) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D011301" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +### mesangial cell `http://purl.obolibrary.org/obo/CL_0000650` +#### Added +- [mesangial cell](http://purl.obolibrary.org/obo/CL_0000650) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009283" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [mesangial cell](http://purl.obolibrary.org/obo/CL_0000650) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### preplacodal ectoderm `http://purl.obolibrary.org/obo/UBERON_2007013` -#### Removed -- [preplacodal ectoderm](http://purl.obolibrary.org/obo/UBERON_2007013) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (teleost_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/tao.owl" +### mesenchymal cell migration `http://purl.obolibrary.org/obo/GO_0090497` +#### Added +- [mesenchymal cell migration](http://purl.obolibrary.org/obo/GO_0090497) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### prepuce `http://purl.obolibrary.org/obo/UBERON_0011374` -#### Removed -- [prepuce](http://purl.obolibrary.org/obo/UBERON_0011374) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "preputial" -- [prepuce](http://purl.obolibrary.org/obo/UBERON_0011374) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this is a generic sex-neutral grouping class for the male and female prepuce. Note that this structure is a combination of skin and other tissue" +### mesenchymal cell proliferation `http://purl.obolibrary.org/obo/GO_0010463` #### Added -- [prepuce](http://purl.obolibrary.org/obo/UBERON_0011374) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [mesenchymal cell proliferation](http://purl.obolibrary.org/obo/GO_0010463) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### prepuce of clitoris `http://purl.obolibrary.org/obo/UBERON_0005299` +### mesenchymal cell proliferation involved in prostate gland development `http://purl.obolibrary.org/obo/GO_0060781` #### Removed -- [prepuce of clitoris](http://purl.obolibrary.org/obo/UBERON_0005299) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "FMA has FMA:27886 skin of prepuce of clitoris" +- [mesenchymal cell proliferation involved in prostate gland development](http://purl.obolibrary.org/obo/GO_0060781) SubClassOf [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) -### prepuce of penis `http://purl.obolibrary.org/obo/UBERON_0001332` -#### Removed -- [prepuce of penis](http://purl.obolibrary.org/obo/UBERON_0001332) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EV:0100109" +### mesenchymal lymphangioblast `http://purl.obolibrary.org/obo/CL_0005021` +#### Added +- [mesenchymal lymphangioblast](http://purl.obolibrary.org/obo/CL_0005021) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009394" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### present_in_taxon `http://purl.obolibrary.org/obo/RO_0002175` -#### Removed -- [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +### mesenchymal stem cell `http://purl.obolibrary.org/obo/CL_0000134` -- [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "present_in_taxon" +#### Added +- [mesenchymal stem cell](http://purl.obolibrary.org/obo/CL_0000134) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009081" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "S present_in_taxon T if some instance of T has some S. This does not means that all instances of T have an S - it may only be certain life stages or sexes that have S." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "https://orcid.org/0000-0002-6601-2165" -- [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [is_metadata_tag](http://www.geneontology.org/formats/oboInOwl#is_metadata_tag) true +### mesenchymal stem cell migration `http://purl.obolibrary.org/obo/GO_1905319` -- [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +#### Added +- [mesenchymal stem cell migration](http://purl.obolibrary.org/obo/GO_1905319) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [id](http://www.geneontology.org/formats/oboInOwl#id) "present_in_taxon" -- [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "applicable for taxon" +### mesenchymal-epithelial cell signaling involved in prostate gland development `http://purl.obolibrary.org/obo/GO_0060739` +#### Removed +- [mesenchymal-epithelial cell signaling involved in prostate gland development](http://purl.obolibrary.org/obo/GO_0060739) SubClassOf [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) -- [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [label](http://www.w3.org/2000/01/rdf-schema#label) "present_in_taxon" -- [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002175" -- [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [is_class_level](http://www.geneontology.org/formats/oboInOwl#is_class_level) true +### mesenchyme condensation cell `http://purl.obolibrary.org/obo/CL_0000335` -- [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [22293552](http://www.ncbi.nlm.nih.gov/pubmed/22293552) +#### Added +- [mesenchyme condensation cell](http://purl.obolibrary.org/obo/CL_0000335) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009166" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +### mesenchyme of lower jaw `http://purl.obolibrary.org/obo/UBERON_0003324` -### presomitic mesoderm `http://purl.obolibrary.org/obo/UBERON_0003059` -#### Removed -- [presomitic mesoderm](http://purl.obolibrary.org/obo/UBERON_0003059) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "It is reasonable to assume that the proximate invertebrate ancestor of the vertebrates had an amphioxus-like tail bud in its larval stage. This archetypal tail bud would have (...) (3) lacked any component of mesenchyme cells, (4) budded off new mesodermal segments directly, without any intervening zone of presomitic mesoderm (...). Then, early in vertebrate evolution, epithelium-to-mesenchyme interconversions (and the gene networks for effecting them) became prominent features of development. (...) In any case, conspicuous mesenchymal components tended to be added to the vertebrate tail bud itself. In addition, a mesenchymatous presomitic mesoderm (not a part of the tail bud proper) came to intervene between the tail bud and the forming somites.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [mesenchyme of lower jaw](http://purl.obolibrary.org/obo/UBERON_0003324) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### mesenchyme of upper jaw `http://purl.obolibrary.org/obo/UBERON_0003323` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1006/dbio.2001.0460 Schubert M, Holland LZ, Dale Stokes M and Holland ND, Three Amphoxius Wnt Genes (AmphiWnt3, AmphiWnt5, and AmphiWnt6) Associated with the Tail Bud: the Evolution of Somitogenesis in Chordates. Developmental Biology (2001)" +#### Added +- [mesenchyme of upper jaw](http://purl.obolibrary.org/obo/UBERON_0003323) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000559" -- [presomitic mesoderm](http://purl.obolibrary.org/obo/UBERON_0003059) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +### meso-epithelial cell `http://purl.obolibrary.org/obo/CL_0002078` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [meso-epithelial cell](http://purl.obolibrary.org/obo/CL_0002078) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009388" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [meso-epithelial cell](http://purl.obolibrary.org/obo/CL_0002078) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000279" +### mesoderm `http://purl.obolibrary.org/obo/UBERON_0000926` +#### Added +- [mesoderm](http://purl.obolibrary.org/obo/UBERON_0000926) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000126" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### presumptive endocardium `http://purl.obolibrary.org/obo/UBERON_0007280` -#### Removed -- [presumptive endocardium](http://purl.obolibrary.org/obo/UBERON_0007280) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of tissue that is part of the heart tube and will become the endocardium.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002233" +### mesoderm-derived structure `http://purl.obolibrary.org/obo/UBERON_0004120` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### mesodermal cell `http://purl.obolibrary.org/obo/CL_0000222` +#### Added +- [mesodermal cell](http://purl.obolibrary.org/obo/CL_0000222) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009138" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### presumptive gut `http://purl.obolibrary.org/obo/UBERON_0007026` -#### Removed -- [presumptive gut](http://purl.obolibrary.org/obo/UBERON_0007026) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The endodermal cells generate only the lining of the digestive tube and its glands; mesodermal mesenchyme cells will surround this tube to provide the muscles for peristalsis" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "NCBIBook:NBK10107" +### mesodermal cell migration `http://purl.obolibrary.org/obo/GO_0008078` +#### Added +- [mesodermal cell migration](http://purl.obolibrary.org/obo/GO_0008078) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### presumptive hindbrain `http://purl.obolibrary.org/obo/UBERON_0007277` -#### Removed -- [presumptive hindbrain](http://purl.obolibrary.org/obo/UBERON_0007277) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The embryonic rhombencephalon can be subdivided in a variable number of transversal swellings called rhombomeres. Rhombomeres Rh7-Rh4 form the myelencephalon that will give the medulla oblongata. Rhombomeres Rh3-Rh1 form the metencephalon that will form the pons and the cerebellum[NPX:PDR]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "NPX:PDR" +### mesonephric nephron tubule epithelial cell `http://purl.obolibrary.org/obo/CL_1000022` +#### Added +- [mesonephric nephron tubule epithelial cell](http://purl.obolibrary.org/obo/CL_1000022) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any epithelial cell that is part of some mesonephric nephron tubule." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### presumptive neural plate `http://purl.obolibrary.org/obo/UBERON_0007284` -#### Removed -- [presumptive neural plate](http://purl.obolibrary.org/obo/UBERON_0007284) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Region of the gastrula which gives rise to the neural plate.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000063" +### mesothelial cell `http://purl.obolibrary.org/obo/CL_0000077` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [mesothelial cell](http://purl.obolibrary.org/obo/CL_0000077) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009040" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### metabolic process `http://purl.obolibrary.org/obo/GO_0008152` +#### Removed +- [metabolic process](http://purl.obolibrary.org/obo/GO_0008152) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) +#### Added +- [metabolic process](http://purl.obolibrary.org/obo/GO_0008152) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -### presumptive neural retina `http://purl.obolibrary.org/obo/UBERON_0005425` -#### Removed -- [presumptive neural retina](http://purl.obolibrary.org/obo/UBERON_0005425) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429" +- [metabolic process](http://purl.obolibrary.org/obo/GO_0008152) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/26424"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [metabolic process](http://purl.obolibrary.org/obo/GO_0008152) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [metabolic process](http://purl.obolibrary.org/obo/GO_0008152) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000490" +### metanephric mesenchyme stem cell `http://purl.obolibrary.org/obo/CL_0000324` #### Added -- [presumptive neural retina](http://purl.obolibrary.org/obo/UBERON_0005425) SubClassOf [immature eye](http://purl.obolibrary.org/obo/UBERON_0010312) - +- [metanephric mesenchyme stem cell](http://purl.obolibrary.org/obo/CL_0000324) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### presumptive retinal pigmented epithelium `http://purl.obolibrary.org/obo/UBERON_0005424` -#### Removed -- [presumptive retinal pigmented epithelium](http://purl.obolibrary.org/obo/UBERON_0005424) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### metanephric nephron tubule epithelial cell `http://purl.obolibrary.org/obo/CL_1000123` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [metanephric nephron tubule epithelial cell](http://purl.obolibrary.org/obo/CL_1000123) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any epithelial cell that is part of some metanephric nephron tubule." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000492" +### metanephros induced blastemal cells `http://purl.obolibrary.org/obo/UBERON_0010531` #### Added -- [presumptive retinal pigmented epithelium](http://purl.obolibrary.org/obo/UBERON_0005424) SubClassOf [immature eye](http://purl.obolibrary.org/obo/UBERON_0010312) - +- [metanephros induced blastemal cells](http://purl.obolibrary.org/obo/UBERON_0010531) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### presumptive segmental plate `http://purl.obolibrary.org/obo/UBERON_0007282` -#### Removed -- [presumptive segmental plate](http://purl.obolibrary.org/obo/UBERON_0007282) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [trunk paraxial mesoderm](http://purl.obolibrary.org/obo/UBERON_0009618) - - [consistent_with](http://www.geneontology.org/formats/oboInOwl#consistent_with) "https://github.com/obophenotype/uberon/wiki/The-neural-crest" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EDHAA2" +### microcirculation associated smooth muscle cell `http://purl.obolibrary.org/obo/CL_0008035` #### Added -- [presumptive segmental plate](http://purl.obolibrary.org/obo/UBERON_0007282) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [trunk paraxial mesoderm](http://purl.obolibrary.org/obo/UBERON_0009618) +- [microcirculation associated smooth muscle cell](http://purl.obolibrary.org/obo/CL_0008035) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any vascular associated smooth muscle cell that is part of some microcirculatory vessel." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### primary circulatory organ `http://purl.obolibrary.org/obo/UBERON_0007100` +### microglial cell `http://purl.obolibrary.org/obo/CL_0000129` #### Removed -- [primary circulatory organ](http://purl.obolibrary.org/obo/UBERON_0007100) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "note we reserve the subclass 'heart' from the vertebrate multi-chambered heart. 'The first heart-like organ is believed to have appeared 500my ago in an ancestral bilaterian'. Amniotes: four-chambered heart. Amphibians: two atria, one ventricle, pulmonary; fish: single atrium and ventricle; amphioxus: tubular, non-striated, closed, unidirectional; ascidians: tubular, striated, open, bidirectional; arthropods: tubular, open; C elegans: contractile pharynx; Cnideria: striated muscle cells associated with gastrodermis" +- [microglial cell](http://purl.obolibrary.org/obo/CL_0000129) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) + +#### Added +- [microglial cell](http://purl.obolibrary.org/obo/CL_0000129) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009077" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [primary circulatory organ](http://purl.obolibrary.org/obo/UBERON_0007100) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "SPD:0000130" -- [primary circulatory organ](http://purl.obolibrary.org/obo/UBERON_0007100) SubClassOf [capable of](http://purl.obolibrary.org/obo/RO_0002215) some [blood circulation](http://purl.obolibrary.org/obo/GO_0008015) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "GO uses blood circulation generically to include the haemolymphatic fluid of arthropods" +### micropylar cell `http://purl.obolibrary.org/obo/CL_0007022` #### Added -- [primary circulatory organ](http://purl.obolibrary.org/obo/UBERON_0007100) SubClassOf [capable of](http://purl.obolibrary.org/obo/RO_0002215) some [blood circulation](http://purl.obolibrary.org/obo/GO_0008015) +- [micropylar cell](http://purl.obolibrary.org/obo/CL_0007022) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005239" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### primary heart field `http://purl.obolibrary.org/obo/UBERON_0004140` -#### Removed -- [primary heart field](http://purl.obolibrary.org/obo/UBERON_0004140) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "this term denotes the primary heart field; GO:0003128 denotes the superclass of primary and secondary: specific region of the lateral mesoderm into the area which will form the primary beating heart tube[GO:0003138]" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "GO" +### microtubule polymerization based movement `http://purl.obolibrary.org/obo/GO_0099098` #### Added -- [primary heart field](http://purl.obolibrary.org/obo/UBERON_0004140) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - +- [microtubule polymerization based movement](http://purl.obolibrary.org/obo/GO_0099098) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### primary motor cortex `http://purl.obolibrary.org/obo/UBERON_0001384` -#### Removed -- [primary motor cortex](http://purl.obolibrary.org/obo/UBERON_0001384) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The part of the cerebral cortex that receives projections from the motor thalamus and which projects to motor neurons in the brainstem and spinal cord. The motor cortex corresponds to Brodmann's area 4 (MM). The primary motor cortex, or M1, is located on the precentral gyrus and on the anterior paracentral lobule on the medial surface of the brain. Of the three motor cortex areas, stimulation of the primary motor cortex requires the least amount of electrical current to elicit a movement. http://neuroscience.uth.tmc.edu/s3/chapter03.html" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "NLX:143555" -- [primary motor cortex](http://purl.obolibrary.org/obo/UBERON_0001384) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "the area of the frontal lobe that is involved with integration of voluntary movements and with speech.[MP]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MGI:csmith" +### microvillous olfactory receptor neuron `http://purl.obolibrary.org/obo/CL_0000848` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-31" +#### Added +- [microvillous olfactory receptor neuron](http://purl.obolibrary.org/obo/CL_0000848) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009359" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "MP" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "MP:0000800" +### midbrain hindbrain boundary neural plate `http://purl.obolibrary.org/obo/UBERON_0009615` +#### Added +- [midbrain hindbrain boundary neural plate](http://purl.obolibrary.org/obo/UBERON_0009615) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### primary motor cortex layer 5 `http://purl.obolibrary.org/obo/UBERON_0022315` -#### Removed -- [primary motor cortex layer 5](http://purl.obolibrary.org/obo/UBERON_0022315) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "Note that in some lamination schemes, more particularly so in primates, this layer is referred to as layer IV thus resulting in some confusion when compared to the present scheme where the lamina dissecans is referred to layer IV[DOI:10.1155/2008/381243]" +### midbrain morphogenesis `http://purl.obolibrary.org/obo/GO_1904693` +#### Added +- [midbrain morphogenesis](http://purl.obolibrary.org/obo/GO_1904693) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### primary nodular lymphoid tissue `http://purl.obolibrary.org/obo/UBERON_0010422` -#### Removed -- [primary nodular lymphoid tissue](http://purl.obolibrary.org/obo/UBERON_0010422) [UBPROP_0000015](http://purl.obolibrary.org/obo/UBPROP_0000015) "The cortex of lymph nodes, the white pulp of spleen, and mucosa associated lymphoid tissue all have these primary follicles" +### midbrain-hindbrain boundary morphogenesis `http://purl.obolibrary.org/obo/GO_0021555` +#### Added +- [midbrain-hindbrain boundary morphogenesis](http://purl.obolibrary.org/obo/GO_0021555) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### primary ovarian follicle `http://purl.obolibrary.org/obo/UBERON_0000035` +### middle ear morphogenesis `http://purl.obolibrary.org/obo/GO_0042474` #### Added -- [primary ovarian follicle](http://purl.obolibrary.org/obo/UBERON_0000035) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +- [middle ear morphogenesis](http://purl.obolibrary.org/obo/GO_0042474) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### primitive heart tube `http://purl.obolibrary.org/obo/UBERON_0005498` -#### Removed -- [primitive heart tube](http://purl.obolibrary.org/obo/UBERON_0005498) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0006179" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### midgut `http://purl.obolibrary.org/obo/UBERON_0001045` - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +#### Added +- [midgut](http://purl.obolibrary.org/obo/UBERON_0001045) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005383" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) +### migrating mesenchyme population `http://purl.obolibrary.org/obo/UBERON_0007530` +#### Added +- [migrating mesenchyme population](http://purl.obolibrary.org/obo/UBERON_0007530) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### primitive nephron `http://purl.obolibrary.org/obo/UBERON_0010532` -#### Removed -- [primitive nephron](http://purl.obolibrary.org/obo/UBERON_0010532) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "EHDAA2 treats this as already having a tubular structure, but in the ZFA representation this is a cluster of cells" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" +### migratory cranial neural crest cell `http://purl.obolibrary.org/obo/CL_0000008` +#### Added +- [migratory cranial neural crest cell](http://purl.obolibrary.org/obo/CL_0000008) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0007091" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### primitive olfactory epithelium `http://purl.obolibrary.org/obo/UBERON_2001431` -#### Removed -- [primitive olfactory epithelium](http://purl.obolibrary.org/obo/UBERON_2001431) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (teleost_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/tao.owl" -- [primitive olfactory epithelium](http://purl.obolibrary.org/obo/UBERON_2001431) SubClassOf [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) +### migratory neural crest cell `http://purl.obolibrary.org/obo/CL_0000333` #### Added -- [primitive olfactory epithelium](http://purl.obolibrary.org/obo/UBERON_2001431) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) +- [migratory neural crest cell](http://purl.obolibrary.org/obo/CL_0000333) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0007086" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### primitive sex cord of indifferent gonad `http://purl.obolibrary.org/obo/UBERON_0010141` -#### Removed -- [primitive sex cord of indifferent gonad](http://purl.obolibrary.org/obo/UBERON_0010141) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "note that this represents the indifferent structure." +### migratory trunk neural crest cell `http://purl.obolibrary.org/obo/CL_0000011` +#### Added +- [migratory trunk neural crest cell](http://purl.obolibrary.org/obo/CL_0000011) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0007095" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### primitive streak `http://purl.obolibrary.org/obo/UBERON_0004341` +### milk `http://purl.obolibrary.org/obo/UBERON_0001913` #### Removed -- [primitive streak](http://purl.obolibrary.org/obo/UBERON_0004341) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [Teleostei](http://purl.obolibrary.org/obo/NCBITaxon_32443) +- [milk](http://purl.obolibrary.org/obo/UBERON_0001913) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [primitive streak](http://purl.obolibrary.org/obo/UBERON_0004341) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D054240" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +#### Added +- [milk](http://purl.obolibrary.org/obo/UBERON_0001913) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +### mineralocorticoid secreting cell `http://purl.obolibrary.org/obo/CL_0000456` + +#### Added +- [mineralocorticoid secreting cell](http://purl.obolibrary.org/obo/CL_0000456) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any secretory cell that is capable of some mineralocorticoid secretion." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [primitive streak](http://purl.obolibrary.org/obo/UBERON_0004341) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "VHOG includes a very broad grouping here based on http://www.ncbi.nlm.nih.gov/pubmed/9609826" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "VHOG" -- [primitive streak](http://purl.obolibrary.org/obo/UBERON_0004341) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) the blastopore equivalent of chordates (germ ring in fish, marginal zone/blastopore lip in frog and node/primitive streak in chick and mouse) (...) (reference 1); Indeed, the primitive streak has been considered the homologue of the blastopore since the 1870s (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### mitotic cell cycle `http://purl.obolibrary.org/obo/GO_0000278` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [mitotic cell cycle](http://purl.obolibrary.org/obo/GO_0000278) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001202" +### modified amino acid binding `http://purl.obolibrary.org/obo/GO_0072341` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:9609826 Wu LH, Lengyel JA, Role of caudal in hindgut specification and gastrulation suggests homology between Drosophila amnioproctodeal invagination and vertebrate blastopore. Development (1998), ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.139" +#### Added +- [modified amino acid binding](http://purl.obolibrary.org/obo/GO_0072341) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### modified amino acid transport `http://purl.obolibrary.org/obo/GO_0072337` -### primitive urogenital sinus `http://purl.obolibrary.org/obo/UBERON_0000164` -#### Removed -- [primitive urogenital sinus](http://purl.obolibrary.org/obo/UBERON_0000164) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In mammals the lowly monotremes still have a cloaca. Higher types have done away with this structure and have a separate anal outlet for the rectum. The monotreme cloaca shows the initiation of this subdivision. The cloaca has such includes only the distal part, roughly comparable to the proctodeum. The more proximal part is divided into (1) a large dorsal passage into which the intestine opens, the coprodeum, and (2) a ventral portion, the urodeum with which the bladder connects. (...) the development of the placental mammals recapitulates in many respects the phylogenetic story. In the sexually indifferent stage of placental mammal there is a cloaca. While the indifferent stage still persists, a septum develops, and extends out to the closing membrane. This divides the cloaca into two chambers: a coprodeum continuous with the gut above, and a urodeum or urogenital sinus below.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [modified amino acid transport](http://purl.obolibrary.org/obo/GO_0072337) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [modified amino acid transport](http://purl.obolibrary.org/obo/GO_0072337) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000414" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### molecular adaptor activity `http://purl.obolibrary.org/obo/GO_0060090` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0721676678 Romer AS, Vertebrate body (1970)p.388-89 and Figure 300" +#### Added +- [molecular adaptor activity](http://purl.obolibrary.org/obo/GO_0060090) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) -- [primitive urogenital sinus](http://purl.obolibrary.org/obo/UBERON_0000164) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "the term 'urogenital sinus' may refer to the primitive urogenital sinus present as a transient developmental structure in most mammals or it may refer to a condition in which an unseptated cloaca persists in animals longer than normal" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP" +- [molecular adaptor activity](http://purl.obolibrary.org/obo/GO_0060090) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) -- [primitive urogenital sinus](http://purl.obolibrary.org/obo/UBERON_0000164) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The ventral part of the cloaca after its separation from the rectum, giving rise to the lower part of the bladder in both sexes, to the prostatic portion of the male urethra, and to the urethra and vestibule in the female. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/urogenital+sinus" +- [molecular adaptor activity](http://purl.obolibrary.org/obo/GO_0060090) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### molecular interaction relation helper property `http://purl.obolibrary.org/obo/RO_0002564` +#### Removed +- [molecular interaction relation helper property](http://purl.obolibrary.org/obo/RO_0002564) [label](http://www.w3.org/2000/01/rdf-schema#label) "molecular interaction relation helper property" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000414" +- ObjectProperty: [molecular interaction relation helper property](http://purl.obolibrary.org/obo/RO_0002564) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [molecular interaction relation helper property](http://purl.obolibrary.org/obo/RO_0002564) SubPropertyOf: [interaction relation helper property](http://purl.obolibrary.org/obo/RO_0002563) -### primordium `http://purl.obolibrary.org/obo/UBERON_0001048` +### molecular transducer activity `http://purl.obolibrary.org/obo/GO_0060089` #### Removed -- [primordium](http://purl.obolibrary.org/obo/UBERON_0001048) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005495" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [molecular transducer activity](http://purl.obolibrary.org/obo/GO_0060089) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) +#### Added +- [molecular transducer activity](http://purl.obolibrary.org/obo/GO_0060089) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -### principal gastric gland `http://purl.obolibrary.org/obo/UBERON_0009971` +### molecularly interacts with `http://purl.obolibrary.org/obo/RO_0002436` #### Removed -- [principal gastric gland](http://purl.obolibrary.org/obo/UBERON_0009971) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA has this as part of both the fundus and the body, but these are largely spatially disjoint." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - +- [molecularly interacts with](http://purl.obolibrary.org/obo/RO_0002436) [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) [ECO_0000353](http://purl.obolibrary.org/obo/ECO_0000353) +- [molecularly interacts with](http://purl.obolibrary.org/obo/RO_0002436) [label](http://www.w3.org/2000/01/rdf-schema#label) "molecularly interacts with" -### process has causal agent `http://purl.obolibrary.org/obo/RO_0002608` -#### Removed -- [process has causal agent](http://purl.obolibrary.org/obo/RO_0002608) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [causal-relations](http://purl.obolibrary.org/obo/ro/docs/causal-relations) +- [molecularly interacts with](http://purl.obolibrary.org/obo/RO_0002436) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." +- ObjectProperty: [molecularly interacts with](http://purl.obolibrary.org/obo/RO_0002436) +- [molecularly interacts with](http://purl.obolibrary.org/obo/RO_0002436) SubPropertyOf: [interacts with](http://purl.obolibrary.org/obo/RO_0002434) -### process of vertebra `http://purl.obolibrary.org/obo/UBERON_0006061` -#### Removed -- [process of vertebra](http://purl.obolibrary.org/obo/UBERON_0006061) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "NCIT:C116112" +- Symmetric: [molecularly interacts with](http://purl.obolibrary.org/obo/RO_0002436) -### proctodeum `http://purl.obolibrary.org/obo/UBERON_0000931` -#### Removed -- [proctodeum](http://purl.obolibrary.org/obo/UBERON_0000931) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "proctodeal" +### monoatomic cation channel activity `http://purl.obolibrary.org/obo/GO_0005261` -- [proctodeum](http://purl.obolibrary.org/obo/UBERON_0000931) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000123" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +#### Added +- [monoatomic cation channel activity](http://purl.obolibrary.org/obo/GO_0005261) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-9837835" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "SH pentamer transports K+" -- [proctodeum](http://purl.obolibrary.org/obo/UBERON_0000931) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An inward fold on the surface of the embryonic ectoderm that develops into part of the anal passage.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### monoatomic cation transport `http://purl.obolibrary.org/obo/GO_0006812` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [monoatomic cation transport](http://purl.obolibrary.org/obo/GO_0006812) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000066" -- [proctodeum](http://purl.obolibrary.org/obo/UBERON_0000931) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Inward fold on the surface of the embryonic ectoderm that develops into part of the anal passage.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA:0000066" +### monoatomic ion transport `http://purl.obolibrary.org/obo/GO_0006811` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [monoatomic ion transport](http://purl.obolibrary.org/obo/GO_0006811) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0011087" +### monoblast `http://purl.obolibrary.org/obo/CL_0000040` +#### Removed +- [monoblast](http://purl.obolibrary.org/obo/CL_0000040) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +#### Added +- [monoblast](http://purl.obolibrary.org/obo/CL_0000040) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009017" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### produced by `http://purl.obolibrary.org/obo/RO_0003001` -#### Removed -- [produced by](http://purl.obolibrary.org/obo/RO_0003001) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) +### monocarboxylic acid binding `http://purl.obolibrary.org/obo/GO_0033293` -- [produced by](http://purl.obolibrary.org/obo/RO_0003001) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0001-9114-8737](https://orcid.org/0000-0001-9114-8737) +#### Added +- [monocarboxylic acid binding](http://purl.obolibrary.org/obo/GO_0033293) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [produced by](http://purl.obolibrary.org/obo/RO_0003001) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +### monocyte `http://purl.obolibrary.org/obo/CL_0000576` +#### Added +- [monocyte](http://purl.obolibrary.org/obo/CL_0000576) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009265" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### produces `http://purl.obolibrary.org/obo/RO_0003000` -#### Removed -- [produces](http://purl.obolibrary.org/obo/RO_0003000) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0001-9114-8737](https://orcid.org/0000-0001-9114-8737) -- [produces](http://purl.obolibrary.org/obo/RO_0003000) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +### monocyte antigen processing and presentation `http://purl.obolibrary.org/obo/GO_0002471` -- [produces](http://purl.obolibrary.org/obo/RO_0003000) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) +#### Added +- [monocyte antigen processing and presentation](http://purl.obolibrary.org/obo/GO_0002471) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### mononuclear cell `http://purl.obolibrary.org/obo/CL_0000842` -### proenkephalin-B `http://purl.obolibrary.org/obo/PR_000012526` -#### Removed -- [proenkephalin-B](http://purl.obolibrary.org/obo/PR_000012526) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [proenkephalin-B (human)](http://purl.obolibrary.org/obo/PR_P01213) +#### Added +- [mononuclear cell](http://purl.obolibrary.org/obo/CL_0000842) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009357" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +### mononuclear odontoclast `http://purl.obolibrary.org/obo/CL_0000781` -### proepicardium `http://purl.obolibrary.org/obo/UBERON_0004160` -#### Removed -- [proepicardium](http://purl.obolibrary.org/obo/UBERON_0004160) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Proepicardial clusters in Zebrafish form on the pericardial wall, adjacent to the atrioventricular (AV) junction and near the venous pole[ZFA]" +#### Added +- [mononuclear odontoclast](http://purl.obolibrary.org/obo/CL_0000781) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009330" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [proepicardium](http://purl.obolibrary.org/obo/UBERON_0004160) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "propepicardial" -- [proepicardium](http://purl.obolibrary.org/obo/UBERON_0004160) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [septum transversum](http://purl.obolibrary.org/obo/UBERON_0004161) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "todo check other taxa" +### mononuclear osteoclast `http://purl.obolibrary.org/obo/CL_0000778` #### Added -- [proepicardium](http://purl.obolibrary.org/obo/UBERON_0004160) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [septum transversum](http://purl.obolibrary.org/obo/UBERON_0004161) +- [mononuclear osteoclast](http://purl.obolibrary.org/obo/CL_0000778) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009329" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### programmed cell death protein 1 `http://purl.obolibrary.org/obo/PR_000001919` -#### Removed -- [programmed cell death protein 1](http://purl.obolibrary.org/obo/PR_000001919) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [programmed cell death protein 1 (human)](http://purl.obolibrary.org/obo/PR_Q15116) +### mononuclear phagocyte `http://purl.obolibrary.org/obo/CL_0000113` +#### Added +- [mononuclear phagocyte](http://purl.obolibrary.org/obo/CL_0000113) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009064" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### prolactin `http://purl.obolibrary.org/obo/PR_000013246` -#### Removed -- [prolactin](http://purl.obolibrary.org/obo/PR_000013246) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [prolactin (human)](http://purl.obolibrary.org/obo/PR_P01236) +### motile cell `http://purl.obolibrary.org/obo/CL_0000219` +#### Added +- [motile cell](http://purl.obolibrary.org/obo/CL_0000219) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009136" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### prominin-1 `http://purl.obolibrary.org/obo/PR_000001786` +### motor neuron `http://purl.obolibrary.org/obo/CL_0000100` #### Removed -- [prominin-1](http://purl.obolibrary.org/obo/PR_000001786) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [prominin-1 (human)](http://purl.obolibrary.org/obo/PR_O43490) +- [motor neuron](http://purl.obolibrary.org/obo/CL_0000100) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005123" + +#### Added +- [motor neuron](http://purl.obolibrary.org/obo/CL_0000100) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005123" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [motor neuron](http://purl.obolibrary.org/obo/CL_0000100) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009052" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### pronephric duct `http://purl.obolibrary.org/obo/UBERON_0003060` -#### Removed -- [pronephric duct](http://purl.obolibrary.org/obo/UBERON_0003060) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Duct of the embryonic kidney, present bilaterally ventral to the somites and leading to the anal region where it empties separately from, and just posterior to the anus. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +### mouth `http://purl.obolibrary.org/obo/UBERON_0000165` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000150" +#### Added +- [mouth](http://purl.obolibrary.org/obo/UBERON_0000165) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00003126" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [mouth](http://purl.obolibrary.org/obo/UBERON_0000165) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" -- [pronephric duct](http://purl.obolibrary.org/obo/UBERON_0003060) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) in all craniates, the archinephric duct develops in embryogeny.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### mucopolysaccharide metabolic process `http://purl.obolibrary.org/obo/GO_1903510` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [mucopolysaccharide metabolic process](http://purl.obolibrary.org/obo/GO_1903510) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.686" +### mucosa `http://purl.obolibrary.org/obo/UBERON_0000344` +#### Removed +- [mucosa](http://purl.obolibrary.org/obo/UBERON_0000344) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000082" -- [pronephric duct](http://purl.obolibrary.org/obo/UBERON_0003060) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0005991" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +### mucus secreting cell `http://purl.obolibrary.org/obo/CL_0000319` - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) +#### Added +- [mucus secreting cell](http://purl.obolibrary.org/obo/CL_0000319) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009159" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [pronephric duct](http://purl.obolibrary.org/obo/UBERON_0003060) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The first-formed kidney duct, which drains the kidney of most anamniotes and becomes the ductus deferens of male amniotes. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-3, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [mucus secreting cell](http://purl.obolibrary.org/obo/CL_0000319) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any secretory cell that is capable of some mucus secretion." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### mucus secretion `http://purl.obolibrary.org/obo/GO_0070254` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000082" +#### Added +- [mucus secretion](http://purl.obolibrary.org/obo/GO_0070254) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [pronephric duct](http://purl.obolibrary.org/obo/UBERON_0003060) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VHOG:0000082" +### multi cell part structure `http://purl.obolibrary.org/obo/UBERON_0005162` +#### Added +- [multi cell part structure](http://purl.obolibrary.org/obo/UBERON_0005162) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007060" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### pronephric glomerulus `http://purl.obolibrary.org/obo/UBERON_0004739` -#### Removed -- [pronephric glomerulus](http://purl.obolibrary.org/obo/UBERON_0004739) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "a glomus differs from a glomerulus in that each vascular glomus services several tubules" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0073040584" -- [pronephric glomerulus](http://purl.obolibrary.org/obo/UBERON_0004739) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "GO treats glomus and pronephric glomerulus differently" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "GO" +### multi fate stem cell `http://purl.obolibrary.org/obo/CL_0000048` -- [pronephric glomerulus](http://purl.obolibrary.org/obo/UBERON_0004739) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Paired highly vascularized portion of the pronephros. Left and right glomeruli are fused at the midline. Begins to function between 40 and 48hpf. Drummond, 2000.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +#### Added +- [multi fate stem cell](http://purl.obolibrary.org/obo/CL_0000048) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009020" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001557" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### multi-ciliated epithelial cell `http://purl.obolibrary.org/obo/CL_0005012` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [multi-ciliated epithelial cell](http://purl.obolibrary.org/obo/CL_0005012) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005242" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [pronephric glomerulus](http://purl.obolibrary.org/obo/UBERON_0004739) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The teleost pronephros shares many essential features with the amphibian pronephros including its derivation from mesoderm associated with the coelom and the derivation of the glomerular blood supply from the medial dorsal aorta. However, unlike the pronephros of amphibians, which have an external glomus and tubules with nephrostomes open to the coelom, the mature teleost pronephros has no connection to the body cavity and instead functions as a closed system (reference 1); This variation in nephron types [with external glomeruli that open into the coelom and with internal glomeruli that do not connect with the coelom] and their pattern of distribution suggest an evolutionary sequence. Ancestral craniates probably had an external glomerulus and nephrostomes, as do the first few to develop in very primitive craniates. (...) The mechanism would become more efficient as the coelomic recess into which each glomerulus discharged became a part of the tubule, that is, grew around the glomerulus as a renal capsule. The glomerulus becomes internal. The nephrostomes were lost during subsequent evolution, leaving the type of renal tubule found in most vertebrates (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### multi-limb segment region `http://purl.obolibrary.org/obo/UBERON_0006058` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [multi-limb segment region](http://purl.obolibrary.org/obo/UBERON_0006058) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:9806915 Drummond IA, Majumdar A, Hentschel H, Elger M, Solnica-Krezel L, Schier AF, Neuhauss SCF, Stemple DL, Zwartkruis F, Rangini Z, Driever W, Fishman MC, Early development of the zebrafish pronephros and analysis of mutations affecting pronephric function. Development (1998), ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.636" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001237" +### multi-potent skeletal muscle stem cell `http://purl.obolibrary.org/obo/CL_0000355` +#### Added +- [multi-potent skeletal muscle stem cell](http://purl.obolibrary.org/obo/CL_0000355) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009179" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### pronephric mesoderm `http://purl.obolibrary.org/obo/UBERON_0005721` -#### Removed -- [pronephric mesoderm](http://purl.obolibrary.org/obo/UBERON_0005721) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of tissue that consists of the mesenchymal precursor to the pronephric kidney and that begins to separate from the intermediate mesoderm at NF stage 21 and epithelializes by NF stage 30.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "XAO:curator" +### multi-tissue structure `http://purl.obolibrary.org/obo/UBERON_0000481` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [multi-tissue structure](http://purl.obolibrary.org/obo/UBERON_0000481) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007010" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0011090" +### multicellular anatomical structure `http://purl.obolibrary.org/obo/UBERON_0010000` #### Added -- [pronephric mesoderm](http://purl.obolibrary.org/obo/UBERON_0005721) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [multicellular anatomical structure](http://purl.obolibrary.org/obo/UBERON_0010000) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00100313" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### pronephric nephron `http://purl.obolibrary.org/obo/UBERON_0005309` -#### Removed -- [pronephric nephron](http://purl.obolibrary.org/obo/UBERON_0005309) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The structure that is the basic functional unit of the pronephros.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### multicellular organism `http://purl.obolibrary.org/obo/UBERON_0000468` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [multicellular organism](http://purl.obolibrary.org/obo/UBERON_0000468) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000001" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "UBERON:0005309" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0011091" +### multicellular organism growth `http://purl.obolibrary.org/obo/GO_0035264` #### Added -- [pronephric nephron](http://purl.obolibrary.org/obo/UBERON_0005309) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [multicellular organism growth](http://purl.obolibrary.org/obo/GO_0035264) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### pronephric nephron tubule `http://purl.obolibrary.org/obo/UBERON_0005310` +### multicellular organism reproduction `http://purl.obolibrary.org/obo/GO_0032504` #### Removed -- [pronephric nephron tubule](http://purl.obolibrary.org/obo/UBERON_0005310) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Bilaterally paired tubes connecting the pronephric glomeruli to the pronephric ducts. In zebrafish and other teleosts, the pronephric nephron and tubules form after the pronephric duct, connecting to the anterior-most tip of the pronephric ducts. Drummond, 2000.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [multicellular organism reproduction](http://purl.obolibrary.org/obo/GO_0032504) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0032504" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001558" +- [multicellular organism reproduction](http://purl.obolibrary.org/obo/GO_0032504) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_drosophila](http://purl.obolibrary.org/obo/go#goslim_drosophila) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [multicellular organism reproduction](http://purl.obolibrary.org/obo/GO_0032504) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The biological process in which new individuals are produced by one or two multicellular organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:jid" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:isa_complete" -- [pronephric nephron tubule](http://purl.obolibrary.org/obo/UBERON_0005310) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [Amniota](http://purl.obolibrary.org/obo/NCBITaxon_32524) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0073040584" +- [multicellular organism reproduction](http://purl.obolibrary.org/obo/GO_0032504) [label](http://www.w3.org/2000/01/rdf-schema#label) "multicellular organism reproduction" -#### Added -- [pronephric nephron tubule](http://purl.obolibrary.org/obo/UBERON_0005310) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) +- [multicellular organism reproduction](http://purl.obolibrary.org/obo/GO_0032504) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" +- Class: [multicellular organism reproduction](http://purl.obolibrary.org/obo/GO_0032504) -### pronephros `http://purl.obolibrary.org/obo/UBERON_0002120` -#### Removed -- [pronephros](http://purl.obolibrary.org/obo/UBERON_0002120) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organ that serves as a transient kidney, providing osmoregulation during early developmental stages and then degenerating during metamorphosis.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "XAO:curator" +- [multicellular organism reproduction](http://purl.obolibrary.org/obo/GO_0032504) DisjointWith [reproduction of a single-celled organism](http://purl.obolibrary.org/obo/GO_0032505) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [multicellular organism reproduction](http://purl.obolibrary.org/obo/GO_0032504) SubClassOf [multicellular organismal process](http://purl.obolibrary.org/obo/GO_0032501) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [multicellular organism reproduction](http://purl.obolibrary.org/obo/GO_0032504) SubClassOf [reproduction](http://purl.obolibrary.org/obo/GO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0011089" -- [pronephros](http://purl.obolibrary.org/obo/UBERON_0002120) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A kidney formed of nephric tubules arising in the anterior region of the nephric ridge; forms only as a transient embryonic structure. [Evolution, Fourth_Edition_(2006)_McGraw-Hill, Function, Kardong_KV, Vertebrates:_Comparative_Anatomy, p.748][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### multicellular organismal process `http://purl.obolibrary.org/obo/GO_0032501` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [multicellular organismal process](http://purl.obolibrary.org/obo/GO_0032501) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27189"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000037" +- [multicellular organismal process](http://purl.obolibrary.org/obo/GO_0032501) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." -- [pronephros](http://purl.obolibrary.org/obo/UBERON_0002120) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "pronephric" -- [pronephros](http://purl.obolibrary.org/obo/UBERON_0002120) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D060910" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### multicellular organismal reproductive process `http://purl.obolibrary.org/obo/GO_0048609` +#### Removed +- [multicellular organismal reproductive process](http://purl.obolibrary.org/obo/GO_0048609) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [multicellular organism reproduction](http://purl.obolibrary.org/obo/GO_0032504) - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) +#### Added +- [multicellular organismal reproductive process](http://purl.obolibrary.org/obo/GO_0048609) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27054"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +- [multicellular organismal reproductive process](http://purl.obolibrary.org/obo/GO_0048609) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_drosophila](http://purl.obolibrary.org/obo/go#goslim_drosophila) -- [pronephros](http://purl.obolibrary.org/obo/UBERON_0002120) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In all vertebrate embryos, the kidney begins with the differentiation of a few renal tubules from the anterior end of the nephric ridge overlying the pericardial cavity. (...) This early-developing embryonic kidney is called the pronephros.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [multicellular organismal reproductive process](http://purl.obolibrary.org/obo/GO_0048609) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### multipolar neuron `http://purl.obolibrary.org/obo/CL_0000104` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.637" +#### Added +- [multipolar neuron](http://purl.obolibrary.org/obo/CL_0000104) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009056" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000037" -- [pronephros](http://purl.obolibrary.org/obo/UBERON_0002120) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The embryonic kidney, present at the level of the third somite, is composed of two glomeruli fused at the midline, two pronephric tubules, and paired bilateral pronephric ducts that modify the composition of the blood filtrate before delivering it to the cloaca for excretion.Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +### mural cell `http://purl.obolibrary.org/obo/CL_0008034` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000151" +#### Added +- [mural cell](http://purl.obolibrary.org/obo/CL_0008034) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005944" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### muscle adaptation `http://purl.obolibrary.org/obo/GO_0043500` +#### Added +- [muscle adaptation](http://purl.obolibrary.org/obo/GO_0043500) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### proportion `http://www.geneontology.org/formats/oboInOwl#proportion` +### muscle cell `http://purl.obolibrary.org/obo/CL_0000187` #### Removed -- AnnotationProperty: [proportion](http://www.geneontology.org/formats/oboInOwl#proportion) - +- [muscle cell](http://purl.obolibrary.org/obo/CL_0000187) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005074" +#### Added +- [muscle cell](http://purl.obolibrary.org/obo/CL_0000187) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009114" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### prostate bud `http://purl.obolibrary.org/obo/UBERON_0003820` -#### Removed -- [prostate bud](http://purl.obolibrary.org/obo/UBERON_0003820) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "AR activation releases instructive signals from UGM that acts on UGS epithelium (UGE) to stimulate cell proliferation, form prostate ductal progenitors (prostatic buds), and regulate cell adhesion dynamics to permit prostatic bud outgrowth. There are three phases of prostatic budding: (1) the specification phase, when instructive developmental cues define where buds will form in the UGS, (2) the initiation phase, when prostatic buds begin to form, and (3) the elongation phase, when proliferation, cell adhesion, and cell migration coordinate outgrowth of prostatic buds into UGM. Timing of prostatic bud formation and the quantity and pattern of buds that are formed in the UGS are strictly regulated [3, 4]. The position of prostatic buds as they emerge from the UGS in utero determines the arrangement of prostate ducts in adulthood.[PMID:18977204]" +- [muscle cell](http://purl.obolibrary.org/obo/CL_0000187) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005074" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [muscle cell](http://purl.obolibrary.org/obo/CL_0000187) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### prostate duct `http://purl.obolibrary.org/obo/UBERON_0002485` -#### Removed -- [prostate duct](http://purl.obolibrary.org/obo/UBERON_0002485) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +### muscle cell migration `http://purl.obolibrary.org/obo/GO_0014812` #### Added -- [prostate duct](http://purl.obolibrary.org/obo/UBERON_0002485) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [muscle cell migration](http://purl.obolibrary.org/obo/GO_0014812) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### prostate epithelium `http://purl.obolibrary.org/obo/UBERON_0000428` +### muscle cell proliferation `http://purl.obolibrary.org/obo/GO_0033002` #### Added -- [prostate epithelium](http://purl.obolibrary.org/obo/UBERON_0000428) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [muscle cell proliferation](http://purl.obolibrary.org/obo/GO_0033002) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [prostate epithelium](http://purl.obolibrary.org/obo/UBERON_0000428) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) - -### prostate field `http://purl.obolibrary.org/obo/UBERON_0009847` +### muscle contraction `http://purl.obolibrary.org/obo/GO_0006936` #### Added -- [prostate field](http://purl.obolibrary.org/obo/UBERON_0009847) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) - +- [muscle contraction](http://purl.obolibrary.org/obo/GO_0006936) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### prostate gland `http://purl.obolibrary.org/obo/UBERON_0002367` -#### Removed -- [prostate gland](http://purl.obolibrary.org/obo/UBERON_0002367) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "prostatic" -- [prostate gland](http://purl.obolibrary.org/obo/UBERON_0002367) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +### muscle hypertrophy `http://purl.obolibrary.org/obo/GO_0014896` #### Added -- [prostate gland](http://purl.obolibrary.org/obo/UBERON_0002367) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [muscle hypertrophy](http://purl.obolibrary.org/obo/GO_0014896) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### prostate gland lateral lobe `http://purl.obolibrary.org/obo/UBERON_0013637` -#### Removed -- [prostate gland lateral lobe](http://purl.obolibrary.org/obo/UBERON_0013637) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +### muscle precursor cell `http://purl.obolibrary.org/obo/CL_0000680` +#### Added +- [muscle precursor cell](http://purl.obolibrary.org/obo/CL_0000680) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009291" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [muscle precursor cell](http://purl.obolibrary.org/obo/CL_0000680) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### prostate gland secretion `http://purl.obolibrary.org/obo/UBERON_0004796` -#### Removed -- [prostate gland secretion](http://purl.obolibrary.org/obo/UBERON_0004796) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Prostatic secretions vary among species. They are generally composed of simple sugars and are often slightly alkaline." -- [prostate gland secretion](http://purl.obolibrary.org/obo/UBERON_0004796) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "A secretion of the prostate this is slightly alkaline fluid, milky or white in appearance. Usually constitutes 20-30% of the volume of the semen along with spermatozoa and seminal vesicle fluid [Wikipedia:Prostate#Secretions]" +### muscle structure `http://purl.obolibrary.org/obo/UBERON_0005090` +#### Added +- [muscle structure](http://purl.obolibrary.org/obo/UBERON_0005090) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### prostate gland stroma `http://purl.obolibrary.org/obo/UBERON_0004184` +### musculature `http://purl.obolibrary.org/obo/UBERON_0001015` #### Added -- [prostate gland stroma](http://purl.obolibrary.org/obo/UBERON_0004184) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [musculature](http://purl.obolibrary.org/obo/UBERON_0001015) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### prostate glandular acinus `http://purl.obolibrary.org/obo/UBERON_0004179` -#### Removed -- [prostate glandular acinus](http://purl.obolibrary.org/obo/UBERON_0004179) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Concurrent with branching morphogenesis, the solid cords of epithelium formed by budding arborize and differentiate postnatally into glandular acin. The basic prostate architecture is established by puberty and acquires secretory function thereafter[PMID:18977204]" +### musculature of body `http://purl.obolibrary.org/obo/UBERON_0000383` #### Added -- [prostate glandular acinus](http://purl.obolibrary.org/obo/UBERON_0004179) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [musculature of body](http://purl.obolibrary.org/obo/UBERON_0000383) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### prostate luminal epithelium `http://purl.obolibrary.org/obo/UBERON_0011951` +### musculoskeletal movement `http://purl.obolibrary.org/obo/GO_0050881` #### Added -- [prostate luminal epithelium](http://purl.obolibrary.org/obo/UBERON_0011951) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [musculoskeletal movement](http://purl.obolibrary.org/obo/GO_0050881) [present in taxon](http://purl.obolibrary.org/obo/RO_0002175) [NCBITaxon_7227](http://purl.obolibrary.org/obo/NCBITaxon_7227) -### prostatic capsule `http://purl.obolibrary.org/obo/UBERON_0035316` +### musculoskeletal system `http://purl.obolibrary.org/obo/UBERON_0002204` #### Added -- [prostatic capsule](http://purl.obolibrary.org/obo/UBERON_0035316) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [musculoskeletal system](http://purl.obolibrary.org/obo/UBERON_0002204) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### prostatic urethra `http://purl.obolibrary.org/obo/UBERON_0001335` +### mushroom body `http://purl.obolibrary.org/obo/UBERON_0001058` #### Added -- [prostatic urethra](http://purl.obolibrary.org/obo/UBERON_0001335) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [mushroom body](http://purl.obolibrary.org/obo/UBERON_0001058) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005801" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [mushroom body](http://purl.obolibrary.org/obo/UBERON_0001058) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -### protein c-Fos `http://purl.obolibrary.org/obo/PR_000007597` -#### Removed -- [protein c-Fos](http://purl.obolibrary.org/obo/PR_000007597) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [protein c-Fos (human)](http://purl.obolibrary.org/obo/PR_P01100) +### myelinating Schwann cell `http://purl.obolibrary.org/obo/CL_0000218` + +#### Added +- [myelinating Schwann cell](http://purl.obolibrary.org/obo/CL_0000218) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009135" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### protein transmembrane transporter activity `http://purl.obolibrary.org/obo/GO_0008320` +### myeloblast `http://purl.obolibrary.org/obo/CL_0000835` #### Removed -- [protein transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0008320) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [protein transmembrane transport](http://purl.obolibrary.org/obo/GO_0071806) - - [source](http://www.geneontology.org/formats/oboInOwl#http://purl.org/dc/terms/source) "GO_REF:0000090" +- [myeloblast](http://purl.obolibrary.org/obo/CL_0000835) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) #### Added -- [protein transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0008320) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [protein transmembrane transport](http://purl.obolibrary.org/obo/GO_0071806) +- [myeloblast](http://purl.obolibrary.org/obo/CL_0000835) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009353" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### protoneuromast `http://purl.obolibrary.org/obo/UBERON_2005227` -#### Removed -- [protoneuromast](http://purl.obolibrary.org/obo/UBERON_2005227) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (teleost_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/tao.owl" - +### myeloid cell `http://purl.obolibrary.org/obo/CL_0000763` +#### Added +- [myeloid cell](http://purl.obolibrary.org/obo/CL_0000763) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009324" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### proximal convoluted tubule `http://purl.obolibrary.org/obo/UBERON_0001287` -#### Removed -- [proximal convoluted tubule](http://purl.obolibrary.org/obo/UBERON_0001287) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Renal tubule that connects to the renal corpuscle.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [myeloid cell](http://purl.obolibrary.org/obo/CL_0000763) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005290" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### myeloid cell homeostasis `http://purl.obolibrary.org/obo/GO_0002262` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [myeloid cell homeostasis](http://purl.obolibrary.org/obo/GO_0002262) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [proximal convoluted tubule](http://purl.obolibrary.org/obo/UBERON_0001287) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [proximal tubule](http://purl.obolibrary.org/obo/UBERON_0004134) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GOC:mtg_kidney_jan10" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "MA uses subclass" +### myeloid leukocyte `http://purl.obolibrary.org/obo/CL_0000766` #### Added -- [proximal convoluted tubule](http://purl.obolibrary.org/obo/UBERON_0001287) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [proximal tubule](http://purl.obolibrary.org/obo/UBERON_0004134) +- [myeloid leukocyte](http://purl.obolibrary.org/obo/CL_0000766) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009326" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### proximal epiphysis of fibula `http://purl.obolibrary.org/obo/UBERON_0008775` -#### Removed -- [proximal epiphysis of fibula](http://purl.obolibrary.org/obo/UBERON_0008775) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The upper extremity or head of the fibula is of an irregular quadrate form, presenting above a flattened articular surface, directed upward, forward, and medialward, for articulation with a corresponding surface on the lateral condyle of the tibia. On the lateral side is a thick and rough prominence continued behind into a pointed eminence, the apex, which projects upward from the posterior part of the head. The prominence, at its upper and lateral part, gives attachment to the tendon of the Biceps femoris and to the fibular collateral ligament of the knee-joint, the ligament dividing the tendon into two parts. The remaining part of the circumference of the head is rough, for the attachment of muscles and ligaments. It presents in front a tubercle for the origin of the upper and anterior fibers of the Peronæus longus, and a surface for the attachment of the anterior ligament of the head; and behind, another tubercle, for the attachment of the posterior ligament of the head and the origin of the upper fibers of the Soleus[Wikipedia:Head_of_fibula]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Head_of_fibula" +### myeloid lineage restricted progenitor cell `http://purl.obolibrary.org/obo/CL_0000839` +#### Added +- [myeloid lineage restricted progenitor cell](http://purl.obolibrary.org/obo/CL_0000839) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009356" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### proximal phalanx `http://purl.obolibrary.org/obo/UBERON_0004302` +### myeloid suppressor cell `http://purl.obolibrary.org/obo/CL_0000889` #### Removed -- [proximal phalanx](http://purl.obolibrary.org/obo/UBERON_0004302) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Proximal phalanges are bones found in the limbs of most vertebrates. In humans, they are the bones at the base of a toe or finger, the prominent, knobby ends of which are often called the knuckles. In other vertebrates, proximal phalanges have a similar placement in the corresponding limbs, be they paw, wing or fin. In many species, they are the longest and thickest phalanx ('finger' bone)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" +- [myeloid suppressor cell](http://purl.obolibrary.org/obo/CL_0000889) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [proximal phalanx](http://purl.obolibrary.org/obo/UBERON_0004302) [UBPROP_0000105](http://purl.obolibrary.org/obo/UBPROP_0000105) "1"^^[nonNegativeInteger](http://www.w3.org/2001/XMLSchema#nonNegativeInteger) - -### proximal segment of rib `http://purl.obolibrary.org/obo/UBERON_0010388` +### myoblast `http://purl.obolibrary.org/obo/CL_0000056` #### Removed -- [proximal segment of rib](http://purl.obolibrary.org/obo/UBERON_0010388) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MA:0001414" - +- [myoblast](http://purl.obolibrary.org/obo/CL_0000056) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005083" +#### Added +- [myoblast](http://purl.obolibrary.org/obo/CL_0000056) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009025" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### proximal straight tubule `http://purl.obolibrary.org/obo/UBERON_0001290` -#### Removed -- [proximal straight tubule](http://purl.obolibrary.org/obo/UBERON_0001290) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of the renal tubule which is just posterior to the proximal convoluted tubule.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [myoblast](http://purl.obolibrary.org/obo/CL_0000056) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005083" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005291" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### myoblast division `http://purl.obolibrary.org/obo/GO_0014872` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [myoblast division](http://purl.obolibrary.org/obo/GO_0014872) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [proximal straight tubule](http://purl.obolibrary.org/obo/UBERON_0001290) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [proximal tubule](http://purl.obolibrary.org/obo/UBERON_0004134) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GOC:mtg_kidney_jan10" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "MA uses subclass" +### myoblast proliferation `http://purl.obolibrary.org/obo/GO_0051450` #### Added -- [proximal straight tubule](http://purl.obolibrary.org/obo/UBERON_0001290) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [proximal tubule](http://purl.obolibrary.org/obo/UBERON_0004134) +- [myoblast proliferation](http://purl.obolibrary.org/obo/GO_0051450) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### proximal to `http://purl.obolibrary.org/obo/BSPO_0000100` +### myoepithelial cell `http://purl.obolibrary.org/obo/CL_0000185` #### Removed -- [proximal to](http://purl.obolibrary.org/obo/BSPO_0000100) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0000100" +- [myoepithelial cell](http://purl.obolibrary.org/obo/CL_0000185) SubClassOf [meso-epithelial cell](http://purl.obolibrary.org/obo/CL_0002078) -- [proximal to](http://purl.obolibrary.org/obo/BSPO_0000100) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "proximal_to" - -- [proximal to](http://purl.obolibrary.org/obo/BSPO_0000100) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +#### Added +- [myoepithelial cell](http://purl.obolibrary.org/obo/CL_0000185) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009113" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [proximal to](http://purl.obolibrary.org/obo/BSPO_0000100) [id](http://www.geneontology.org/formats/oboInOwl#id) "proximal_to" -- [proximal to](http://purl.obolibrary.org/obo/BSPO_0000100) [label](http://www.w3.org/2000/01/rdf-schema#label) "proximal to" +### myotome `http://purl.obolibrary.org/obo/UBERON_0003082` +#### Added +- [myotome](http://purl.obolibrary.org/obo/UBERON_0003082) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### proximal-distal subdivision of colon `http://purl.obolibrary.org/obo/UBERON_0000168` +### myotube `http://purl.obolibrary.org/obo/CL_0002372` #### Removed -- [proximal-distal subdivision of colon](http://purl.obolibrary.org/obo/UBERON_0000168) SubClassOf [subdivision of digestive tract](http://purl.obolibrary.org/obo/UBERON_0004921) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "cjm" +- [myotube](http://purl.obolibrary.org/obo/CL_0002372) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005812" + +#### Added +- [myotube](http://purl.obolibrary.org/obo/CL_0002372) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005812" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) + - - [order](http://www.geneontology.org/formats/oboInOwl#order) "4" +### naive B cell `http://purl.obolibrary.org/obo/CL_0000788` #### Added -- [proximal-distal subdivision of colon](http://purl.obolibrary.org/obo/UBERON_0000168) SubClassOf [subdivision of digestive tract](http://purl.obolibrary.org/obo/UBERON_0004921) +- [naive B cell](http://purl.obolibrary.org/obo/CL_0000788) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009334" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### proximalmost part of `http://purl.obolibrary.org/obo/BSPO_0001106` -#### Removed -- [proximalmost part of](http://purl.obolibrary.org/obo/BSPO_0001106) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +### nasal cavity `http://purl.obolibrary.org/obo/UBERON_0001707` + +#### Added +- [nasal cavity](http://purl.obolibrary.org/obo/UBERON_0001707) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [proximalmost part of](http://purl.obolibrary.org/obo/BSPO_0001106) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0001106" -- [proximalmost part of](http://purl.obolibrary.org/obo/BSPO_0001106) [label](http://www.w3.org/2000/01/rdf-schema#label) "proximalmost part of" +### natural killer cell `http://purl.obolibrary.org/obo/CL_0000623` + +#### Added +- [natural killer cell](http://purl.obolibrary.org/obo/CL_0000623) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009278" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [proximalmost part of](http://purl.obolibrary.org/obo/BSPO_0001106) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "proximalmost_part_of" -- [proximalmost part of](http://purl.obolibrary.org/obo/BSPO_0001106) [id](http://www.geneontology.org/formats/oboInOwl#id) "proximalmost_part_of" +### natural killer cell tolerance induction `http://purl.obolibrary.org/obo/GO_0002519` +#### Added +- [natural killer cell tolerance induction](http://purl.obolibrary.org/obo/GO_0002519) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### proximo-distal subdivision of respiratory tract `http://purl.obolibrary.org/obo/UBERON_0000072` +### natural killer cells antigen CD94 (mouse) `http://purl.obolibrary.org/obo/PR_O54707` #### Removed -- [proximo-distal subdivision of respiratory tract](http://purl.obolibrary.org/obo/UBERON_0000072) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:16737" +- [natural killer cells antigen CD94 (mouse)](http://purl.obolibrary.org/obo/PR_O54707) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A killer cell lectin-like receptor subfamily D member 1 that is encoded in the genome of mouse." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PRO:DNx" + + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "OMA:O54707" -- [proximo-distal subdivision of respiratory tract](http://purl.obolibrary.org/obo/UBERON_0000072) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MA:0000434 has subclasses upper and lower, so it corresponds to a segment of the tract, rather than the tract as a whole" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PANTHER:PTHR22800:SF15" #### Added -- [proximo-distal subdivision of respiratory tract](http://purl.obolibrary.org/obo/UBERON_0000072) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [natural killer cells antigen CD94 (mouse)](http://purl.obolibrary.org/obo/PR_O54707) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A killer cell lectin-like receptor subfamily D member 1 that is encoded in the genome of mouse." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PRO:DNx" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "OMA:O54707" -### pseudostratified columnar epithelium `http://purl.obolibrary.org/obo/UBERON_0010498` -#### Removed -- [pseudostratified columnar epithelium](http://purl.obolibrary.org/obo/UBERON_0010498) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "Pseudostratified epithelia function in secretion or absorption. If a specimen looks stratified but has cilia, then it is a pseudostratified ciliated epithelium, since stratified epithelia do not have cilia." -- [pseudostratified columnar epithelium](http://purl.obolibrary.org/obo/UBERON_0010498) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "glandular in NCIT; we consider the two NCIT terms synonymous" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "NCIT" +### negative regulation of DNA catabolic process `http://purl.obolibrary.org/obo/GO_1903625` +#### Added +- [negative regulation of DNA catabolic process](http://purl.obolibrary.org/obo/GO_1903625) SubClassOf [negative regulation of macromolecule metabolic process](http://purl.obolibrary.org/obo/GO_0010605) -### pulmonary alveolar duct `http://purl.obolibrary.org/obo/UBERON_0002173` +### negative regulation of DNA metabolic process `http://purl.obolibrary.org/obo/GO_0051053` #### Removed -- [pulmonary alveolar duct](http://purl.obolibrary.org/obo/UBERON_0002173) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In human anatomy, respiratory bronchioles exists proximal to the alveolar ducts. The epithelial lining consists of smooth muscle knobs covered by nonciliated, simple cuboidal cells. The smooth muscle constricts under parasympathetic innervation and relax under sympathetic innervation" +- [negative regulation of DNA metabolic process](http://purl.obolibrary.org/obo/GO_0051053) SubClassOf [negative regulation of macromolecule metabolic process](http://purl.obolibrary.org/obo/GO_0010605) +#### Added +- [negative regulation of DNA metabolic process](http://purl.obolibrary.org/obo/GO_0051053) SubClassOf [negative regulation of metabolic process](http://purl.obolibrary.org/obo/GO_0009892) -### pulmonary artery `http://purl.obolibrary.org/obo/UBERON_0002012` -#### Removed -- [pulmonary artery](http://purl.obolibrary.org/obo/UBERON_0002012) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In the human heart, the pulmonary trunk (pulmonary artery or main pulmonary artery) begins at the base of the right ventricle. It is short and wide - approximately 5 cm (2 inches) in length and 3 cm (1.2 inches) in diameter. It then branches into two pulmonary arteries (left and right), which deliver deoxygenated blood to the corresponding lung[WP]" +### negative regulation of DNA-binding transcription factor activity `http://purl.obolibrary.org/obo/GO_0043433` -- [pulmonary artery](http://purl.obolibrary.org/obo/UBERON_0002012) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "On the other hand, in the sister clade of the actinopterygians, the sarcopterygians, the gill circulation is supplemented with lung ventilation. As a result, the pulmonary artery and vein and a functional ductus arteriosus arose as a major evolutionary innovation from the sixth arch, giving the organism a flexible shunt to balance blood supply to and from gills and lungs according to environmental conditions.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "inhibition of transcription factor activity" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "downregulation of transcription factor activity" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "negative regulation of thyroid hormone receptor activity" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620" +- [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "negative regulation of transcription factor activity" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:dph" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000982" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:tb" -- [pulmonary artery](http://purl.obolibrary.org/obo/UBERON_0002012) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Major artery which supplies blood to the lungs.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010221" +- [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "down-regulation of transcription factor activity" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) [label](http://www.w3.org/2000/01/rdf-schema#label) "negative regulation of DNA-binding transcription factor activity" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "negative regulation of DNA binding transcription factor activity" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +- [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -- [pulmonary artery](http://purl.obolibrary.org/obo/UBERON_0002012) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of two arteries, leaving from the heart, the left one supplying the left lung and the right one supplying the right lung. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:2000824" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2011-07-15T10:56:12Z" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:1904168" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/pulmonary+artery" +- [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "negative regulation of androgen receptor activity" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000982" +- [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0043433" +- [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" +- [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "negative regulation of sequence-specific DNA binding transcription factor activity" -### pulmonary collagen fibril `http://purl.obolibrary.org/obo/UBERON_0011862` +- [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "down regulation of transcription factor activity" -#### Added -- [pulmonary collagen fibril](http://purl.obolibrary.org/obo/UBERON_0011862) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that stops, prevents, or reduces the frequency, rate or extent of the activity of a transcription factor, any factor involved in the initiation or regulation of transcription." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:jl" +- Class: [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) -### pulmonary lobule `http://purl.obolibrary.org/obo/UBERON_0010368` +- [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) some [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700)) -#### Added -- [pulmonary lobule](http://purl.obolibrary.org/obo/UBERON_0010368) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) SubClassOf [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) some [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) +- [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) SubClassOf [regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051090) -### pulmonary lymphatic vessel `http://purl.obolibrary.org/obo/UBERON_0018227` +- [negative regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0043433) SubClassOf [negative regulation of molecular function](http://purl.obolibrary.org/obo/GO_0044092) + + +### negative regulation of DNA-templated transcription `http://purl.obolibrary.org/obo/GO_0045892` #### Added -- [pulmonary lymphatic vessel](http://purl.obolibrary.org/obo/UBERON_0018227) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "negative regulation of transcription, DNA-templated" +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) [label](http://www.w3.org/2000/01/rdf-schema#label) "negative regulation of DNA-templated transcription" -### pulmonary part of lymphatic system `http://purl.obolibrary.org/obo/UBERON_0018226` +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "down regulation of gene-specific transcription" -#### Added -- [pulmonary part of lymphatic system](http://purl.obolibrary.org/obo/UBERON_0018226) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0016481" +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -### pulmonary surfactant `http://purl.obolibrary.org/obo/UBERON_0008826` -#### Removed -- [pulmonary surfactant](http://purl.obolibrary.org/obo/UBERON_0008826) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "surfactant" +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "down-regulation of transcription, DNA-dependent" -- [pulmonary surfactant](http://purl.obolibrary.org/obo/UBERON_0008826) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D011663" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "negative regulation of gene-specific transcription" - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0045892" - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "negative regulation of cellular transcription, DNA-dependent" +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0032582" +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "transcription repressor activity" -### pulmonary trunk `http://purl.obolibrary.org/obo/UBERON_0002333` -#### Removed -- [pulmonary trunk](http://purl.obolibrary.org/obo/UBERON_0002333) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "As in birds, the conus arteriosus split during embryonic development in mammals to produce the pulmonary trunk and single aortic trunk of the adult.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "downregulation of transcription, DNA-dependent" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:go_curators" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.481" +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "down-regulation of gene-specific transcription" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001134" +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "downregulation of gene-specific transcription" -- [pulmonary trunk](http://purl.obolibrary.org/obo/UBERON_0002333) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An arterial trunk with origin from the right ventricle of the heart, and dividing into the right and left pulmonary arteries, which enter the corresponding lungs and branch with the bronchi. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "down regulation of transcription, DNA-dependent" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "inhibition of transcription, DNA-dependent" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0061021" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/pulmonary+trunk" +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "inhibition of gene-specific transcription" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001134" +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "negative regulation of transcription, DNA-dependent" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH" +- Class: [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) some [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351)) -### pulmonary vascular system `http://purl.obolibrary.org/obo/UBERON_0008886` -#### Removed -- [pulmonary vascular system](http://purl.obolibrary.org/obo/UBERON_0008886) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Subdivision of cardiovascular system which has as its parts the pulmonary arterial and venous tree organs.[FMA]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "FMA" +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) SubClassOf [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:45621" +- [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) SubClassOf [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) some [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) +### negative regulation of RNA polymerase II regulatory region sequence-specific DNA binding `http://purl.obolibrary.org/obo/GO_1903026` -### pulmonary vein `http://purl.obolibrary.org/obo/UBERON_0002016` -#### Removed -- [pulmonary vein](http://purl.obolibrary.org/obo/UBERON_0002016) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of two pairs of large vessels that return oxygenated blood from each lung to the left atrium of the heart. [TFD][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001133" +#### Added +- [negative regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903026) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/pulmonary+vein" +- [negative regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903026) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "inhibition of RNA polymerase II regulatory region sequence-specific DNA binding" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:TermGenie" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [negative regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903026) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "down-regulation of RNA polymerase II regulatory region sequence-specific DNA binding" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:TermGenie" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [negative regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903026) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:1903026" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [negative regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903026) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "downregulation of RNA polymerase II regulatory region sequence-specific DNA binding" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:TermGenie" -- [pulmonary vein](http://purl.obolibrary.org/obo/UBERON_0002016) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "the veins that return oxygenated blood from the lungs to the left atrium of the heart" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0002726,MGI:cwg" +- [negative regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903026) [label](http://www.w3.org/2000/01/rdf-schema#label) "negative regulation of RNA polymerase II regulatory region sequence-specific DNA binding" -- [pulmonary vein](http://purl.obolibrary.org/obo/UBERON_0002016) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Any of the veins which collect blood from the lungs and some small vesicles received from the esophagus.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [negative regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903026) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that stops, prevents or reduces the frequency, rate or extent of RNA polymerase II regulatory region sequence-specific DNA binding." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:dph" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010521" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:krc" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:TermGenie" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GO_REF:0000059" -- [pulmonary vein](http://purl.obolibrary.org/obo/UBERON_0002016) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "On the other hand, in the sister clade of the actinopterygians, the sarcopterygians, the gill circulation is supplemented with lung ventilation. As a result, the pulmonary artery and vein and a functional ductus arteriosus arose as a major evolutionary innovation from the sixth arch, giving the organism a flexible shunt to balance blood supply to and from gills and lungs according to environmental conditions.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001133" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:20026326" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [negative regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903026) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "dph" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [negative regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903026) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [negative regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903026) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "down regulation of RNA polymerase II regulatory region sequence-specific DNA binding" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:TermGenie" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620" +- [negative regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903026) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2014-05-15T17:56:00Z" -- [pulmonary vein](http://purl.obolibrary.org/obo/UBERON_0002016) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_70827](http://purl.obolibrary.org/obo/FMA_70827) +- Class: [negative regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903026) +- [negative regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903026) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) some [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977)) +- [negative regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903026) SubClassOf [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) some [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977) -### pulmonary venous system `http://purl.obolibrary.org/obo/UBERON_0013127` -#### Removed -- [pulmonary venous system](http://purl.obolibrary.org/obo/UBERON_0013127) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Pulmonary circulation is the half portion of the cardiovascular system which carries oxygen-depleted blood away from the heart, to the lungs, and returns oxygenated (oxygen-rich) blood back to the heart. The term pulmonary circulation is readily paired and contrasted with the systemic circulation. A separate system known as the bronchial circulation supplies blood to the tissue of the larger airways of the lung." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Pulmonary_circulation" +- [negative regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903026) SubClassOf [regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903025) +- [negative regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903026) SubClassOf [negative regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000678) -### putamen `http://purl.obolibrary.org/obo/UBERON_0001874` -#### Removed -- [putamen](http://purl.obolibrary.org/obo/UBERON_0001874) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "All nuclei of the mammalian basal ganglia are also present in the oldest vertebrates.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001456" +### negative regulation of amino acid biosynthetic process `http://purl.obolibrary.org/obo/GO_2000283` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [negative regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000283) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that stops, prevents or reduces the frequency, rate or extent of an amino acid biosynthetic process." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:obol" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [negative regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000283) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "negative regulation of amino acid formation" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:obol" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/j.cub.2011.05.001 Stephenson-Jones M, Samuelsson E, Ericsson J, Robertson B, Grillner S, Evolutionary conservation of the basal ganglia as a common vertebrate mechanism for action selection. Current Biology (2011)" +- [negative regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000283) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "vw" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [negative regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000283) [label](http://www.w3.org/2000/01/rdf-schema#label) "negative regulation of amino acid biosynthetic process" -- [putamen](http://purl.obolibrary.org/obo/UBERON_0001874) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Nucleus of brain which lies ventral to the caudate nucleus and internal capsule and medial to the external capsule. The putamen and caudate nucleus together form the dorsal striatum. It is also one of the structures that comprises the basal ganglia. Through various pathways, the putamen is connected to the substantia nigra and globus pallidus. The main function of the putamen is to regulate movements and influence various types of learning. It employs dopamine to perform its functions. The putamen also plays a role in degenerative neurological disorders, such as Parkinson's disease[Wikipedia:Putamen]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Putamen" +- [negative regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000283) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2010-12-10T11:54:23Z" +- [negative regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000283) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "negative regulation of amino acid synthesis" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:obol" +- [negative regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000283) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "negative regulation of amino acid anabolism" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:obol" -### pyloric sphincter `http://purl.obolibrary.org/obo/UBERON_0001202` -#### Removed -- [pyloric sphincter](http://purl.obolibrary.org/obo/UBERON_0001202) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) the adult Xenopus stomach exhibits both glandular and aglandular regions and a distinct pyloric sphincter similar to that of the amniotic vertebrates (...).[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [negative regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000283) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [negative regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000283) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:2000283" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1525-142x.2000.00076.x" +- [negative regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000283) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "negative regulation of amino acid biosynthesis" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:obol" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [negative regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000283) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "negative regulation of cellular amino acid biosynthetic process" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:obol" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001466" +- Class: [negative regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000283) +- [negative regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000283) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) some [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652)) +- [negative regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000283) SubClassOf [negative regulation of cellular amino acid metabolic process](http://purl.obolibrary.org/obo/GO_0045763) -### pylorus `http://purl.obolibrary.org/obo/UBERON_0001166` -#### Removed -- [pylorus](http://purl.obolibrary.org/obo/UBERON_0001166) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0521617147 Stevens CE and Hume ID, Comparative physiology of the vertebrate digestive system (2004) p.11" +- [negative regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000283) SubClassOf [negative regulation of biosynthetic process](http://purl.obolibrary.org/obo/GO_0009890) + +- [negative regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000283) SubClassOf [regulation of cellular amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000282) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [negative regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000283) SubClassOf [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) some [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### negative regulation of apoptotic process `http://purl.obolibrary.org/obo/GO_0043066` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000420" +#### Added +- [negative regulation of apoptotic process](http://purl.obolibrary.org/obo/GO_0043066) [never in taxon](http://purl.obolibrary.org/obo/RO_0002161) [Schizosaccharomyces pombe](http://purl.obolibrary.org/obo/NCBITaxon_4896) -- [pylorus](http://purl.obolibrary.org/obo/UBERON_0001166) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The orifice which allows the passage from the stomach into the intestine. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [negative regulation of apoptotic process](http://purl.obolibrary.org/obo/GO_0043066) DisjointWith [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Schizosaccharomyces pombe](http://purl.obolibrary.org/obo/NCBITaxon_4896) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [negative regulation of apoptotic process](http://purl.obolibrary.org/obo/GO_0043066) SubClassOf not ([in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Schizosaccharomyces pombe](http://purl.obolibrary.org/obo/NCBITaxon_4896)) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [negative regulation of apoptotic process](http://purl.obolibrary.org/obo/GO_0043066) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some (not ([Schizosaccharomyces pombe](http://purl.obolibrary.org/obo/NCBITaxon_4896))) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000420" -- [pylorus](http://purl.obolibrary.org/obo/UBERON_0001166) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "pyloric" +### negative regulation of border follicle cell migration `http://purl.obolibrary.org/obo/GO_1903687` +#### Removed +- [negative regulation of border follicle cell migration](http://purl.obolibrary.org/obo/GO_1903687) SubClassOf [negative regulation of reproductive process](http://purl.obolibrary.org/obo/GO_2000242) -### quality of `http://purl.obolibrary.org/obo/RO_0000080` +### negative regulation of catecholamine metabolic process `http://purl.obolibrary.org/obo/GO_0045914` #### Removed -- [quality of](http://purl.obolibrary.org/obo/RO_0000080) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this red color is a quality of this apple"@en +- [negative regulation of catecholamine metabolic process](http://purl.obolibrary.org/obo/GO_0045914) SubClassOf [negative regulation of cellular metabolic process](http://purl.obolibrary.org/obo/GO_0031324) -- [quality of](http://purl.obolibrary.org/obo/RO_0000080) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "quality_of"@en -- [quality of](http://purl.obolibrary.org/obo/RO_0000080) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "is quality of"@en +### negative regulation of cellular biosynthetic process `http://purl.obolibrary.org/obo/GO_0031327` +#### Added +- [negative regulation of cellular biosynthetic process](http://purl.obolibrary.org/obo/GO_0031327) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." -### ready for release `http://purl.obolibrary.org/obo/IAO_0000122` -#### Removed -- [ready for release](http://purl.obolibrary.org/obo/IAO_0000122) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "ready for release"@en +- [negative regulation of cellular biosynthetic process](http://purl.obolibrary.org/obo/GO_0031327) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27189"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [negative regulation of cellular biosynthetic process](http://purl.obolibrary.org/obo/GO_0031327) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -### receives input from `http://purl.obolibrary.org/obo/RO_0002485` -#### Removed -- [receives input from](http://purl.obolibrary.org/obo/RO_0002485) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +### negative regulation of cellular catabolic process `http://purl.obolibrary.org/obo/GO_0031330` +#### Added +- [negative regulation of cellular catabolic process](http://purl.obolibrary.org/obo/GO_0031330) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27189"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [negative regulation of cellular catabolic process](http://purl.obolibrary.org/obo/GO_0031330) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -### receptor-type tyrosine-protein kinase FLT3 `http://purl.obolibrary.org/obo/PR_000002001` -#### Removed -- [receptor-type tyrosine-protein kinase FLT3](http://purl.obolibrary.org/obo/PR_000002001) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [receptor-type tyrosine-protein kinase FLT3 (human)](http://purl.obolibrary.org/obo/PR_P36888) +- [negative regulation of cellular catabolic process](http://purl.obolibrary.org/obo/GO_0031330) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." +### negative regulation of cellular metabolic process `http://purl.obolibrary.org/obo/GO_0031324` -### receptor-type tyrosine-protein phosphatase C `http://purl.obolibrary.org/obo/PR_000001006` -#### Removed -- [receptor-type tyrosine-protein phosphatase C](http://purl.obolibrary.org/obo/PR_000001006) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [receptor-type tyrosine-protein phosphatase C (human)](http://purl.obolibrary.org/obo/PR_P08575) +#### Added +- [negative regulation of cellular metabolic process](http://purl.obolibrary.org/obo/GO_0031324) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." +- [negative regulation of cellular metabolic process](http://purl.obolibrary.org/obo/GO_0031324) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27189"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -### receptor-type tyrosine-protein phosphatase C isoform CD45RA `http://purl.obolibrary.org/obo/PR_000001015` +### negative regulation of epinephrine uptake `http://purl.obolibrary.org/obo/GO_0051627` #### Removed -- [receptor-type tyrosine-protein phosphatase C isoform CD45RA](http://purl.obolibrary.org/obo/PR_000001015) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [receptor-type tyrosine-protein phosphatase C isoform CD45RA (human)](http://purl.obolibrary.org/obo/PR_P08575-8) +- [negative regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051627) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0051627" +- [negative regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051627) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "down-regulation of epinephrine uptake" +- [negative regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051627) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "negative regulation of adrenaline uptake" -### receptor-type tyrosine-protein phosphatase C isoform CD45RABC `http://purl.obolibrary.org/obo/PR_000001014` -#### Removed -- [receptor-type tyrosine-protein phosphatase C isoform CD45RABC](http://purl.obolibrary.org/obo/PR_000001014) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [receptor-type tyrosine-protein phosphatase C isoform CD45RABC (human)](http://purl.obolibrary.org/obo/PR_P08575-3) +- [negative regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051627) [label](http://www.w3.org/2000/01/rdf-schema#label) "negative regulation of epinephrine uptake" +- [negative regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051627) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" +- [negative regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051627) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "negative regulation of epinephrine import" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:dph" -### receptor-type tyrosine-protein phosphatase C isoform CD45RO `http://purl.obolibrary.org/obo/PR_000001017` -#### Removed -- [receptor-type tyrosine-protein phosphatase C isoform CD45RO](http://purl.obolibrary.org/obo/PR_000001017) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [receptor-type tyrosine-protein phosphatase C isoform CD45RO (human)](http://purl.obolibrary.org/obo/PR_P08575-4) + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:tb" +- [negative regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051627) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "downregulation of epinephrine uptake" +- [negative regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051627) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of epinephrine into a cell." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:ai" -### rectum `http://purl.obolibrary.org/obo/UBERON_0001052` -#### Removed -- [rectum](http://purl.obolibrary.org/obo/UBERON_0001052) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "rectal" +- [negative regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051627) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "down regulation of epinephrine uptake" -- [rectum](http://purl.obolibrary.org/obo/UBERON_0001052) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In the lungfish, sharks and rays the rectum opens into the cloaca which also receives wastes (urine) from the kidneys and material from the reproductive organs. In bony fish the rectum reaches the outside environment through the anus, which is normally situated just in front the urinary and reproductive openings. However in some fish the digestive tract may be curled back on itself, and in the Electric Eel (Electrophorus electricus) the anus is situated in the fish's throat. -- http://www.earthlife.net/fish/digestion.html" +- Class: [negative regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051627) -- [rectum](http://purl.obolibrary.org/obo/UBERON_0001052) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The terminal portion of the large intestine between the ileo-pelvic colon and the anus. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [negative regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051627) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) some [epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051625)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [negative regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051627) SubClassOf [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) some [epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051625) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [negative regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051627) SubClassOf [regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051626) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001751" +- [negative regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051627) SubClassOf [negative regulation of transport](http://purl.obolibrary.org/obo/GO_0051051) -- [rectum](http://purl.obolibrary.org/obo/UBERON_0001052) SubClassOf [subdivision of digestive tract](http://purl.obolibrary.org/obo/UBERON_0004921) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "cjm" - - [order](http://www.geneontology.org/formats/oboInOwl#order) "4" + +### negative regulation of excitatory postsynaptic potential `http://purl.obolibrary.org/obo/GO_0090394` #### Added -- [rectum](http://purl.obolibrary.org/obo/UBERON_0001052) SubClassOf [subdivision of digestive tract](http://purl.obolibrary.org/obo/UBERON_0004921) +- [negative regulation of excitatory postsynaptic potential](http://purl.obolibrary.org/obo/GO_0090394) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### recurrent laryngeal nerve `http://purl.obolibrary.org/obo/UBERON_0003716` +### negative regulation of germ cell proliferation `http://purl.obolibrary.org/obo/GO_1905937` #### Removed -- [recurrent laryngeal nerve](http://purl.obolibrary.org/obo/UBERON_0003716) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Branch of the vagus nerve that separates from the vagus well postcranially, then continues anteriorly to innervate the larynx[AAO:0010754]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:0010754" +- [negative regulation of germ cell proliferation](http://purl.obolibrary.org/obo/GO_1905937) SubClassOf [negative regulation of reproductive process](http://purl.obolibrary.org/obo/GO_2000242) -#### Added -- [recurrent laryngeal nerve](http://purl.obolibrary.org/obo/UBERON_0003716) SubClassOf [nerve of head region](http://purl.obolibrary.org/obo/UBERON_0011779) -### reelin `http://purl.obolibrary.org/obo/PR_000013879` -#### Removed -- [reelin](http://purl.obolibrary.org/obo/PR_000013879) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [reelin (human)](http://purl.obolibrary.org/obo/PR_P78509) +### negative regulation of male germ cell proliferation `http://purl.obolibrary.org/obo/GO_2000255` +#### Added +- [negative regulation of male germ cell proliferation](http://purl.obolibrary.org/obo/GO_2000255) SubClassOf [negative regulation of reproductive process](http://purl.obolibrary.org/obo/GO_2000242) -### reference `http://www.geneontology.org/formats/oboInOwl#reference` +### negative regulation of male germ-line stem cell asymmetric division `http://purl.obolibrary.org/obo/GO_1904839` #### Removed -- AnnotationProperty: [reference](http://www.geneontology.org/formats/oboInOwl#reference) +- [negative regulation of male germ-line stem cell asymmetric division](http://purl.obolibrary.org/obo/GO_1904839) SubClassOf [negative regulation of reproductive process](http://purl.obolibrary.org/obo/GO_2000242) -### regenerating anatomical structure `http://purl.obolibrary.org/obo/UBERON_0007567` +### negative regulation of nitrogen compound metabolic process `http://purl.obolibrary.org/obo/GO_0051172` #### Removed -- [regenerating anatomical structure](http://purl.obolibrary.org/obo/UBERON_0007567) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A portion of tissue that is regrowing after damage or amputation.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [negative regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051172) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving nitrogen or nitrogenous compounds." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:tb" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005147" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:ai" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [negative regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051172) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [negative regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051172) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "negative regulation of nitrogen metabolic process" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:tb" +- [negative regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051172) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "inhibition of nitrogen metabolic process" +- [negative regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051172) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "down regulation of nitrogen metabolic process" -### region `http://www.geneontology.org/formats/oboInOwl#region` -#### Removed -- AnnotationProperty: [region](http://www.geneontology.org/formats/oboInOwl#region) +- [negative regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051172) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "negative regulation of nitrogen metabolism" +- [negative regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051172) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "downregulation of nitrogen metabolic process" +- [negative regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051172) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "down-regulation of nitrogen metabolic process" -### region of nephron tubule `http://purl.obolibrary.org/obo/UBERON_0007685` -#### Removed -- [region of nephron tubule](http://purl.obolibrary.org/obo/UBERON_0007685) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "consider moving MA:0000377 renal tubule here, as it includes the various segments (proximal etc) as subclasses, not parts" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +- [negative regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051172) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0051172" +- [negative regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051172) [label](http://www.w3.org/2000/01/rdf-schema#label) "negative regulation of nitrogen compound metabolic process" +- Class: [negative regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051172) -### regional part of brain `http://purl.obolibrary.org/obo/UBERON_0002616` +- [negative regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051172) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) some [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807)) -#### Added -- [regional part of brain](http://purl.obolibrary.org/obo/UBERON_0002616) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [negative regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051172) SubClassOf [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) some [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807) +- [negative regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051172) SubClassOf [regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051171) -### regional part of spinal cord `http://purl.obolibrary.org/obo/UBERON_0001948` +- [negative regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051172) SubClassOf [negative regulation of metabolic process](http://purl.obolibrary.org/obo/GO_0009892) -#### Added -- [regional part of spinal cord](http://purl.obolibrary.org/obo/UBERON_0001948) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) -### regulated by `http://purl.obolibrary.org/obo/RO_0002334` +### negative regulation of nitrogen cycle metabolic process `http://purl.obolibrary.org/obo/GO_1903315` #### Removed -- [regulated by](http://purl.obolibrary.org/obo/RO_0002334) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) - -- [regulated by](http://purl.obolibrary.org/obo/RO_0002334) [IAO_0000589](http://purl.obolibrary.org/obo/IAO_0000589) "regulated by (processual)" +- [negative regulation of nitrogen cycle metabolic process](http://purl.obolibrary.org/obo/GO_1903315) SubClassOf [negative regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051172) +#### Added +- [negative regulation of nitrogen cycle metabolic process](http://purl.obolibrary.org/obo/GO_1903315) SubClassOf [negative regulation of metabolic process](http://purl.obolibrary.org/obo/GO_0009892) -### regulates `http://purl.obolibrary.org/obo/RO_0002211` +### negative regulation of nucleobase-containing compound metabolic process `http://purl.obolibrary.org/obo/GO_0045934` #### Removed -- [regulates](http://purl.obolibrary.org/obo/RO_0002211) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-3837-8864](https://orcid.org/0000-0002-3837-8864) - -- [regulates](http://purl.obolibrary.org/obo/RO_0002211) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +- [negative regulation of nucleobase-containing compound metabolic process](http://purl.obolibrary.org/obo/GO_0045934) SubClassOf [negative regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051172) -- [regulates](http://purl.obolibrary.org/obo/RO_0002211) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [causal-relations](http://purl.obolibrary.org/obo/ro/docs/causal-relations) +- [negative regulation of nucleobase-containing compound metabolic process](http://purl.obolibrary.org/obo/GO_0045934) SubClassOf [negative regulation of cellular metabolic process](http://purl.obolibrary.org/obo/GO_0031324) -- [regulates](http://purl.obolibrary.org/obo/RO_0002211) [IAO_0000600](http://purl.obolibrary.org/obo/IAO_0000600) false +#### Added +- [negative regulation of nucleobase-containing compound metabolic process](http://purl.obolibrary.org/obo/GO_0045934) SubClassOf [negative regulation of metabolic process](http://purl.obolibrary.org/obo/GO_0009892) -- [regulates](http://purl.obolibrary.org/obo/RO_0002211) [IAO_0000589](http://purl.obolibrary.org/obo/IAO_0000589) "regulates (processual)" -- [regulates](http://purl.obolibrary.org/obo/RO_0002211) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0001-7476-6306](https://orcid.org/0000-0001-7476-6306) +### negative regulation of ovarian follicle development `http://purl.obolibrary.org/obo/GO_2000355` +#### Removed +- [negative regulation of ovarian follicle development](http://purl.obolibrary.org/obo/GO_2000355) SubClassOf [negative regulation of reproductive process](http://purl.obolibrary.org/obo/GO_2000242) -- [regulates](http://purl.obolibrary.org/obo/RO_0002211) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Regulation precludes parthood; the regulatory process may not be within the regulated process." -- [regulates](http://purl.obolibrary.org/obo/RO_0002211) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "GO" +### negative regulation of phosphorylation `http://purl.obolibrary.org/obo/GO_0042326` +#### Added +- [negative regulation of phosphorylation](http://purl.obolibrary.org/obo/GO_0042326) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27189"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -### regulates activity of `http://purl.obolibrary.org/obo/RO_0011002` -#### Removed -- [regulates activity of](http://purl.obolibrary.org/obo/RO_0011002) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0003-4639-4431](https://orcid.org/0000-0003-4639-4431) +- [negative regulation of phosphorylation](http://purl.obolibrary.org/obo/GO_0042326) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." +- [negative regulation of phosphorylation](http://purl.obolibrary.org/obo/GO_0042326) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -### regulates levels of `http://purl.obolibrary.org/obo/RO_0002332` +### negative regulation of response to biotic stimulus `http://purl.obolibrary.org/obo/GO_0002832` #### Removed -- [regulates levels of](http://purl.obolibrary.org/obo/RO_0002332) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [causal-relations](http://purl.obolibrary.org/obo/ro/docs/causal-relations) +- [negative regulation of response to biotic stimulus](http://purl.obolibrary.org/obo/GO_0002832) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) -- [regulates levels of](http://purl.obolibrary.org/obo/RO_0002332) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "every cellular sphingolipid homeostasis process regulates_level_of some sphingolipid" +#### Added +- [negative regulation of response to biotic stimulus](http://purl.obolibrary.org/obo/GO_0002832) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -- [regulates levels of](http://purl.obolibrary.org/obo/RO_0002332) [IAO_0000589](http://purl.obolibrary.org/obo/IAO_0000589) "regulates levels of (process to entity)" -- [regulates levels of](http://purl.obolibrary.org/obo/RO_0002332) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +### negative regulation of response to external stimulus `http://purl.obolibrary.org/obo/GO_0032102` +#### Removed +- [negative regulation of response to external stimulus](http://purl.obolibrary.org/obo/GO_0032102) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) +#### Added +- [negative regulation of response to external stimulus](http://purl.obolibrary.org/obo/GO_0032102) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -### related via localization to `http://purl.obolibrary.org/obo/RO_0002337` +### negative regulation of response to stimulus `http://purl.obolibrary.org/obo/GO_0048585` #### Removed -- [related via localization to](http://purl.obolibrary.org/obo/RO_0002337) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Do not use this relation directly. It is a grouping relation." - -- [related via localization to](http://purl.obolibrary.org/obo/RO_0002337) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +- [negative regulation of response to stimulus](http://purl.obolibrary.org/obo/GO_0048585) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) +#### Added +- [negative regulation of response to stimulus](http://purl.obolibrary.org/obo/GO_0048585) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -### relation between physical entity and a process or stage `http://purl.obolibrary.org/obo/RO_0002487` +### negative regulation of serotonin biosynthetic process `http://purl.obolibrary.org/obo/GO_1905628` #### Removed -- [relation between physical entity and a process or stage](http://purl.obolibrary.org/obo/RO_0002487) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +- [negative regulation of serotonin biosynthetic process](http://purl.obolibrary.org/obo/GO_1905628) SubClassOf [negative regulation of cellular metabolic process](http://purl.obolibrary.org/obo/GO_0031324) -- [relation between physical entity and a process or stage](http://purl.obolibrary.org/obo/RO_0002487) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, typically connecting an anatomical entity to a biological process or developmental stage." +- [negative regulation of serotonin biosynthetic process](http://purl.obolibrary.org/obo/GO_1905628) SubClassOf [negative regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051172) -### relaxin receptor 1 `http://purl.obolibrary.org/obo/PR_000001666` +### negative regulation of thyroid hormone generation `http://purl.obolibrary.org/obo/GO_2000610` #### Removed -- [relaxin receptor 1](http://purl.obolibrary.org/obo/PR_000001666) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [relaxin receptor 1 (human)](http://purl.obolibrary.org/obo/PR_Q9HBX9) +- [negative regulation of thyroid hormone generation](http://purl.obolibrary.org/obo/GO_2000610) SubClassOf [negative regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051172) -### renal artery `http://purl.obolibrary.org/obo/UBERON_0001184` -#### Removed -- [renal artery](http://purl.obolibrary.org/obo/UBERON_0001184) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Artery which supplies blood via branches to the gonads, oviducts, and kidneys.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### negative regulation of transcription by RNA polymerase II `http://purl.obolibrary.org/obo/GO_0000122` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010223" +#### Added +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "negative regulation of transcription from RNA polymerase II promoter, global" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "down-regulation of transcription from RNA polymerase II promoter" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "inhibition of transcription from RNA polymerase II promoter" -- [renal artery](http://purl.obolibrary.org/obo/UBERON_0001184) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The renal arteries normally arise off the side of the abdominal aorta, immediately below the superior mesenteric artery, and supply the kidneys with blood. Each is directed across the crus of the diaphragm, so as to form nearly a right angle with the aorta. The renal arteries carry a large portion of total blood flow to the kidneys. Up to a third of total cardiac output can pass through the renal arteries to be filtered by the kidneys. The arterial supply of the kidneys is variable and there may be one or more renal arteries supplying each kidney. It is located above the renal vein. It has a radius of approximately 0.25cm, 0.26 cm at the root. The measured mean diameter can differ depending on the imaging method used. For example, the diameter was found to be 5.04 ± 0.74 mm using ultrasound, but 5.68 ± 1.19 mm using angiography. [WP,unvetted].[Wikipedia]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "Wikipedia" +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Renal_artery" +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) [label](http://www.w3.org/2000/01/rdf-schema#label) "negative regulation of transcription by RNA polymerase II" +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "negative regulation of global transcription from Pol II promoter" +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "inhibition of global transcription from RNA polymerase II promoter" -### renal corpuscle `http://purl.obolibrary.org/obo/UBERON_0001229` -#### Removed -- [renal corpuscle](http://purl.obolibrary.org/obo/UBERON_0001229) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A mass of arterial capillaries enveloped in a capsule and attached to a tubule in the kidney[BTO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "BTO:0000333" +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0045816" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "BTO" +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "down regulation of global transcription from RNA polymerase II promoter" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "BTO:curator" +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "negative regulation of gene-specific transcription from RNA polymerase II promoter" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-11-28" +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "down regulation of transcription from RNA polymerase II promoter" -- [renal corpuscle](http://purl.obolibrary.org/obo/UBERON_0001229) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A tuft of capillaries found in a Bowman's capsule in which waste products are filtered from the blood and urine formation is initiated. Paired highly vascularized structures of the pronephros, responsible for blood filtration.[XAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "XAO" +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "downregulation of transcription from RNA polymerase II promoter" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "XAO:curator" +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "downregulation of global transcription from RNA polymerase II promoter" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "XAO:0000146" +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0000122" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-11-28" +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "down-regulation of global transcription from RNA polymerase II promoter" -- [renal corpuscle](http://purl.obolibrary.org/obo/UBERON_0001229) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The part of the nephron that filters blood.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that stops, prevents, or reduces the frequency, rate or extent of transcription mediated by RNA polymerase II." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:go_curators" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0010553" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005281" +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "negative regulation of transcription from Pol II promoter" +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "negative regulation of transcription from RNA polymerase II promoter" +- Class: [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) -### renal cortex interstitium `http://purl.obolibrary.org/obo/UBERON_0005270` -#### Removed -- [renal cortex interstitium](http://purl.obolibrary.org/obo/UBERON_0005270) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "In the renal cortex, interstitial fibroblasts produce erythropoietin and are distinguished from other interstitial cells by their prominent F-actin cytoskeleton, abundance of rough endoplasmic reticulum, and by ecto-5'-nucleotidase expression in their plasma membrane. The resident dendritic cells belong to the mononuclear phagocyte system and fulfil a sentinel function. They are characterized by their expression of MHC class II and CD11c." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:18575881" +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) some [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366)) +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) SubClassOf [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) some [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366) +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) SubClassOf [regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006357) -### renal duct `http://purl.obolibrary.org/obo/UBERON_0006553` -#### Removed -- [renal duct](http://purl.obolibrary.org/obo/UBERON_0006553) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in ZFA this is defined as part of mesonephros" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" +- [negative regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0000122) SubClassOf [negative regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045892) +### negative regulation of transcription regulatory region DNA binding `http://purl.obolibrary.org/obo/GO_2000678` -### renal glomerulus `http://purl.obolibrary.org/obo/UBERON_0000074` -#### Removed -- [renal glomerulus](http://purl.obolibrary.org/obo/UBERON_0000074) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "ZFA - The multi-tissue structure where the glomerular basement membrane supported by mesonephric podocytes filters blood from the glomerular capillaries. GUDMAP: 'Together, the Bowman's capsule and the glomerulus comprise the definitive renal corpuscle.' - here the glomerulus is part of the capsule?" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" +#### Added +- [negative regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000678) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" +- [negative regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000678) [label](http://www.w3.org/2000/01/rdf-schema#label) "negative regulation of transcription regulatory region DNA binding" +- [negative regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000678) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:2000678" -### renal lobe `http://purl.obolibrary.org/obo/UBERON_0009913` -#### Removed -- [renal lobe](http://purl.obolibrary.org/obo/UBERON_0009913) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "human kidneys have multilobar (multipyramidal) architecture while mice and rats have unilobar (unipyramidal) kidneys" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP" +- [negative regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000678) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that stops, prevents or reduces the frequency, rate or extent of transcription regulatory region DNA binding." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:obol" +- [negative regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000678) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "yaf" +- [negative regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000678) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2011-05-09T03:28:14Z" -### renal lymph node `http://purl.obolibrary.org/obo/UBERON_0003425` -#### Removed -- [renal lymph node](http://purl.obolibrary.org/obo/UBERON_0003425) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Dorsal to the ipsilateral kidney nearby the renal blood vessels, caudal to the adrenal gland" - - [taxon](http://www.geneontology.org/formats/oboInOwl#taxon) "NCBITaxon:10090" +- [negative regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000678) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:16624319" +- Class: [negative regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000678) +- [negative regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000678) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) some [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976)) +- [negative regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000678) SubClassOf [regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000677) -### renal medulla `http://purl.obolibrary.org/obo/UBERON_0000362` -#### Removed -- [renal medulla](http://purl.obolibrary.org/obo/UBERON_0000362) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "The renal medulla is split up into a number of sections, known as the renal pyramids. Blood enters into the kidney via the renal artery, which then splits up to form the arcuate arterioles. The arcuate arterioles each in turn branch into interlobular arterioles, which finally reach the glomeruli. At the glomerulus the blood reaches a highly disfavourable pressure gradient and a large exchange surface area, which forces the serum portion of the blood out of the vessel into the renal tubules. Flow continues through the renal tubules, including the proximal tubule, the Loop of Henle, and finally leaves the kidney by means of the collecting duct, leading to the renal ureter. The renal medulla contains the structures of the nephrons responsible for maintaining the salt and water balance of the blood. The renal medulla is hypertonic to the filtrate in the nephron and aids in the reabsorption of water" +- [negative regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000678) SubClassOf [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) some [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) +- [negative regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000678) SubClassOf [negative regulation of DNA binding](http://purl.obolibrary.org/obo/GO_0043392) -### renal medulla interstitium `http://purl.obolibrary.org/obo/UBERON_0005211` +### negative regulation of transferase activity `http://purl.obolibrary.org/obo/GO_0051348` #### Removed -- [renal medulla interstitium](http://purl.obolibrary.org/obo/UBERON_0005211) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "It functions in renal water reabsorption by building up a high hypertonicity, which draws water out of the thin descending limb of the loop of Henle and the collecting duct system. This hypertonicity, in turn, is created by an efflux of urea from the inner medullary collecting duct." +- [negative regulation of transferase activity](http://purl.obolibrary.org/obo/GO_0051348) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) -### renal system `http://purl.obolibrary.org/obo/UBERON_0001008` +### negatively regulates characteristic `http://purl.obolibrary.org/obo/RO_0019002` #### Removed -- [renal system](http://purl.obolibrary.org/obo/UBERON_0001008) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Evolution of vertebrate renal anatomy appears quite conservative when compared, for example, to evolution of respiratory and cardiovascular systems in vertebrates. Major anatomical changes in vertebrates kidneys separate those of birds and mammals from kidneys of lower vertebrates. General increase in animal size from fish to mammals is reflected by an increase in total number of nephrons per kidney, rather than by constant change in tubular dimensions.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-3540428541 Kapoor BG, Bhavna Khanna, Ichthyology Handbook (2004) p.406" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000723" - -- [renal system](http://purl.obolibrary.org/obo/UBERON_0001008) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005056" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [negatively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019002) [id](http://www.geneontology.org/formats/oboInOwl#id) "negatively_regulates_characteristic" -- [renal system](http://purl.obolibrary.org/obo/UBERON_0001008) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "This definition is inclusive of the organs of the vertebrate renal system, as well as the Malpighian tubules of insects, and allows for future incorporation of structures such as the antennal glands of crustaceans" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1371/journal.pone.0099864" +- [negatively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019002) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." -- [renal system](http://purl.obolibrary.org/obo/UBERON_0001008) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An anatomical system which consists of organs and tissues which produce, store, and excrete urine.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [negatively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019002) [contributor](http://purl.org/dc/terms/contributor) [0000-0002-8688-6599](https://orcid.org/0000-0002-8688-6599) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [negatively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019002) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "negatively_regulates_characteristic" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +- [negatively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019002) [label](http://www.w3.org/2000/01/rdf-schema#label) "negatively regulates characteristic" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010257" +- [negatively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019002) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0019002" -- [renal system](http://purl.obolibrary.org/obo/UBERON_0001008) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, the renal system comprises a pair of kidneys, a pair of ureters, urinary bladder, urethra, sphincter muscle and associated blood vessels" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO" +- [negatively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019002) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "gene_ontology" +- ObjectProperty: [negatively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019002) +- [negatively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019002) SubPropertyOf: [regulates characteristic](http://purl.obolibrary.org/obo/RO_0019000) -### renal tubule `http://purl.obolibrary.org/obo/UBERON_0009773` -#### Removed -- [renal tubule](http://purl.obolibrary.org/obo/UBERON_0009773) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class groups vertebrate nephron tubules with analagous structures such as insect Malpighian tubules" +- [positively regulates](http://purl.obolibrary.org/obo/RO_0002213) o [negatively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019002) SubPropertyOf: [negatively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019002) +- [negatively regulates](http://purl.obolibrary.org/obo/RO_0002212) o [positively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019001) SubPropertyOf: [negatively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019002) -### renal vein `http://purl.obolibrary.org/obo/UBERON_0001140` -#### Removed -- [renal vein](http://purl.obolibrary.org/obo/UBERON_0001140) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in EHDAA2, the renal vein is part of the kidney" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" -- [renal vein](http://purl.obolibrary.org/obo/UBERON_0001140) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The renal veins are veins that drain the kidney. They connect the kidney to the inferior vena cava. It is usually singular to each kidney, except in the condition 'multiple renal veins'. It also divides into 2 divisions upon entering the kidney: the anterior branch which receives blood from the anterior portion of the kidney and, the posterior branch which receives blood from the posterior portion. Often, each renal vein will have a branch that receives blood from the ureter. [WP,unvetted][Wikipedia:Renal_vein]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Renal_vein" +### nephrogenic cord `http://purl.obolibrary.org/obo/UBERON_0004875` +#### Added +- [nephrogenic cord](http://purl.obolibrary.org/obo/UBERON_0004875) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### renal venous blood vessel `http://purl.obolibrary.org/obo/UBERON_0014401` -#### Removed -- [renal venous blood vessel](http://purl.obolibrary.org/obo/UBERON_0014401) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we follow MA and MP in distinguishing the venous blood vessel from the vein. The kidney cortex vein is not considered a renal vein, nor is the vasa recta" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +### nephrogenic mesenchyme stem cell `http://purl.obolibrary.org/obo/CL_0000383` +#### Added +- [nephrogenic mesenchyme stem cell](http://purl.obolibrary.org/obo/CL_0000383) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009187" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### renin `http://purl.obolibrary.org/obo/PR_000013883` -#### Removed -- [renin](http://purl.obolibrary.org/obo/PR_000013883) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [renin (human)](http://purl.obolibrary.org/obo/PR_P00797) +### nephron `http://purl.obolibrary.org/obo/UBERON_0001285` +#### Added +- [nephron](http://purl.obolibrary.org/obo/UBERON_0001285) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### replacement bone `http://purl.obolibrary.org/obo/UBERON_0012075` -#### Removed -- [replacement bone](http://purl.obolibrary.org/obo/UBERON_0012075) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "This class was introduced to be consistent with the ZFA hierarchy. The corresponding TAO term was obsoleted, and never introduced into VSAO. Note that VSAO does have replacement element." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" +### nephron morphogenesis `http://purl.obolibrary.org/obo/GO_0072028` -- [replacement bone](http://purl.obolibrary.org/obo/UBERON_0012075) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Bone that forms as a replacement of another structural tissue.[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [nephron morphogenesis](http://purl.obolibrary.org/obo/GO_0072028) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" +### nephron tubule `http://purl.obolibrary.org/obo/UBERON_0001231` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001637" +#### Added +- [nephron tubule](http://purl.obolibrary.org/obo/UBERON_0001231) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +### nerve `http://purl.obolibrary.org/obo/UBERON_0001021` -### reproductive gland `http://purl.obolibrary.org/obo/UBERON_0003937` -#### Removed -- [reproductive gland](http://purl.obolibrary.org/obo/UBERON_0003937) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0006162" +#### Added +- [nerve](http://purl.obolibrary.org/obo/UBERON_0001021) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005105" - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) +### nervous system `http://purl.obolibrary.org/obo/UBERON_0001016` +#### Added +- [nervous system](http://purl.obolibrary.org/obo/UBERON_0001016) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005093" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [nervous system](http://purl.obolibrary.org/obo/UBERON_0001016) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### reproductive organ `http://purl.obolibrary.org/obo/UBERON_0003133` -#### Removed -- [reproductive organ](http://purl.obolibrary.org/obo/UBERON_0003133) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "GO uses genitalia for the singular organ" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "GO" -- [reproductive organ](http://purl.obolibrary.org/obo/UBERON_0003133) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17381" +### nervous system process `http://purl.obolibrary.org/obo/GO_0050877` +#### Added +- [nervous system process](http://purl.obolibrary.org/obo/GO_0050877) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### reproductive system `http://purl.obolibrary.org/obo/UBERON_0000990` -#### Removed -- [reproductive system](http://purl.obolibrary.org/obo/UBERON_0000990) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004857" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### network-forming collagen trimer `http://purl.obolibrary.org/obo/GO_0098642` -- [reproductive system](http://purl.obolibrary.org/obo/UBERON_0000990) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D005835" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) +#### Added +- [network-forming collagen trimer](http://purl.obolibrary.org/obo/GO_0098642) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" -- [reproductive system](http://purl.obolibrary.org/obo/UBERON_0000990) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Arguably, one of the most important aspects of urbilaterian organogenesis would have been gonadogenesis, since Urbilateria must have successfully generated gametes and developed a strategy for extrusion and fertilization, in order to be the ancestor of all living Bilateria.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### neural crest derived neuron `http://purl.obolibrary.org/obo/CL_0000029` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [neural crest derived neuron](http://purl.obolibrary.org/obo/CL_0000029) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any neuron that develops from some migratory neural crest cell." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [neural crest derived neuron](http://purl.obolibrary.org/obo/CL_0000029) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009009" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:21672850 Extavour CGM, Gray anatomy: phylogenetic patterns of somatic gonad structures and reproductive strategies across Bilateria. Integrative and Comparative Biology (2007)" +- [neural crest derived neuron](http://purl.obolibrary.org/obo/CL_0000029) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000182" -- [reproductive system](http://purl.obolibrary.org/obo/UBERON_0000990) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical system which consists of organs and tissues associated with sexual reproduction of the organism.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### neural keel formation `http://purl.obolibrary.org/obo/GO_0014025` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [neural keel formation](http://purl.obolibrary.org/obo/GO_0014025) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010258" +### neural plate formation `http://purl.obolibrary.org/obo/GO_0021990` -- [reproductive system](http://purl.obolibrary.org/obo/UBERON_0000990) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_75572](http://purl.obolibrary.org/obo/FMA_75572) +#### Added +- [neural plate formation](http://purl.obolibrary.org/obo/GO_0021990) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### neural rod formation `http://purl.obolibrary.org/obo/GO_0014023` -### requires discussion `http://purl.obolibrary.org/obo/IAO_0000428` -#### Removed -- [requires discussion](http://purl.obolibrary.org/obo/IAO_0000428) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "group:OBI"@en +#### Added +- [neural rod formation](http://purl.obolibrary.org/obo/GO_0014023) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [requires discussion](http://purl.obolibrary.org/obo/IAO_0000428) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "Alan Ruttenberg"@en -- [requires discussion](http://purl.obolibrary.org/obo/IAO_0000428) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "requires discussion"@en +### neural stem cell `http://purl.obolibrary.org/obo/CL_0000047` +#### Added +- [neural stem cell](http://purl.obolibrary.org/obo/CL_0000047) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009019" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [neural stem cell](http://purl.obolibrary.org/obo/CL_0000047) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### respiration organ `http://purl.obolibrary.org/obo/UBERON_0000171` -#### Removed -- [respiration organ](http://purl.obolibrary.org/obo/UBERON_0000171) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17607" +### neural tissue `http://purl.obolibrary.org/obo/UBERON_0003714` +#### Added +- [neural tissue](http://purl.obolibrary.org/obo/UBERON_0003714) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### respiratory airway `http://purl.obolibrary.org/obo/UBERON_0001005` -#### Removed -- [respiratory airway](http://purl.obolibrary.org/obo/UBERON_0001005) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "This class generically groups trachea and analagous structures throughout metazoa. Consider renaming, as the term could be taken to mean lumen of tracheal system (e.g. in SNOMED). As a grouping class this is quite vague, as it is not clear where the airway begins and ends" -- [respiratory airway](http://purl.obolibrary.org/obo/UBERON_0001005) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:265130" +### neurectoderm `http://purl.obolibrary.org/obo/UBERON_0002346` +#### Added +- [neurectoderm](http://purl.obolibrary.org/obo/UBERON_0002346) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001057" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### respiratory bronchiole `http://purl.obolibrary.org/obo/UBERON_0002188` -#### Removed -- [respiratory bronchiole](http://purl.obolibrary.org/obo/UBERON_0002188) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "mice have few or none of these structures, with the terminal bronchioles transitioning directly to the alveolary ducts" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0123813611" +### neurectodermal cell `http://purl.obolibrary.org/obo/CL_0000133` +#### Added +- [neurectodermal cell](http://purl.obolibrary.org/obo/CL_0000133) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009080" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### respiratory muscle `http://purl.obolibrary.org/obo/UBERON_0014398` +### neuroblast (sensu Nematoda and Protostomia) `http://purl.obolibrary.org/obo/CL_0000338` #### Removed -- [respiratory muscle](http://purl.obolibrary.org/obo/UBERON_0014398) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class may be merged with 'respiratory system muscle'; check intercostals" +- [neuroblast (sensu Nematoda and Protostomia)](http://purl.obolibrary.org/obo/CL_0000338) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005146" -- [respiratory muscle](http://purl.obolibrary.org/obo/UBERON_0014398) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D012132" +#### Added +- [neuroblast (sensu Nematoda and Protostomia)](http://purl.obolibrary.org/obo/CL_0000338) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005146" - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +### neuroblast (sensu Vertebrata) `http://purl.obolibrary.org/obo/CL_0000031` +#### Added +- [neuroblast (sensu Vertebrata)](http://purl.obolibrary.org/obo/CL_0000031) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009011" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### respiratory primordium mesenchyme `http://purl.obolibrary.org/obo/UBERON_0036073` +### neuroblast activation `http://purl.obolibrary.org/obo/GO_0007407` #### Added -- [respiratory primordium mesenchyme](http://purl.obolibrary.org/obo/UBERON_0036073) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) - - -### respiratory segment of nasal mucosa `http://purl.obolibrary.org/obo/UBERON_0015786` -#### Removed -- [respiratory segment of nasal mucosa](http://purl.obolibrary.org/obo/UBERON_0015786) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "lined with ciliated pseudostratified columnar epithelium (respiratory epithelium). The respiratory segment has a very vascularized lamina propria allowing the venous plexuses of the conchal mucosa to engorge with blood, restricting airflow and causing air to be directed to the other side of the nose." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Nasal_cavity" +- [neuroblast activation](http://purl.obolibrary.org/obo/GO_0007407) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### neuroblast division `http://purl.obolibrary.org/obo/GO_0055057` -### respiratory system `http://purl.obolibrary.org/obo/UBERON_0001004` -#### Removed -- [respiratory system](http://purl.obolibrary.org/obo/UBERON_0001004) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The anatomical system in which the exchange of oxygen and carbon dioxide between the organism and its environment.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000541" +#### Added +- [neuroblast division](http://purl.obolibrary.org/obo/GO_0055057) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### neuroblast migration `http://purl.obolibrary.org/obo/GO_0097402` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +#### Added +- [neuroblast migration](http://purl.obolibrary.org/obo/GO_0097402) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [respiratory system](http://purl.obolibrary.org/obo/UBERON_0001004) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "There is no doubt that the primitive pattern of vertebrate air-breathing is the buccal pulse pump found in actinopterygian fishes.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.599 and Figure 18-23" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### neuroblast proliferation `http://purl.obolibrary.org/obo/GO_0007405` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [neuroblast proliferation](http://purl.obolibrary.org/obo/GO_0007405) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000202" +### neurocranium `http://purl.obolibrary.org/obo/UBERON_0001703` +#### Added +- [neurocranium](http://purl.obolibrary.org/obo/UBERON_0001703) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### respiratory system epithelium `http://purl.obolibrary.org/obo/UBERON_0004807` +### neuroendocrine cell `http://purl.obolibrary.org/obo/CL_0000165` #### Removed -- [respiratory system epithelium](http://purl.obolibrary.org/obo/UBERON_0004807) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VHOG:0000981" +- [neuroendocrine cell](http://purl.obolibrary.org/obo/CL_0000165) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005130" +#### Added +- [neuroendocrine cell](http://purl.obolibrary.org/obo/CL_0000165) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005130" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -### respiratory system mucosa `http://purl.obolibrary.org/obo/UBERON_0004785` -#### Removed -- [respiratory system mucosa](http://purl.obolibrary.org/obo/UBERON_0004785) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:18334" - +- [neuroendocrine cell](http://purl.obolibrary.org/obo/CL_0000165) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009098" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### respiratory tract `http://purl.obolibrary.org/obo/UBERON_0000065` +### neuroendocrine gland `http://purl.obolibrary.org/obo/UBERON_0010133` #### Added -- [respiratory tract](http://purl.obolibrary.org/obo/UBERON_0000065) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [neuroendocrine gland](http://purl.obolibrary.org/obo/UBERON_0010133) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### respiratory tract epithelium `http://purl.obolibrary.org/obo/UBERON_0004802` -#### Removed -- [respiratory tract epithelium](http://purl.obolibrary.org/obo/UBERON_0004802) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VHOG:0000981" +### neurogenic placode `http://purl.obolibrary.org/obo/UBERON_0009955` #### Added -- [respiratory tract epithelium](http://purl.obolibrary.org/obo/UBERON_0004802) SubClassOf [endo-epithelium](http://purl.obolibrary.org/obo/UBERON_0005911) +- [neurogenic placode](http://purl.obolibrary.org/obo/UBERON_0009955) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### respiratory tube `http://purl.obolibrary.org/obo/UBERON_0000117` -#### Removed -- [respiratory tube](http://purl.obolibrary.org/obo/UBERON_0000117) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in GO lung development is part of respiratory tube development. This can lead to inconsistencies with other ontologies, e.g. VT. The GO structure may be better represented by a tree of tubes (see the FMA class)" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "GO" +### neurogliaform cell `http://purl.obolibrary.org/obo/CL_0000693` #### Added -- [respiratory tube](http://purl.obolibrary.org/obo/UBERON_0000117) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [neurogliaform cell](http://purl.obolibrary.org/obo/CL_0000693) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009299" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### results in acquisition of features of `http://purl.obolibrary.org/obo/RO_0002315` +### neuroglioblast (sensu Nematoda and Protostomia) `http://purl.obolibrary.org/obo/CL_0000468` #### Removed -- [results in acquisition of features of](http://purl.obolibrary.org/obo/RO_0002315) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "GOC:mtg_berkeley_2013" - -- [results in acquisition of features of](http://purl.obolibrary.org/obo/RO_0002315) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +- [neuroglioblast (sensu Nematoda and Protostomia)](http://purl.obolibrary.org/obo/CL_0000468) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005147" -- [results in acquisition of features of](http://purl.obolibrary.org/obo/RO_0002315) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "an annotation of gene X to cell differentiation with results_in_maturation_of CL:0000057 (fibroblast) means that at the end of the process the input cell that did not have features of a fibroblast, now has the features of a fibroblast." +#### Added +- [neuroglioblast (sensu Nematoda and Protostomia)](http://purl.obolibrary.org/obo/CL_0000468) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005147" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### neurohypophysis `http://purl.obolibrary.org/obo/UBERON_0002198` -### results in development of `http://purl.obolibrary.org/obo/RO_0002296` -#### Removed -- [results in development of](http://purl.obolibrary.org/obo/RO_0002296) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +#### Added +- [neurohypophysis](http://purl.obolibrary.org/obo/UBERON_0002198) SubClassOf [reproductive gland](http://purl.obolibrary.org/obo/UBERON_0003937) -- [results in development of](http://purl.obolibrary.org/obo/RO_0002296) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "every flower development (GO:0009908) results in development of some flower (PO:0009046)"@en -- [results in development of](http://purl.obolibrary.org/obo/RO_0002296) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "http://www.geneontology.org/GO.doc.development.shtml"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +### neurohypophysis formation `http://purl.obolibrary.org/obo/GO_0048849` -- [results in development of](http://purl.obolibrary.org/obo/RO_0002296) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) +#### Added +- [neurohypophysis formation](http://purl.obolibrary.org/obo/GO_0048849) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### neuromast hair cell `http://purl.obolibrary.org/obo/CL_0000856` -### results in developmental progression of `http://purl.obolibrary.org/obo/RO_0002295` -#### Removed -- [results in developmental progression of](http://purl.obolibrary.org/obo/RO_0002295) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +#### Added +- [neuromast hair cell](http://purl.obolibrary.org/obo/CL_0000856) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009367" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [results in developmental progression of](http://purl.obolibrary.org/obo/RO_0002295) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) +- [neuromast hair cell](http://purl.obolibrary.org/obo/CL_0000856) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +### neuromast mantle cell `http://purl.obolibrary.org/obo/CL_0000851` -### results in formation of `http://purl.obolibrary.org/obo/RO_0002297` -#### Removed -- [results in formation of](http://purl.obolibrary.org/obo/RO_0002297) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "every "endocardial cushion formation" (GO:0003272) results_in_formation_of some "endocardial cushion" (UBERON:0002062)"@en +#### Added +- [neuromast mantle cell](http://purl.obolibrary.org/obo/CL_0000851) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009362" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [results in formation of](http://purl.obolibrary.org/obo/RO_0002297) [label](http://www.w3.org/2000/01/rdf-schema#label) "results in formation of"@en -- [results in formation of](http://purl.obolibrary.org/obo/RO_0002297) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "GOC:mtg_berkeley_2013" +### neuromast supporting cell `http://purl.obolibrary.org/obo/CL_0000852` -- [results in formation of](http://purl.obolibrary.org/obo/RO_0002297) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "an annotation of gene X to anatomical structure formation with results_in_formation_of UBERON:0000007 (pituitary gland) means that at the beginning of the process a pituitary gland does not exist and at the end of the process a pituitary gland exists." +#### Added +- [neuromast supporting cell](http://purl.obolibrary.org/obo/CL_0000852) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009363" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [results in formation of](http://purl.obolibrary.org/obo/RO_0002297) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) -- [results in formation of](http://purl.obolibrary.org/obo/RO_0002297) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) +### neuron `http://purl.obolibrary.org/obo/CL_0000540` +#### Removed +- [neuron](http://purl.obolibrary.org/obo/CL_0000540) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005106" #### Added -- [results in formation of](http://purl.obolibrary.org/obo/RO_0002297) [label](http://www.w3.org/2000/01/rdf-schema#label) "results in formation of anatomical entity"@en - +- [neuron](http://purl.obolibrary.org/obo/CL_0000540) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005106" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### results in growth of `http://purl.obolibrary.org/obo/RO_0002343` -#### Removed -- [results in growth of](http://purl.obolibrary.org/obo/RO_0002343) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +- [neuron](http://purl.obolibrary.org/obo/CL_0000540) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009248" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [results in growth of](http://purl.obolibrary.org/obo/RO_0002343) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "'pollen tube growth' results_in growth_of some 'pollen tube'" +### neuron associated cell `http://purl.obolibrary.org/obo/CL_0000095` +#### Added +- [neuron associated cell](http://purl.obolibrary.org/obo/CL_0000095) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### results in maturation of `http://purl.obolibrary.org/obo/RO_0002299` -#### Removed -- [results in maturation of](http://purl.obolibrary.org/obo/RO_0002299) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) -- [results in maturation of](http://purl.obolibrary.org/obo/RO_0002299) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "GOC:mtg_berkeley_2013" +### neuron migration `http://purl.obolibrary.org/obo/GO_0001764` -- [results in maturation of](http://purl.obolibrary.org/obo/RO_0002299) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) +#### Added +- [neuron migration](http://purl.obolibrary.org/obo/GO_0001764) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [results in maturation of](http://purl.obolibrary.org/obo/RO_0002299) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) " an annotation of gene X to cell maturation with results_in_maturation_of CL:0000057 (fibroblast) means that the fibroblast is mature at the end of the process" -- [results in maturation of](http://purl.obolibrary.org/obo/RO_0002299) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "bone maturation (GO:0070977) results_in_maturation_of bone (UBERON:0001474)"@en +### neuron projection bundle `http://purl.obolibrary.org/obo/UBERON_0000122` +#### Added +- [neuron projection bundle](http://purl.obolibrary.org/obo/UBERON_0000122) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005099" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### results in morphogenesis of `http://purl.obolibrary.org/obo/RO_0002298` -#### Removed -- [results in morphogenesis of](http://purl.obolibrary.org/obo/RO_0002298) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +### neuron projection bundle connecting eye with brain `http://purl.obolibrary.org/obo/UBERON_0004904` -- [results in morphogenesis of](http://purl.obolibrary.org/obo/RO_0002298) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "an annotation of gene X to cell morphogenesis with results_in_morphogenesis_of CL:0000540 (neuron) means that at the end of the process an input neuron has attained its shape." +#### Added +- [neuron projection bundle connecting eye with brain](http://purl.obolibrary.org/obo/UBERON_0004904) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001956" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [results in morphogenesis of](http://purl.obolibrary.org/obo/RO_0002298) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "tongue morphogenesis (GO:0043587) results in morphogenesis of tongue (UBERON:0001723)"@en -- [results in morphogenesis of](http://purl.obolibrary.org/obo/RO_0002298) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) +### neuronal receptor cell `http://purl.obolibrary.org/obo/CL_0000006` -- [results in morphogenesis of](http://purl.obolibrary.org/obo/RO_0002298) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "GOC:mtg_berkeley_2013" +#### Added +- [neuronal receptor cell](http://purl.obolibrary.org/obo/CL_0000006) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any sensory receptor cell that is a(n) neuron and is capable of some detection of stimulus involved in sensory perception." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" +- [neuronal receptor cell](http://purl.obolibrary.org/obo/CL_0000006) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009001" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### results in movement of `http://purl.obolibrary.org/obo/RO_0002565` -#### Removed -- [results in movement of](http://purl.obolibrary.org/obo/RO_0002565) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +### neuroplacodal cell `http://purl.obolibrary.org/obo/CL_0000032` -- [results in movement of](http://purl.obolibrary.org/obo/RO_0002565) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "" +#### Added +- [neuroplacodal cell](http://purl.obolibrary.org/obo/CL_0000032) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009012" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [neuroplacodal cell](http://purl.obolibrary.org/obo/CL_0000032) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### results in transport across `http://purl.obolibrary.org/obo/RO_0002342` -#### Removed -- [results in transport across](http://purl.obolibrary.org/obo/RO_0002342) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +### neurula embryo `http://purl.obolibrary.org/obo/UBERON_0004455` +#### Added +- [neurula embryo](http://purl.obolibrary.org/obo/UBERON_0004455) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### results in transport along `http://purl.obolibrary.org/obo/RO_0002341` +### neutral amino acid transmembrane export from vacuole `http://purl.obolibrary.org/obo/GO_0034489` #### Removed -- [results in transport along](http://purl.obolibrary.org/obo/RO_0002341) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +- [neutral amino acid transmembrane export from vacuole](http://purl.obolibrary.org/obo/GO_0034489) EquivalentTo [neutral amino acid transport](http://purl.obolibrary.org/obo/GO_0015804) and ([has target start location](http://purl.obolibrary.org/obo/RO_0002338) some [vacuolar lumen](http://purl.obolibrary.org/obo/GO_0005775)) and ([has target end location](http://purl.obolibrary.org/obo/RO_0002339) some [cytosol](http://purl.obolibrary.org/obo/GO_0005829)) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [membrane](http://purl.obolibrary.org/obo/GO_0016020)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33709](http://purl.obolibrary.org/obo/CHEBI_33709)) +#### Added +- [neutral amino acid transmembrane export from vacuole](http://purl.obolibrary.org/obo/GO_0034489) EquivalentTo [neutral amino acid transport](http://purl.obolibrary.org/obo/GO_0015804) and ([has target start location](http://purl.obolibrary.org/obo/RO_0002338) some [vacuolar lumen](http://purl.obolibrary.org/obo/GO_0005775)) and ([has target end location](http://purl.obolibrary.org/obo/RO_0002339) some [cytosol](http://purl.obolibrary.org/obo/GO_0005829)) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [membrane](http://purl.obolibrary.org/obo/GO_0016020)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238)) -### results in transport to from or in `http://purl.obolibrary.org/obo/RO_0002344` +### neutral amino acid transmembrane import into vacuole `http://purl.obolibrary.org/obo/GO_0034491` #### Removed -- [results in transport to from or in](http://purl.obolibrary.org/obo/RO_0002344) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "'mitochondrial transport' results_in_transport_to_from_or_in some mitochondrion (GO:0005739)" +- [neutral amino acid transmembrane import into vacuole](http://purl.obolibrary.org/obo/GO_0034491) EquivalentTo [neutral amino acid transport](http://purl.obolibrary.org/obo/GO_0015804) and ([has target start location](http://purl.obolibrary.org/obo/RO_0002338) some [cytosol](http://purl.obolibrary.org/obo/GO_0005829)) and ([has target end location](http://purl.obolibrary.org/obo/RO_0002339) some [vacuolar lumen](http://purl.obolibrary.org/obo/GO_0005775)) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [membrane](http://purl.obolibrary.org/obo/GO_0016020)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33709](http://purl.obolibrary.org/obo/CHEBI_33709)) -- [results in transport to from or in](http://purl.obolibrary.org/obo/RO_0002344) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +#### Added +- [neutral amino acid transmembrane import into vacuole](http://purl.obolibrary.org/obo/GO_0034491) EquivalentTo [neutral amino acid transport](http://purl.obolibrary.org/obo/GO_0015804) and ([has target start location](http://purl.obolibrary.org/obo/RO_0002338) some [cytosol](http://purl.obolibrary.org/obo/GO_0005829)) and ([has target end location](http://purl.obolibrary.org/obo/RO_0002339) some [vacuolar lumen](http://purl.obolibrary.org/obo/GO_0005775)) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [membrane](http://purl.obolibrary.org/obo/GO_0016020)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238)) +### neutrophil `http://purl.obolibrary.org/obo/CL_0000775` -### reticular formation `http://purl.obolibrary.org/obo/UBERON_0002275` -#### Removed -- [reticular formation](http://purl.obolibrary.org/obo/UBERON_0002275) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class denotes the generic structure, and not a specific one such as medullary or pontine reticular formation." +#### Added +- [neutrophil](http://purl.obolibrary.org/obo/CL_0000775) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009327" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [reticular formation](http://purl.obolibrary.org/obo/UBERON_0002275) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA has a spinal cord reticular formation but we follow NNs (classical) to restrict this to brainstem structures. This means we also include the MA class for brainstem reticular formation here. FMA has subtypes of reticular formation but we treat this as a composite structure" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" -- [reticular formation](http://purl.obolibrary.org/obo/UBERON_0002275) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "It is essential for governing some of the basic functions of higher organisms, and is one of the phylogenetically oldest portions of the brain." +### neutrophil progenitor cell `http://purl.obolibrary.org/obo/CL_0000834` +#### Added +- [neutrophil progenitor cell](http://purl.obolibrary.org/obo/CL_0000834) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009352" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### reticular layer of dermis `http://purl.obolibrary.org/obo/UBERON_0001993` +### neutrophilic metamyelocyte `http://purl.obolibrary.org/obo/CL_0000582` #### Added -- [reticular layer of dermis](http://purl.obolibrary.org/obo/UBERON_0001993) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [neutrophilic metamyelocyte](http://purl.obolibrary.org/obo/CL_0000582) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009268" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### retina `http://purl.obolibrary.org/obo/UBERON_0000966` -#### Removed -- [retina](http://purl.obolibrary.org/obo/UBERON_0000966) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007)" +### neutrophilic myeloblast `http://purl.obolibrary.org/obo/CL_0000042` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [neutrophilic myeloblast](http://purl.obolibrary.org/obo/CL_0000042) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009018" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000229" +### neutrophilic myelocyte `http://purl.obolibrary.org/obo/CL_0000580` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [neutrophilic myelocyte](http://purl.obolibrary.org/obo/CL_0000580) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009266" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [retina](http://purl.obolibrary.org/obo/UBERON_0000966) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The portion of the eye developing from the optic primordium and including the neural retina and the retinal pigment layer. Kimmel et al, 1995.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000152" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +### neutrophilic promyelocyte `http://purl.obolibrary.org/obo/CL_0000564` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [neutrophilic promyelocyte](http://purl.obolibrary.org/obo/CL_0000564) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009257" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" -- [retina](http://purl.obolibrary.org/obo/UBERON_0000966) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "retinal" +### nipple morphogenesis `http://purl.obolibrary.org/obo/GO_0060658` +#### Added +- [nipple morphogenesis](http://purl.obolibrary.org/obo/GO_0060658) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### retina blood vessel `http://purl.obolibrary.org/obo/UBERON_0003501` +### nitrergic neuron `http://purl.obolibrary.org/obo/CL_0000528` #### Added -- [retina blood vessel](http://purl.obolibrary.org/obo/UBERON_0003501) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) +- [nitrergic neuron](http://purl.obolibrary.org/obo/CL_0000528) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009240" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### retinal neural layer `http://purl.obolibrary.org/obo/UBERON_0003902` +### nitrogen compound metabolic process `http://purl.obolibrary.org/obo/GO_0006807` #### Removed -- [retinal neural layer](http://purl.obolibrary.org/obo/UBERON_0003902) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429" +- [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_pir](http://purl.obolibrary.org/obo/go#goslim_pir) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/26424"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The chemical reactions and pathways involving organic or inorganic compounds that contain nitrogen." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:jl" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ISBN:0198506732" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000535" +- [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0006807" -- [retinal neural layer](http://purl.obolibrary.org/obo/UBERON_0003902) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) +- [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_metagenomics](http://purl.obolibrary.org/obo/go#goslim_metagenomics) +- [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "nitrogen compound metabolism" -### rhombencephalon neural crest `http://purl.obolibrary.org/obo/UBERON_0003852` -#### Removed -- [rhombencephalon neural crest](http://purl.obolibrary.org/obo/UBERON_0003852) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" + +- [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807) [label](http://www.w3.org/2000/01/rdf-schema#label) "nitrogen compound metabolic process" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- Class: [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807) EquivalentTo [metabolic process](http://purl.obolibrary.org/obo/GO_0008152) and ([has primary input or output](http://purl.obolibrary.org/obo/RO_0004007) some [CHEBI_51143](http://purl.obolibrary.org/obo/CHEBI_51143)) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43" +- [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807) SubClassOf [metabolic process](http://purl.obolibrary.org/obo/GO_0008152) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001210" +- [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807) SubClassOf [has primary input or output](http://purl.obolibrary.org/obo/RO_0004007) some [CHEBI_51143](http://purl.obolibrary.org/obo/CHEBI_51143) -- [rhombencephalon neural crest](http://purl.obolibrary.org/obo/UBERON_0003852) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cranial neural crest that is part of the hindbrain.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### nitrogen compound transport `http://purl.obolibrary.org/obo/GO_0071705` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0007063" +#### Added +- [nitrogen compound transport](http://purl.obolibrary.org/obo/GO_0071705) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) +- [nitrogen compound transport](http://purl.obolibrary.org/obo/GO_0071705) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### rhombic lip `http://purl.obolibrary.org/obo/UBERON_0006215` +### nitrogen cycle metabolic process `http://purl.obolibrary.org/obo/GO_0071941` #### Removed -- [rhombic lip](http://purl.obolibrary.org/obo/UBERON_0006215) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The interface between the dorsal neuroepithelium and the roofplate of the fourth ventricle. The source of a number of migratory neuron populations of the hindbrain.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [nitrogen cycle metabolic process](http://purl.obolibrary.org/obo/GO_0071941) SubClassOf [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [nitrogen cycle metabolic process](http://purl.obolibrary.org/obo/GO_0071941) SubClassOf [metabolic process](http://purl.obolibrary.org/obo/GO_0008152) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001440" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### nitrogen fixing cell `http://purl.obolibrary.org/obo/CL_0000725` +#### Added +- [nitrogen fixing cell](http://purl.obolibrary.org/obo/CL_0000725) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any cell that is capable of some nitrogen fixation." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### rhombomere `http://purl.obolibrary.org/obo/UBERON_0001892` +### non-classical monocyte `http://purl.obolibrary.org/obo/CL_0000875` #### Removed -- [rhombomere](http://purl.obolibrary.org/obo/UBERON_0001892) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "DHBA divides this into A(1-3),B(4),C(5-7) and D(8)" +- [non-classical monocyte](http://purl.obolibrary.org/obo/CL_0000875) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [rhombomere](http://purl.obolibrary.org/obo/UBERON_0001892) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A segment of the developing hindbrain. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001064" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### non-connected functional system `http://purl.obolibrary.org/obo/UBERON_0015203` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [non-connected functional system](http://purl.obolibrary.org/obo/UBERON_0015203) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007278" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [rhombomere](http://purl.obolibrary.org/obo/UBERON_0001892) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Rhombomeric segmentation is found in all living vertebrates and is of fundamental importance to the development of the vertebrate head.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### noradrenergic cell `http://purl.obolibrary.org/obo/CL_0000459` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [noradrenergic cell](http://purl.obolibrary.org/obo/CL_0000459) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009214" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000672" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1006/dbio.2002.0831 Mazet F, Shimeld SM, The Evolution of Chordate Neural Segmentation. Developmental Biology (2002)" +### noradrenergic neuron `http://purl.obolibrary.org/obo/CL_0008025` -- [rhombomere](http://purl.obolibrary.org/obo/UBERON_0001892) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In human embryonic development, the rhombomeres are present by day 29" +#### Added +- [noradrenergic neuron](http://purl.obolibrary.org/obo/CL_0008025) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005873" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +### norepinephrine binding `http://purl.obolibrary.org/obo/GO_0051380` -### rhombomere 1 `http://purl.obolibrary.org/obo/UBERON_0005499` -#### Removed -- [rhombomere 1](http://purl.obolibrary.org/obo/UBERON_0005499) [UBPROP_0000111](http://purl.obolibrary.org/obo/UBPROP_0000111) "1"^^[nonNegativeInteger](http://www.w3.org/2001/XMLSchema#nonNegativeInteger) +#### Added +- [norepinephrine binding](http://purl.obolibrary.org/obo/GO_0051380) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [rhombomere 1](http://purl.obolibrary.org/obo/UBERON_0005499) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Hindbrain segment or neuromere. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001031" +### norepinephrine metabolic process `http://purl.obolibrary.org/obo/GO_0042415` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [norepinephrine metabolic process](http://purl.obolibrary.org/obo/GO_0042415) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" -- [rhombomere 1](http://purl.obolibrary.org/obo/UBERON_0005499) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [presumptive rhombomere 1](http://purl.obolibrary.org/obo/UBERON_0007289) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" +### notochord formation `http://purl.obolibrary.org/obo/GO_0014028` #### Added -- [rhombomere 1](http://purl.obolibrary.org/obo/UBERON_0005499) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [presumptive rhombomere 1](http://purl.obolibrary.org/obo/UBERON_0007289) +- [notochord formation](http://purl.obolibrary.org/obo/GO_0014028) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### rhombomere boundary `http://purl.obolibrary.org/obo/UBERON_0018239` +### notochordal cell `http://purl.obolibrary.org/obo/CL_0007005` #### Added -- [rhombomere boundary](http://purl.obolibrary.org/obo/UBERON_0018239) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [notochordal cell](http://purl.obolibrary.org/obo/CL_0007005) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### rib `http://purl.obolibrary.org/obo/UBERON_0002228` -#### Removed -- [rib](http://purl.obolibrary.org/obo/UBERON_0002228) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In most vertebrates, ribs surround the chest. In some species, especially snakes, ribs may provide support and protection for the entire body" - -- [rib](http://purl.obolibrary.org/obo/UBERON_0002228) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Endochondral, rodlike element that articulates with the transverse process and parapophysis (double-headed rib), or with the transverse process only (single-headed rib); it extends into the body wall and provides a site for muscle attachment.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### notochordal process `http://purl.obolibrary.org/obo/UBERON_0006268` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [notochordal process](http://purl.obolibrary.org/obo/UBERON_0006268) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:Pugener_2002" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000545" +### notochordal sheath cell `http://purl.obolibrary.org/obo/CL_0007007` -- [rib](http://purl.obolibrary.org/obo/UBERON_0002228) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Endochondral bone that is intersegmental and rod-shaped, forming in the peritoneal membrane and attached to the vertebral parapophyses. Ribs protect and support internal organs.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +#### Added +- [notochordal sheath cell](http://purl.obolibrary.org/obo/CL_0007007) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005744" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### nuclear protein-containing complex `http://purl.obolibrary.org/obo/GO_0140513` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000538" +#### Added +- [nuclear protein-containing complex](http://purl.obolibrary.org/obo/GO_0140513) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -- [rib](http://purl.obolibrary.org/obo/UBERON_0002228) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "costal" -- [rib](http://purl.obolibrary.org/obo/UBERON_0002228) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "They protect and support internal organs and enable lungs to expand by expanding the chest." +### nuclear receptor signaling pathway `http://purl.obolibrary.org/obo/GO_0141193` -- [rib](http://purl.obolibrary.org/obo/UBERON_0002228) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VO:0012403" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +#### Added +- [nuclear receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0141193) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "pg" - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +- [nuclear receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0141193) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2024-04-12T13:08:13Z" - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) +- [nuclear receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0141193) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The series of molecular signals initiated by a signaling molecule binding to its nuclear receptor inside the cell, and ending with the regulation of a downstream cellular process, e.g. transcription." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:25614732" -- [rib](http://purl.obolibrary.org/obo/UBERON_0002228) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [rib cartilage element](http://purl.obolibrary.org/obo/UBERON_0006288) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" +- [nuclear receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0141193) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0141193" -#### Added -- [rib](http://purl.obolibrary.org/obo/UBERON_0002228) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [rib cartilage element](http://purl.obolibrary.org/obo/UBERON_0006288) +- [nuclear receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0141193) [label](http://www.w3.org/2000/01/rdf-schema#label) "nuclear receptor signaling pathway" +- [nuclear receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0141193) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -### rib endochondral element `http://purl.obolibrary.org/obo/UBERON_0015019` -#### Removed -- [rib endochondral element](http://purl.obolibrary.org/obo/UBERON_0015019) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Humans have 24 ribs (12 pairs). The first seven sets of ribs, known as 'true ribs', are directly attached to the sternum through the costal cartilage. The following five sets are known as 'false ribs', three of these sharing a common cartilaginous connection to the sternum, while the last two (eleventh and twelfth ribs) are termed floating ribs (costae fluitantes) or vertebral ribs. They are attached to the vertebrae only, and not to the sternum or cartilage coming off of the sternum. Some people are missing one of the two pairs of floating ribs, while others have a third pair. Rib removal is the surgical excision of ribs for therapeutic or cosmetic reasons. In fish, there are often two sets of ribs attached to the vertebral column. One set, the dorsal ribs, are found in the dividing septum between the upper and lower parts of the main muscle segments, projecting roughly sideways from the vertebral column. The second set, of ventral ribs arise from the vertebral column just below the dorsal ribs, and enclose the lower body, often joining at the tips. Not all species possess both types of rib, with the dorsal ribs being most commonly absent. Sharks, for example, have no dorsal ribs, and only very short ventral ribs, while lampreys have no ribs at all. In some teleosts, there may be additional rib-like bones within the muscle mass. Tetrapods, however, only ever have a single set of ribs which are probably homologous with the dorsal ribs of fishes. In the early tetrapods, every vertebra bore a pair of ribs, although those on the thoracic vertebrae are typically the longest. The sacral ribs were stout and short, since they formed part of the pelvis, connecting the backbone to the hip bones.[1] In most subsequent forms, many of these early ribs have been lost, and in living amphibians and reptiles, there is great variation in rib structure and number. For example, turtles have only eight pairs of ribs, which are developed into a bony or cartilagenous carapace and plastron, while snakes have numerous ribs running along the full length of their trunk. Frogs typically have no ribs, aside from a sacral pair, which form part of the pelvis.[1]. In birds, ribs are present as distinct bones only on the thoracic region, although small fused ribs are present on the cervical vertebrae. The thoracic ribs of birds possess a wide projection to the rear; this uncinate process is an attachment for the shoulder muscles.[1]. Mammals usually also only have distinct ribs on the thoracic vertebra, although fixed cervical ribs are also present in monotremes. In marsupials and placental mammals, the cervical and lumbar ribs are found only as tiny remnants fused to the vertebrae, where they are referred to as transverse processes. In general, the structure and number of the true ribs in humans is similar to that in other mammals. Unlike reptiles, caudal ribs are never found in mammals." +- Class: [nuclear receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0141193) +- [nuclear receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0141193) SubClassOf [intracellular receptor signaling pathway](http://purl.obolibrary.org/obo/GO_0030522) -### right adrenal gland `http://purl.obolibrary.org/obo/UBERON_0001233` +### nuclear steroid receptor activity `http://purl.obolibrary.org/obo/GO_0003707` #### Removed -- [right adrenal gland](http://purl.obolibrary.org/obo/UBERON_0001233) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, the right adrenal gland is triangular shaped" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" +- [nuclear steroid receptor activity](http://purl.obolibrary.org/obo/GO_0003707) EquivalentTo [signaling receptor activity](http://purl.obolibrary.org/obo/GO_0038023) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_26764](http://purl.obolibrary.org/obo/CHEBI_26764)) + +- [nuclear steroid receptor activity](http://purl.obolibrary.org/obo/GO_0003707) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_26764](http://purl.obolibrary.org/obo/CHEBI_26764) -- [right adrenal gland](http://purl.obolibrary.org/obo/UBERON_0001233) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +#### Added +- [nuclear steroid receptor activity](http://purl.obolibrary.org/obo/GO_0003707) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/26957"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [nuclear steroid receptor activity](http://purl.obolibrary.org/obo/GO_0003707) SubClassOf [DNA-binding transcription factor activity, RNA polymerase II-specific](http://purl.obolibrary.org/obo/GO_0000981) -### right atrium valve `http://purl.obolibrary.org/obo/UBERON_0005208` +### nucleate erythrocyte `http://purl.obolibrary.org/obo/CL_0000562` #### Added -- [right atrium valve](http://purl.obolibrary.org/obo/UBERON_0005208) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [nucleate erythrocyte](http://purl.obolibrary.org/obo/CL_0000562) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009256" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### right atrium venous valve `http://purl.obolibrary.org/obo/UBERON_0010189` -#### Removed -- [right atrium venous valve](http://purl.obolibrary.org/obo/UBERON_0010189) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "part_of in EHDAA2. Only child in MA." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" +### nucleated thrombocyte `http://purl.obolibrary.org/obo/CL_0000762` +#### Added +- [nucleated thrombocyte](http://purl.obolibrary.org/obo/CL_0000762) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009323" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### right bundle branch `http://purl.obolibrary.org/obo/UBERON_0005987` +### nucleic acid binding `http://purl.obolibrary.org/obo/GO_0003676` #### Added -- [right bundle branch](http://purl.obolibrary.org/obo/UBERON_0005987) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) +- [nucleic acid binding](http://purl.obolibrary.org/obo/GO_0003676) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### right cardiac atrium `http://purl.obolibrary.org/obo/UBERON_0002078` -#### Removed -- [right cardiac atrium](http://purl.obolibrary.org/obo/UBERON_0002078) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Right cardiac chamber which is continuous with the superior vena cava and inferior vena cava.[FMA]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:7096" +### nucleic acid biosynthetic process `http://purl.obolibrary.org/obo/GO_0141187` -- [right cardiac atrium](http://purl.obolibrary.org/obo/UBERON_0002078) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +#### Added +- [nucleic acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0141187) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27408"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [right cardiac atrium](http://purl.obolibrary.org/obo/UBERON_0002078) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The tetrapod clade develops a complete atrial septum and loses the fifth aortic arch altogether.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000328" +- [nucleic acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0141187) [label](http://www.w3.org/2000/01/rdf-schema#label) "nucleic acid biosynthetic process" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [nucleic acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0141187) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term." - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [nucleic acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0141187) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The biosynthetic process resulting in the formation of a nucleic acid." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:dph" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:tb" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620" +- [nucleic acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0141187) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2024-03-25T07:33:40Z" +- [nucleic acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0141187) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" +- [nucleic acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0141187) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "pg" -### right cardiac chamber `http://purl.obolibrary.org/obo/UBERON_0035554` +- [nucleic acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0141187) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -#### Added -- [right cardiac chamber](http://purl.obolibrary.org/obo/UBERON_0035554) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) +- [nucleic acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0141187) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0141187" +- Class: [nucleic acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0141187) -### right cerebral hemisphere `http://purl.obolibrary.org/obo/UBERON_0002813` -#### Removed -- [right cerebral hemisphere](http://purl.obolibrary.org/obo/UBERON_0002813) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [nucleic acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0141187) EquivalentTo [metabolic process](http://purl.obolibrary.org/obo/GO_0008152) and ([has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_33696](http://purl.obolibrary.org/obo/CHEBI_33696)) +- [nucleic acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0141187) SubClassOf [nucleic acid metabolic process](http://purl.obolibrary.org/obo/GO_0090304) +- [nucleic acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0141187) SubClassOf [has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_33696](http://purl.obolibrary.org/obo/CHEBI_33696) -### right clavicle `http://purl.obolibrary.org/obo/UBERON_0008255` -#### Removed -- [right clavicle](http://purl.obolibrary.org/obo/UBERON_0008255) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +### nucleic acid catabolic process `http://purl.obolibrary.org/obo/GO_0141188` +#### Added +- [nucleic acid catabolic process](http://purl.obolibrary.org/obo/GO_0141188) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -### right common carotid artery plus branches `http://purl.obolibrary.org/obo/UBERON_0001531` -#### Removed -- [right common carotid artery plus branches](http://purl.obolibrary.org/obo/UBERON_0001531) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "placement of the MA class here is not strictly correct, as the MA class does not include the branches" +- [nucleic acid catabolic process](http://purl.obolibrary.org/obo/GO_0141188) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "pg" +- [nucleic acid catabolic process](http://purl.obolibrary.org/obo/GO_0141188) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27408"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [nucleic acid catabolic process](http://purl.obolibrary.org/obo/GO_0141188) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0141188" -### right common iliac artery `http://purl.obolibrary.org/obo/UBERON_0035322` +- [nucleic acid catabolic process](http://purl.obolibrary.org/obo/GO_0141188) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -#### Added -- [right common iliac artery](http://purl.obolibrary.org/obo/UBERON_0035322) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) +- [nucleic acid catabolic process](http://purl.obolibrary.org/obo/GO_0141188) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2024-03-25T07:35:06Z" +- [nucleic acid catabolic process](http://purl.obolibrary.org/obo/GO_0141188) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term." -### right crus of diaphragm `http://purl.obolibrary.org/obo/UBERON_0014766` -#### Removed -- [right crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014766) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "external sphincter of esophagus" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:58286" +- [nucleic acid catabolic process](http://purl.obolibrary.org/obo/GO_0141188) [label](http://www.w3.org/2000/01/rdf-schema#label) "nucleic acid catabolic process" -- [right crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014766) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "right crus of lumbar part of diaphragm" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:58286" +- [nucleic acid catabolic process](http://purl.obolibrary.org/obo/GO_0141188) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The cellular DNA metabolic process resulting in the breakdown of a nucleic acid." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:curators" -- [right crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014766) [id](http://www.geneontology.org/formats/oboInOwl#id) "UBERON:0014766" +- Class: [nucleic acid catabolic process](http://purl.obolibrary.org/obo/GO_0141188) -- [right crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014766) [label](http://www.w3.org/2000/01/rdf-schema#label) "right crus of diaphragm" +- [nucleic acid catabolic process](http://purl.obolibrary.org/obo/GO_0141188) EquivalentTo [metabolic process](http://purl.obolibrary.org/obo/GO_0008152) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33696](http://purl.obolibrary.org/obo/CHEBI_33696)) -- [right crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014766) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [nucleic acid catabolic process](http://purl.obolibrary.org/obo/GO_0141188) SubClassOf [nucleic acid metabolic process](http://purl.obolibrary.org/obo/GO_0090304) -- [right crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014766) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "SCTID:362690009" +- [nucleic acid catabolic process](http://purl.obolibrary.org/obo/GO_0141188) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33696](http://purl.obolibrary.org/obo/CHEBI_33696) -- [right crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014766) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" -- [right crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014766) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A crus of diaphragm that is in_the_right_side_of a diaphragm." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "OBOL:automatic" +### nucleic acid metabolic process `http://purl.obolibrary.org/obo/GO_0090304` -- [right crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014766) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "right crus of diaphragm" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:58286" +#### Added +- [nucleic acid metabolic process](http://purl.obolibrary.org/obo/GO_0090304) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term." -- [right crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014766) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:58286" +- [nucleic acid metabolic process](http://purl.obolibrary.org/obo/GO_0090304) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27052"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [right crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014766) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "crus dextrum diaphragmatis" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [OMO_0003011](http://purl.obolibrary.org/obo/OMO_0003011) +- [nucleic acid metabolic process](http://purl.obolibrary.org/obo/GO_0090304) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:58286" +- [nucleic acid metabolic process](http://purl.obolibrary.org/obo/GO_0090304) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:TA" -- [right crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014766) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "crus dextrum (Diaphragma)" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [OMO_0003011](http://purl.obolibrary.org/obo/OMO_0003011) +### nucleic acid transport `http://purl.obolibrary.org/obo/GO_0050657` - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:58286" +#### Added +- [nucleic acid transport](http://purl.obolibrary.org/obo/GO_0050657) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:TA" -- Class: [right crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014766) +### nucleobase-containing compound biosynthetic process `http://purl.obolibrary.org/obo/GO_0034654` +#### Removed +- [nucleobase-containing compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0034654) SubClassOf [cellular nitrogen compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0044271) -- [right crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014766) EquivalentTo [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) and ([in right side of](http://purl.obolibrary.org/obo/BSPO_0000121) some [diaphragm](http://purl.obolibrary.org/obo/UBERON_0001103)) +#### Added +- [nucleobase-containing compound biosynthetic process](http://purl.obolibrary.org/obo/GO_0034654) SubClassOf [biosynthetic process](http://purl.obolibrary.org/obo/GO_0009058) -- [right crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014766) SubClassOf [in right side of](http://purl.obolibrary.org/obo/BSPO_0000121) some [diaphragm](http://purl.obolibrary.org/obo/UBERON_0001103) -- [right crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014766) SubClassOf [crus of diaphragm](http://purl.obolibrary.org/obo/UBERON_0014765) +### nucleobase-containing compound catabolic process `http://purl.obolibrary.org/obo/GO_0034655` +#### Removed +- [nucleobase-containing compound catabolic process](http://purl.obolibrary.org/obo/GO_0034655) SubClassOf [cellular nitrogen compound catabolic process](http://purl.obolibrary.org/obo/GO_0044270) +#### Added +- [nucleobase-containing compound catabolic process](http://purl.obolibrary.org/obo/GO_0034655) SubClassOf [catabolic process](http://purl.obolibrary.org/obo/GO_0009056) -### right dorsal aorta `http://purl.obolibrary.org/obo/UBERON_0005622` +### nucleobase-containing compound metabolic process `http://purl.obolibrary.org/obo/GO_0006139` #### Removed -- [right dorsal aorta](http://purl.obolibrary.org/obo/UBERON_0005622) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Normally regresses in humans" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://emedicine.medscape.com/article/899609-overview" +- [nucleobase-containing compound metabolic process](http://purl.obolibrary.org/obo/GO_0006139) SubClassOf [cellular nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0034641) + +#### Added +- [nucleobase-containing compound metabolic process](http://purl.obolibrary.org/obo/GO_0006139) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [right dorsal aorta](http://purl.obolibrary.org/obo/UBERON_0005622) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "A study of embryos shows that in all vertebrates six arterial arches link the ventral aorta with a pair of lateral dorsal aortae on each side of the body. The latter unite posteriorly to form a single median dorsal aorta wich takes blood to the body.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000485" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### nucleobase-containing compound transport `http://purl.obolibrary.org/obo/GO_0015931` + +#### Added +- [nucleobase-containing compound transport](http://purl.obolibrary.org/obo/GO_0015931) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### nucleus `http://purl.obolibrary.org/obo/GO_0005634` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0174480198 Roberts MBV, Biology: a functional approach (1986) p.572" +#### Added +- [nucleus](http://purl.obolibrary.org/obo/GO_0005634) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) +- [nucleus](http://purl.obolibrary.org/obo/GO_0005634) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) -### right dorsal thalamus `http://purl.obolibrary.org/obo/UBERON_0013684` -#### Removed -- [right dorsal thalamus](http://purl.obolibrary.org/obo/UBERON_0013684) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +### nucleus accumbens shell and olfactory tubercle D1 medium spiny neuron `http://purl.obolibrary.org/obo/CL_4030051` #### Added -- [right dorsal thalamus](http://purl.obolibrary.org/obo/UBERON_0013684) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) +- [nucleus accumbens shell and olfactory tubercle D1 medium spiny neuron](http://purl.obolibrary.org/obo/CL_4030051) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### right ear `http://purl.obolibrary.org/obo/UBERON_0035174` +### nucleus accumbens shell and olfactory tubercle D2 medium spiny neuron `http://purl.obolibrary.org/obo/CL_4030052` #### Added -- [right ear](http://purl.obolibrary.org/obo/UBERON_0035174) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) +- [nucleus accumbens shell and olfactory tubercle D2 medium spiny neuron](http://purl.obolibrary.org/obo/CL_4030052) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### right external ear `http://purl.obolibrary.org/obo/UBERON_0006616` +### nucleus pulposus `http://purl.obolibrary.org/obo/UBERON_0002242` #### Removed -- [right external ear](http://purl.obolibrary.org/obo/UBERON_0006616) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [nucleus pulposus](http://purl.obolibrary.org/obo/UBERON_0002242) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### right eye `http://purl.obolibrary.org/obo/UBERON_0004549` +### nurse cell apoptotic process `http://purl.obolibrary.org/obo/GO_0045476` #### Removed -- [right eye](http://purl.obolibrary.org/obo/UBERON_0004549) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [nurse cell apoptotic process](http://purl.obolibrary.org/obo/GO_0045476) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) -#### Added -- [right eye](http://purl.obolibrary.org/obo/UBERON_0004549) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) -### right forelimb `http://purl.obolibrary.org/obo/UBERON_8300001` +### obsolete polygonal cell `http://purl.obolibrary.org/obo/CL_0000398` #### Removed -- [right forelimb](http://purl.obolibrary.org/obo/UBERON_8300001) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [obsolete polygonal cell](http://purl.obolibrary.org/obo/CL_0000398) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001691" -#### Added -- [right forelimb](http://purl.obolibrary.org/obo/UBERON_8300001) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) -### right hepatic duct `http://purl.obolibrary.org/obo/UBERON_0001176` +### occurrent `http://purl.obolibrary.org/obo/BFO_0000003` #### Removed -- [right hepatic duct](http://purl.obolibrary.org/obo/UBERON_0001176) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The duct which drains bile from the right half of the liver and unites with the left hepatic duct to form the common hepatic duct. [adapted_from_http://www.medterms.com/script/main/art.asp?articlekey=26032][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) [label](http://www.w3.org/2000/01/rdf-schema#label) "occurrent"@en - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000217" +- [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "An entity that has temporal parts and that happens, unfolds or develops through time."@en - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) only [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### right hindlimb `http://purl.obolibrary.org/obo/UBERON_8300003` -#### Removed -- [right hindlimb](http://purl.obolibrary.org/obo/UBERON_8300003) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +### odontoblast `http://purl.obolibrary.org/obo/CL_0000060` #### Added -- [right hindlimb](http://purl.obolibrary.org/obo/UBERON_8300003) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) +- [odontoblast](http://purl.obolibrary.org/obo/CL_0000060) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009029" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### right horn of sinus venosus `http://purl.obolibrary.org/obo/UBERON_0005092` -#### Removed -- [right horn of sinus venosus](http://purl.obolibrary.org/obo/UBERON_0005092) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Three major adaptations, or 'novel cardiac components', that were not present in the ancestor chordate heart tube can be distinguished in the lower vertebrate heart: the atrium, ventricle, and possibly the muscular sinus venosus.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### odontoclast `http://purl.obolibrary.org/obo/CL_0000588` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [odontoclast](http://purl.obolibrary.org/obo/CL_0000588) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009270" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1152/physrev.00006.2003 Moorman AFM, Christoffels VM, Cardiac Chamber Formation: Development, Genes, and Evolution. Physiological Reviews (2003" +### odontocyte `http://purl.obolibrary.org/obo/CL_0000140` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000489" +#### Added +- [odontocyte](http://purl.obolibrary.org/obo/CL_0000140) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009086" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [odontocyte](http://purl.obolibrary.org/obo/CL_0000140) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### right kidney `http://purl.obolibrary.org/obo/UBERON_0004539` +### oenocyte `http://purl.obolibrary.org/obo/CL_0000487` #### Removed -- [right kidney](http://purl.obolibrary.org/obo/UBERON_0004539) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [oenocyte](http://purl.obolibrary.org/obo/CL_0000487) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004995" +#### Added +- [oenocyte](http://purl.obolibrary.org/obo/CL_0000487) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004995" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### right lateral ventricle `http://purl.obolibrary.org/obo/UBERON_0013162` -#### Removed -- [right lateral ventricle](http://purl.obolibrary.org/obo/UBERON_0013162) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +### olfactory bulb interneuron `http://purl.obolibrary.org/obo/CL_1001434` #### Added -- [right lateral ventricle](http://purl.obolibrary.org/obo/UBERON_0013162) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) +- [olfactory bulb interneuron](http://purl.obolibrary.org/obo/CL_1001434) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### right lobe of liver `http://purl.obolibrary.org/obo/UBERON_0001114` -#### Removed -- [right lobe of liver](http://purl.obolibrary.org/obo/UBERON_0001114) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of the liver which develops on the fish's right side adjacent to the gall bladder.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +### olfactory bulb tufted cell `http://purl.obolibrary.org/obo/CL_1001503` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005173" +#### Added +- [olfactory bulb tufted cell](http://purl.obolibrary.org/obo/CL_1001503) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### olfactory epithelial supporting cell `http://purl.obolibrary.org/obo/CL_0000853` +#### Added +- [olfactory epithelial supporting cell](http://purl.obolibrary.org/obo/CL_0000853) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009364" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### right lobe of thyroid gland `http://purl.obolibrary.org/obo/UBERON_0001119` -#### Removed -- [right lobe of thyroid gland](http://purl.obolibrary.org/obo/UBERON_0001119) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +### olfactory granule cell `http://purl.obolibrary.org/obo/CL_0000626` -- [right lobe of thyroid gland](http://purl.obolibrary.org/obo/UBERON_0001119) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Thus, a thyroid capable of forming iodotyrosines and iodothyronines is present in all vertebrates. (...) Certain morphologic changes occur after the biochemical evolution of the thyroid has ceased. In the adult lamprey and in most bony fishes, the gland is not encapsulated. (...) In cartilaginous fish, the thyroid is encapsulated. In the higher vertebrate forms, the thyroid is a one- or two-lobed encapsulated structure.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [olfactory granule cell](http://purl.obolibrary.org/obo/CL_0000626) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0001694" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### olfactory organ `http://purl.obolibrary.org/obo/UBERON_0002268` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000733" +#### Added +- [olfactory organ](http://purl.obolibrary.org/obo/UBERON_0002268) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005158" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://www.thyroidmanager.org/Chapter1/chapter01.htm" +### olfactory pit `http://purl.obolibrary.org/obo/UBERON_0005870` +#### Added +- [olfactory pit](http://purl.obolibrary.org/obo/UBERON_0005870) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### right lung `http://purl.obolibrary.org/obo/UBERON_0002167` -#### Removed -- [right lung](http://purl.obolibrary.org/obo/UBERON_0002167) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [right lung](http://purl.obolibrary.org/obo/UBERON_0002167) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Lungs had already developed as paired ventral pockets from the intestine in the ancestor of Osteognathostomata.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### olfactory receptor cell `http://purl.obolibrary.org/obo/CL_0000207` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [olfactory receptor cell](http://purl.obolibrary.org/obo/CL_0000207) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009125" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000301" +- [olfactory receptor cell](http://purl.obolibrary.org/obo/CL_0000207) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any neuron that is capable of some detection of chemical stimulus involved in sensory perception of smell." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.210" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### oligodendrocyte `http://purl.obolibrary.org/obo/CL_0000128` +#### Added +- [oligodendrocyte](http://purl.obolibrary.org/obo/CL_0000128) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009076" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### right lung alveolar system `http://purl.obolibrary.org/obo/UBERON_0006526` +### oligodendrocyte progenitor proliferation `http://purl.obolibrary.org/obo/GO_0070444` #### Added -- [right lung alveolar system](http://purl.obolibrary.org/obo/UBERON_0006526) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [oligodendrocyte progenitor proliferation](http://purl.obolibrary.org/obo/GO_0070444) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### right lung endothelium `http://purl.obolibrary.org/obo/UBERON_0005672` +### ommatidium `http://purl.obolibrary.org/obo/UBERON_0000971` #### Added -- [right lung endothelium](http://purl.obolibrary.org/obo/UBERON_0005672) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [ommatidium](http://purl.obolibrary.org/obo/UBERON_0000971) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004510" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### right lung lobe `http://purl.obolibrary.org/obo/UBERON_0006518` +### oocyte `http://purl.obolibrary.org/obo/CL_0000023` #### Removed -- [right lung lobe](http://purl.obolibrary.org/obo/UBERON_0006518) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "4 in mice, divided into 3 in human by two interlobal fissures" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0123813611" +- [oocyte](http://purl.obolibrary.org/obo/CL_0000023) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004886" +#### Added +- [oocyte](http://purl.obolibrary.org/obo/CL_0000023) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004886" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [oocyte](http://purl.obolibrary.org/obo/CL_0000023) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0001109" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) + +- [oocyte](http://purl.obolibrary.org/obo/CL_0000023) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### right nipple `http://purl.obolibrary.org/obo/UBERON_0013773` -#### Removed -- [right nipple](http://purl.obolibrary.org/obo/UBERON_0013773) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) + +### oocyte axis specification `http://purl.obolibrary.org/obo/GO_0007309` #### Added -- [right nipple](http://purl.obolibrary.org/obo/UBERON_0013773) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) +- [oocyte axis specification](http://purl.obolibrary.org/obo/GO_0007309) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### right ovary `http://purl.obolibrary.org/obo/UBERON_0002118` +### oocyte construction `http://purl.obolibrary.org/obo/GO_0007308` #### Removed -- [right ovary](http://purl.obolibrary.org/obo/UBERON_0002118) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [oocyte construction](http://purl.obolibrary.org/obo/GO_0007308) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) -#### Added -- [right ovary](http://purl.obolibrary.org/obo/UBERON_0002118) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) -### right pelvic girdle region `http://purl.obolibrary.org/obo/UBERON_0011092` +### oocyte differentiation `http://purl.obolibrary.org/obo/GO_0009994` #### Removed -- [right pelvic girdle region](http://purl.obolibrary.org/obo/UBERON_0011092) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [oocyte differentiation](http://purl.obolibrary.org/obo/GO_0009994) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) -### right pulmonary vein `http://purl.obolibrary.org/obo/UBERON_0009032` +### oocyte growth `http://purl.obolibrary.org/obo/GO_0001555` #### Removed -- [right pulmonary vein](http://purl.obolibrary.org/obo/UBERON_0009032) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A vein that returns oxygenated blood from the right lung to the left atrium of the heart[ncithesaurus:Right_Pulmonary_Vein]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ncithesaurus:Right_Pulmonary_Vein" +- [oocyte growth](http://purl.obolibrary.org/obo/GO_0001555) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) -### right recurrent laryngeal nerve `http://purl.obolibrary.org/obo/UBERON_0011767` +### oocyte localization involved in germarium-derived egg chamber formation `http://purl.obolibrary.org/obo/GO_0030720` +#### Removed +- [oocyte localization involved in germarium-derived egg chamber formation](http://purl.obolibrary.org/obo/GO_0030720) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) -#### Added -- [right recurrent laryngeal nerve](http://purl.obolibrary.org/obo/UBERON_0011767) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) -### right renal pelvis `http://purl.obolibrary.org/obo/UBERON_0018116` +### oocyte maturation `http://purl.obolibrary.org/obo/GO_0001556` +#### Removed +- [oocyte maturation](http://purl.obolibrary.org/obo/GO_0001556) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) -#### Added -- [right renal pelvis](http://purl.obolibrary.org/obo/UBERON_0018116) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) -### right renal vein `http://purl.obolibrary.org/obo/UBERON_0001141` +### oocyte microtubule cytoskeleton organization `http://purl.obolibrary.org/obo/GO_0016325` #### Removed -- [right renal vein](http://purl.obolibrary.org/obo/UBERON_0001141) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A vein that drains blood from the right kidney into the inferior vena cava[ncithesaurus]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ncithesaurus:Right_Renal_Vein" +- [oocyte microtubule cytoskeleton organization](http://purl.obolibrary.org/obo/GO_0016325) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) -### right side of back `http://purl.obolibrary.org/obo/UBERON_8000007` +### oogonial cell `http://purl.obolibrary.org/obo/CL_0000024` #### Added -- [right side of back](http://purl.obolibrary.org/obo/UBERON_8000007) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) +- [oogonial cell](http://purl.obolibrary.org/obo/CL_0000024) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005878" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [oogonial cell](http://purl.obolibrary.org/obo/CL_0000024) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### right subclavian artery `http://purl.obolibrary.org/obo/UBERON_0001534` -#### Removed -- [right subclavian artery](http://purl.obolibrary.org/obo/UBERON_0001534) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "proximal part arises from right 4th aortic arch in humans" -- [right subclavian artery](http://purl.obolibrary.org/obo/UBERON_0001534) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in humans, arises from the relatively short brachiocephalic artery (trunk) when it bifurcates into the subclavian and the right common carotid artery" +### open tracheal system `http://purl.obolibrary.org/obo/UBERON_0005155` #### Added -- [right subclavian artery](http://purl.obolibrary.org/obo/UBERON_0001534) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) +- [open tracheal system](http://purl.obolibrary.org/obo/UBERON_0005155) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005024" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### right suprarenal vein `http://purl.obolibrary.org/obo/UBERON_0035435` +### open tracheal system trachea `http://purl.obolibrary.org/obo/UBERON_0003127` +#### Removed +- [open tracheal system trachea](http://purl.obolibrary.org/obo/UBERON_0003127) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -#### Added -- [right suprarenal vein](http://purl.obolibrary.org/obo/UBERON_0035435) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) -### right testis `http://purl.obolibrary.org/obo/UBERON_0004534` +### open tracheal system tracheocyte `http://purl.obolibrary.org/obo/CL_0008026` #### Removed -- [right testis](http://purl.obolibrary.org/obo/UBERON_0004534) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [open tracheal system tracheocyte](http://purl.obolibrary.org/obo/CL_0008026) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005038" #### Added -- [right testis](http://purl.obolibrary.org/obo/UBERON_0004534) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) +- [open tracheal system tracheocyte](http://purl.obolibrary.org/obo/CL_0008026) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005038" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### right thymus lobe `http://purl.obolibrary.org/obo/UBERON_0005469` -#### Removed -- [right thymus lobe](http://purl.obolibrary.org/obo/UBERON_0005469) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +### optic vesicle formation `http://purl.obolibrary.org/obo/GO_0003403` +#### Added +- [optic vesicle formation](http://purl.obolibrary.org/obo/GO_0003403) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### right umbilical artery `http://purl.obolibrary.org/obo/UBERON_0005470` -#### Removed -- [right umbilical artery](http://purl.obolibrary.org/obo/UBERON_0005470) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [right dorsal aorta](http://purl.obolibrary.org/obo/UBERON_0005622) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2" +### organ growth `http://purl.obolibrary.org/obo/GO_0035265` - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "check this" +#### Added +- [organ growth](http://purl.obolibrary.org/obo/GO_0035265) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [right umbilical artery](http://purl.obolibrary.org/obo/UBERON_0005470) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [right extraembryonic umbilical artery](http://purl.obolibrary.org/obo/UBERON_0011697) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "check this" +### organ system subdivision `http://purl.obolibrary.org/obo/UBERON_0011216` #### Added -- [right umbilical artery](http://purl.obolibrary.org/obo/UBERON_0005470) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [right dorsal aorta](http://purl.obolibrary.org/obo/UBERON_0005622) - -- [right umbilical artery](http://purl.obolibrary.org/obo/UBERON_0005470) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [right extraembryonic umbilical artery](http://purl.obolibrary.org/obo/UBERON_0011697) +- [organ system subdivision](http://purl.obolibrary.org/obo/UBERON_0011216) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007330" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### right umbilical vein `http://purl.obolibrary.org/obo/UBERON_0005471` -#### Removed -- [right umbilical vein](http://purl.obolibrary.org/obo/UBERON_0005471) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +### organelle `http://purl.obolibrary.org/obo/GO_0043226` #### Added -- [right umbilical vein](http://purl.obolibrary.org/obo/UBERON_0005471) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) +- [organelle](http://purl.obolibrary.org/obo/GO_0043226) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) -### right ureter `http://purl.obolibrary.org/obo/UBERON_0001222` +### organelle envelope `http://purl.obolibrary.org/obo/GO_0031967` #### Removed -- [right ureter](http://purl.obolibrary.org/obo/UBERON_0001222) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - +- [organelle envelope](http://purl.obolibrary.org/obo/GO_0031967) SubClassOf [envelope](http://purl.obolibrary.org/obo/GO_0031975) +#### Added +- [organelle envelope](http://purl.obolibrary.org/obo/GO_0031967) SubClassOf [cellular anatomical entity](http://purl.obolibrary.org/obo/GO_0110165) -### right uterine tube `http://purl.obolibrary.org/obo/UBERON_0001302` -#### Removed -- [right uterine tube](http://purl.obolibrary.org/obo/UBERON_0001302) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [right uterine tube](http://purl.obolibrary.org/obo/UBERON_0001302) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "non-functional in monotremes[ISBN:978-0226870137]" +### organelle localization `http://purl.obolibrary.org/obo/GO_0051640` +#### Added +- [organelle localization](http://purl.obolibrary.org/obo/GO_0051640) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### right vagus X nerve trunk `http://purl.obolibrary.org/obo/UBERON_0035021` +### organelle organization `http://purl.obolibrary.org/obo/GO_0006996` #### Added -- [right vagus X nerve trunk](http://purl.obolibrary.org/obo/UBERON_0035021) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) - - -### right ventricle myocardium `http://purl.obolibrary.org/obo/UBERON_0006567` -#### Removed -- [right ventricle myocardium](http://purl.obolibrary.org/obo/UBERON_0006567) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17342" +- [organelle organization](http://purl.obolibrary.org/obo/GO_0006996) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27189"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [right ventricle myocardium](http://purl.obolibrary.org/obo/UBERON_0006567) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Myocardium of ventricle which is continuous with the tunica media of the pulmonary trunk." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:9535" +- [organelle organization](http://purl.obolibrary.org/obo/GO_0006996) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) +- [organelle organization](http://purl.obolibrary.org/obo/GO_0006996) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." -### right vitelline vein `http://purl.obolibrary.org/obo/UBERON_0005472` -#### Removed -- [right vitelline vein](http://purl.obolibrary.org/obo/UBERON_0005472) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +### organic acid binding `http://purl.obolibrary.org/obo/GO_0043177` #### Added -- [right vitelline vein](http://purl.obolibrary.org/obo/UBERON_0005472) SubClassOf [lateral structure](http://purl.obolibrary.org/obo/UBERON_0015212) +- [organic acid binding](http://purl.obolibrary.org/obo/GO_0043177) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### role of `http://purl.obolibrary.org/obo/RO_0000081` -#### Removed -- [role of](http://purl.obolibrary.org/obo/RO_0000081) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "role_of"@en - -- [role of](http://purl.obolibrary.org/obo/RO_0000081) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "this investigator role is a role of this person"@en +### organic acid transport `http://purl.obolibrary.org/obo/GO_0015849` -- [role of](http://purl.obolibrary.org/obo/RO_0000081) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "is role of"@en +#### Added +- [organic acid transport](http://purl.obolibrary.org/obo/GO_0015849) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### organic cyclic compound binding `http://purl.obolibrary.org/obo/GO_0097159` -### root of vagus nerve `http://purl.obolibrary.org/obo/UBERON_0011213` -#### Removed -- [root of vagus nerve](http://purl.obolibrary.org/obo/UBERON_0011213) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA distinguishes between roots and rootlets - we mix the two here" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +#### Added +- [organic cyclic compound binding](http://purl.obolibrary.org/obo/GO_0097159) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### organic substance biosynthetic process `http://purl.obolibrary.org/obo/GO_1901576` -### runt-related transcription factor 1 `http://purl.obolibrary.org/obo/PR_000014362` -#### Removed -- [runt-related transcription factor 1](http://purl.obolibrary.org/obo/PR_000014362) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [runt-related transcription factor 1 (human)](http://purl.obolibrary.org/obo/PR_Q01196) +#### Added +- [organic substance biosynthetic process](http://purl.obolibrary.org/obo/GO_1901576) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) +- [organic substance biosynthetic process](http://purl.obolibrary.org/obo/GO_1901576) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/26424"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -### saccharomyceta `http://purl.obolibrary.org/obo/NCBITaxon_716545` +### organic substance catabolic process `http://purl.obolibrary.org/obo/GO_1901575` #### Removed -- [saccharomyceta](http://purl.obolibrary.org/obo/NCBITaxon_716545) [has_rank](http://purl.obolibrary.org/obo/ncbitaxon#has_rank) [NCBITaxon_clade](http://purl.obolibrary.org/obo/NCBITaxon_clade) - - +- [organic substance catabolic process](http://purl.obolibrary.org/obo/GO_1901575) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "organic molecular entity catabolism" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:TermGenie" -### saccule of membranous labyrinth `http://purl.obolibrary.org/obo/UBERON_0001854` -#### Removed -- [saccule of membranous labyrinth](http://purl.obolibrary.org/obo/UBERON_0001854) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The most ventral chamber of the membranous labyrinth. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-25, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [organic substance catabolic process](http://purl.obolibrary.org/obo/GO_1901575) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "organic molecular entity breakdown" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:TermGenie" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [organic substance catabolic process](http://purl.obolibrary.org/obo/GO_1901575) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "organic molecular entity degradation" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:TermGenie" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000374" +#### Added +- [organic substance catabolic process](http://purl.obolibrary.org/obo/GO_1901575) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [organic substance catabolic process](http://purl.obolibrary.org/obo/GO_1901575) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/26424"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [saccule of membranous labyrinth](http://purl.obolibrary.org/obo/UBERON_0001854) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In gnathostomes, each membranous labyrinth has three semicircular ducts that connect with a chamber known as the utriculus. (...) In all gnathostomes, the utriculus connects ventrally with a larger sac, called the sacculus (...) .[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### organic substance metabolic process `http://purl.obolibrary.org/obo/GO_0071704` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000374" +#### Added +- [organic substance metabolic process](http://purl.obolibrary.org/obo/GO_0071704) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.413-414" +### organic substance transport `http://purl.obolibrary.org/obo/GO_0071702` +#### Added +- [organic substance transport](http://purl.obolibrary.org/obo/GO_0071702) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### sacral neural crest `http://purl.obolibrary.org/obo/UBERON_0010075` +### organism subdivision `http://purl.obolibrary.org/obo/UBERON_0000475` #### Added -- [sacral neural crest](http://purl.obolibrary.org/obo/UBERON_0010075) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [organism subdivision](http://purl.obolibrary.org/obo/UBERON_0000475) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007009" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### saliva `http://purl.obolibrary.org/obo/UBERON_0001836` -#### Removed -- [saliva](http://purl.obolibrary.org/obo/UBERON_0001836) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "salivary" +### organism substance `http://purl.obolibrary.org/obo/UBERON_0000463` + +#### Added +- [organism substance](http://purl.obolibrary.org/obo/UBERON_0000463) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007019" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [saliva](http://purl.obolibrary.org/obo/UBERON_0001836) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "We classify a wide variety of not necessarily homologous fluids here. In humans, the saliva is a turbid and slightly viscous fluid, generally of an alkaline reaction, and is secreted by the parotid, submaxillary, and sublingual glands. In the mouth the saliva is mixed with the secretion from the buccal glands. In man and many animals, saliva is an important digestive fluid on account of the presence of the peculiar enzyme, ptyalin" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO" +- [organism substance](http://purl.obolibrary.org/obo/UBERON_0000463) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) +### organonitrogen compound biosynthetic process `http://purl.obolibrary.org/obo/GO_1901566` -### saliva-secreting gland `http://purl.obolibrary.org/obo/UBERON_0001044` -#### Removed -- [saliva-secreting gland](http://purl.obolibrary.org/obo/UBERON_0001044) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In air-feeding animals, the lack of water column to lubricate the food has been compensated for by the evolution of the salivary glands. These glands are present only in amniotes and are controlled by the parasympathetic system.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000376" +#### Added +- [organonitrogen compound biosynthetic process](http://purl.obolibrary.org/obo/GO_1901566) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0471210054 Butler AB and Hodos W, Comparative vertebrate neuroanatomy: Evolution and Adaptationm(2005) p.211" +- [organonitrogen compound biosynthetic process](http://purl.obolibrary.org/obo/GO_1901566) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/26424"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### organonitrogen compound catabolic process `http://purl.obolibrary.org/obo/GO_1901565` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [organonitrogen compound catabolic process](http://purl.obolibrary.org/obo/GO_1901565) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -- [saliva-secreting gland](http://purl.obolibrary.org/obo/UBERON_0001044) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "currently we define saliva and salivary glands very generally in functional terms but it may be more appropriate to split this class. From WP: In most vertebrates, saliva does not contain any enzymes, consisting of mucus and water only, and its primary function is to moisten food while eating. As a result, true salivary glands are rarely found in fish or aquatic tetrapods, although there are often individual mucus-secreting cells. Amphibians have a single salivary gland, the intermaxillary gland, located in the forward part of the palate. Reptiles and birds normally have only very small glands on the lips, palate, and base of the mouth, although there are some birds with large glands, which produce a sticky saliva that helps in nest-building. The distinct parotid, submandibular, and sublingual glands are only developed in mammals." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "3" +- [organonitrogen compound catabolic process](http://purl.obolibrary.org/obo/GO_1901565) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/26424"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [saliva-secreting gland](http://purl.obolibrary.org/obo/UBERON_0001044) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A gland that produces the saliva. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-25, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000376" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### organonitrogen compound metabolic process `http://purl.obolibrary.org/obo/GO_1901564` +#### Removed +- [organonitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_1901564) SubClassOf [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" -- [saliva-secreting gland](http://purl.obolibrary.org/obo/UBERON_0001044) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005382" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### ossification `http://purl.obolibrary.org/obo/GO_0001503` -- [saliva-secreting gland](http://purl.obolibrary.org/obo/UBERON_0001044) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The salivary glands in mammals are exocrine glands, glands with ducts, that produce saliva. They also secrete amylase, an enzyme that breaks down starch into maltose. In other organisms such as insects, salivary glands are often used to produce biologically important proteins like silk or glues, and fly salivary glands contain polytene chromosomes that have been useful in genetic research. The salivary glands of some species are modified to produce enzymes; salivary amylase is found in many, but by no means all, bird and mammal species (including humans, as noted above). Furthermore, the venom glands of poisonous snakes, Gila monsters, and some shrews, are modified salivary glands" +#### Added +- [ossification](http://purl.obolibrary.org/obo/GO_0001503) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### osteoblast `http://purl.obolibrary.org/obo/CL_0000062` -### scala media `http://purl.obolibrary.org/obo/UBERON_0002295` -#### Removed -- [scala media](http://purl.obolibrary.org/obo/UBERON_0002295) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D003053" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) +#### Added +- [osteoblast](http://purl.obolibrary.org/obo/CL_0000062) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009031" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" -- [scala media](http://purl.obolibrary.org/obo/UBERON_0002295) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EHDAA2:0000262" +### osteoblast proliferation `http://purl.obolibrary.org/obo/GO_0033687` +#### Added +- [osteoblast proliferation](http://purl.obolibrary.org/obo/GO_0033687) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### scapula `http://purl.obolibrary.org/obo/UBERON_0006849` +### osteoclast `http://purl.obolibrary.org/obo/CL_0000092` #### Removed -- [scapula](http://purl.obolibrary.org/obo/UBERON_0006849) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "scapular" +- [osteoclast](http://purl.obolibrary.org/obo/CL_0000092) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [scapula](http://purl.obolibrary.org/obo/UBERON_0006849) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "present in all tetrapods with even vestiges of anterior limbs, e.g., turtles & birds & mammals." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0-12-319060-4" - -- [scapula](http://purl.obolibrary.org/obo/UBERON_0006849) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "chick scapula is of dual origin and segmentally organized" +#### Added +- [osteoclast](http://purl.obolibrary.org/obo/CL_0000092) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009047" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [scapula](http://purl.obolibrary.org/obo/UBERON_0006849) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Paired bony elements of endochondral origin. They are situated at the level of the jaw articulation, in a vertical position, with the suprascapular margin being dorsal and the glenoid end being ventral.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### osteocyte `http://purl.obolibrary.org/obo/CL_0000137` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000751" +#### Added +- [osteocyte](http://purl.obolibrary.org/obo/CL_0000137) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009083" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [osteocyte](http://purl.obolibrary.org/obo/CL_0000137) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [scapula](http://purl.obolibrary.org/obo/UBERON_0006849) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Endochondral bone that is located medial to the cleithrum, and articulates ventrally with the coracoid, medially with the mesocoracoid when the later is present and posteriorly with the upper one to three proximal radials. The scapula develops from the scapulocoracoid cartilage and belongs to the primary pectoral girdle. It may be perforated by the scapular foramen or it may be notched ventr and forms together with a similar notch of the coracoid the scapulocoracoid foramen[TAO:0000583]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:0000583" -- [scapula](http://purl.obolibrary.org/obo/UBERON_0006849) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: has pars glenoidalis of scapula (AAO:0000753)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### otocyst lumen `http://purl.obolibrary.org/obo/UBERON_0013526` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000751" +#### Added +- [otocyst lumen](http://purl.obolibrary.org/obo/UBERON_0013526) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" -- [scapula](http://purl.obolibrary.org/obo/UBERON_0006849) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of scapular area (AAO:0000935)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### outer ear morphogenesis `http://purl.obolibrary.org/obo/GO_0042473` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000751" +#### Added +- [outer ear morphogenesis](http://purl.obolibrary.org/obo/GO_0042473) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" -- [scapula](http://purl.obolibrary.org/obo/UBERON_0006849) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [scapula cartilage element](http://purl.obolibrary.org/obo/UBERON_0006290) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" +### outer epithelium `http://purl.obolibrary.org/obo/UBERON_0007376` #### Added -- [scapula](http://purl.obolibrary.org/obo/UBERON_0006849) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [scapula cartilage element](http://purl.obolibrary.org/obo/UBERON_0006290) - - -### scapula pre-cartilage condensation `http://purl.obolibrary.org/obo/UBERON_0006291` -#### Removed -- [scapula pre-cartilage condensation](http://purl.obolibrary.org/obo/UBERON_0006291) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "the scapula has been shown to develop from multiple tissues, such as the dermomyotome of the somites, the mesodermal portion of the soma- topleure (a domain of the lateral plate mesoderm or LPM) and neural crest cell-derived mesenchyme (Huang et al., 2000; Matsuoka et al., 2005; Wang et al., 2005)." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:21455939" +- [outer epithelium](http://purl.obolibrary.org/obo/UBERON_0007376) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004993" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### outer medulla vasa recta ascending limb cell `http://purl.obolibrary.org/obo/CL_1001210` -### scapulocoracoid `http://purl.obolibrary.org/obo/UBERON_0004753` -#### Removed -- [scapulocoracoid](http://purl.obolibrary.org/obo/UBERON_0004753) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "either a fusion of the scapula and coracoid (the two main bones of the shoulder girdle), or the scapula & coracoid considered as a single structural unit.[Palaeos]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://palaeos.com/vertebrates/glossary/glossaryS.html" +#### Added +- [outer medulla vasa recta ascending limb cell](http://purl.obolibrary.org/obo/CL_1001210) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any vasa recta ascending limb cell that is part of some outer medulla vasa recta ascending limb." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-10" -- [scapulocoracoid](http://purl.obolibrary.org/obo/UBERON_0004753) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of scapular area (AAO:0000935)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### outer medulla vasa recta descending limb cell `http://purl.obolibrary.org/obo/CL_1001287` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000781" +#### Added +- [outer medulla vasa recta descending limb cell](http://purl.obolibrary.org/obo/CL_1001287) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any vasa recta descending limb cell that is part of some outer medulla vasa recta descending limb." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" -- [scapulocoracoid](http://purl.obolibrary.org/obo/UBERON_0004753) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "ZFA defines as precursor to scapula and coracoid. Cartilage in TAO" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" +### outer renal medulla vasa recta cell `http://purl.obolibrary.org/obo/CL_1001127` -- [scapulocoracoid](http://purl.obolibrary.org/obo/UBERON_0004753) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Fused, ossified portions of the scapula, procoracoid, and coracoid.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" +#### Added +- [outer renal medulla vasa recta cell](http://purl.obolibrary.org/obo/CL_1001127) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any vasa recta cell that is part of some outer renal medulla vasa recta." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000781" +### outflow tract morphogenesis `http://purl.obolibrary.org/obo/GO_0003151` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [outflow tract morphogenesis](http://purl.obolibrary.org/obo/GO_0003151) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [scapulocoracoid](http://purl.obolibrary.org/obo/UBERON_0004753) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Pectoral fin cartilage that consists of a paired cartilaginous plate of the embryonic primary pectoral girdle and from which the scapular and coracaoid bones ossify.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001455" +### ovarian follicle development `http://purl.obolibrary.org/obo/GO_0001541` +#### Removed +- [ovarian follicle development](http://purl.obolibrary.org/obo/GO_0001541) SubClassOf [developmental process involved in reproduction](http://purl.obolibrary.org/obo/GO_0003006) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:GA_TG" +### ovary `http://purl.obolibrary.org/obo/UBERON_0000992` +#### Added +- [ovary](http://purl.obolibrary.org/obo/UBERON_0000992) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004865" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### scavenger receptor cysteine-rich type 1 protein M130 `http://purl.obolibrary.org/obo/PR_000001925` -#### Removed -- [scavenger receptor cysteine-rich type 1 protein M130](http://purl.obolibrary.org/obo/PR_000001925) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [scavenger receptor cysteine-rich type 1 protein M130 (human)](http://purl.obolibrary.org/obo/PR_Q86VB7) +### ovary stroma `http://purl.obolibrary.org/obo/UBERON_0006960` +#### Added +- [ovary stroma](http://purl.obolibrary.org/obo/UBERON_0006960) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### sciatic nerve `http://purl.obolibrary.org/obo/UBERON_0001322` +### oviduct morphogenesis `http://purl.obolibrary.org/obo/GO_0035848` #### Removed -- [sciatic nerve](http://purl.obolibrary.org/obo/UBERON_0001322) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "mouse sciatic nerve origins predominantly from the third lumbar (L3) and L4 spinal nerves, unlike the L4 and L5 in rats - http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2700063/" +- [oviduct morphogenesis](http://purl.obolibrary.org/obo/GO_0035848) SubClassOf [developmental process involved in reproduction](http://purl.obolibrary.org/obo/GO_0003006) -### sclera `http://purl.obolibrary.org/obo/UBERON_0001773` -#### Removed -- [sclera](http://purl.obolibrary.org/obo/UBERON_0001773) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The sclera, also known as the white part of the eye, is the opaque (usually white, though certain animals, such as horses and lizards, can have black sclera), fibrous, protective, outer layer of the eye containing collagen and elastic fiber. It is derived from the neural crest. In children, it is thinner and shows some of the underlying pigment, appearing slightly blue. In the elderly, however, fatty deposits on the sclera can make it appear slightly yellow. The sclera forms the posterior five sixths of the connective tissue coat of the globe. It is continuous with the dura mater and the cornea, and maintains the shape of the globe, offering resistance to internal and external forces, and provides an attachment for the extraocular muscle insertions. The sclera is perforated by plenty of nerves and vessels passing through the posterior scleral foramen, the hole that is formed by the optic nerve. At the optic disk the outer two-thirds of the sclera continues with the dura mater (outer coat of the brain) via the dural sheath of the optic nerve. The inner third joins with some choroidal tissue to form a plate (lamina cribrosa) across the optic nerve with perforations through which the optic fibers (fasciculi). The thickness of the sclera varies from 1mm at the posterior pole to 0.3 mm just behind the rectus muscle insertions. The sclera's blood vessels are mainly on the surface, and together with the conjunctiva (which lies on top) This is a thin layer covering the sclera. Along with the vessels of the conjunctiva, those of the sclera renders the inflamed eye bright red. [WP,unvetted][Wikipedia:Sclera]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Sclera" +### oxygen accumulating cell `http://purl.obolibrary.org/obo/CL_0000329` -- [sclera](http://purl.obolibrary.org/obo/UBERON_0001773) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Majority derives from NC that surrounds optic cup of neurectoderm; a small temporal portion develops from the mesoderm that contributes to striated extra-ocular muscles and vascular endothelia[Rada&Johnson]." +#### Added +- [oxygen accumulating cell](http://purl.obolibrary.org/obo/CL_0000329) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any cell that is capable of some oxygen transport." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [sclera](http://purl.obolibrary.org/obo/UBERON_0001773) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "scleral" +- [oxygen accumulating cell](http://purl.obolibrary.org/obo/CL_0000329) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009164" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [sclera](http://purl.obolibrary.org/obo/UBERON_0001773) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The tough, usually white, outer coat of the eyeball, covering all the posterior surface and continuous anteriorly with the cornea. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/sclera" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### oxygen binding `http://purl.obolibrary.org/obo/GO_0019825` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [oxygen binding](http://purl.obolibrary.org/obo/GO_0019825) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001274" +### oxygen metabolic process `http://purl.obolibrary.org/obo/GO_0072592` -- [sclera](http://purl.obolibrary.org/obo/UBERON_0001773) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Seko et al demonstrate chondrogenic potential and identify this as connective tissue[DOI:10.1371/journal.pone.0003709]." +#### Added +- [oxygen metabolic process](http://purl.obolibrary.org/obo/GO_0072592) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [sclera](http://purl.obolibrary.org/obo/UBERON_0001773) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "continuous with the dura mater and the cornea; The sclera forms the posterior five-sixths of the connective tissue coat of the globe." -- [sclera](http://purl.obolibrary.org/obo/UBERON_0001773) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in fish, reptiles and monotremes the connective tissue of the sclera is skeletal" +### oxygen transport `http://purl.obolibrary.org/obo/GO_0015671` -- [sclera](http://purl.obolibrary.org/obo/UBERON_0001773) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [mesenchyme derived from head neural crest](http://purl.obolibrary.org/obo/UBERON_0007213) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0781772214" +#### Added +- [oxygen transport](http://purl.obolibrary.org/obo/GO_0015671) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [inferred_by](http://www.geneontology.org/formats/oboInOwl#inferred_by) "cjm" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia" +### pain receptor cell `http://purl.obolibrary.org/obo/CL_0000198` #### Added -- [sclera](http://purl.obolibrary.org/obo/UBERON_0001773) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) - +- [pain receptor cell](http://purl.obolibrary.org/obo/CL_0000198) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009119" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### scleral mesenchyme `http://purl.obolibrary.org/obo/UBERON_0010299` -#### Removed -- [scleral mesenchyme](http://purl.obolibrary.org/obo/UBERON_0010299) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The mesenchyme surrounding the developing optic cup differentiates into the sclera, the dense fibrous coat of the eye.. http://www.ncbi.nlm.nih.gov/pubmed/16496288" +### pair of lungs `http://purl.obolibrary.org/obo/UBERON_0000170` +#### Added +- [pair of lungs](http://purl.obolibrary.org/obo/UBERON_0000170) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -### sclerotome `http://purl.obolibrary.org/obo/UBERON_0003089` -#### Removed -- [sclerotome](http://purl.obolibrary.org/obo/UBERON_0003089) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Skeletogenic portion of somites.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" +- [pair of lungs](http://purl.obolibrary.org/obo/UBERON_0000170) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010571" +### pair of nares `http://purl.obolibrary.org/obo/UBERON_0002109` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [pair of nares](http://purl.obolibrary.org/obo/UBERON_0002109) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -- [sclerotome](http://purl.obolibrary.org/obo/UBERON_0003089) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "part_of somite in XAO" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "XAO" -- [sclerotome](http://purl.obolibrary.org/obo/UBERON_0003089) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0006255" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### paired limb/fin `http://purl.obolibrary.org/obo/UBERON_0004708` +#### Removed +- [paired limb/fin](http://purl.obolibrary.org/obo/UBERON_0004708) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +#### Added +- [paired limb/fin](http://purl.obolibrary.org/obo/UBERON_0004708) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) -- [sclerotome](http://purl.obolibrary.org/obo/UBERON_0003089) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The vertebrate sclerotome has no equivalent in amphioxus and is a novelty linked with the evolution of the axial skeleton.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1073/pnas.97.9.4449 Shimeld SM and Holland PW. Vertebrate innovations. PNAS (2000)" +### paired limb/fin bud `http://purl.obolibrary.org/obo/UBERON_0004357` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [paired limb/fin bud](http://purl.obolibrary.org/obo/UBERON_0004357) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### panarthropod head `http://purl.obolibrary.org/obo/UBERON_6000004` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000680" +#### Added +- [panarthropod head](http://purl.obolibrary.org/obo/UBERON_6000004) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000004" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### pancreas `http://purl.obolibrary.org/obo/UBERON_0001264` -### sebaceous gland `http://purl.obolibrary.org/obo/UBERON_0001821` -#### Removed -- [sebaceous gland](http://purl.obolibrary.org/obo/UBERON_0001821) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Sebaceous glands are also limited to mammals.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001468" +#### Added +- [pancreas](http://purl.obolibrary.org/obo/UBERON_0001264) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### pancreas primordium `http://purl.obolibrary.org/obo/UBERON_0003921` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [pancreas primordium](http://purl.obolibrary.org/obo/UBERON_0003921) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0471090588 Hildebrand M, Analysis of vertebrate structure (1983) p.102" -- [sebaceous gland](http://purl.obolibrary.org/obo/UBERON_0001821) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Any of the numerous holocrine glands in the dermis that empty into a hair follicle and produce and secrete sebum. [TFD][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001468" +### pancreatic A cell `http://purl.obolibrary.org/obo/CL_0000171` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [pancreatic A cell](http://purl.obolibrary.org/obo/CL_0000171) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009104" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### pancreatic D cell `http://purl.obolibrary.org/obo/CL_0000173` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/sebaceous+gland" +#### Added +- [pancreatic D cell](http://purl.obolibrary.org/obo/CL_0000173) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005743" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [sebaceous gland](http://purl.obolibrary.org/obo/UBERON_0001821) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "sebaceous glands are also found in glabrous areas of eyelids, nose, penis, labia minora and nipples, and do not always secrete into hair follices. This causes some confusion in classification. In addition some structures, such as preputial glands are sometimes called 'modified' sebaceous glands, implying a non-subclass relationship. we follow MP and MA in keeping this class generic and creating a distinct subclass for sebaceuous glands of the skin. The FMA class may be better placed under this subclass." -- [sebaceous gland](http://purl.obolibrary.org/obo/UBERON_0001821) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [sebaceous gland placode](http://purl.obolibrary.org/obo/UBERON_0005088) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" +### pancreatic PP cell `http://purl.obolibrary.org/obo/CL_0002275` #### Added -- [sebaceous gland](http://purl.obolibrary.org/obo/UBERON_0001821) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [sebaceous gland placode](http://purl.obolibrary.org/obo/UBERON_0005088) +- [pancreatic PP cell](http://purl.obolibrary.org/obo/CL_0002275) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005742" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### sebum `http://purl.obolibrary.org/obo/UBERON_0001866` -#### Removed -- [sebum](http://purl.obolibrary.org/obo/UBERON_0001866) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "waterproofs skin" +### pancreatic acinar cell `http://purl.obolibrary.org/obo/CL_0002064` -- [sebum](http://purl.obolibrary.org/obo/UBERON_0001866) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The composition of sebum varies across species. In humans, the lipid content is as follows: 25% wax monoesters, 41% triglycerides, 16% free fatty acids, 12% squalene; Sapienic acid is a sebum fatty acid that is unique to humans." +#### Added +- [pancreatic acinar cell](http://purl.obolibrary.org/obo/CL_0002064) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005739" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +### pancreatic centro-acinar cell `http://purl.obolibrary.org/obo/CL_0002080` -### secondary heart field `http://purl.obolibrary.org/obo/UBERON_0009889` -#### Removed -- [secondary heart field](http://purl.obolibrary.org/obo/UBERON_0009889) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "extra-cardiac population of mesodermal progenitors that gives rise to the right ventricle and outflow tract[PMID:17276708]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:17276708" +#### Added +- [pancreatic centro-acinar cell](http://purl.obolibrary.org/obo/CL_0002080) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005740" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [secondary heart field](http://purl.obolibrary.org/obo/UBERON_0009889) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "in mouse has left ventricular identity[PMID:22855565]" -- [secondary heart field](http://purl.obolibrary.org/obo/UBERON_0009889) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In general, the two studies in chick concluded that the contribution of the SHF was to the outflow tract, whereas the mouse work suggested that the second lineage contributed more broadly to the heart, including the outflow tract and much or all of the right ventricle [11-14]. These different conclusions may represent differences in the experimental approaches used or may represent bona fide differences in the contribution of the second lineage to the hearts of birds compared to mammals [11]. Alternatively, the secondary/anterior heart fields described in the chick may represent a subset of a broader field that makes a more substantial contribution to the heart, as the mouse studies suggested" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:17276708" +### pancreatic ductal cell `http://purl.obolibrary.org/obo/CL_0002079` #### Added -- [secondary heart field](http://purl.obolibrary.org/obo/UBERON_0009889) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [pancreatic ductal cell](http://purl.obolibrary.org/obo/CL_0002079) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009380" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### secondary ovarian follicle `http://purl.obolibrary.org/obo/UBERON_0000036` +### pancreatic epsilon cell `http://purl.obolibrary.org/obo/CL_0005019` #### Added -- [secondary ovarian follicle](http://purl.obolibrary.org/obo/UBERON_0000036) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +- [pancreatic epsilon cell](http://purl.obolibrary.org/obo/CL_0005019) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005598" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### secondary pulmonary lobule `http://purl.obolibrary.org/obo/UBERON_0010369` +### pancreatic lobule `http://purl.obolibrary.org/obo/UBERON_0007324` #### Removed -- [secondary pulmonary lobule](http://purl.obolibrary.org/obo/UBERON_0010369) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "a pyramidal mass of lung tissue with sides that are bounded by the incomplete interlobular connective tissue septa and with a base, which is 1-2 cm in diameter, which usually faces the pleural surface of the lung; lobules that occupy a more central position in the lung are not well defined and are considered to consist of three to five pulmonary acini with proximate terminal bronchioles." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/secondary+pulmonary+lobule" +- [pancreatic lobule](http://purl.obolibrary.org/obo/UBERON_0007324) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### secretion of exocrine gland `http://purl.obolibrary.org/obo/UBERON_0000456` +### papillary layer of dermis `http://purl.obolibrary.org/obo/UBERON_0001992` #### Removed -- [secretion of exocrine gland](http://purl.obolibrary.org/obo/UBERON_0000456) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "BTO has two distunct classes, with exocrine glandular secretion a subtype of secretion - however, all examples in BTO directly under secretion appear to be exocrine gland secretions" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "BTO" +- [papillary layer of dermis](http://purl.obolibrary.org/obo/UBERON_0001992) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### section of aorta `http://purl.obolibrary.org/obo/UBERON_0005800` +### paracrine cell `http://purl.obolibrary.org/obo/CL_0000512` #### Added -- [section of aorta](http://purl.obolibrary.org/obo/UBERON_0005800) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [paracrine cell](http://purl.obolibrary.org/obo/CL_0000512) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009233" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### see also `http://www.w3.org/2000/01/rdf-schema#seeAlso` +### parafollicular cell `http://purl.obolibrary.org/obo/CL_0000570` #### Removed -- [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" - -- [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) [id](http://www.geneontology.org/formats/oboInOwl#id) "seeAlso" - -- [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) [is_metadata_tag](http://www.geneontology.org/formats/oboInOwl#is_metadata_tag) true +- [parafollicular cell](http://purl.obolibrary.org/obo/CL_0000570) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +#### Added +- [parafollicular cell](http://purl.obolibrary.org/obo/CL_0000570) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009260" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### segment of autopod `http://purl.obolibrary.org/obo/UBERON_0012139` -#### Removed -- [segment of autopod](http://purl.obolibrary.org/obo/UBERON_0012139) SubClassOf [limb segment](http://purl.obolibrary.org/obo/UBERON_0002529) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "may be revised" +### parasympathetic nerve `http://purl.obolibrary.org/obo/UBERON_0004293` #### Added -- [segment of autopod](http://purl.obolibrary.org/obo/UBERON_0012139) SubClassOf [limb segment](http://purl.obolibrary.org/obo/UBERON_0002529) +- [parasympathetic nerve](http://purl.obolibrary.org/obo/UBERON_0004293) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### segmental subdivision of hindbrain `http://purl.obolibrary.org/obo/UBERON_0004733` +### parasympathetic neuron `http://purl.obolibrary.org/obo/CL_0011102` #### Added -- [segmental subdivision of hindbrain](http://purl.obolibrary.org/obo/UBERON_0004733) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [parasympathetic neuron](http://purl.obolibrary.org/obo/CL_0011102) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005776" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### semen `http://purl.obolibrary.org/obo/UBERON_0001968` -#### Removed -- [semen](http://purl.obolibrary.org/obo/UBERON_0001968) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Note that in this ontology, semen is defined as the sum of sperm and seminal fluid, where seminal fluid is defined in taxonomically generic way (see comments for UBERON:0006530)." - -- [semen](http://purl.obolibrary.org/obo/UBERON_0001968) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "seminal" +### parenchyma of parathyroid gland `http://purl.obolibrary.org/obo/UBERON_0001749` +#### Added +- [parenchyma of parathyroid gland](http://purl.obolibrary.org/obo/UBERON_0001749) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### semicircular canal `http://purl.obolibrary.org/obo/UBERON_0001840` +### parenchyma of thyroid gland `http://purl.obolibrary.org/obo/UBERON_0001747` #### Removed -- [semicircular canal](http://purl.obolibrary.org/obo/UBERON_0001840) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In gnathostomes, each membranous labyrinth has three semicircular ducts that connect with a chamber known as the utriculus. These ducts are sometimes called canals, but technically the term semicircular canal applies to the spaces in the osseus labyrinth in which the semicircular ducts lie.[uncertain][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001144" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [parenchyma of thyroid gland](http://purl.obolibrary.org/obo/UBERON_0001747) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.414" +### pars distalis of adenohypophysis `http://purl.obolibrary.org/obo/UBERON_0006964` -- [semicircular canal](http://purl.obolibrary.org/obo/UBERON_0001840) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Fluid-filled toroidal spaces, arranged orthogonally to each other in the ear, that detect angular accelerations. (See Anatomical Atlas entry for semicircular canals by T. Whitfield.)[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +#### Added +- [pars distalis of adenohypophysis](http://purl.obolibrary.org/obo/UBERON_0006964) SubClassOf [reproductive structure](http://purl.obolibrary.org/obo/UBERON_0005156) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### pelvic complex `http://purl.obolibrary.org/obo/UBERON_0010709` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000431" +#### Added +- [pelvic complex](http://purl.obolibrary.org/obo/UBERON_0010709) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [semicircular canal](http://purl.obolibrary.org/obo/UBERON_0001840) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "detects angular acceleration" -- [semicircular canal](http://purl.obolibrary.org/obo/UBERON_0001840) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MA divides this into osseous and duct. In FMA, this is systemically part of the bony labyrinth. Note this is an anatomical space in ZFA. The MA treatment has advantages for representing the neuroepithelium, which should not be part of bone. Also check duct vs canal" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +### pelvic girdle region `http://purl.obolibrary.org/obo/UBERON_0001271` #### Added -- [semicircular canal](http://purl.obolibrary.org/obo/UBERON_0001840) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [pelvic girdle region](http://purl.obolibrary.org/obo/UBERON_0001271) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### semicircular canal ampulla `http://purl.obolibrary.org/obo/UBERON_0004043` +### pelvic region of trunk `http://purl.obolibrary.org/obo/UBERON_0002355` #### Added -- [semicircular canal ampulla](http://purl.obolibrary.org/obo/UBERON_0004043) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [pelvic region of trunk](http://purl.obolibrary.org/obo/UBERON_0002355) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### semicircular duct `http://purl.obolibrary.org/obo/UBERON_0001856` +### peptide binding `http://purl.obolibrary.org/obo/GO_0042277` #### Removed -- [semicircular duct](http://purl.obolibrary.org/obo/UBERON_0001856) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D054776" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [peptide binding](http://purl.obolibrary.org/obo/GO_0042277) EquivalentTo [binding](http://purl.obolibrary.org/obo/GO_0005488) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670)) - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) +- [peptide binding](http://purl.obolibrary.org/obo/GO_0042277) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +#### Added +- [peptide binding](http://purl.obolibrary.org/obo/GO_0042277) EquivalentTo [binding](http://purl.obolibrary.org/obo/GO_0005488) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466)) -- [semicircular duct](http://purl.obolibrary.org/obo/UBERON_0001856) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In gnathostomes, each membranous labyrinth has three semicircular ducts that connect with a chamber known as the utriculus (...); Gnathostome ears have a horizontal semicircular duct. This brings their complement to three semicircular ducts, a pattern retained throughout gnathostome evolution.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [peptide binding](http://purl.obolibrary.org/obo/GO_0042277) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [peptide binding](http://purl.obolibrary.org/obo/GO_0042277) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.413-414 and p.58" +### peptide biosynthetic process `http://purl.obolibrary.org/obo/GO_0043043` +#### Removed +- [peptide biosynthetic process](http://purl.obolibrary.org/obo/GO_0043043) EquivalentTo [biosynthetic process](http://purl.obolibrary.org/obo/GO_0009058) and ([has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670)) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000238" +- [peptide biosynthetic process](http://purl.obolibrary.org/obo/GO_0043043) SubClassOf [has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670) #### Added -- [semicircular duct](http://purl.obolibrary.org/obo/UBERON_0001856) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - +- [peptide biosynthetic process](http://purl.obolibrary.org/obo/GO_0043043) EquivalentTo [biosynthetic process](http://purl.obolibrary.org/obo/GO_0009058) and ([has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466)) -### seminal fluid `http://purl.obolibrary.org/obo/UBERON_0006530` -#### Removed -- [seminal fluid](http://purl.obolibrary.org/obo/UBERON_0006530) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "we follow FMA and make this class a generic superclass of the secretions of different glands (prostate, bulbo-urethreal, seminal vesicle). MA (and ncit) follows a mixture model, where these secretions are part of the seminal fluid" - -- [seminal fluid](http://purl.obolibrary.org/obo/UBERON_0006530) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "This term covers a variety of species. Example: In D. melanogaster, seminal fluid proteins affect female receptivity, ovulation, oogenesis, sperm storage, sperm competition and mating plug formation" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1365-2540.2001.00961.x" +- [peptide biosynthetic process](http://purl.obolibrary.org/obo/GO_0043043) SubClassOf [has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466) -- [seminal fluid](http://purl.obolibrary.org/obo/UBERON_0006530) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "seminal fluid may have a role in sperm capacitation, sperm motility" -- [seminal fluid](http://purl.obolibrary.org/obo/UBERON_0006530) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this ontology contains a number of subtypes of seminal fluid, defined according to glands (which are more taxonomically restricted)" +### peptide catabolic process `http://purl.obolibrary.org/obo/GO_0043171` +#### Removed +- [peptide catabolic process](http://purl.obolibrary.org/obo/GO_0043171) EquivalentTo [catabolic process](http://purl.obolibrary.org/obo/GO_0009056) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670)) +- [peptide catabolic process](http://purl.obolibrary.org/obo/GO_0043171) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670) +#### Added +- [peptide catabolic process](http://purl.obolibrary.org/obo/GO_0043171) EquivalentTo [catabolic process](http://purl.obolibrary.org/obo/GO_0009056) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466)) -### seminal fluid secreting gland `http://purl.obolibrary.org/obo/UBERON_0006868` -#### Removed -- [seminal fluid secreting gland](http://purl.obolibrary.org/obo/UBERON_0006868) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004958" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [peptide catabolic process](http://purl.obolibrary.org/obo/GO_0043171) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466) +### peptide hormone binding `http://purl.obolibrary.org/obo/GO_0017046` -### seminal vesicle `http://purl.obolibrary.org/obo/UBERON_0000998` -#### Removed -- [seminal vesicle](http://purl.obolibrary.org/obo/UBERON_0000998) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Either of a pair of pouchlike glands situated on each side of the male urinary bladder that secrete seminal fluid and nourish and promote the movement of spermatozoa through the urethra. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [peptide hormone binding](http://purl.obolibrary.org/obo/GO_0017046) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### peptide hormone secreting cell `http://purl.obolibrary.org/obo/CL_0000167` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/prominence" +#### Added +- [peptide hormone secreting cell](http://purl.obolibrary.org/obo/CL_0000167) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009100" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001379" +- [peptide hormone secreting cell](http://purl.obolibrary.org/obo/CL_0000167) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any secretory cell that is capable of some peptide hormone secretion." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [seminal vesicle](http://purl.obolibrary.org/obo/UBERON_0000998) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "The seminal vesicles secrete a significant proportion of the fluid that ultimately becomes semen. Lipofuscin granules from dead epithelial cells give the secretion its yellowish color. About 50-70% of the seminal fluid in humans originates from the seminal vesicles, but is not expelled in the first ejaculate fractions which are dominated by spermatozoa and zinc-rich prostatic fluid." -- [seminal vesicle](http://purl.obolibrary.org/obo/UBERON_0000998) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(In mammalian testis) Along the way (the sperm travel), three accessory sex glands, the seminal vesicle, prostate, and bulbourethral (Cowper's) gland, respectively, add their secretions as sperm move from the testes to the urethra.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### peptide metabolic process `http://purl.obolibrary.org/obo/GO_0006518` +#### Removed +- [peptide metabolic process](http://purl.obolibrary.org/obo/GO_0006518) EquivalentTo [metabolic process](http://purl.obolibrary.org/obo/GO_0008152) and ([has primary input or output](http://purl.obolibrary.org/obo/RO_0004007) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [peptide metabolic process](http://purl.obolibrary.org/obo/GO_0006518) SubClassOf [has primary input or output](http://purl.obolibrary.org/obo/RO_0004007) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [peptide metabolic process](http://purl.obolibrary.org/obo/GO_0006518) EquivalentTo [metabolic process](http://purl.obolibrary.org/obo/GO_0008152) and ([has primary input or output](http://purl.obolibrary.org/obo/RO_0004007) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466)) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.556" +- [peptide metabolic process](http://purl.obolibrary.org/obo/GO_0006518) SubClassOf [has primary input or output](http://purl.obolibrary.org/obo/RO_0004007) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001379" +- [peptide metabolic process](http://purl.obolibrary.org/obo/GO_0006518) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### peptide receptor activity `http://purl.obolibrary.org/obo/GO_0001653` +#### Removed +- [peptide receptor activity](http://purl.obolibrary.org/obo/GO_0001653) EquivalentTo [signaling receptor activity](http://purl.obolibrary.org/obo/GO_0038023) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670)) -### seminal vesicle epithelium `http://purl.obolibrary.org/obo/UBERON_0004805` +- [peptide receptor activity](http://purl.obolibrary.org/obo/GO_0001653) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670) #### Added -- [seminal vesicle epithelium](http://purl.obolibrary.org/obo/UBERON_0004805) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) +- [peptide receptor activity](http://purl.obolibrary.org/obo/GO_0001653) EquivalentTo [signaling receptor activity](http://purl.obolibrary.org/obo/GO_0038023) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466)) +- [peptide receptor activity](http://purl.obolibrary.org/obo/GO_0001653) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### seminal vesicle fluid `http://purl.obolibrary.org/obo/UBERON_0010143` -#### Removed -- [seminal vesicle fluid](http://purl.obolibrary.org/obo/UBERON_0010143) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "constitutes 60-70 % of the ejaculate in humans[MP]" +- [peptide receptor activity](http://purl.obolibrary.org/obo/GO_0001653) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466) -- [seminal vesicle fluid](http://purl.obolibrary.org/obo/UBERON_0010143) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "important for semen coagulation, sperm motility, and stability of sperm chromatin and suppression of the immune activity in the female reproductive tract[MP]" -- [seminal vesicle fluid](http://purl.obolibrary.org/obo/UBERON_0010143) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in ncit, seminal fluid is a subtype of seminal vesicle secretion" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ncit" +### peptide secretion `http://purl.obolibrary.org/obo/GO_0002790` +#### Removed +- [peptide secretion](http://purl.obolibrary.org/obo/GO_0002790) EquivalentTo [secretion](http://purl.obolibrary.org/obo/GO_0046903) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670)) +#### Added +- [peptide secretion](http://purl.obolibrary.org/obo/GO_0002790) EquivalentTo [secretion](http://purl.obolibrary.org/obo/GO_0046903) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466)) -### seminiferous tubule of testis `http://purl.obolibrary.org/obo/UBERON_0001343` +### peptide transmembrane transporter activity `http://purl.obolibrary.org/obo/GO_1904680` #### Removed -- [seminiferous tubule of testis](http://purl.obolibrary.org/obo/UBERON_0001343) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Any of the coiled tubules located in the testes in which spermatozoa are produced.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010399" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [peptide transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_1904680) EquivalentTo [transporter activity](http://purl.obolibrary.org/obo/GO_0005215) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [membrane](http://purl.obolibrary.org/obo/GO_0016020)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [peptide transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_1904680) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" - -- [seminiferous tubule of testis](http://purl.obolibrary.org/obo/UBERON_0001343) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Frogs among amphibians and the amniotes have males with testes that are composed of seminiferous tubules, which differ from ampullae in being long, highly convoluted ductules.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [peptide transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_1904680) EquivalentTo [transporter activity](http://purl.obolibrary.org/obo/GO_0005215) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [membrane](http://purl.obolibrary.org/obo/GO_0016020)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [peptide transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_1904680) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001363" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### peptide transport `http://purl.obolibrary.org/obo/GO_0015833` +#### Removed +- [peptide transport](http://purl.obolibrary.org/obo/GO_0015833) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670)) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.688 and Figure 21-28" +- [peptide transport](http://purl.obolibrary.org/obo/GO_0015833) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670) -- [seminiferous tubule of testis](http://purl.obolibrary.org/obo/UBERON_0001343) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of two or three twisted curved tubules in each lobule of the testis in which spermatogenesis occurs. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [peptide transport](http://purl.obolibrary.org/obo/GO_0015833) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [peptide transport](http://purl.obolibrary.org/obo/GO_0015833) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001363" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### peptidergic neuron `http://purl.obolibrary.org/obo/CL_0000110` +#### Removed +- [peptidergic neuron](http://purl.obolibrary.org/obo/CL_0000110) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004101" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/SEMINIFEROUS+TUBULE" +#### Added +- [peptidergic neuron](http://purl.obolibrary.org/obo/CL_0000110) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004101" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [peptidergic neuron](http://purl.obolibrary.org/obo/CL_0000110) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009062" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### sends output to `http://purl.obolibrary.org/obo/RO_0002486` -#### Removed -- [sends output to](http://purl.obolibrary.org/obo/RO_0002486) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +### periarticular chondrocyte `http://purl.obolibrary.org/obo/CL_0000742` +#### Added +- [periarticular chondrocyte](http://purl.obolibrary.org/obo/CL_0000742) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009312" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### sense organ `http://purl.obolibrary.org/obo/UBERON_0000020` +### pericardial nephrocyte `http://purl.obolibrary.org/obo/CL_0000474` #### Removed -- [sense organ](http://purl.obolibrary.org/obo/UBERON_0000020) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005155" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [pericardial nephrocyte](http://purl.obolibrary.org/obo/CL_0000474) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005058" +#### Added +- [pericardial nephrocyte](http://purl.obolibrary.org/obo/CL_0000474) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005058" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### sensory epithelium `http://purl.obolibrary.org/obo/UBERON_0006934` +### pericardium `http://purl.obolibrary.org/obo/UBERON_0002407` #### Removed -- [sensory epithelium](http://purl.obolibrary.org/obo/UBERON_0006934) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "note that the definition sourced from Dorlands say 'simple columnar', but FMA says atypical" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [pericardium](http://purl.obolibrary.org/obo/UBERON_0002407) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +#### Added +- [pericardium](http://purl.obolibrary.org/obo/UBERON_0002407) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### sensory nerve `http://purl.obolibrary.org/obo/UBERON_0001027` -#### Removed -- [sensory nerve](http://purl.obolibrary.org/obo/UBERON_0001027) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005136" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### pericyte `http://purl.obolibrary.org/obo/CL_0000669` +#### Added +- [pericyte](http://purl.obolibrary.org/obo/CL_0000669) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009112" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### sensory system `http://purl.obolibrary.org/obo/UBERON_0001032` -#### Removed -- [sensory system](http://purl.obolibrary.org/obo/UBERON_0001032) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "An early step in the evolution of neural crest, therefore, may have been the origin of a specific dorsal neural cell population contributing to sensory processing; this would predate the divergence of the amphioxus and vertebrate lineages.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1073/pnas.97.9.4449 Shimeld SM and Holland PW. Vertebrate innovations. PNAS (2000)" +### pericyte cell migration `http://purl.obolibrary.org/obo/GO_1905351` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [pericyte cell migration](http://purl.obolibrary.org/obo/GO_1905351) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### peridermal cell `http://purl.obolibrary.org/obo/CL_0000078` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001674" +#### Added +- [peridermal cell](http://purl.obolibrary.org/obo/CL_0000078) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009041" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [sensory system](http://purl.obolibrary.org/obo/UBERON_0001032) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "note the distinct between entire sensory system and individual system. this reconciles is_a and part_of distinctions between ssAOs" -- [sensory system](http://purl.obolibrary.org/obo/UBERON_0001032) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007692" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### perijunctional fibroblast `http://purl.obolibrary.org/obo/CL_0000688` +#### Added +- [perijunctional fibroblast](http://purl.obolibrary.org/obo/CL_0000688) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009296" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### septal nuclear complex `http://purl.obolibrary.org/obo/UBERON_0002663` -#### Removed -- [septal nuclear complex](http://purl.obolibrary.org/obo/UBERON_0002663) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The septal nuclei are structures in the middle anteroventral cerebrum that are composed of medium-size neurons grouped into medial, lateral, and posterior groups. The septal nuclei receive reciprocal connections from the olfactory bulb, hippocampus, amygdala, hypothalamus, midbrain, habenula, cingulate gyrus, and thalamus. The septal nuclei play a role in reward and reinforcement along with the nucleus accumbens. In the 1950s, Olds &amp; Milner showed that rats with electrodes implanted in this area will self-stimulate repeatedly in order to experience a euphoric feeling (i.e. press a bar to receive electrical current that will stimulate the neurons). [WP,unvetted][Wikipedia:Septal_nuclei]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Septal_nuclei" +### perineuronal satellite cell `http://purl.obolibrary.org/obo/CL_0000516` -- [septal nuclear complex](http://purl.obolibrary.org/obo/UBERON_0002663) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in NIFSTD this is the mereological sum of the individual complexes - in MA it is the superclass" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "NIF" +#### Added +- [perineuronal satellite cell](http://purl.obolibrary.org/obo/CL_0000516) [present in taxon](http://purl.obolibrary.org/obo/RO_0002175) [Homo sapiens](http://purl.obolibrary.org/obo/NCBITaxon_9606) -- [septal nuclear complex](http://purl.obolibrary.org/obo/UBERON_0002663) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Any of the groups of neural nuclei situated in the septal region which have afferent and cholinergic efferent connections with a variety of forebrain and brainstem areas including the hippocampus, the lateral hypothalamus, the tegmentum, and the amygdala." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0012682" +- [perineuronal satellite cell](http://purl.obolibrary.org/obo/CL_0000516) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [human_reference_atlas](http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas) +- [perineuronal satellite cell](http://purl.obolibrary.org/obo/CL_0000516) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009237" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### septum `http://purl.obolibrary.org/obo/UBERON_0003037` -#### Removed -- [septum](http://purl.obolibrary.org/obo/UBERON_0003037) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "septal" +### periodontium `http://purl.obolibrary.org/obo/UBERON_0001758` +#### Added +- [periodontium](http://purl.obolibrary.org/obo/UBERON_0001758) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### septum of telencephalon `http://purl.obolibrary.org/obo/UBERON_0000446` +### periosteum `http://purl.obolibrary.org/obo/UBERON_0002515` #### Removed -- [septum of telencephalon](http://purl.obolibrary.org/obo/UBERON_0000446) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Subdivision of the telencephalon on the midline between the lateral ventricles which contains the septum pellucidum and the septal nuclei[FMA][FMA:61842]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:61842" +- [periosteum](http://purl.obolibrary.org/obo/UBERON_0002515) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### septum transversum `http://purl.obolibrary.org/obo/UBERON_0004161` -#### Removed -- [septum transversum](http://purl.obolibrary.org/obo/UBERON_0004161) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A thick plate of mesodermal tissue that occupies the space between the thoracic cavity and yolk stalk in the early embryo, forming a transverse partition partially separating the coelomic cavity into thoracic and abdominal portions. It gives rise to the central tendon of the diaphragm. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/transverse+septum" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### peripheral blood mesothelial cell `http://purl.obolibrary.org/obo/CL_0002318` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [peripheral blood mesothelial cell](http://purl.obolibrary.org/obo/CL_0002318) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000019" +### peripheral nervous system `http://purl.obolibrary.org/obo/UBERON_0000010` -- [septum transversum](http://purl.obolibrary.org/obo/UBERON_0004161) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The cranial part of the septum transversum gives rise to the central tendon of the diaphragm and is the origin of the myoblasts that invade the pleuroperitoneal folds resulting in the formation of the muscular diaphragm. The caudal part of the septum transversum is invaded by the hepatic diverticulum which divides within it to form the liver and thus gives rise to the ventral mesentery of the foregut." +#### Added +- [peripheral nervous system](http://purl.obolibrary.org/obo/UBERON_0000010) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005098" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [septum transversum](http://purl.obolibrary.org/obo/UBERON_0004161) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In hagfishes a transverse septum extends upward from the ventral body wall posterior to the heart, partly separating an anterior pericardial cavity from a larger peritoneal cavity. (...) These basic relationships have not been modified by urodeles. The small pericardial cavity remains far forward where it is separated by a transverse septum from the principal coelom, which may now be called a pleuroperitoneal cavity because slender lungs are present. (...) The heart (of other tetrapods) is separated from the lungs (and liver if present) by more or less horizontal partitions that have their origin in the embryo as folds on the serous membrane of the right and left lateral body walls. These grow out to join in the midline of the body. They are called lateral mesocardia (birds) or pleuropericardial membranes. Posteriorly they join the transverse septum to form the adult pericardial membrane, or pericardium. (...) In their partitioning of their coelom, embryonic mammals resemble first early fishes (incomplete partition, posterior to heart, consisting of the transverse septum) and then reptiles (pericardium derived from transverse septum and pleuropericardial membranes) Mammals then separate paired pleural cavities from the peritoneal cavity by a diaphragm. The ventral portion of this organ comes from the transverse septum. The dorsal portion is derived from the dorsal mesentery and from still another pair of outgrowths from the lateral body wall, the pleuroperitoneal membranes.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0471090588 Hildebrand M, Analysis of vertebrate structure (1983) p.205-206" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### peripheral nervous system neuron `http://purl.obolibrary.org/obo/CL_2000032` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [peripheral nervous system neuron](http://purl.obolibrary.org/obo/CL_2000032) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [human_reference_atlas](http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [peripheral nervous system neuron](http://purl.obolibrary.org/obo/CL_2000032) [present in taxon](http://purl.obolibrary.org/obo/RO_0002175) [Homo sapiens](http://purl.obolibrary.org/obo/NCBITaxon_9606) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000019" -- [septum transversum](http://purl.obolibrary.org/obo/UBERON_0004161) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in EHDAA2 this is divided into mesenchymal portion and hepatic diverticulum" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" +### peritoneal cavity `http://purl.obolibrary.org/obo/UBERON_0001179` +#### Added +- [peritoneal cavity](http://purl.obolibrary.org/obo/UBERON_0001179) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### serosa of duodenum `http://purl.obolibrary.org/obo/UBERON_0003336` +### peritoneal macrophage `http://purl.obolibrary.org/obo/CL_0000581` #### Removed -- [serosa of duodenum](http://purl.obolibrary.org/obo/UBERON_0003336) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "1st part serosa, 2nd - 4th adventitia" +- [peritoneal macrophage](http://purl.obolibrary.org/obo/CL_0000581) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +#### Added +- [peritoneal macrophage](http://purl.obolibrary.org/obo/CL_0000581) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009267" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### serosa of small intestine `http://purl.obolibrary.org/obo/UBERON_0001206` +### perivascular macrophage `http://purl.obolibrary.org/obo/CL_0000881` #### Removed -- [serosa of small intestine](http://purl.obolibrary.org/obo/UBERON_0001206) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "duodenum, 1st part serosa, 2nd - 4th adventitia" +- [perivascular macrophage](http://purl.obolibrary.org/obo/CL_0000881) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### serosal nerve fiber of appendix `http://purl.obolibrary.org/obo/UBERON_8410049` +### phagocyte `http://purl.obolibrary.org/obo/CL_0000234` #### Added -- [serosal nerve fiber of appendix](http://purl.obolibrary.org/obo/UBERON_8410049) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [phagocyte](http://purl.obolibrary.org/obo/CL_0000234) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009140" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### serous gland `http://purl.obolibrary.org/obo/UBERON_0000409` -#### Removed -- [serous gland](http://purl.obolibrary.org/obo/UBERON_0000409) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "glands that secrete watery albuminous material that often contains enzymes[MP:0008052]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0008052" +### pharyngeal cleft `http://purl.obolibrary.org/obo/UBERON_0005879` +#### Added +- [pharyngeal cleft](http://purl.obolibrary.org/obo/UBERON_0005879) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -### serous membrane `http://purl.obolibrary.org/obo/UBERON_0000042` -#### Removed -- [serous membrane](http://purl.obolibrary.org/obo/UBERON_0000042) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A multi-tissue structure that is comprised of a secretory epithelial layer and a connective tissue layer.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Serous_membrane" +### pharyngeal membrane `http://purl.obolibrary.org/obo/UBERON_0009210` + +#### Added +- [pharyngeal membrane](http://purl.obolibrary.org/obo/UBERON_0009210) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005425" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### phenol-containing compound metabolic process `http://purl.obolibrary.org/obo/GO_0018958` +#### Removed +- [phenol-containing compound metabolic process](http://purl.obolibrary.org/obo/GO_0018958) SubClassOf [cellular aromatic compound metabolic process](http://purl.obolibrary.org/obo/GO_0006725) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" -- [serous membrane](http://purl.obolibrary.org/obo/UBERON_0000042) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "a smooth membrane consisting of a thin layer of cells which excrete serous fluid. Serous membranes line and enclose several body cavities, known as serous cavities, where they secrete a lubricating fluid which reduces friction from muscle movement. Serosa is not to be confused with adventitia, a connective tissue layer which binds together structures rather than reducing friction between them. Each serous membrane is composed of a secretory epithelial layer and a connective tissue layer underneath. The epithelial layer, known as mesothelium, consists of a single layer of avascular flat nucleated cells (cuboidal epithelium) which produce the lubricating serous fluid. This fluid has a consistency similar to thin mucus. These cells are bound tightly to the underlying connective tissue. The connective tissue layer provides the blood vessels and nerves for the overlying secretory cells, and also serves as the binding layer which allows the whole serous membrane to adhere to organs and other structures.[WP]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Serous_membrane" -- [serous membrane](http://purl.obolibrary.org/obo/UBERON_0000042) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA, SM = mesothelium + connective tissue. It excludes the cavity. Serous sac = SM + cavity. Note that the SM is a subtype of wall in FMA." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +### phosphate-containing compound metabolic process `http://purl.obolibrary.org/obo/GO_0006796` +#### Added +- [phosphate-containing compound metabolic process](http://purl.obolibrary.org/obo/GO_0006796) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### serratus ventralis `http://purl.obolibrary.org/obo/UBERON_0001125` +### phosphorylates `http://purl.obolibrary.org/obo/RO_0002447` #### Removed -- [serratus ventralis](http://purl.obolibrary.org/obo/UBERON_0001125) SubClassOf [innervated_by](http://purl.obolibrary.org/obo/RO_0002005) some [thoracic nerve](http://purl.obolibrary.org/obo/UBERON_0003726) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" +- [phosphorylates](http://purl.obolibrary.org/obo/RO_0002447) [label](http://www.w3.org/2000/01/rdf-schema#label) "phosphorylates" + +- [phosphorylates](http://purl.obolibrary.org/obo/RO_0002447) [editor note](http://purl.obolibrary.org/obo/IAO_0000116) "Axiomatization to GO to be added later" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "long thoracic nerve" +- ObjectProperty: [phosphorylates](http://purl.obolibrary.org/obo/RO_0002447) -- [serratus ventralis](http://purl.obolibrary.org/obo/UBERON_0001125) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [rib](http://purl.obolibrary.org/obo/UBERON_0002228) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" +- [phosphorylates](http://purl.obolibrary.org/obo/RO_0002447) SubPropertyOf: [molecularly interacts with](http://purl.obolibrary.org/obo/RO_0002436) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "fleshy slips from the outer surface of upper 8 or 9 ribs" -- [serratus ventralis](http://purl.obolibrary.org/obo/UBERON_0001125) SubClassOf [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) some [scapula](http://purl.obolibrary.org/obo/UBERON_0006849) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "costal aspect of medial margin of the scapula" +### phosphorylation `http://purl.obolibrary.org/obo/GO_0016310` #### Added -- [serratus ventralis](http://purl.obolibrary.org/obo/UBERON_0001125) SubClassOf [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) some [scapula](http://purl.obolibrary.org/obo/UBERON_0006849) +- [phosphorylation](http://purl.obolibrary.org/obo/GO_0016310) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/26424"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [serratus ventralis](http://purl.obolibrary.org/obo/UBERON_0001125) SubClassOf [innervated_by](http://purl.obolibrary.org/obo/RO_0002005) some [thoracic nerve](http://purl.obolibrary.org/obo/UBERON_0003726) +- [phosphorylation](http://purl.obolibrary.org/obo/GO_0016310) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -- [serratus ventralis](http://purl.obolibrary.org/obo/UBERON_0001125) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [rib](http://purl.obolibrary.org/obo/UBERON_0002228) +### photopic photoreceptor cell `http://purl.obolibrary.org/obo/CL_0000490` -### sex cord `http://purl.obolibrary.org/obo/UBERON_0005295` -#### Removed -- [sex cord](http://purl.obolibrary.org/obo/UBERON_0005295) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EHDAA2:0004051" +#### Added +- [photopic photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000490) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009220" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +### photoreceptor array `http://purl.obolibrary.org/obo/UBERON_0005388` -### sexually immature organism `http://purl.obolibrary.org/obo/UBERON_0007021` -#### Removed -- [sexually immature organism](http://purl.obolibrary.org/obo/UBERON_0007021) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Whole organism that is not fully grown or sexually mature.[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [photoreceptor array](http://purl.obolibrary.org/obo/UBERON_0005388) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004200" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" +### photoreceptor cell `http://purl.obolibrary.org/obo/CL_0000210` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002047" +#### Added +- [photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000210) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009127" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000210) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004211" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### sexually immature stage `http://purl.obolibrary.org/obo/UBERON_0000112` -#### Removed -- [sexually immature stage](http://purl.obolibrary.org/obo/UBERON_0000112) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In mammals this would include infant (nourishment from lactation) and juvenile (prepubertal no longer dependent on mother)" +### photosynthesis `http://purl.obolibrary.org/obo/GO_0015979` -- [sexually immature stage](http://purl.obolibrary.org/obo/UBERON_0000112) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The stage of being a sexually immature adult animal[XAO:1000010]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "XAO:1000010" +#### Added +- [photosynthesis](http://purl.obolibrary.org/obo/GO_0015979) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) +- [photosynthesis](http://purl.obolibrary.org/obo/GO_0015979) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) -### shares ancestor with `http://purl.obolibrary.org/obo/RO_0002158` -#### Removed -- [shares ancestor with](http://purl.obolibrary.org/obo/RO_0002158) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Consider obsoleting and merging with child relation, 'in homology relationship with'" +### pial interlaminar astrocyte `http://purl.obolibrary.org/obo/CL_4042010` -- [shares ancestor with](http://purl.obolibrary.org/obo/RO_0002158) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002158" +#### Added +- [pial interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042010) [date](http://purl.org/dc/terms/date) "2024-04-08T16:37:57Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) -- [shares ancestor with](http://purl.obolibrary.org/obo/RO_0002158) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "homologous_to" +- [pial interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042010) [label](http://www.w3.org/2000/01/rdf-schema#label) "pial interlaminar astrocyte"@en -- [shares ancestor with](http://purl.obolibrary.org/obo/RO_0002158) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) +- [pial interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042010) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "An interlaminar astrocyte whose soma is part of the first layer of a neocortex and is in contact with a pia surface." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:32930323" -- [shares ancestor with](http://purl.obolibrary.org/obo/RO_0002158) [id](http://www.geneontology.org/formats/oboInOwl#id) "homologous_to" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37139179" -- [shares ancestor with](http://purl.obolibrary.org/obo/RO_0002158) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +- [pial interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042010) [contributor](http://purl.org/dc/terms/contributor) [0000-0002-0098-8958](https://orcid.org/0000-0002-0098-8958) +- Class: [pial interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042010) +- [pial interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042010) SubClassOf [interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042009) -### shoulder `http://purl.obolibrary.org/obo/UBERON_0001467` -#### Removed -- [shoulder](http://purl.obolibrary.org/obo/UBERON_0001467) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) endochondral elements of the early tetrapod shoulder develop from two centers of ossification, giving rise to a scapula and a 'coracoid'.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.332" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### pigment cell `http://purl.obolibrary.org/obo/CL_0000147` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [pigment cell](http://purl.obolibrary.org/obo/CL_0000147) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009090" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000342" +### pigment cell (sensu Vertebrata) `http://purl.obolibrary.org/obo/CL_0000342` -- [shoulder](http://purl.obolibrary.org/obo/UBERON_0001467) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "In FMA, the shoulder is part of the pectoral girdle region. in MA, shoulder structures like shoulder joints, bones, nerves etc are part of the shoulder and the forelimb. E.g. humerus is a shoulder bone" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +#### Added +- [pigment cell (sensu Vertebrata)](http://purl.obolibrary.org/obo/CL_0000342) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009170" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +### pigment erythroblast `http://purl.obolibrary.org/obo/CL_0005004` -### shoulder bone `http://purl.obolibrary.org/obo/UBERON_0003461` -#### Removed -- [shoulder bone](http://purl.obolibrary.org/obo/UBERON_0003461) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "this is a forelimb bone in MA, but this would lead to part-disjointness violations." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +#### Added +- [pigment erythroblast](http://purl.obolibrary.org/obo/CL_0005004) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005331" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [shoulder bone](http://purl.obolibrary.org/obo/UBERON_0003461) SubClassOf [bone of pectoral complex](http://purl.obolibrary.org/obo/UBERON_0010741) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MA" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "UBERONREF:0000003" +### pigmented epithelial cell `http://purl.obolibrary.org/obo/CL_0000529` #### Added -- [shoulder bone](http://purl.obolibrary.org/obo/UBERON_0003461) SubClassOf [bone of pectoral complex](http://purl.obolibrary.org/obo/UBERON_0010741) +- [pigmented epithelial cell](http://purl.obolibrary.org/obo/CL_0000529) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009241" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### shoulder joint `http://purl.obolibrary.org/obo/UBERON_0016884` +### pilosebaceous unit `http://purl.obolibrary.org/obo/UBERON_0011932` #### Removed -- [shoulder joint](http://purl.obolibrary.org/obo/UBERON_0016884) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D012785" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [pilosebaceous unit](http://purl.obolibrary.org/obo/UBERON_0011932) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) +#### Added +- [pilosebaceous unit](http://purl.obolibrary.org/obo/UBERON_0011932) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" -- [shoulder joint](http://purl.obolibrary.org/obo/UBERON_0016884) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [shoulder joint primordium](http://purl.obolibrary.org/obo/UBERON_0006292) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" +### pineal complex `http://purl.obolibrary.org/obo/UBERON_0015238` #### Added -- [shoulder joint](http://purl.obolibrary.org/obo/UBERON_0016884) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [shoulder joint primordium](http://purl.obolibrary.org/obo/UBERON_0006292) +- [pineal complex](http://purl.obolibrary.org/obo/UBERON_0015238) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -### shoulder joint primordium `http://purl.obolibrary.org/obo/UBERON_0006292` -#### Removed -- [shoulder joint primordium](http://purl.obolibrary.org/obo/UBERON_0006292) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "this is part of the forelimb skeleton in EHDAA2, but this violates part-disjointness" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" +### pinealocyte `http://purl.obolibrary.org/obo/CL_0000652` +#### Added +- [pinealocyte](http://purl.obolibrary.org/obo/CL_0000652) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009284" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### sialic acid-binding Ig-like lectin 5 `http://purl.obolibrary.org/obo/PR_000001927` -#### Removed -- [sialic acid-binding Ig-like lectin 5](http://purl.obolibrary.org/obo/PR_000001927) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [sialic acid-binding Ig-like lectin 5 (human)](http://purl.obolibrary.org/obo/PR_O15389) +### pinna `http://purl.obolibrary.org/obo/UBERON_0001757` +#### Added +- [pinna](http://purl.obolibrary.org/obo/UBERON_0001757) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### sialic acid-binding Ig-like lectin 6 `http://purl.obolibrary.org/obo/PR_000001928` +### pioneer neuron `http://purl.obolibrary.org/obo/CL_0000116` #### Removed -- [sialic acid-binding Ig-like lectin 6](http://purl.obolibrary.org/obo/PR_000001928) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [sialic acid-binding Ig-like lectin 6 (human)](http://purl.obolibrary.org/obo/PR_O43699) +- [pioneer neuron](http://purl.obolibrary.org/obo/CL_0000116) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005128" +#### Added +- [pioneer neuron](http://purl.obolibrary.org/obo/CL_0000116) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005128" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -### sialoadhesin `http://purl.obolibrary.org/obo/PR_000001931` -#### Removed -- [sialoadhesin](http://purl.obolibrary.org/obo/PR_000001931) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [sialoadhesin (human)](http://purl.obolibrary.org/obo/PR_Q9BZZ2) - +- [pioneer neuron](http://purl.obolibrary.org/obo/CL_0000116) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009066" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### signal transducer CD24 `http://purl.obolibrary.org/obo/PR_000001932` -#### Removed -- [signal transducer CD24](http://purl.obolibrary.org/obo/PR_000001932) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [signal transducer CD24 (human)](http://purl.obolibrary.org/obo/PR_P25063) +### pituitary gland `http://purl.obolibrary.org/obo/UBERON_0000007` +#### Added +- [pituitary gland](http://purl.obolibrary.org/obo/UBERON_0000007) SubClassOf [reproductive gland](http://purl.obolibrary.org/obo/UBERON_0003937) +- [pituitary gland](http://purl.obolibrary.org/obo/UBERON_0000007) SubClassOf [reproductive organ](http://purl.obolibrary.org/obo/UBERON_0003133) -### simple columnar epithelium `http://purl.obolibrary.org/obo/UBERON_0000485` -#### Removed -- [simple columnar epithelium](http://purl.obolibrary.org/obo/UBERON_0000485) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007027" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### placental villus capillary endothelial cell `http://purl.obolibrary.org/obo/CL_2000062` +#### Added +- [placental villus capillary endothelial cell](http://purl.obolibrary.org/obo/CL_2000062) [present in taxon](http://purl.obolibrary.org/obo/RO_0002175) [Homo sapiens](http://purl.obolibrary.org/obo/NCBITaxon_9606) -### simple squamous epithelium `http://purl.obolibrary.org/obo/UBERON_0000487` -#### Removed -- [simple squamous epithelium](http://purl.obolibrary.org/obo/UBERON_0000487) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Unilaminar epithelium that consists of a single layer of squamous cells.[CARO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:45565" +- [placental villus capillary endothelial cell](http://purl.obolibrary.org/obo/CL_2000062) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [human_reference_atlas](http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://orcid.org/0000-0001-9114-8737" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### plasma cell `http://purl.obolibrary.org/obo/CL_0000786` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "CARO" +#### Added +- [plasma cell](http://purl.obolibrary.org/obo/CL_0000786) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009332" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "CARO:0000070" +### plasma membrane `http://purl.obolibrary.org/obo/GO_0005886` +#### Added +- [plasma membrane](http://purl.obolibrary.org/obo/GO_0005886) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) -### simultaneous with `http://purl.obolibrary.org/obo/RO_0002082` -#### Removed -- [simultaneous with](http://purl.obolibrary.org/obo/RO_0002082) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "David Osumi-Sutherland" +- [plasma membrane](http://purl.obolibrary.org/obo/GO_0005886) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) -- [simultaneous with](http://purl.obolibrary.org/obo/RO_0002082) [id](http://www.geneontology.org/formats/oboInOwl#id) "simultaneous_with" +- [plasma membrane](http://purl.obolibrary.org/obo/GO_0005886) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -- [simultaneous with](http://purl.obolibrary.org/obo/RO_0002082) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" -- [simultaneous with](http://purl.obolibrary.org/obo/RO_0002082) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002082" +### plasma membrane region `http://purl.obolibrary.org/obo/GO_0098590` +#### Removed +- [plasma membrane region](http://purl.obolibrary.org/obo/GO_0098590) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) -- [simultaneous with](http://purl.obolibrary.org/obo/RO_0002082) [label](http://www.w3.org/2000/01/rdf-schema#label) "simultaneous with" +#### Added +- [plasma membrane region](http://purl.obolibrary.org/obo/GO_0098590) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -- [simultaneous with](http://purl.obolibrary.org/obo/RO_0002082) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) -- [simultaneous with](http://purl.obolibrary.org/obo/RO_0002082) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "simultaneous_with" +### plasma membrane signaling receptor complex `http://purl.obolibrary.org/obo/GO_0098802` +#### Removed +- [plasma membrane signaling receptor complex](http://purl.obolibrary.org/obo/GO_0098802) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) +#### Added +- [plasma membrane signaling receptor complex](http://purl.obolibrary.org/obo/GO_0098802) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -### sinus venosus `http://purl.obolibrary.org/obo/UBERON_0002063` +### plasmatocyte `http://purl.obolibrary.org/obo/CL_0000394` #### Removed -- [sinus venosus](http://purl.obolibrary.org/obo/UBERON_0002063) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the circulatory system which receives blood from the systemic veins and contracts to pump the blood into the atrium of the heart.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010505" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [plasmatocyte](http://purl.obolibrary.org/obo/CL_0000394) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001685" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [plasmatocyte](http://purl.obolibrary.org/obo/CL_0000394) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001685" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" -- [sinus venosus](http://purl.obolibrary.org/obo/UBERON_0002063) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, it exists distinctly only in the embryonic heart, where it is found between the two venae cavae. In the adult, it is incorporated into the wall of the right atrium to form a smooth part called the sinus venarum, also known as the venarum sinus, which is separated from the rest of the atrium by a ridge of fibres called the crista terminalis. The sinus venosus also forms the SA node and the coronary sinus. In the embryo, the thin walls of the sinus venosus are connected below with the right ventricle, and medially with the left atrium, but are free in the rest of their extent. It receives blood from the vitelline vein, umbilical vein and common cardinal vein. It originally starts as a paired structure but shifts towards associating only with the right atrium as the embryonic heart develops. The left portion shrinks in size and eventually forms the coronary sinus and oblique vein of the left atrium, whereas the right part becomes incorporated into the right atrium to form the sinus venarmu" +### platelet activation `http://purl.obolibrary.org/obo/GO_0030168` -- [sinus venosus](http://purl.obolibrary.org/obo/UBERON_0002063) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In zebrafish, the sinus venosus also acts as a pacemaker and is the first to contract" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA:0000154" +#### Added +- [platelet activation](http://purl.obolibrary.org/obo/GO_0030168) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [sinus venosus](http://purl.obolibrary.org/obo/UBERON_0002063) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Heart region collecting blood from the paired common cardinal veins and delivering to the atrium. One of four components of the heart. The sinus venosus also acts as a pacemaker and is the first to contract. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000154" +### pleural cavity `http://purl.obolibrary.org/obo/UBERON_0002402` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [pleural cavity](http://purl.obolibrary.org/obo/UBERON_0002402) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" -- [sinus venosus](http://purl.obolibrary.org/obo/UBERON_0002063) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In the primitive vertebrate heart the four chambers are: 1. Sinus venosus (...) 2. Atrium (...) 3. Ventricle (...) 4. Conus arteriosus (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### pleuroperitoneal canal lumen `http://purl.obolibrary.org/obo/UBERON_0014704` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [pleuroperitoneal canal lumen](http://purl.obolibrary.org/obo/UBERON_0014704) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0721676678 Romer AS, Vertebrate body (1970) p.428" +### podocyte `http://purl.obolibrary.org/obo/CL_0000653` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000177" +#### Added +- [podocyte](http://purl.obolibrary.org/obo/CL_0000653) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009285" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [sinus venosus](http://purl.obolibrary.org/obo/UBERON_0002063) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In fish, receives venous blood from the systemic circulation through paired hepatic veins, anterior jugular veins and Cuvierian ducts[PMID:20735616]" -- [sinus venosus](http://purl.obolibrary.org/obo/UBERON_0002063) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +### pole cell `http://purl.obolibrary.org/obo/CL_0000301` +#### Removed +- [pole cell](http://purl.obolibrary.org/obo/CL_0000301) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000092" +#### Added +- [pole cell](http://purl.obolibrary.org/obo/CL_0000301) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000092" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### sinusoid `http://purl.obolibrary.org/obo/UBERON_0003909` +### pole cell development `http://purl.obolibrary.org/obo/GO_0007277` #### Removed -- [sinusoid](http://purl.obolibrary.org/obo/UBERON_0003909) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "some sources give discontinuous capillary as synonym but this may be a subtype - see FMA:63198 discontinuous sinusoid (undefined)." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [pole cell development](http://purl.obolibrary.org/obo/GO_0007277) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) -- [sinusoid](http://purl.obolibrary.org/obo/UBERON_0003909) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Fenestrated blood vessel endothelium with pores that are large enough for blood cells to pass. The basal lamina and gap junctions may be discontinuous.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### pole cell formation `http://purl.obolibrary.org/obo/GO_0007279` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005261" +#### Added +- [pole cell formation](http://purl.obolibrary.org/obo/GO_0007279) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [sinusoid](http://purl.obolibrary.org/obo/UBERON_0003909) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "sinusoidal" +### pole cell migration `http://purl.obolibrary.org/obo/GO_0007280` +#### Removed +- [pole cell migration](http://purl.obolibrary.org/obo/GO_0007280) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "See also the Cell Ontology term 'pole cell ; CL:0000301'." +- [pole cell migration](http://purl.obolibrary.org/obo/GO_0007280) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -### skeletal element `http://purl.obolibrary.org/obo/UBERON_0004765` -#### Removed -- [skeletal element](http://purl.obolibrary.org/obo/UBERON_0004765) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organ entity that is typically involved in mechanical support and may have different skeletal tissue compositions at different stages.[VSAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [pole cell migration](http://purl.obolibrary.org/obo/GO_0007280) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The directed movement of a pole cell (germline progenitors in insects) from its site of production at the posterior pole of the embryo through to the site where the gonads will form." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:9988212" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:bf" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" +- [pole cell migration](http://purl.obolibrary.org/obo/GO_0007280) [label](http://www.w3.org/2000/01/rdf-schema#label) "pole cell migration" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000128" +- [pole cell migration](http://purl.obolibrary.org/obo/GO_0007280) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0007280" -- [skeletal element](http://purl.obolibrary.org/obo/UBERON_0004765) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organ entity that may have different tissue compositions at different stages and is typically involved in mechanical support.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001890" +- Class: [pole cell migration](http://purl.obolibrary.org/obo/GO_0007280) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:VSAO_workshop" +- [pole cell migration](http://purl.obolibrary.org/obo/GO_0007280) EquivalentTo [cell migration](http://purl.obolibrary.org/obo/GO_0016477) and ([results in movement of](http://purl.obolibrary.org/obo/RO_0002565) some [pole cell](http://purl.obolibrary.org/obo/CL_0000301)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [pole cell migration](http://purl.obolibrary.org/obo/GO_0007280) SubClassOf [germ cell migration](http://purl.obolibrary.org/obo/GO_0008354) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [pole cell migration](http://purl.obolibrary.org/obo/GO_0007280) SubClassOf [results in movement of](http://purl.obolibrary.org/obo/RO_0002565) some [pole cell](http://purl.obolibrary.org/obo/CL_0000301) -### skeletal joint `http://purl.obolibrary.org/obo/UBERON_0000982` +### polychromatophilic erythroblast `http://purl.obolibrary.org/obo/CL_0000550` #### Removed -- [skeletal joint](http://purl.obolibrary.org/obo/UBERON_0000982) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster which consists of two or more adjacent bones or cartilages, which may be interconnected by various types of tissue.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000367" +- [polychromatophilic erythroblast](http://purl.obolibrary.org/obo/CL_0000550) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:pem" +#### Added +- [polychromatophilic erythroblast](http://purl.obolibrary.org/obo/CL_0000550) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005241" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### polymodal neuron `http://purl.obolibrary.org/obo/CL_0000102` -- [skeletal joint](http://purl.obolibrary.org/obo/UBERON_0000982) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster that consists of two or more adjacent bones or cartilages, which may be interconnected by various types of tissue.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000101" +#### Added +- [polymodal neuron](http://purl.obolibrary.org/obo/CL_0000102) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009054" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" +### polysaccharide binding `http://purl.obolibrary.org/obo/GO_0030247` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" +#### Added +- [polysaccharide binding](http://purl.obolibrary.org/obo/GO_0030247) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### polysaccharide immune receptor activity `http://purl.obolibrary.org/obo/GO_0001873` -### skeletal ligament `http://purl.obolibrary.org/obo/UBERON_0008846` -#### Removed -- [skeletal ligament](http://purl.obolibrary.org/obo/UBERON_0008846) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Ligament organ that primarily consists of regular dense connective tissue aggregated into fasciculi; connects bone and cartilage organs. Examples: sutural ligament, ligament of pinna, tarsal ligament[FMA:25624]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:25624" +#### Added +- [polysaccharide immune receptor activity](http://purl.obolibrary.org/obo/GO_0001873) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [skeletal ligament](http://purl.obolibrary.org/obo/UBERON_0008846) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Dense regular connective tissue connecting two or more adjacent skeletal elements or supporting an organ.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000072" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### polysaccharide localization `http://purl.obolibrary.org/obo/GO_0033037` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" +#### Added +- [polysaccharide localization](http://purl.obolibrary.org/obo/GO_0033037) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" -- [skeletal ligament](http://purl.obolibrary.org/obo/UBERON_0008846) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [skeletal element](http://purl.obolibrary.org/obo/UBERON_0004765) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "bones or cartilage organs" +### polysaccharide metabolic process `http://purl.obolibrary.org/obo/GO_0005976` #### Added -- [skeletal ligament](http://purl.obolibrary.org/obo/UBERON_0008846) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [skeletal element](http://purl.obolibrary.org/obo/UBERON_0004765) +- [polysaccharide metabolic process](http://purl.obolibrary.org/obo/GO_0005976) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### skeletal muscle of trunk `http://purl.obolibrary.org/obo/UBERON_0001774` -#### Removed -- [skeletal muscle of trunk](http://purl.obolibrary.org/obo/UBERON_0001774) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Many ontologies do not appear to have a coherent distinction between an individual muscle and the musculature (i.e. the set of muscles in a region), so we group all together here." - +### polysaccharide transport `http://purl.obolibrary.org/obo/GO_0015774` +#### Added +- [polysaccharide transport](http://purl.obolibrary.org/obo/GO_0015774) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### skeletal muscle tissue `http://purl.obolibrary.org/obo/UBERON_0001134` -#### Removed -- [skeletal muscle tissue](http://purl.obolibrary.org/obo/UBERON_0001134) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "This result implies the following views in terms of evolutionary differentiation: (1) Arthropod striated muscle and vertebrate skeletal and cardiac muscles share a common ancestor. In other words, they did not evolve independently (...) (5) The divergence of vertebrate skeletal and cardiac muscles/vertebrate smooth muscle and nonmuscle is at least before that of vertebrates/arthropods. In other words, emergence of skeletal and cardiac musle type tissues preceded the vertebrate/arthropod divergence (ca. 700 MYA).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### pons formation `http://purl.obolibrary.org/obo/GO_0021584` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [pons formation](http://purl.obolibrary.org/obo/GO_0021584) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000319" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:10368962 Oota S, Saitou N, Phylogenetic relationship of muscle tissues deduced from superimposition of gene trees. Mol Biol Evol (1999)" +### pons morphogenesis `http://purl.obolibrary.org/obo/GO_0021583` -- [skeletal muscle tissue](http://purl.obolibrary.org/obo/UBERON_0001134) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Muscle, composed of long cylindrical, multinucleated cells that attaches to the skeleton via tendons.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005277" +#### Added +- [pons morphogenesis](http://purl.obolibrary.org/obo/GO_0021583) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### portal triad `http://purl.obolibrary.org/obo/UBERON_0001279` +#### Removed +- [portal triad](http://purl.obolibrary.org/obo/UBERON_0001279) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" -- [skeletal muscle tissue](http://purl.obolibrary.org/obo/UBERON_0001134) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Tissue which consists of skeletal muscle fibers surrounded by endomysium. Examples: Skeletal muscle tissue of biceps, Skeletal muscle tissue of diaphragm[FMA]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "FMA" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "FMA:14069" +### positive regulation of DNA catabolic process `http://purl.obolibrary.org/obo/GO_1903626` +#### Added +- [positive regulation of DNA catabolic process](http://purl.obolibrary.org/obo/GO_1903626) SubClassOf [positive regulation of macromolecule metabolic process](http://purl.obolibrary.org/obo/GO_0010604) -### skeletal muscle tissue of eye `http://purl.obolibrary.org/obo/UBERON_0003269` +### positive regulation of DNA metabolic process `http://purl.obolibrary.org/obo/GO_0051054` +#### Removed +- [positive regulation of DNA metabolic process](http://purl.obolibrary.org/obo/GO_0051054) SubClassOf [positive regulation of macromolecule metabolic process](http://purl.obolibrary.org/obo/GO_0010604) #### Added -- [skeletal muscle tissue of eye](http://purl.obolibrary.org/obo/UBERON_0003269) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [positive regulation of DNA metabolic process](http://purl.obolibrary.org/obo/GO_0051054) SubClassOf [positive regulation of metabolic process](http://purl.obolibrary.org/obo/GO_0009893) -### skeletal muscle tissue of trapezius `http://purl.obolibrary.org/obo/UBERON_0004509` +### positive regulation of DNA-binding transcription factor activity `http://purl.obolibrary.org/obo/GO_0051091` #### Added -- [skeletal muscle tissue of trapezius](http://purl.obolibrary.org/obo/UBERON_0004509) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) +- [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that activates or increases the frequency, rate or extent of activity of a transcription factor, any factor involved in the initiation or regulation of transcription." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:ai" +- [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "stimulation of transcription factor activity" -### skeletal musculature `http://purl.obolibrary.org/obo/UBERON_0018254` -#### Removed -- [skeletal musculature](http://purl.obolibrary.org/obo/UBERON_0018254) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MA:0000165" +- [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "positive regulation of thyroid hormone receptor activity" +- [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "up regulation of transcription factor activity" +- [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -### skeletal system `http://purl.obolibrary.org/obo/UBERON_0001434` -#### Removed -- [skeletal system](http://purl.obolibrary.org/obo/UBERON_0001434) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [nervous system](http://purl.obolibrary.org/obo/UBERON_0001016) - -- [skeletal system](http://purl.obolibrary.org/obo/UBERON_0001434) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "skeletal" +- [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "upregulation of transcription factor activity" -- [skeletal system](http://purl.obolibrary.org/obo/UBERON_0001434) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "By taking a holistic approach, integration of the evidence from molecular and developmental features of model organisms, the phylogenetic distribution in the 'new animal phylogeny' and the earliest fossilized remains of mineralized animal skeletons suggests independent origins of the skeleton at the phylum level.[debated][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "positive regulation of sequence-specific DNA binding transcription factor activity" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1159/000324245 Donoghue PCJ, Sansom IJ, Origin and early evolution of vertebrate skeletonization. Microscopy research and technique (2002)" +- [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:1904169" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "up-regulation of transcription factor activity" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001254" +- [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "activation of transcription factor activity" -- [skeletal system](http://purl.obolibrary.org/obo/UBERON_0001434) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical system consisting of multiple elements and tissues that provides physical support.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000434" +- [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2015-04-22T12:22:16Z" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) [label](http://www.w3.org/2000/01/rdf-schema#label) "positive regulation of DNA-binding transcription factor activity" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "rph" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" +- [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0051091" -- [skeletal system](http://purl.obolibrary.org/obo/UBERON_0001434) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "GO defines skeletal system very generically: The skeleton is the bony framework of the body in vertebrates (endoskeleton) or the hard outer envelope of insects (exoskeleton or dermoskeleton) GO:0001501; however, all annotations are to vertebrates" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "GO" +- [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "positive regulation of DNA binding transcription factor activity" -- [skeletal system](http://purl.obolibrary.org/obo/UBERON_0001434) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "System that provides physical support to the organism.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000566" +- [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "positive regulation of transcription factor activity" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:dph" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:tb" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- Class: [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([positively regulates](http://purl.obolibrary.org/obo/RO_0002213) some [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700)) -- [skeletal system](http://purl.obolibrary.org/obo/UBERON_0001434) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical system that is a multi-element, multi-tissue anatomical cluster that consists of the skeleton and the articular system.[VSAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070" +- [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) SubClassOf [positively regulates](http://purl.obolibrary.org/obo/RO_0002213) some [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) SubClassOf [regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051090) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" +- [positive regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051091) SubClassOf [positive regulation of molecular function](http://purl.obolibrary.org/obo/GO_0044093) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000027" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" +### positive regulation of DNA-templated transcription `http://purl.obolibrary.org/obo/GO_0045893` +#### Added +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "stimulation of transcription, DNA-dependent" +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "positive regulation of transcription, DNA-templated" -### skeletal tissue `http://purl.obolibrary.org/obo/UBERON_0004755` -#### Removed -- [skeletal tissue](http://purl.obolibrary.org/obo/UBERON_0004755) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A specialized form of connective tissue in which the extracellular matrix is firm, providing the tissue with resilience, and/or mineralized and that functions in mechanical and structural support.[VSAO]" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "taken from version of VSAO used in TAO and used directly in Uberon" +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "upregulation of gene-specific transcription" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070" +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "up-regulation of transcription, DNA-dependent" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000015" +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "activation of gene-specific transcription" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "up regulation of gene-specific transcription" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "positive regulation of gene-specific transcription" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0045893" -- [skeletal tissue](http://purl.obolibrary.org/obo/UBERON_0004755) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [skeletogenic cell](http://purl.obolibrary.org/obo/CL_0007001) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "VSAO" +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "upregulation of transcription, DNA-dependent" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000015" +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [label](http://www.w3.org/2000/01/rdf-schema#label) "positive regulation of DNA-templated transcription" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "up-regulation of gene-specific transcription" -#### Added -- [skeletal tissue](http://purl.obolibrary.org/obo/UBERON_0004755) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [skeletogenic cell](http://purl.obolibrary.org/obo/CL_0007001) +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "stimulation of gene-specific transcription" +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -### skeleton `http://purl.obolibrary.org/obo/UBERON_0004288` -#### Removed -- [skeleton](http://purl.obolibrary.org/obo/UBERON_0004288) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster that consists of all the skeletal elements (eg., bone, cartilage, and teeth) of the body.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000026" +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0043193" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070" +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0045941" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "transcription activator activity" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "positive regulation of transcription, DNA-dependent" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH" -- [skeleton](http://purl.obolibrary.org/obo/UBERON_0004288) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [musculature of body](http://purl.obolibrary.org/obo/UBERON_0000383) +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "positive regulation of cellular transcription, DNA-dependent" -- [skeleton](http://purl.obolibrary.org/obo/UBERON_0004288) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "skeletal" +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:go_curators" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH" +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0061020" -### skeleton of `http://purl.obolibrary.org/obo/RO_0002576` -#### Removed -- [skeleton of](http://purl.obolibrary.org/obo/RO_0002576) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "skeleton_of" +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "up regulation of transcription, DNA-dependent" -- [skeleton of](http://purl.obolibrary.org/obo/RO_0002576) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "activation of transcription, DNA-dependent" -- [skeleton of](http://purl.obolibrary.org/obo/RO_0002576) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002576" +- Class: [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) -- [skeleton of](http://purl.obolibrary.org/obo/RO_0002576) [id](http://www.geneontology.org/formats/oboInOwl#id) "skeleton_of" +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([positively regulates](http://purl.obolibrary.org/obo/RO_0002213) some [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351)) -- [skeleton of](http://purl.obolibrary.org/obo/RO_0002576) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) SubClassOf [positively regulates](http://purl.obolibrary.org/obo/RO_0002213) some [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) +- [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) SubClassOf [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) -### skeleton of digitopodium `http://purl.obolibrary.org/obo/UBERON_0012150` -#### Removed -- [skeleton of digitopodium](http://purl.obolibrary.org/obo/UBERON_0012150) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "some sources call this the acropodium. see https://github.com/obophenotype/uberon/wiki/Subdivisions-of-the-autopod" +### positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding `http://purl.obolibrary.org/obo/GO_1905636` #### Added -- [skeleton of digitopodium](http://purl.obolibrary.org/obo/UBERON_0012150) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - - -### skeleton of limb `http://purl.obolibrary.org/obo/UBERON_0004381` -#### Removed -- [skeleton of limb](http://purl.obolibrary.org/obo/UBERON_0004381) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "EHDAA2 considers hip and shoulder joints part of limb skeleton." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" - -- [skeleton of limb](http://purl.obolibrary.org/obo/UBERON_0004381) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Skeletal subdivision that is part of the limb.[VSAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070" +- [positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1905636) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000300" +- [positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1905636) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "bc" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1905636) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that activates or increases the frequency, rate or extent of RNA polymerase II regulatory region sequence-specific DNA binding." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:PARL" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:TermGenie" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:bc" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:23675531" -### skeleton of lower jaw `http://purl.obolibrary.org/obo/UBERON_0003278` -#### Removed -- [skeleton of lower jaw](http://purl.obolibrary.org/obo/UBERON_0003278) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The jaw joint of all jawed vertebrates, except for mammals, involves the quadrate and articular bones, or the posterior ends of the palatoquadrate and mandibular cartilages; A correlate of the conversion of the articular and quadrate bones to the malleus and incus is that all adult mammals have a jaw joint that lies between the dentary of the lower jaw and the squamosal bone of the skull roof.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GO_REF:0000059" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1905636) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "up-regulation of RNA polymerase II regulatory region sequence-specific DNA binding" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:TermGenie" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.241 and p.101" +- [positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1905636) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000428" +- [positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1905636) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "activation of RNA polymerase II regulatory region sequence-specific DNA binding" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:TermGenie" -- [skeleton of lower jaw](http://purl.obolibrary.org/obo/UBERON_0003278) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The ventral portion of the first pharyngeal arch, comprising the lower jaw.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1905636) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:1905636" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1905636) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "up regulation of RNA polymerase II regulatory region sequence-specific DNA binding" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:TermGenie" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1905636) [label](http://www.w3.org/2000/01/rdf-schema#label) "positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001273" +- [positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1905636) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2016-11-03T12:03:07Z" -- [skeleton of lower jaw](http://purl.obolibrary.org/obo/UBERON_0003278) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17906" +- [positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1905636) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "upregulation of RNA polymerase II regulatory region sequence-specific DNA binding" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:TermGenie" -- [skeleton of lower jaw](http://purl.obolibrary.org/obo/UBERON_0003278) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Inclusion of the FMA class 'lower jaw' is debatable - this mostly corresponds to the lower jaw skeleton (with 'maxillary part of mouth' corresponding to the upper jaw region); however, the FMA class also includes gingiva. See also: https://github.com/obophenotype/mouse-anatomy-ontology/issues/102" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- Class: [positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1905636) -#### Added -- [skeleton of lower jaw](http://purl.obolibrary.org/obo/UBERON_0003278) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) +- [positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1905636) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([positively regulates](http://purl.obolibrary.org/obo/RO_0002213) some [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977)) +- [positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1905636) SubClassOf [positive regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000679) -### skeleton of manual digitopodium `http://purl.obolibrary.org/obo/UBERON_0012151` -#### Removed -- [skeleton of manual digitopodium](http://purl.obolibrary.org/obo/UBERON_0012151) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "some sources call this the acropodium. see https://github.com/obophenotype/uberon/wiki/Subdivisions-of-the-autopod" +- [positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1905636) SubClassOf [regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903025) +- [positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1905636) SubClassOf [positively regulates](http://purl.obolibrary.org/obo/RO_0002213) some [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977) -### skeleton of manus `http://purl.obolibrary.org/obo/UBERON_0001442` -#### Removed -- [skeleton of manus](http://purl.obolibrary.org/obo/UBERON_0001442) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Skeleton-partonomy-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +### positive regulation of T cell activation `http://purl.obolibrary.org/obo/GO_0050870` +#### Added +- [positive regulation of T cell activation](http://purl.obolibrary.org/obo/GO_0050870) [never in taxon](http://purl.obolibrary.org/obo/RO_0002161) [Saccharomyces cerevisiae](http://purl.obolibrary.org/obo/NCBITaxon_4932) +- [positive regulation of T cell activation](http://purl.obolibrary.org/obo/GO_0050870) [never in taxon](http://purl.obolibrary.org/obo/RO_0002161) [Schizosaccharomyces pombe](http://purl.obolibrary.org/obo/NCBITaxon_4896) -### skeleton of pedal digitopodium `http://purl.obolibrary.org/obo/UBERON_0012152` -#### Removed -- [skeleton of pedal digitopodium](http://purl.obolibrary.org/obo/UBERON_0012152) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "some sources call this the acropodium. see https://github.com/obophenotype/uberon/wiki/Subdivisions-of-the-autopod" +- [positive regulation of T cell activation](http://purl.obolibrary.org/obo/GO_0050870) DisjointWith [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Schizosaccharomyces pombe](http://purl.obolibrary.org/obo/NCBITaxon_4896) +- [positive regulation of T cell activation](http://purl.obolibrary.org/obo/GO_0050870) DisjointWith [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Saccharomyces cerevisiae](http://purl.obolibrary.org/obo/NCBITaxon_4932) +- [positive regulation of T cell activation](http://purl.obolibrary.org/obo/GO_0050870) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) only [Eumetazoa](http://purl.obolibrary.org/obo/NCBITaxon_6072) -### skeleton of pes `http://purl.obolibrary.org/obo/UBERON_0001445` -#### Removed -- [skeleton of pes](http://purl.obolibrary.org/obo/UBERON_0001445) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Skeleton-partonomy-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [positive regulation of T cell activation](http://purl.obolibrary.org/obo/GO_0050870) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Eumetazoa](http://purl.obolibrary.org/obo/NCBITaxon_6072) +- [positive regulation of T cell activation](http://purl.obolibrary.org/obo/GO_0050870) SubClassOf not ([in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Schizosaccharomyces pombe](http://purl.obolibrary.org/obo/NCBITaxon_4896)) +- [positive regulation of T cell activation](http://purl.obolibrary.org/obo/GO_0050870) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some (not ([Schizosaccharomyces pombe](http://purl.obolibrary.org/obo/NCBITaxon_4896))) -### skeleton of upper jaw `http://purl.obolibrary.org/obo/UBERON_0003277` -#### Removed -- [skeleton of upper jaw](http://purl.obolibrary.org/obo/UBERON_0003277) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "EMAPA/MA placement unclear. See https://github.com/obophenotype/mouse-anatomy-ontology/issues/102" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EMAPA" +- [positive regulation of T cell activation](http://purl.obolibrary.org/obo/GO_0050870) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some (not ([Saccharomyces cerevisiae](http://purl.obolibrary.org/obo/NCBITaxon_4932))) -- [skeleton of upper jaw](http://purl.obolibrary.org/obo/UBERON_0003277) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The jaw joint of all jawed vertebrates, except for mammals, involves the quadrate and articular bones, or the posterior ends of the palatoquadrate and mandibular cartilages; A correlate of the conversion of the articular and quadrate bones to the malleus and incus is that all adult mammals have a jaw joint that lies between the dentary of the lower jaw and the squamosal bone of the skull roof.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [positive regulation of T cell activation](http://purl.obolibrary.org/obo/GO_0050870) SubClassOf not ([in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Saccharomyces cerevisiae](http://purl.obolibrary.org/obo/NCBITaxon_4932)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### positive regulation of amino acid biosynthetic process `http://purl.obolibrary.org/obo/GO_2000284` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.241 and p.101" +#### Added +- [positive regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000284) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "positive regulation of cellular amino acid biosynthetic process" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:obol" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000429" +- [positive regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000284) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "positive regulation of amino acid biosynthesis" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:obol" -#### Added -- [skeleton of upper jaw](http://purl.obolibrary.org/obo/UBERON_0003277) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) +- [positive regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000284) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "positive regulation of amino acid synthesis" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:obol" +- [positive regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000284) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2010-12-10T11:54:27Z" -### skin appendage follicle `http://purl.obolibrary.org/obo/UBERON_0036150` +- [positive regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000284) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:2000284" -#### Added -- [skin appendage follicle](http://purl.obolibrary.org/obo/UBERON_0036150) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [positive regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000284) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" +- [positive regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000284) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "positive regulation of amino acid anabolism" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:obol" -### skin epidermis `http://purl.obolibrary.org/obo/UBERON_0001003` -#### Removed -- [skin epidermis](http://purl.obolibrary.org/obo/UBERON_0001003) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) outer epithelia in all metazoan animals are homologous. (...) The ancestor of all metazoans likely had an epidermis with a basal extracellular matrix (ECM), an apical extracellular glycocalyx, and one cilium with a striated rootlet per cell.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000077" +- [positive regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000284) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "positive regulation of amino acid formation" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:obol" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [positive regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000284) [label](http://www.w3.org/2000/01/rdf-schema#label) "positive regulation of amino acid biosynthetic process" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [positive regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000284) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "vw" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [positive regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000284) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that activates or increases the frequency, rate or extent of cellular amino acid biosynthetic process." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:obol" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.71-72" +- Class: [positive regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000284) -- [skin epidermis](http://purl.obolibrary.org/obo/UBERON_0001003) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A cellular, multilayered epithelium derived from the ectoderm. Zebrafish epidermis consists only of living cells unlike terrestrial vertebrates in which dead, keratinized cells are present. Le Guellec et al, 2004.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [positive regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000284) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([positively regulates](http://purl.obolibrary.org/obo/RO_0002213) some [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652)) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000105" +- [positive regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000284) SubClassOf [positive regulation of biosynthetic process](http://purl.obolibrary.org/obo/GO_0009891) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [positive regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000284) SubClassOf [positively regulates](http://purl.obolibrary.org/obo/RO_0002213) some [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [positive regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000284) SubClassOf [regulation of cellular amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000282) -- [skin epidermis](http://purl.obolibrary.org/obo/UBERON_0001003) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Zebrafish epidermis consists only of living cells unlike terrestrial vertebrates in which dead, keratinized cells are present. In terrestrial vertebrates the epidermis often forms an outer keratinized or cornified layer, the stratum corneum. Interaction between the epideris and dermis gives rise to feathers (birds), hair and mammary glands (mammals), teeth and scales (placoid: chondrichthyans; cosmoids, ganoid, cycloid in bony fishes)." +- [positive regulation of amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000284) SubClassOf [positive regulation of amino acid metabolic process](http://purl.obolibrary.org/obo/GO_0045764) -- [skin epidermis](http://purl.obolibrary.org/obo/UBERON_0001003) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: subclass external integument structures (AAO:0000961)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### positive regulation of apoptotic signaling pathway `http://purl.obolibrary.org/obo/GO_2001235` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000143" +#### Added +- [positive regulation of apoptotic signaling pathway](http://purl.obolibrary.org/obo/GO_2001235) [never in taxon](http://purl.obolibrary.org/obo/RO_0002161) [Schizosaccharomyces pombe](http://purl.obolibrary.org/obo/NCBITaxon_4896) -- [skin epidermis](http://purl.obolibrary.org/obo/UBERON_0001003) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The outer epithelial layer of the external integument of the body that is derived from the embryonic epiblast.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [positive regulation of apoptotic signaling pathway](http://purl.obolibrary.org/obo/GO_2001235) DisjointWith [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Schizosaccharomyces pombe](http://purl.obolibrary.org/obo/NCBITaxon_4896) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [positive regulation of apoptotic signaling pathway](http://purl.obolibrary.org/obo/GO_2001235) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some (not ([Schizosaccharomyces pombe](http://purl.obolibrary.org/obo/NCBITaxon_4896))) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000143" +- [positive regulation of apoptotic signaling pathway](http://purl.obolibrary.org/obo/GO_2001235) SubClassOf not ([in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Schizosaccharomyces pombe](http://purl.obolibrary.org/obo/NCBITaxon_4896)) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" -- [skin epidermis](http://purl.obolibrary.org/obo/UBERON_0001003) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "epidermal" +### positive regulation of border follicle cell migration `http://purl.obolibrary.org/obo/GO_1903688` +#### Removed +- [positive regulation of border follicle cell migration](http://purl.obolibrary.org/obo/GO_1903688) SubClassOf [positive regulation of reproductive process](http://purl.obolibrary.org/obo/GO_2000243) -### skin epithelium `http://purl.obolibrary.org/obo/UBERON_0019204` +### positive regulation of catecholamine metabolic process `http://purl.obolibrary.org/obo/GO_0045915` #### Removed -- [skin epithelium](http://purl.obolibrary.org/obo/UBERON_0019204) SubClassOf [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) +- [positive regulation of catecholamine metabolic process](http://purl.obolibrary.org/obo/GO_0045915) SubClassOf [positive regulation of cellular metabolic process](http://purl.obolibrary.org/obo/GO_0031325) -#### Added -- [skin epithelium](http://purl.obolibrary.org/obo/UBERON_0019204) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) -### skin gland `http://purl.obolibrary.org/obo/UBERON_0002419` +### positive regulation of cellular biosynthetic process `http://purl.obolibrary.org/obo/GO_0031328` #### Added -- [skin gland](http://purl.obolibrary.org/obo/UBERON_0002419) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [positive regulation of cellular biosynthetic process](http://purl.obolibrary.org/obo/GO_0031328) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27189"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [positive regulation of cellular biosynthetic process](http://purl.obolibrary.org/obo/GO_0031328) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." -### skin muscle `http://purl.obolibrary.org/obo/UBERON_0004253` -#### Removed -- [skin muscle](http://purl.obolibrary.org/obo/UBERON_0004253) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in MA, the only skin muscle is arrector pili. The only integumental muscle is panniculus carnosus. In EMAPA, the arrector pili only" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +- [positive regulation of cellular biosynthetic process](http://purl.obolibrary.org/obo/GO_0031328) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) +### positive regulation of cellular catabolic process `http://purl.obolibrary.org/obo/GO_0031331` -### skin of body `http://purl.obolibrary.org/obo/UBERON_0002097` -#### Removed -- [skin of body](http://purl.obolibrary.org/obo/UBERON_0002097) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "consider 'integumentary system' for invertebrates" +#### Added +- [positive regulation of cellular catabolic process](http://purl.obolibrary.org/obo/GO_0031331) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27189"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [skin of body](http://purl.obolibrary.org/obo/UBERON_0002097) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MA uses the term skin to refer to what is called here: zone of skin" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [positive regulation of cellular catabolic process](http://purl.obolibrary.org/obo/GO_0031331) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." -#### Added -- [skin of body](http://purl.obolibrary.org/obo/UBERON_0002097) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [positive regulation of cellular catabolic process](http://purl.obolibrary.org/obo/GO_0031331) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -### skin of clitoris `http://purl.obolibrary.org/obo/UBERON_0005298` +### positive regulation of cellular metabolic process `http://purl.obolibrary.org/obo/GO_0031325` #### Added -- [skin of clitoris](http://purl.obolibrary.org/obo/UBERON_0005298) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [positive regulation of cellular metabolic process](http://purl.obolibrary.org/obo/GO_0031325) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27189"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) + +- [positive regulation of cellular metabolic process](http://purl.obolibrary.org/obo/GO_0031325) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." -### skin of hip `http://purl.obolibrary.org/obo/UBERON_0001554` +### positive regulation of epinephrine uptake `http://purl.obolibrary.org/obo/GO_0051628` #### Removed -- [skin of hip](http://purl.obolibrary.org/obo/UBERON_0001554) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in MA this isa hindlimb skin" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +- [positive regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051628) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "up-regulation of epinephrine uptake" +- [positive regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051628) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0051628" +- [positive regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051628) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "stimulation of epinephrine uptake" -### skin of iliac crest region `http://purl.obolibrary.org/obo/UBERON_8480026` +- [positive regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051628) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "up regulation of epinephrine uptake" -#### Added -- [skin of iliac crest region](http://purl.obolibrary.org/obo/UBERON_8480026) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [positive regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051628) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "positive regulation of epinephrine import" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:dph" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:tb" -### skin of leg `http://purl.obolibrary.org/obo/UBERON_0001511` -#### Removed -- [skin of leg](http://purl.obolibrary.org/obo/UBERON_0001511) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:18156" +- [positive regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051628) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "activation of epinephrine uptake" -- [skin of leg](http://purl.obolibrary.org/obo/UBERON_0001511) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:18159" +- [positive regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051628) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "positive regulation of adrenaline uptake" +- [positive regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051628) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "upregulation of epinephrine uptake" +- [positive regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051628) [label](http://www.w3.org/2000/01/rdf-schema#label) "positive regulation of epinephrine uptake" -### skin of penis `http://purl.obolibrary.org/obo/UBERON_0001331` +- [positive regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051628) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -#### Added -- [skin of penis](http://purl.obolibrary.org/obo/UBERON_0001331) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [positive regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051628) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that activates or increases the frequency, rate or extent of the directed movement of epinephrine into a cell." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:ai" +- Class: [positive regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051628) -### skin of prepuce of penis `http://purl.obolibrary.org/obo/UBERON_0001471` -#### Removed -- [skin of prepuce of penis](http://purl.obolibrary.org/obo/UBERON_0001471) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EV:0100109" +- [positive regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051628) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([positively regulates](http://purl.obolibrary.org/obo/RO_0002213) some [epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051625)) +- [positive regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051628) SubClassOf [regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051626) +- [positive regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051628) SubClassOf [positive regulation of transport](http://purl.obolibrary.org/obo/GO_0051050) -### skin of shoulder `http://purl.obolibrary.org/obo/UBERON_0001483` -#### Removed -- [skin of shoulder](http://purl.obolibrary.org/obo/UBERON_0001483) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in MA this is a subclass of forelimb skin, but this violates part-disjointness in Uberon" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +- [positive regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051628) SubClassOf [positively regulates](http://purl.obolibrary.org/obo/RO_0002213) some [epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051625) -### skull `http://purl.obolibrary.org/obo/UBERON_0003129` +### positive regulation of germ cell proliferation `http://purl.obolibrary.org/obo/GO_1905938` #### Removed -- [skull](http://purl.obolibrary.org/obo/UBERON_0003129) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA the skull is divided into orbit, neurocranium (8 parts), viscerocranium (26 parts). Here we have a separate overlapping division into cranium and mandible." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [positive regulation of germ cell proliferation](http://purl.obolibrary.org/obo/GO_1905938) SubClassOf [positive regulation of reproductive process](http://purl.obolibrary.org/obo/GO_2000243) + -- [skull](http://purl.obolibrary.org/obo/UBERON_0003129) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "A skull that is missing a mandible is only a cranium; this is the source of a very commonly made error in terminology. Those animals having skulls are called craniates" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" -- [skull](http://purl.obolibrary.org/obo/UBERON_0003129) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in many ontologies, the structure called the cranium is inclusive of the mandible/lower jaw skeleton" +### positive regulation of interleukin-6 production `http://purl.obolibrary.org/obo/GO_0032755` #### Added -- [skull](http://purl.obolibrary.org/obo/UBERON_0003129) SubClassOf [structure with developmental contribution from neural crest](http://purl.obolibrary.org/obo/UBERON_0010314) +- [positive regulation of interleukin-6 production](http://purl.obolibrary.org/obo/GO_0032755) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Eumetazoa](http://purl.obolibrary.org/obo/NCBITaxon_6072) +- [positive regulation of interleukin-6 production](http://purl.obolibrary.org/obo/GO_0032755) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) only [Eumetazoa](http://purl.obolibrary.org/obo/NCBITaxon_6072) -### slow muscle tissue `http://purl.obolibrary.org/obo/UBERON_0006907` -#### Removed -- [slow muscle tissue](http://purl.obolibrary.org/obo/UBERON_0006907) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The fast and slow skeletal muscles are different in terms of twitching speed (Fitts 1994), and they are believed to be derived from distinct myogenic precursors (Stockdale 1992)" -- [slow muscle tissue](http://purl.obolibrary.org/obo/UBERON_0006907) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "check if CALOHA term is for fiber or tissue." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "CALOHA" +### positive regulation of male germ cell proliferation `http://purl.obolibrary.org/obo/GO_2000256` +#### Added +- [positive regulation of male germ cell proliferation](http://purl.obolibrary.org/obo/GO_2000256) SubClassOf [positive regulation of reproductive process](http://purl.obolibrary.org/obo/GO_2000243) -### small intestine `http://purl.obolibrary.org/obo/UBERON_0002108` +### positive regulation of male germ-line stem cell asymmetric division `http://purl.obolibrary.org/obo/GO_1904840` #### Removed -- [small intestine](http://purl.obolibrary.org/obo/UBERON_0002108) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Intestinal surface area also is increased in amphibians and reptiles by internal folds and occasionally by a few villi. The intestine can be divided into a small intestine and a slightly wider large intestine.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [positive regulation of male germ-line stem cell asymmetric division](http://purl.obolibrary.org/obo/GO_1904840) SubClassOf [positive regulation of reproductive process](http://purl.obolibrary.org/obo/GO_2000243) + + - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### positive regulation of myelination `http://purl.obolibrary.org/obo/GO_0031643` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [positive regulation of myelination](http://purl.obolibrary.org/obo/GO_0031643) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) only [Eumetazoa](http://purl.obolibrary.org/obo/NCBITaxon_6072) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.566" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000055" +### positive regulation of nitrogen compound metabolic process `http://purl.obolibrary.org/obo/GO_0051173` +#### Removed +- [positive regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051173) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "up regulation of nitrogen metabolic process" -- [small intestine](http://purl.obolibrary.org/obo/UBERON_0002108) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The terminal region of the mid intestine is comprised of specialized enterocytes that appear to play a role in mucosal immunity. Wallace et al, 2005.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [positive regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051173) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving nitrogen or nitrogenous compounds." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:tb" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001323" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:ai" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [positive regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051173) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "activation of nitrogen metabolic process" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [positive regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051173) [label](http://www.w3.org/2000/01/rdf-schema#label) "positive regulation of nitrogen compound metabolic process" -- [small intestine](http://purl.obolibrary.org/obo/UBERON_0002108) SubClassOf [subdivision of digestive tract](http://purl.obolibrary.org/obo/UBERON_0004921) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "cjm" +- [positive regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051173) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0051173" - - [order](http://www.geneontology.org/formats/oboInOwl#order) "2" +- [positive regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051173) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "stimulation of nitrogen metabolic process" -#### Added -- [small intestine](http://purl.obolibrary.org/obo/UBERON_0002108) SubClassOf [subdivision of digestive tract](http://purl.obolibrary.org/obo/UBERON_0004921) +- [positive regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051173) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "positive regulation of nitrogen metabolic process" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:tb" +- [positive regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051173) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "upregulation of nitrogen metabolic process" -### small intestine Peyer's patch `http://purl.obolibrary.org/obo/UBERON_0003454` -#### Removed -- [small intestine Peyer's patch](http://purl.obolibrary.org/obo/UBERON_0003454) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_76466](http://purl.obolibrary.org/obo/FMA_76466) +- [positive regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051173) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" +- [positive regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051173) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "positive regulation of nitrogen metabolism" +- [positive regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051173) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "up-regulation of nitrogen metabolic process" -### small intestine smooth muscle `http://purl.obolibrary.org/obo/UBERON_0004239` -#### Removed -- [small intestine smooth muscle](http://purl.obolibrary.org/obo/UBERON_0004239) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MA class may specifically mean muscle layer, but we treat as the sum of smooth muscle in both muscle layer and muscularis mucosa" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +- Class: [positive regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051173) -- [small intestine smooth muscle](http://purl.obolibrary.org/obo/UBERON_0004239) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [muscle layer of small intestine](http://purl.obolibrary.org/obo/UBERON_0011201) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "consider merging" +- [positive regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051173) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([positively regulates](http://purl.obolibrary.org/obo/RO_0002213) some [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807)) -#### Added -- [small intestine smooth muscle](http://purl.obolibrary.org/obo/UBERON_0004239) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [muscle layer of small intestine](http://purl.obolibrary.org/obo/UBERON_0011201) +- [positive regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051173) SubClassOf [positive regulation of metabolic process](http://purl.obolibrary.org/obo/GO_0009893) +- [positive regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051173) SubClassOf [regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051171) -### small intestine smooth muscle circular layer `http://purl.obolibrary.org/obo/UBERON_0012401` +- [positive regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051173) SubClassOf [positively regulates](http://purl.obolibrary.org/obo/RO_0002213) some [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807) -#### Added -- [small intestine smooth muscle circular layer](http://purl.obolibrary.org/obo/UBERON_0012401) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) -### small intestine smooth muscle longitudinal layer `http://purl.obolibrary.org/obo/UBERON_0012402` +### positive regulation of nitrogen cycle metabolic process `http://purl.obolibrary.org/obo/GO_1903316` +#### Removed +- [positive regulation of nitrogen cycle metabolic process](http://purl.obolibrary.org/obo/GO_1903316) SubClassOf [positive regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051173) #### Added -- [small intestine smooth muscle longitudinal layer](http://purl.obolibrary.org/obo/UBERON_0012402) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [positive regulation of nitrogen cycle metabolic process](http://purl.obolibrary.org/obo/GO_1903316) SubClassOf [positive regulation of metabolic process](http://purl.obolibrary.org/obo/GO_0009893) -### smooth muscle of eye `http://purl.obolibrary.org/obo/UBERON_0003386` +### positive regulation of nucleobase-containing compound metabolic process `http://purl.obolibrary.org/obo/GO_0045935` +#### Removed +- [positive regulation of nucleobase-containing compound metabolic process](http://purl.obolibrary.org/obo/GO_0045935) SubClassOf [positive regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051173) + +- [positive regulation of nucleobase-containing compound metabolic process](http://purl.obolibrary.org/obo/GO_0045935) SubClassOf [positive regulation of cellular metabolic process](http://purl.obolibrary.org/obo/GO_0031325) #### Added -- [smooth muscle of eye](http://purl.obolibrary.org/obo/UBERON_0003386) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [positive regulation of nucleobase-containing compound metabolic process](http://purl.obolibrary.org/obo/GO_0045935) SubClassOf [positive regulation of metabolic process](http://purl.obolibrary.org/obo/GO_0009893) -### smooth muscle tissue `http://purl.obolibrary.org/obo/UBERON_0001135` +### positive regulation of ovarian follicle development `http://purl.obolibrary.org/obo/GO_2000386` #### Removed -- [smooth muscle tissue](http://purl.obolibrary.org/obo/UBERON_0001135) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) the first bilateral animals possessed only smooth muscles with the molecular repertoire necessary to build a striated muscle. (...) it is more parsimonious to regard striated muscle cells as a sister cell type to the smooth muscle cells. In this scenario, striated and smooth muscles would have arisen in the stem lineage that led to the Nephrozoa (i.e. all Bilateria exclusive the acoelomorphs) (Hejnol et al., 2009), from an 'acoel-like' smooth muscle, by segregation and divergence of functions and through differential recruitment of additional genes[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [positive regulation of ovarian follicle development](http://purl.obolibrary.org/obo/GO_2000386) SubClassOf [positive regulation of reproductive process](http://purl.obolibrary.org/obo/GO_2000243) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001246" +### positive regulation of protein phosphorylation `http://purl.obolibrary.org/obo/GO_0001934` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1002/jez.b.21416 Chiodin M, Achatz JG, Wanninger A, Martinez P, Molecular architecture of muscles in an acoel and its evolutionary implications. Journal of Experimental Zoology (2011)" +#### Added +- [positive regulation of protein phosphorylation](http://purl.obolibrary.org/obo/GO_0001934) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27189"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [smooth muscle tissue](http://purl.obolibrary.org/obo/UBERON_0001135) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A non-striated muscle that is composed of spindle-shaped cells. Smooth muscle usually is organized into sheets that line cavitated organs.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [positive regulation of protein phosphorylation](http://purl.obolibrary.org/obo/GO_0001934) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005274" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### positive regulation of response to biotic stimulus `http://purl.obolibrary.org/obo/GO_0002833` +#### Removed +- [positive regulation of response to biotic stimulus](http://purl.obolibrary.org/obo/GO_0002833) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [positive regulation of response to biotic stimulus](http://purl.obolibrary.org/obo/GO_0002833) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -- [smooth muscle tissue](http://purl.obolibrary.org/obo/UBERON_0001135) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "GO uses visceral and smooth interchangeably. However visceral can also be used in the sense of the viscera. Many fly annotations to smooth muscle terms. If we want to be inclusive of insects have to have a general definition of tissue that includes cells." -- [smooth muscle tissue](http://purl.obolibrary.org/obo/UBERON_0001135) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Involuntary muscle tissue consisting of uninucleate spindle-shaped fibers.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010244" +### positive regulation of response to external stimulus `http://purl.obolibrary.org/obo/GO_0032103` +#### Removed +- [positive regulation of response to external stimulus](http://purl.obolibrary.org/obo/GO_0032103) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [positive regulation of response to external stimulus](http://purl.obolibrary.org/obo/GO_0032103) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:CAM" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### positive regulation of response to stimulus `http://purl.obolibrary.org/obo/GO_0048584` +#### Removed +- [positive regulation of response to stimulus](http://purl.obolibrary.org/obo/GO_0048584) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) +#### Added +- [positive regulation of response to stimulus](http://purl.obolibrary.org/obo/GO_0048584) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -### somatopleure `http://purl.obolibrary.org/obo/UBERON_0004874` +### positive regulation of serotonin biosynthetic process `http://purl.obolibrary.org/obo/GO_1905629` #### Removed -- [somatopleure](http://purl.obolibrary.org/obo/UBERON_0004874) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Gives rise to the paired appendages in jawed vertebrates. a persistent somatopleure through the redistribution and expansion of the lateral plate mesoderm is a synapomorphy for gnathostomes and a critical step in generating a novel developmental module with dramatic evolutionary potentia (Tulenko et al. 2012) http://burkelab.research.wesleyan.edu/current-projects/lamprey/" +- [positive regulation of serotonin biosynthetic process](http://purl.obolibrary.org/obo/GO_1905629) SubClassOf [positive regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051173) -- [somatopleure](http://purl.obolibrary.org/obo/UBERON_0004874) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "sources differ as to whether this is part-of or develops-from the LPM" +- [positive regulation of serotonin biosynthetic process](http://purl.obolibrary.org/obo/GO_1905629) SubClassOf [positive regulation of cellular metabolic process](http://purl.obolibrary.org/obo/GO_0031325) -### somatosensory system `http://purl.obolibrary.org/obo/UBERON_0003942` +### positive regulation of thyroid hormone generation `http://purl.obolibrary.org/obo/GO_2000611` #### Removed -- [somatosensory system](http://purl.obolibrary.org/obo/UBERON_0003942) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The neural tissue involved in the transmission of sensory signals" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0000959" - -- [somatosensory system](http://purl.obolibrary.org/obo/UBERON_0003942) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MP defines this in a may more appropriate to somatosensory cortex" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MP" +- [positive regulation of thyroid hormone generation](http://purl.obolibrary.org/obo/GO_2000611) SubClassOf [positive regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051173) -### somatostatin `http://purl.obolibrary.org/obo/PR_000015665` -#### Removed -- [somatostatin](http://purl.obolibrary.org/obo/PR_000015665) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [somatostatin (human)](http://purl.obolibrary.org/obo/PR_P61278) +### positive regulation of transcription by RNA polymerase II `http://purl.obolibrary.org/obo/GO_0045944` +#### Added +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "positive regulation of global transcription from Pol II promoter" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0010552" -### somite `http://purl.obolibrary.org/obo/UBERON_0002329` -#### Removed -- [somite](http://purl.obolibrary.org/obo/UBERON_0002329) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: develops_from paraxial mesenchyme (TAO:0000942)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000155" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "upregulation of global transcription from RNA polymerase II promoter" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "positive regulation of transcription from Pol II promoter" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "activation of transcription from RNA polymerase II promoter" -- [somite](http://purl.obolibrary.org/obo/UBERON_0002329) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "EDITOR_NOTE currently classified as an epithelial vesicle, consistent with EHDAA2 and https://github.com/obophenotype/uberon/wiki/The-neural-crest. Consider making 'somitic mesoderm' a separate term and correlate with regionalization processes. Consider moving ZFA term to 'trunk somite' as it is part of the trunk" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "activation of global transcription from RNA polymerase II promoter" -- [somite](http://purl.obolibrary.org/obo/UBERON_0002329) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Post-cranial axial segments which form sclerotome and dermomyotome.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that activates or increases the frequency, rate or extent of transcription from an RNA polymerase II promoter." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:go_curators" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010569" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "positive regulation of gene-specific transcription from RNA polymerase II promoter" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "up-regulation of global transcription from RNA polymerase II promoter" -- [somite](http://purl.obolibrary.org/obo/UBERON_0002329) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) cephalocordates and craniates belong to a group known as Somitichordata. Somitichordate synapomorphies include (1) somites (...) (reference 1); The idea that the last common ancestor of bilaterian animals (Urbilateria) was segmented has been raised recently on evidence coming from comparative molecular embryology (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "positive regulation of transcription from RNA polymerase II promoter, global" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) [label](http://www.w3.org/2000/01/rdf-schema#label) "positive regulation of transcription by RNA polymerase II" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "up regulation of global transcription from RNA polymerase II promoter" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.40, DOI:10.1093/icb/43.1.137 Balavoine G, Adoutte A, The segmented urbilateria: a testable scenario. Integrative and Comparative Biology (2003)" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "positive regulation of transcription from RNA polymerase II promoter" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000191" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0045944" -- [somite](http://purl.obolibrary.org/obo/UBERON_0002329) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: OBO_REL:part_of trunk (TAO:0001115) CHANGED TO: develops_from trunk (UBERON:0002100)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000155" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "up regulation of transcription from RNA polymerase II promoter" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "up-regulation of transcription from RNA polymerase II promoter" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "stimulation of global transcription from RNA polymerase II promoter" -- [somite](http://purl.obolibrary.org/obo/UBERON_0002329) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Undifferentiated mesodermal components of early trunk or tail segments or metameres, derived from paraxial mesoderm; forms myotomes, sclerotomes and perhaps dermatomes. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000155" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "stimulation of transcription from RNA polymerase II promoter" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0045817" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "upregulation of transcription from RNA polymerase II promoter" -- [somite](http://purl.obolibrary.org/obo/UBERON_0002329) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: part_of paraxial mesoderm (AAO:0010568) CHANGED TO: develops_from paraxial mesoderm (UBERON:0003077)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- Class: [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010569" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([positively regulates](http://purl.obolibrary.org/obo/RO_0002213) some [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) SubClassOf [regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006357) -- [somite](http://purl.obolibrary.org/obo/UBERON_0002329) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "somitic" +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) SubClassOf [positive regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0045893) +- [positive regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0045944) SubClassOf [positively regulates](http://purl.obolibrary.org/obo/RO_0002213) some [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366) -### sonic hedgehog protein `http://purl.obolibrary.org/obo/PR_000014841` -#### Removed -- [sonic hedgehog protein](http://purl.obolibrary.org/obo/PR_000014841) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [sonic hedgehog protein (human)](http://purl.obolibrary.org/obo/PR_Q15465) +### positive regulation of transcription regulatory region DNA binding `http://purl.obolibrary.org/obo/GO_2000679` +#### Added +- [positive regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000679) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) +- [positive regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000679) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -### source `http://purl.org/dc/terms/source` -#### Removed -- AnnotationProperty: [source](http://purl.org/dc/terms/source) +- [positive regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000679) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that activates or increases the frequency, rate or extent of transcription regulatory region DNA binding." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:obol" +- [positive regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000679) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "yaf" +- [positive regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000679) [label](http://www.w3.org/2000/01/rdf-schema#label) "positive regulation of transcription regulatory region DNA binding" -### source `http://www.geneontology.org/formats/oboInOwl#http://purl.org/dc/terms/source` -#### Removed -- AnnotationProperty: [source](http://www.geneontology.org/formats/oboInOwl#http://purl.org/dc/terms/source) +- [positive regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000679) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:2000679" +- [positive regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000679) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2011-05-09T03:28:17Z" +- Class: [positive regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000679) -### spatially coextensive with `http://purl.obolibrary.org/obo/RO_0002379` -#### Removed -- [spatially coextensive with](http://purl.obolibrary.org/obo/RO_0002379) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +- [positive regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000679) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([positively regulates](http://purl.obolibrary.org/obo/RO_0002213) some [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976)) -- [spatially coextensive with](http://purl.obolibrary.org/obo/RO_0002379) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "This relation is added for formal completeness. It is unlikely to be used in many practical scenarios" +- [positive regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000679) SubClassOf [positive regulation of DNA binding](http://purl.obolibrary.org/obo/GO_0043388) -- [spatially coextensive with](http://purl.obolibrary.org/obo/RO_0002379) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "A lump of clay and a statue" +- [positive regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000679) SubClassOf [positively regulates](http://purl.obolibrary.org/obo/RO_0002213) some [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) +- [positive regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000679) SubClassOf [regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000677) -### spatially disjoint from `http://purl.obolibrary.org/obo/RO_0002163` +### positive regulation of transferase activity `http://purl.obolibrary.org/obo/GO_0051347` #### Removed -- [spatially disjoint from](http://purl.obolibrary.org/obo/RO_0002163) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +- [positive regulation of transferase activity](http://purl.obolibrary.org/obo/GO_0051347) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) -- [spatially disjoint from](http://purl.obolibrary.org/obo/RO_0002163) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [22293552](http://www.ncbi.nlm.nih.gov/pubmed/22293552) -- [spatially disjoint from](http://purl.obolibrary.org/obo/RO_0002163) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) -- [spatially disjoint from](http://purl.obolibrary.org/obo/RO_0002163) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) +### positive regulation of type II interferon production `http://purl.obolibrary.org/obo/GO_0032729` -- [spatially disjoint from](http://purl.obolibrary.org/obo/RO_0002163) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Note that it would be possible to use the relation to label the relationship between a near infinite number of structures - between the rings of saturn and my left earlobe. The intent is that this is used for parsiomoniously for disambiguation purposes - for example, between siblings in a jointly exhaustive pairwise disjointness hierarchy" +#### Added +- [positive regulation of type II interferon production](http://purl.obolibrary.org/obo/GO_0032729) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) only [Eumetazoa](http://purl.obolibrary.org/obo/NCBITaxon_6072) +- [positive regulation of type II interferon production](http://purl.obolibrary.org/obo/GO_0032729) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Eumetazoa](http://purl.obolibrary.org/obo/NCBITaxon_6072) -### specialization_within `http://www.geneontology.org/formats/oboInOwl#specialization_within` +### positively regulates characteristic `http://purl.obolibrary.org/obo/RO_0019001` #### Removed -- AnnotationProperty: [specialization_within](http://www.geneontology.org/formats/oboInOwl#specialization_within) +- [positively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019001) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "positively_regulates_characteristic" +- [positively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019001) [id](http://www.geneontology.org/formats/oboInOwl#id) "positively_regulates_characteristic" +- [positively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019001) [contributor](http://purl.org/dc/terms/contributor) [0000-0002-8688-6599](https://orcid.org/0000-0002-8688-6599) -### sphenoid bone `http://purl.obolibrary.org/obo/UBERON_0001677` -#### Removed -- [sphenoid bone](http://purl.obolibrary.org/obo/UBERON_0001677) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "part of viscerocranium (facial skeleton) in FMA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [positively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019001) [label](http://www.w3.org/2000/01/rdf-schema#label) "positively regulates characteristic" -- [sphenoid bone](http://purl.obolibrary.org/obo/UBERON_0001677) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [splanchnocranium](http://purl.obolibrary.org/obo/UBERON_0008895) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "alisphenoid" +- [positively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019001) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "gene_ontology" -- [sphenoid bone](http://purl.obolibrary.org/obo/UBERON_0001677) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [chondrocranium](http://purl.obolibrary.org/obo/UBERON_0002241) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "orbito pre and basi sphenoid" +- [positively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019001) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0019001" -- [sphenoid bone](http://purl.obolibrary.org/obo/UBERON_0001677) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [dermatocranium](http://purl.obolibrary.org/obo/UBERON_0003113) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "pterygoid process" +- [positively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019001) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." -#### Added -- [sphenoid bone](http://purl.obolibrary.org/obo/UBERON_0001677) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [chondrocranium](http://purl.obolibrary.org/obo/UBERON_0002241) +- ObjectProperty: [positively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019001) -- [sphenoid bone](http://purl.obolibrary.org/obo/UBERON_0001677) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [dermatocranium](http://purl.obolibrary.org/obo/UBERON_0003113) +- [positively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019001) SubPropertyOf: [regulates characteristic](http://purl.obolibrary.org/obo/RO_0019000) -- [sphenoid bone](http://purl.obolibrary.org/obo/UBERON_0001677) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [splanchnocranium](http://purl.obolibrary.org/obo/UBERON_0008895) +- [positively regulates](http://purl.obolibrary.org/obo/RO_0002213) o [positively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019001) SubPropertyOf: [positively regulates characteristic](http://purl.obolibrary.org/obo/RO_0019001) -### sphenoid bone pre-cartilage condensation `http://purl.obolibrary.org/obo/UBERON_0009191` + +### post-anal tail `http://purl.obolibrary.org/obo/UBERON_0007812` #### Added -- [sphenoid bone pre-cartilage condensation](http://purl.obolibrary.org/obo/UBERON_0009191) SubClassOf [mesenchyme derived from neural crest](http://purl.obolibrary.org/obo/UBERON_0014387) +- [post-anal tail](http://purl.obolibrary.org/obo/UBERON_0007812) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### sphenoid cartilage element `http://purl.obolibrary.org/obo/UBERON_0009193` +### post-anal tail morphogenesis `http://purl.obolibrary.org/obo/GO_0036342` #### Added -- [sphenoid cartilage element](http://purl.obolibrary.org/obo/UBERON_0009193) SubClassOf [mesenchyme derived from neural crest](http://purl.obolibrary.org/obo/UBERON_0014387) +- [post-anal tail morphogenesis](http://purl.obolibrary.org/obo/GO_0036342) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### sphenoid endochondral element `http://purl.obolibrary.org/obo/UBERON_0015060` +### postcranial axial skeletal system `http://purl.obolibrary.org/obo/UBERON_0011138` #### Added -- [sphenoid endochondral element](http://purl.obolibrary.org/obo/UBERON_0015060) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) +- [postcranial axial skeletal system](http://purl.obolibrary.org/obo/UBERON_0011138) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### sphenoid lesser wing pre-cartilage condensation `http://purl.obolibrary.org/obo/UBERON_0010728` +### postcranial axial skeleton `http://purl.obolibrary.org/obo/UBERON_0002090` #### Added -- [sphenoid lesser wing pre-cartilage condensation](http://purl.obolibrary.org/obo/UBERON_0010728) SubClassOf [mesenchyme derived from neural crest](http://purl.obolibrary.org/obo/UBERON_0014387) +- [postcranial axial skeleton](http://purl.obolibrary.org/obo/UBERON_0002090) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### sphenoid region `http://purl.obolibrary.org/obo/UBERON_0003111` -#### Removed -- [sphenoid region](http://purl.obolibrary.org/obo/UBERON_0003111) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster that forms the floor and sidewalls of the middle part of the neurocranium.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" +### posterior lateral line ganglion neuron `http://purl.obolibrary.org/obo/CL_1000245` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010207" +#### Added +- [posterior lateral line ganglion neuron](http://purl.obolibrary.org/obo/CL_1000245) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any neuron that has its soma located in some posterior lateral line ganglion." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### posterior lateral line nerve glial cell `http://purl.obolibrary.org/obo/CL_1000236` +#### Added +- [posterior lateral line nerve glial cell](http://purl.obolibrary.org/obo/CL_1000236) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any glial cell that is part of some posterior lateral line nerve." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### sphincter muscle `http://purl.obolibrary.org/obo/UBERON_0004590` -#### Removed -- [sphincter muscle](http://purl.obolibrary.org/obo/UBERON_0004590) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA class is not a subtype of muscle" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +### posterior neural tube `http://purl.obolibrary.org/obo/UBERON_0003076` +#### Added +- [posterior neural tube](http://purl.obolibrary.org/obo/UBERON_0003076) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### sphincter of hepatopancreatic ampulla `http://purl.obolibrary.org/obo/UBERON_0004915` +### postsynaptic neurotransmitter receptor activity `http://purl.obolibrary.org/obo/GO_0098960` #### Added -- [sphincter of hepatopancreatic ampulla](http://purl.obolibrary.org/obo/UBERON_0004915) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [postsynaptic neurotransmitter receptor activity](http://purl.obolibrary.org/obo/GO_0098960) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### sphincter pupillae `http://purl.obolibrary.org/obo/UBERON_0001607` +### pre-conventional dendritic cell `http://purl.obolibrary.org/obo/CL_0002010` #### Removed -- [sphincter pupillae](http://purl.obolibrary.org/obo/UBERON_0001607) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "constricts iris" - -- [sphincter pupillae](http://purl.obolibrary.org/obo/UBERON_0001607) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "WP says: It is found in vertebrates and some cephalopods; this class refers to the vertebrate structure" +- [pre-conventional dendritic cell](http://purl.obolibrary.org/obo/CL_0002010) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [sphincter pupillae](http://purl.obolibrary.org/obo/UBERON_0001607) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, it functions to constrict the pupil in bright light or during accommodation. Its dimensions are about 0.75 mm wide by 0.15 mm thick. It is controlled by parasympathetic fibers that originate from the Edinger-Westphal nucleus, travel along the oculomotor nerve (CN III), synapse in the ciliary ganglion, and then enter the eye via the short ciliary nerves. Initially, all the myocytes are of the smooth muscle type, but much later in life, so that ultimately most cells are of the striated muscle type. [WP,unvetted]" -- [sphincter pupillae](http://purl.obolibrary.org/obo/UBERON_0001607) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [iris](http://purl.obolibrary.org/obo/UBERON_0001769) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "encircles iris" - -- [sphincter pupillae](http://purl.obolibrary.org/obo/UBERON_0001607) SubClassOf [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) some [iris](http://purl.obolibrary.org/obo/UBERON_0001769) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" - - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "encircles iris" - -- [sphincter pupillae](http://purl.obolibrary.org/obo/UBERON_0001607) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +### preameloblast `http://purl.obolibrary.org/obo/CL_0007000` #### Added -- [sphincter pupillae](http://purl.obolibrary.org/obo/UBERON_0001607) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [iris](http://purl.obolibrary.org/obo/UBERON_0001769) - -- [sphincter pupillae](http://purl.obolibrary.org/obo/UBERON_0001607) SubClassOf [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) some [iris](http://purl.obolibrary.org/obo/UBERON_0001769) +- [preameloblast](http://purl.obolibrary.org/obo/CL_0007000) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### spinal cord `http://purl.obolibrary.org/obo/UBERON_0002240` -#### Removed -- [spinal cord](http://purl.obolibrary.org/obo/UBERON_0002240) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...) (reference 1); The neural tube is destined to differentiate into the brain and spinal cord (the central nervous system) (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### preantral ovarian follicle growth `http://purl.obolibrary.org/obo/GO_0001546` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [preantral ovarian follicle growth](http://purl.obolibrary.org/obo/GO_0001546) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28, ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.165" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000601" +### prechordal plate `http://purl.obolibrary.org/obo/UBERON_0003063` -- [spinal cord](http://purl.obolibrary.org/obo/UBERON_0002240) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [brain](http://purl.obolibrary.org/obo/UBERON_0000955) - - [exceptions](http://www.geneontology.org/formats/oboInOwl#exceptions) "ZFA" +#### Added +- [prechordal plate](http://purl.obolibrary.org/obo/UBERON_0003063) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://github.com/obophenotype/uberon/issues/378" - - [status](http://www.geneontology.org/formats/oboInOwl#status) "pending" +### prechordal plate formation `http://purl.obolibrary.org/obo/GO_0021501` -- [spinal cord](http://purl.obolibrary.org/obo/UBERON_0002240) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the central nervous system which descends from the hindbrain within the vertebral column.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [prechordal plate formation](http://purl.obolibrary.org/obo/GO_0021501) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +### precursor B cell `http://purl.obolibrary.org/obo/CL_0000817` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010151" +#### Added +- [precursor B cell](http://purl.obolibrary.org/obo/CL_0000817) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009344" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [spinal cord](http://purl.obolibrary.org/obo/UBERON_0002240) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [spinal cord neural crest](http://purl.obolibrary.org/obo/UBERON_0003853) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" -- [spinal cord](http://purl.obolibrary.org/obo/UBERON_0002240) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future spinal cord](http://purl.obolibrary.org/obo/UBERON_0006241) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" +### premigratory neural crest cell `http://purl.obolibrary.org/obo/CL_0007004` #### Added -- [spinal cord](http://purl.obolibrary.org/obo/UBERON_0002240) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future spinal cord](http://purl.obolibrary.org/obo/UBERON_0006241) - -- [spinal cord](http://purl.obolibrary.org/obo/UBERON_0002240) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [spinal cord neural crest](http://purl.obolibrary.org/obo/UBERON_0003853) +- [premigratory neural crest cell](http://purl.obolibrary.org/obo/CL_0007004) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0007084" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [premigratory neural crest cell](http://purl.obolibrary.org/obo/CL_0007004) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### spinal cord arachnoid mater `http://purl.obolibrary.org/obo/UBERON_0003560` -#### Removed -- [spinal cord arachnoid mater](http://purl.obolibrary.org/obo/UBERON_0003560) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The middle membrane of the three mammalian meninges covering the brain and spinal cord. [TFD][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000234" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### preplasmablast `http://purl.obolibrary.org/obo/CL_4033065` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [preplasmablast](http://purl.obolibrary.org/obo/CL_4033065) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A mature B cell that serves as an intermediate stage in the differentiation of naive B cells into a plasmablast. A preplasmablast expresses CD30 and IL-6R and lacks expression of CD20, CD23, CD38 and CD138." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:30755708" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/arachnoid+mater" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:21918187" -- [spinal cord arachnoid mater](http://purl.obolibrary.org/obo/UBERON_0003560) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:33150420" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000234" +- [preplasmablast](http://purl.obolibrary.org/obo/CL_4033065) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "prePB" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:21918187" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" + - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [preplasmablast](http://purl.obolibrary.org/obo/CL_4033065) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "pre-plasmablast" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:23613519" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [preplasmablast](http://purl.obolibrary.org/obo/CL_4033065) [date](http://purl.org/dc/terms/date) "2024-04-25T09:14:58Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) +- [preplasmablast](http://purl.obolibrary.org/obo/CL_4033065) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "preplasmablastic cell" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:33661294" +- [preplasmablast](http://purl.obolibrary.org/obo/CL_4033065) [contributor](http://purl.org/dc/terms/contributor) [0000-0001-6677-8489](https://orcid.org/0000-0001-6677-8489) -### spinal cord ependyma `http://purl.obolibrary.org/obo/UBERON_0005359` -#### Removed -- [spinal cord ependyma](http://purl.obolibrary.org/obo/UBERON_0005359) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA this is treated as part of the ependyma, but here we treat ependyma as a portion" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [preplasmablast](http://purl.obolibrary.org/obo/CL_4033065) [label](http://www.w3.org/2000/01/rdf-schema#label) "preplasmablast" +- [preplasmablast](http://purl.obolibrary.org/obo/CL_4033065) [contributor](http://purl.org/dc/terms/contributor) [0000-0001-7655-4833](https://orcid.org/0000-0001-7655-4833) +- Class: [preplasmablast](http://purl.obolibrary.org/obo/CL_4033065) -### spinal cord neural crest `http://purl.obolibrary.org/obo/UBERON_0003853` -#### Removed -- [spinal cord neural crest](http://purl.obolibrary.org/obo/UBERON_0003853) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...)[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [preplasmablast](http://purl.obolibrary.org/obo/CL_4033065) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [naive B cell](http://purl.obolibrary.org/obo/CL_0000788) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [preplasmablast](http://purl.obolibrary.org/obo/CL_4033065) SubClassOf [develops into](http://purl.obolibrary.org/obo/RO_0002203) some [plasmablast](http://purl.obolibrary.org/obo/CL_0000980) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [preplasmablast](http://purl.obolibrary.org/obo/CL_4033065) SubClassOf [mature B cell](http://purl.obolibrary.org/obo/CL_0000785) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001006" +### presomitic mesoderm `http://purl.obolibrary.org/obo/UBERON_0003059` +#### Added +- [presomitic mesoderm](http://purl.obolibrary.org/obo/UBERON_0003059) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### spinal cord neural plate `http://purl.obolibrary.org/obo/UBERON_0003854` -#### Removed -- [spinal cord neural plate](http://purl.obolibrary.org/obo/UBERON_0003854) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Neural plate that is part of the spinal cord. [Bgee_curator][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### pressoreceptor cell `http://purl.obolibrary.org/obo/CL_0000602` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [pressoreceptor cell](http://purl.obolibrary.org/obo/CL_0000602) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009274" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000439" +### presumptive endocardium `http://purl.obolibrary.org/obo/UBERON_0007280` -- [spinal cord neural plate](http://purl.obolibrary.org/obo/UBERON_0003854) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...)[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [presumptive endocardium](http://purl.obolibrary.org/obo/UBERON_0007280) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### presumptive enteric nervous system `http://purl.obolibrary.org/obo/UBERON_0006600` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28" +#### Added +- [presumptive enteric nervous system](http://purl.obolibrary.org/obo/UBERON_0006600) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000439" +### presumptive gut `http://purl.obolibrary.org/obo/UBERON_0007026` +#### Added +- [presumptive gut](http://purl.obolibrary.org/obo/UBERON_0007026) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### spinal cord pia mater `http://purl.obolibrary.org/obo/UBERON_0003555` -#### Removed -- [spinal cord pia mater](http://purl.obolibrary.org/obo/UBERON_0003555) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The innermost of the three mammalian meninges covering the brain and spinal cord. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### presumptive hindbrain `http://purl.obolibrary.org/obo/UBERON_0007277` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [presumptive hindbrain](http://purl.obolibrary.org/obo/UBERON_0007277) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/pia+mater" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000468" +### presumptive midbrain `http://purl.obolibrary.org/obo/UBERON_0009616` -- [spinal cord pia mater](http://purl.obolibrary.org/obo/UBERON_0003555) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" +#### Added +- [presumptive midbrain](http://purl.obolibrary.org/obo/UBERON_0009616) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### presumptive segmental plate `http://purl.obolibrary.org/obo/UBERON_0007282` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [presumptive segmental plate](http://purl.obolibrary.org/obo/UBERON_0007282) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000468" +### prevention of polyspermy `http://purl.obolibrary.org/obo/GO_0060468` +#### Removed +- [prevention of polyspermy](http://purl.obolibrary.org/obo/GO_0060468) SubClassOf [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) -### spinal cord ventral column `http://purl.obolibrary.org/obo/UBERON_0005375` -#### Removed -- [spinal cord ventral column](http://purl.obolibrary.org/obo/UBERON_0005375) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in MA, this is a subclass of white matter, but in WP/Gray's, the anterior column is a synonym of the grey matter section. is this the same as funiculus? See lateral column." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" -- [spinal cord ventral column](http://purl.obolibrary.org/obo/UBERON_0005375) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The ventral ridge of gray matter in each half of the spinal cord. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### primary interneuron (sensu Teleostei) `http://purl.obolibrary.org/obo/CL_0000534` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [primary interneuron (sensu Teleostei)](http://purl.obolibrary.org/obo/CL_0000534) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009245" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001622" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### primary lens fiber `http://purl.obolibrary.org/obo/CL_0002228` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/anterior+column+of+spinal+cord" +#### Added +- [primary lens fiber](http://purl.obolibrary.org/obo/CL_0002228) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +### primary metabolic process `http://purl.obolibrary.org/obo/GO_0044238` -### spinal dura mater `http://purl.obolibrary.org/obo/UBERON_0002093` -#### Removed -- [spinal dura mater](http://purl.obolibrary.org/obo/UBERON_0002093) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The outermost and densest membrane of the three mammalian meninges covering the brain and spinal cord. [Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier, adapted_from_Dorian_AF][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000411" +#### Added +- [primary metabolic process](http://purl.obolibrary.org/obo/GO_0044238) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [primary metabolic process](http://purl.obolibrary.org/obo/GO_0044238) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [primary metabolic process](http://purl.obolibrary.org/obo/GO_0044238) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" -- [spinal dura mater](http://purl.obolibrary.org/obo/UBERON_0002093) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000411" +### primary motor neuron (sensu Teleostei) `http://purl.obolibrary.org/obo/CL_0000533` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" +#### Added +- [primary motor neuron (sensu Teleostei)](http://purl.obolibrary.org/obo/CL_0000533) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009244" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### primary neuron (sensu Teleostei) `http://purl.obolibrary.org/obo/CL_0000530` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [primary neuron (sensu Teleostei)](http://purl.obolibrary.org/obo/CL_0000530) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009242" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [primary neuron (sensu Teleostei)](http://purl.obolibrary.org/obo/CL_0000530) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### spinal nerve `http://purl.obolibrary.org/obo/UBERON_0001780` +### primary ovarian follicle `http://purl.obolibrary.org/obo/UBERON_0000035` #### Removed -- [spinal nerve](http://purl.obolibrary.org/obo/UBERON_0001780) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Any of the paired nerves emerging from the spinal cord, each attached to the cord by two roots: ventral and dorsal, and passing out between the vertebrae. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/spinal+nerve" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [primary ovarian follicle](http://purl.obolibrary.org/obo/UBERON_0000035) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000824" +### primary ovarian follicle growth `http://purl.obolibrary.org/obo/GO_0001545` +#### Added +- [primary ovarian follicle growth](http://purl.obolibrary.org/obo/GO_0001545) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### spinal nerve plexus `http://purl.obolibrary.org/obo/UBERON_0001813` +### primary spermatocyte growth `http://purl.obolibrary.org/obo/GO_0007285` #### Removed -- [spinal nerve plexus](http://purl.obolibrary.org/obo/UBERON_0001813) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "To reach the muscles, dermatomes, and other structures of the limbs, some of the neurons in the spinal nerves come together in the plexus at the base of the limb. Such plexuses occur in all gnathostomes, and they reach their highest complexity among mammals and birds in which the cervical plexus supplies many ventral neck muscles, the brachial plexus supplies the pectoral appendage, a lumbosacral plexus supplies the pelvic appendage, and a coccygeal plexus supplies some of the pelvic muscles.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000926" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [primary spermatocyte growth](http://purl.obolibrary.org/obo/GO_0007285) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.436" - -### spinal nerve root `http://purl.obolibrary.org/obo/UBERON_0009623` +### primitive erythroid progenitor `http://purl.obolibrary.org/obo/CL_0002361` #### Removed -- [spinal nerve root](http://purl.obolibrary.org/obo/UBERON_0009623) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "SCTID:362436008" - -- [spinal nerve root](http://purl.obolibrary.org/obo/UBERON_0009623) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "ZFA has part_of to spinal cord but this causes spatial disjointness violations (CNS/PNS)" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" +- [primitive erythroid progenitor](http://purl.obolibrary.org/obo/CL_0002361) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### spiral ligament `http://purl.obolibrary.org/obo/UBERON_0006725` -#### Removed -- [spiral ligament](http://purl.obolibrary.org/obo/UBERON_0006725) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "this is not classified as a ligament in FMA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +### primitive nephron `http://purl.obolibrary.org/obo/UBERON_0010532` #### Added -- [spiral ligament](http://purl.obolibrary.org/obo/UBERON_0006725) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [primitive nephron](http://purl.obolibrary.org/obo/UBERON_0010532) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### spiral organ of cochlea `http://purl.obolibrary.org/obo/UBERON_0002227` +### primitive red blood cell `http://purl.obolibrary.org/obo/CL_0002355` #### Removed -- [spiral organ of cochlea](http://purl.obolibrary.org/obo/UBERON_0002227) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [Sauropsida](http://purl.obolibrary.org/obo/NCBITaxon_8457) +- [primitive red blood cell](http://purl.obolibrary.org/obo/CL_0002355) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [spiral organ of cochlea](http://purl.obolibrary.org/obo/UBERON_0002227) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [NCBITaxon_8292](http://purl.obolibrary.org/obo/NCBITaxon_8292) -- [spiral organ of cochlea](http://purl.obolibrary.org/obo/UBERON_0002227) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The auditory hair cells in tetrapods are located in the inner ear in a structure known as the basilar papilla. In mammals this structure (along with some related structure) is called the organ of Corti.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### primitive streak formation `http://purl.obolibrary.org/obo/GO_0090009` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [primitive streak formation](http://purl.obolibrary.org/obo/GO_0090009) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001567" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0471210054 Butler AB and Hodos W, Comparative vertebrate neuroanatomy: Evolution and Adaptation (2005) p.33" +### primitive urogenital sinus `http://purl.obolibrary.org/obo/UBERON_0000164` -- [spiral organ of cochlea](http://purl.obolibrary.org/obo/UBERON_0002227) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VHOG:0001567" +#### Added +- [primitive urogenital sinus](http://purl.obolibrary.org/obo/UBERON_0000164) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [spiral organ of cochlea](http://purl.obolibrary.org/obo/UBERON_0002227) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in basal early lizards, organized into 3 tonotopically organized areas, the outer areas lack a tectorial membrane[ISBN:9780387714691]" -- [spiral organ of cochlea](http://purl.obolibrary.org/obo/UBERON_0002227) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Tetrapoda](http://purl.obolibrary.org/obo/NCBITaxon_32523) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "https://github.com/obophenotype/uberon/issues/387" +### primordial germ cell `http://purl.obolibrary.org/obo/CL_0000670` #### Added -- [spiral organ of cochlea](http://purl.obolibrary.org/obo/UBERON_0002227) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Tetrapoda](http://purl.obolibrary.org/obo/NCBITaxon_32523) - -- [spiral organ of cochlea](http://purl.obolibrary.org/obo/UBERON_0002227) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [primordial germ cell](http://purl.obolibrary.org/obo/CL_0000670) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009288" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### splanchnic layer of lateral plate mesoderm `http://purl.obolibrary.org/obo/UBERON_0004872` -#### Removed -- [splanchnic layer of lateral plate mesoderm](http://purl.obolibrary.org/obo/UBERON_0004872) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "We group the BILA class here. Considering adding more general class for metazoa grouping cardiogenic successors" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "BILA" +### primordium `http://purl.obolibrary.org/obo/UBERON_0001048` +#### Added +- [primordium](http://purl.obolibrary.org/obo/UBERON_0001048) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005495" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### splanchnic nerve `http://purl.obolibrary.org/obo/UBERON_0003715` +### pro-B cell `http://purl.obolibrary.org/obo/CL_0000826` #### Removed -- [splanchnic nerve](http://purl.obolibrary.org/obo/UBERON_0003715) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "All carry sympathetic fibers except for the pelvic splanchnic nerves, which carry parasympathetic fibers" +- [pro-B cell](http://purl.obolibrary.org/obo/CL_0000826) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +#### Added +- [pro-B cell](http://purl.obolibrary.org/obo/CL_0000826) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009349" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### splanchnocranium `http://purl.obolibrary.org/obo/UBERON_0008895` +### pro-NK cell `http://purl.obolibrary.org/obo/CL_0000825` #### Removed -- [splanchnocranium](http://purl.obolibrary.org/obo/UBERON_0008895) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The part of the skull derived from the embryonic pharyngeal arches. [Biology_Online][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [pro-NK cell](http://purl.obolibrary.org/obo/CL_0000825) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [pro-NK cell](http://purl.obolibrary.org/obo/CL_0000825) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009348" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000315" -- [splanchnocranium](http://purl.obolibrary.org/obo/UBERON_0008895) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster that is part of the cranium and consists of the jaws, hyoid, and branchial arches.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010157" +### pro-T cell `http://purl.obolibrary.org/obo/CL_0000827` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" +#### Added +- [pro-T cell](http://purl.obolibrary.org/obo/CL_0000827) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009350" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### process `http://purl.obolibrary.org/obo/BFO_0000015` +#### Removed +- [process](http://purl.obolibrary.org/obo/BFO_0000015) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])"@en -- [splanchnocranium](http://purl.obolibrary.org/obo/UBERON_0008895) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster that is part of the cranium and consists of the jaws, hyoid and branchial arches.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [process](http://purl.obolibrary.org/obo/BFO_0000015) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t."@en - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [process](http://purl.obolibrary.org/obo/BFO_0000015) [label](http://www.w3.org/2000/01/rdf-schema#label) "process"@en - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [process](http://purl.obolibrary.org/obo/BFO_0000015) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001216" -- [splanchnocranium](http://purl.obolibrary.org/obo/UBERON_0008895) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The skull of ancestral tetrapods has the three basic components that we have been considering: (1) chondrocranium, (2) splanchnocranium, and (3) dermatocranium (reference 1); Each part of the skull arises from a separate phylogenetic source. The most ancient part is the splanchnocranium (visceral cranium), which first arose to support pharyngeal slits in protochordates (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.242, ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.235" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### procrystal cell `http://purl.obolibrary.org/obo/CL_0000395` +#### Removed +- [procrystal cell](http://purl.obolibrary.org/obo/CL_0000395) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001689" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [procrystal cell](http://purl.obolibrary.org/obo/CL_0000395) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00001689" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000315" +### proctodeum `http://purl.obolibrary.org/obo/UBERON_0000931` -- [splanchnocranium](http://purl.obolibrary.org/obo/UBERON_0008895) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "VSAO labels this term 'pharyngeal arch' (2012-06-01) - however, it clearly means pharyngeal arch skeleton." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "VSAO" +#### Added +- [proctodeum](http://purl.obolibrary.org/obo/UBERON_0000931) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000123" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [splanchnocranium](http://purl.obolibrary.org/obo/UBERON_0008895) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "many sources define this as the part of the endoskeletal that is from pharyngeal arches - this would make it part-disjoint from dermatocranium. However, there are many bones in AOs that have part-paths to both" +- [proctodeum](http://purl.obolibrary.org/obo/UBERON_0000931) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [splanchnocranium](http://purl.obolibrary.org/obo/UBERON_0008895) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [cranial neural crest](http://purl.obolibrary.org/obo/UBERON_0003099) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Grays" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "redundant" +### proerythroblast `http://purl.obolibrary.org/obo/CL_0000547` +#### Removed +- [proerythroblast](http://purl.obolibrary.org/obo/CL_0000547) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:11237469" -#### Added -- [splanchnocranium](http://purl.obolibrary.org/obo/UBERON_0008895) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [cranial neural crest](http://purl.obolibrary.org/obo/UBERON_0003099) +### professional antigen presenting cell `http://purl.obolibrary.org/obo/CL_0000145` -### spleen `http://purl.obolibrary.org/obo/UBERON_0002106` -#### Removed -- [spleen](http://purl.obolibrary.org/obo/UBERON_0002106) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "It synthesizes antibodies in its white pulp and removes, from blood and lymph node circulation, antibody-coated bacteria along with antibody-coated blood cells" +#### Added +- [professional antigen presenting cell](http://purl.obolibrary.org/obo/CL_0000145) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009088" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [spleen](http://purl.obolibrary.org/obo/UBERON_0002106) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Neither hagfish nor lampreys possess what might be considered a discrete and condensed spleen. Hagfish possess dispersed lymphoid tissue within the submucosa of the intestine (96) associated with the portal vein (97), whereas lymphoid tissue is associated with the typhlosole portion of the intestine in lampreys (96)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:20959416" -- [spleen](http://purl.obolibrary.org/obo/UBERON_0002106) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, it is located in the left upper quadrant of the abdomen. It removes old red blood cells and holds a reserve in case of hemorrhagic shock, especially in animals like horses (not in humans), while recycling iron" +### progenitor cell `http://purl.obolibrary.org/obo/CL_0011026` -- [spleen](http://purl.obolibrary.org/obo/UBERON_0002106) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "With the advent of clonal selection, the accumulation and segregation of T and B cells in specialized organs for antigen presentation became necessary, and indeed the spleen is found in all jawed vertebrates, but not in agnathans or invertebrates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [progenitor cell](http://purl.obolibrary.org/obo/CL_0011026) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### progesterone metabolic process `http://purl.obolibrary.org/obo/GO_0042448` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0781765190 Paul WE, Fundamental Immunology (2008) p.94" +#### Added +- [progesterone metabolic process](http://purl.obolibrary.org/obo/GO_0042448) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000120" -- [spleen](http://purl.obolibrary.org/obo/UBERON_0002106) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "lienal" +### progesterone secreting cell `http://purl.obolibrary.org/obo/CL_0000179` -- [spleen](http://purl.obolibrary.org/obo/UBERON_0002106) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An organ involved in red blood cell filtration and immune response.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BMZ" +#### Added +- [progesterone secreting cell](http://purl.obolibrary.org/obo/CL_0000179) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any secretory cell that is capable of some progesterone secretion." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010395" +- [progesterone secreting cell](http://purl.obolibrary.org/obo/CL_0000179) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009109" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### programmed cell death `http://purl.obolibrary.org/obo/GO_0012501` -- [spleen](http://purl.obolibrary.org/obo/UBERON_0002106) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "splenic" +#### Added +- [programmed cell death](http://purl.obolibrary.org/obo/GO_0012501) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) -- [spleen](http://purl.obolibrary.org/obo/UBERON_0002106) SubClassOf [digestive system element](http://purl.obolibrary.org/obo/UBERON_0013765) +- [programmed cell death](http://purl.obolibrary.org/obo/GO_0012501) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) +- [programmed cell death](http://purl.obolibrary.org/obo/GO_0012501) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### spleen B cell corona `http://purl.obolibrary.org/obo/UBERON_0010421` +### prohemocyte (sensu Nematoda and Protostomia) `http://purl.obolibrary.org/obo/CL_0000385` +#### Removed +- [prohemocyte (sensu Nematoda and Protostomia)](http://purl.obolibrary.org/obo/CL_0000385) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005062" #### Added -- [spleen B cell corona](http://purl.obolibrary.org/obo/UBERON_0010421) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [prohemocyte (sensu Nematoda and Protostomia)](http://purl.obolibrary.org/obo/CL_0000385) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005062" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### spleen capsule `http://purl.obolibrary.org/obo/UBERON_0004641` +### prolactin secreting cell `http://purl.obolibrary.org/obo/CL_0000439` #### Added -- [spleen capsule](http://purl.obolibrary.org/obo/UBERON_0004641) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [prolactin secreting cell](http://purl.obolibrary.org/obo/CL_0000439) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009204" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### spleen germinal center `http://purl.obolibrary.org/obo/UBERON_0005196` +### prominin `http://purl.obolibrary.org/obo/PR_000001785` +#### Removed +- [prominin](http://purl.obolibrary.org/obo/PR_000001785) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PANTHER:PTHR22730" -#### Added -- [spleen germinal center](http://purl.obolibrary.org/obo/UBERON_0005196) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) -### spleen lymphoid follicle `http://purl.obolibrary.org/obo/UBERON_0001249` +### promonocyte `http://purl.obolibrary.org/obo/CL_0000559` +#### Removed +- [promonocyte](http://purl.obolibrary.org/obo/CL_0000559) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) #### Added -- [spleen lymphoid follicle](http://purl.obolibrary.org/obo/UBERON_0001249) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [promonocyte](http://purl.obolibrary.org/obo/CL_0000559) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009253" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### spleen primary B follicle `http://purl.obolibrary.org/obo/UBERON_0004041` +### promyelocyte `http://purl.obolibrary.org/obo/CL_0000836` #### Removed -- [spleen primary B follicle](http://purl.obolibrary.org/obo/UBERON_0004041) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA:15843 is classified as primary follicle so it belongs here" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [promyelocyte](http://purl.obolibrary.org/obo/CL_0000836) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### spleen primordium `http://purl.obolibrary.org/obo/UBERON_0006293` -#### Removed -- [spleen primordium](http://purl.obolibrary.org/obo/UBERON_0006293) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "check difference between splenic and spleen in EMAPA; note that in EHDAA2 the class 'spleen' refers to the mesenchyme" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EMAPA" +### pronephric nephron tubule epithelial cell `http://purl.obolibrary.org/obo/CL_1000090` #### Added -- [spleen primordium](http://purl.obolibrary.org/obo/UBERON_0006293) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [pronephric nephron tubule epithelial cell](http://purl.obolibrary.org/obo/CL_1000090) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any epithelial cell that is part of some pronephric nephron tubule." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### spleen pulp `http://purl.obolibrary.org/obo/UBERON_1000023` +### prostate gland stromal morphogenesis `http://purl.obolibrary.org/obo/GO_0060741` #### Added -- [spleen pulp](http://purl.obolibrary.org/obo/UBERON_1000023) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [prostate gland stromal morphogenesis](http://purl.obolibrary.org/obo/GO_0060741) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### spleen trabecular artery `http://purl.obolibrary.org/obo/UBERON_0010399` -#### Removed -- [spleen trabecular artery](http://purl.obolibrary.org/obo/UBERON_0010399) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "When the splenic artery passes into the trabecula of the spleen and branches, they become known as the trabecular arteries. When these arteries then reach the white pulp, and become covered with Periarteriolar lymphoid sheaths, the name changes again to central arteries (or central arterioles). Branches of the central arteries are given to the red pulp, and these are called penicillar arteries).[Wikipedia]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "Wikipedia" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Trabecular_arteries" - +### protein binding `http://purl.obolibrary.org/obo/GO_0005515` +#### Added +- [protein binding](http://purl.obolibrary.org/obo/GO_0005515) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -### spleen trabecular vein `http://purl.obolibrary.org/obo/UBERON_0010400` -#### Removed -- [spleen trabecular vein](http://purl.obolibrary.org/obo/UBERON_0010400) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The trabecular veins are the largest veins inside the spleen. It drains the blood collected in the sinuses of the pulp.[Wikipedia]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "Wikipedia" +- [protein binding](http://purl.obolibrary.org/obo/GO_0005515) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Trabecular_veins" +- [protein binding](http://purl.obolibrary.org/obo/GO_0005515) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) +- [protein binding](http://purl.obolibrary.org/obo/GO_0005515) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### splenic cord `http://purl.obolibrary.org/obo/UBERON_0001266` +### protein kinase activity `http://purl.obolibrary.org/obo/GO_0004672` #### Added -- [splenic cord](http://purl.obolibrary.org/obo/UBERON_0001266) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [protein kinase activity](http://purl.obolibrary.org/obo/GO_0004672) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-9732753" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "JAK1-activated RAF1 phosphorylates MAPKs" +- [protein kinase activity](http://purl.obolibrary.org/obo/GO_0004672) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-9833820" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "PKR dimer autophosphorylates" -### splenic sinusoid `http://purl.obolibrary.org/obo/UBERON_0003910` -#### Removed -- [splenic sinusoid](http://purl.obolibrary.org/obo/UBERON_0003910) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Whereas man and the rat are in the 'sinusal' group, the mouse belongs in the 'nonsinusal' group. The red pulp of spleens of rat, dog, man, and many other mammals contains an elaborate plexus of sinuses; that of mouse, cat, pig and others has no true sinuses and relatively few veins leading from the meshes into collecting veins - http://www.informatics.jax.org/greenbook/chapters/chapter13.shtml" +- [protein kinase activity](http://purl.obolibrary.org/obo/GO_0004672) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-9836404" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "p-PKR dimer phosphorylates MAPT" +- [protein kinase activity](http://purl.obolibrary.org/obo/GO_0004672) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-9836184" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "p-PKR dimer phosphorylates CDK1" +- [protein kinase activity](http://purl.obolibrary.org/obo/GO_0004672) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-9836159" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "p-PKR dimer phosphorylates DHX9" -### spongiotrophoblast layer `http://purl.obolibrary.org/obo/UBERON_0004021` -#### Removed -- [spongiotrophoblast layer](http://purl.obolibrary.org/obo/UBERON_0004021) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "In the absence of direct lineage analysis, it has been assumed, from histological studies and from the continuity of marker gene expression, that the spongiotrophoblast largely derives from the cells of the ectoplacental cone" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:19829370" +- [protein kinase activity](http://purl.obolibrary.org/obo/GO_0004672) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-9836322" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "p-PKR dimer phosphorylates MKK6" -- [spongiotrophoblast layer](http://purl.obolibrary.org/obo/UBERON_0004021) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "restriction to Rodentia may be too strong - we apply it for now as we are inheriting the MP definition" +- [protein kinase activity](http://purl.obolibrary.org/obo/GO_0004672) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-9836435" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "p-PKR dimer phosphorylates SNCA" -- [spongiotrophoblast layer](http://purl.obolibrary.org/obo/UBERON_0004021) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "Forms a compact layer of non-syncytial cells between the labyrinth and the outer giant cells" +- [protein kinase activity](http://purl.obolibrary.org/obo/GO_0004672) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-9836362" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "p-PKR dimer phosphorylates TP53 tetramer" -#### Added -- [spongiotrophoblast layer](http://purl.obolibrary.org/obo/UBERON_0004021) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [protein kinase activity](http://purl.obolibrary.org/obo/GO_0004672) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-9836449" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "p-PKR dimer phosphorylates HIV tat" +- [protein kinase activity](http://purl.obolibrary.org/obo/GO_0004672) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-9836383" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "p-PKR dimer phosphorylates ILF3:ILF2" -### squamous epithelium `http://purl.obolibrary.org/obo/UBERON_0006914` -#### Removed -- [squamous epithelium](http://purl.obolibrary.org/obo/UBERON_0006914) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FBbt:00007028 (squamous epithelium) A type of epithelium that is made up of flattened cells which are arranged with their long axes in the plane of the epithelium" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FBbt" +- [protein kinase activity](http://purl.obolibrary.org/obo/GO_0004672) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-9836617" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "p-PKR dimer phosphorylates SPHK1" +- [protein kinase activity](http://purl.obolibrary.org/obo/GO_0004672) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-9835885" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "p-PKR dimer phosphorylates eIF2-alpha" +- [protein kinase activity](http://purl.obolibrary.org/obo/GO_0004672) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-9836515" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "p-PKR dimer phosphorylates PTPN2" -### starts `http://purl.obolibrary.org/obo/RO_0002223` -#### Removed -- [starts](http://purl.obolibrary.org/obo/RO_0002223) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002223" +- [protein kinase activity](http://purl.obolibrary.org/obo/GO_0004672) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-9836664" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "p-PKR dimer phosphorylates PPP2R5A" -- [starts](http://purl.obolibrary.org/obo/RO_0002223) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "Allen" -- [starts](http://purl.obolibrary.org/obo/RO_0002223) [label](http://www.w3.org/2000/01/rdf-schema#label) "starts" +### protein localization `http://purl.obolibrary.org/obo/GO_0008104` -- [starts](http://purl.obolibrary.org/obo/RO_0002223) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +#### Added +- [protein localization](http://purl.obolibrary.org/obo/GO_0008104) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [starts](http://purl.obolibrary.org/obo/RO_0002223) [id](http://www.geneontology.org/formats/oboInOwl#id) "starts" -- [starts](http://purl.obolibrary.org/obo/RO_0002223) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) +### protein metabolic process `http://purl.obolibrary.org/obo/GO_0019538` -- [starts](http://purl.obolibrary.org/obo/RO_0002223) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "Chris Mungall" +#### Added +- [protein metabolic process](http://purl.obolibrary.org/obo/GO_0019538) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." -- [starts](http://purl.obolibrary.org/obo/RO_0002223) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "starts" +- [protein metabolic process](http://purl.obolibrary.org/obo/GO_0019538) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -- [starts](http://purl.obolibrary.org/obo/RO_0002223) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +- [protein metabolic process](http://purl.obolibrary.org/obo/GO_0019538) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27189"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [protein metabolic process](http://purl.obolibrary.org/obo/GO_0019538) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) +- [protein metabolic process](http://purl.obolibrary.org/obo/GO_0019538) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### starts with `http://purl.obolibrary.org/obo/RO_0002224` -#### Removed -- [starts with](http://purl.obolibrary.org/obo/RO_0002224) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) -- [starts with](http://purl.obolibrary.org/obo/RO_0002224) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "Chris Mungall" +### protein secreting cell `http://purl.obolibrary.org/obo/CL_0000154` -- [starts with](http://purl.obolibrary.org/obo/RO_0002224) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "Every insulin receptor signaling pathway starts with the binding of a ligand to the insulin receptor" +#### Added +- [protein secreting cell](http://purl.obolibrary.org/obo/CL_0000154) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any secretory cell that is capable of some protein secretion." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [starts with](http://purl.obolibrary.org/obo/RO_0002224) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" -- [starts with](http://purl.obolibrary.org/obo/RO_0002224) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) +### protein transporter activity `http://purl.obolibrary.org/obo/GO_0140318` -- [starts with](http://purl.obolibrary.org/obo/RO_0002224) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "started by" +#### Added +- [protein transporter activity](http://purl.obolibrary.org/obo/GO_0140318) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-2248891" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "M6PR transports activated ARSA to the lysosome" +- [protein transporter activity](http://purl.obolibrary.org/obo/GO_0140318) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### status `http://www.geneontology.org/formats/oboInOwl#status` +### protein tyrosine kinase activity `http://purl.obolibrary.org/obo/GO_0004713` #### Removed -- AnnotationProperty: [status](http://www.geneontology.org/formats/oboInOwl#status) +- [protein tyrosine kinase activity](http://purl.obolibrary.org/obo/GO_0004713) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-9762209" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "BACH1 is phosphorylated at tyrosine 486" +- [protein tyrosine kinase activity](http://purl.obolibrary.org/obo/GO_0004713) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-201521" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "ALK autophosphorylation downstream of PTN and MDK" +- [protein tyrosine kinase activity](http://purl.obolibrary.org/obo/GO_0004713) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-5357429" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "AXL autophosphorylates on Y772 and Y814" -### sternoclavicular joint `http://purl.obolibrary.org/obo/UBERON_0001469` -#### Removed -- [sternoclavicular joint](http://purl.obolibrary.org/obo/UBERON_0001469) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [clavicle bone](http://purl.obolibrary.org/obo/UBERON_0001105) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "sternal end of the clavicle and first rib" +- [protein tyrosine kinase activity](http://purl.obolibrary.org/obo/GO_0004713) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-177930" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "GAB1 phosphorylation by EGFR kinase" -- [sternoclavicular joint](http://purl.obolibrary.org/obo/UBERON_0001469) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [sternum](http://purl.obolibrary.org/obo/UBERON_0000975) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "clavicular notch of the manubrium sterni" +- [protein tyrosine kinase activity](http://purl.obolibrary.org/obo/GO_0004713) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-8964252" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "G alpha (s):GTP:SRC catalyzes SRC to p-Y416-SRC" + +- [protein tyrosine kinase activity](http://purl.obolibrary.org/obo/GO_0004713) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-8964242" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "G protein alpha (i)-SRC complex catalyzes SRC to p-Y416-SRC" #### Added -- [sternoclavicular joint](http://purl.obolibrary.org/obo/UBERON_0001469) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [clavicle bone](http://purl.obolibrary.org/obo/UBERON_0001105) +- [protein tyrosine kinase activity](http://purl.obolibrary.org/obo/GO_0004713) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-201521" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "ALK autophosphorylation" -- [sternoclavicular joint](http://purl.obolibrary.org/obo/UBERON_0001469) SubClassOf [connects](http://purl.obolibrary.org/obo/RO_0002176) some [sternum](http://purl.obolibrary.org/obo/UBERON_0000975) +- [protein tyrosine kinase activity](http://purl.obolibrary.org/obo/GO_0004713) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-5357429" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "AXL autophosphorylates on Y779 and Y821" +- [protein tyrosine kinase activity](http://purl.obolibrary.org/obo/GO_0004713) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-9762209" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "BACH1 is phosphorylated at tyrosine 483" -### sternooccipital muscle `http://purl.obolibrary.org/obo/UBERON_0010949` -#### Removed -- [sternooccipital muscle](http://purl.obolibrary.org/obo/UBERON_0010949) SubClassOf [axial muscle](http://purl.obolibrary.org/obo/UBERON_0003897) +- [protein tyrosine kinase activity](http://purl.obolibrary.org/obo/GO_0004713) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-8964252" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "G alpha (s):GTP:SRC catalyzes SRC to p-Y419-SRC" + +- [protein tyrosine kinase activity](http://purl.obolibrary.org/obo/GO_0004713) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-8964242" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "G protein alpha (i)-SRC complex catalyzes SRC to p-Y419-SRC" + +- [protein tyrosine kinase activity](http://purl.obolibrary.org/obo/GO_0004713) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-9831136" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "SH pentamer is phosphorylated" +- [protein tyrosine kinase activity](http://purl.obolibrary.org/obo/GO_0004713) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-9732738" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "JAK1-mediated phosphorylation of RAF1" -### sternum `http://purl.obolibrary.org/obo/UBERON_0000975` +### protein-containing complex `http://purl.obolibrary.org/obo/GO_0032991` #### Removed -- [sternum](http://purl.obolibrary.org/obo/UBERON_0000975) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of postzonal element (AAO:0000938)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [protein-containing complex](http://purl.obolibrary.org/obo/GO_0032991) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000765" +#### Added +- [protein-containing complex](http://purl.obolibrary.org/obo/GO_0032991) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [protein-containing complex](http://purl.obolibrary.org/obo/GO_0032991) SubClassOf [has part](http://purl.obolibrary.org/obo/BFO_0000051) some [protein](http://purl.obolibrary.org/obo/PR_000000001) -- [sternum](http://purl.obolibrary.org/obo/UBERON_0000975) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Single element that constitutes the postzonal area of the pectoral girdle.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### protein-containing complex binding `http://purl.obolibrary.org/obo/GO_0044877` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000765" +#### Added +- [protein-containing complex binding](http://purl.obolibrary.org/obo/GO_0044877) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" -- [sternum](http://purl.obolibrary.org/obo/UBERON_0000975) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Fishes lack a sternum. (...) A sternum is absent in the first fossil tetrapods, but it is present in modern amphibians. (...) Thus, a sternum occurs in some modern amphibians, birds, mammals and archosaurs. However, its absence in the common ancestors to these groups means that it has arisen independently several times within the field of the midventral connective tissue.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### protein-containing complex localization `http://purl.obolibrary.org/obo/GO_0031503` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [protein-containing complex localization](http://purl.obolibrary.org/obo/GO_0031503) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.294" +### protein-containing material entity `http://purl.obolibrary.org/obo/PR_000050567` +#### Removed +- [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566)." - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000856" +- [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) [id](http://www.geneontology.org/formats/oboInOwl#id) "PR:000050567" -- [sternum](http://purl.obolibrary.org/obo/UBERON_0000975) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in birds, either ratite (no keel or carina) or carinate (keel and carina present)" +- [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "protein complex" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PRO:DAN" -- [sternum](http://purl.obolibrary.org/obo/UBERON_0000975) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "sternal" +- [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) [label](http://www.w3.org/2000/01/rdf-schema#label) "protein-containing material entity" -- [sternum](http://purl.obolibrary.org/obo/UBERON_0000975) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "While its developmental origins are similar to the ribs (from the myospetum and septum of the trunk region), it is often associated with the pectoral skeleton, due to both function and physical connections (i.e. the coracoid of archosaurs). It may be a single element or a series of smaller structure (sternebrae). Based on Kardong 2012. [PHENOSCAPE:ad]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" +- [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "protein" -- [sternum](http://purl.obolibrary.org/obo/UBERON_0000975) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "It probably first evolved in early tetrapods as an extension of the pectoral girdle; it is not found in fish. In amphibians and reptiles it is typically a shield-shaped structure, often composed entirely of cartilage. It is absent in both turtles and snakes. In birds it is a relatively large bone and typically bears an enormous projecting keel to which the flight muscles are attached. Only in mammals does the sternum take on the elongated, segmented form seen in humans. In some mammals, such as opossums, the individual segments never fuse and remain separated by cartilagenous plates throughout life" +- [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "protein-containing complex" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PRO:DAN" +- [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "protein" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PRO:DAN" +- [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A material entity that minimally consists of a protein." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PRO:DAN" -### stomach `http://purl.obolibrary.org/obo/UBERON_0000945` -#### Removed -- [stomach](http://purl.obolibrary.org/obo/UBERON_0000945) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of alimentary canal with increased circular and longitudinal smooth muscle. Bounded posteriorly by the pyloric sphincter. Mucosal lining has increased folding.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" +- [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "protein aggregate" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PRO:DAN" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000579" +- Class: [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) EquivalentTo [material entity](http://purl.obolibrary.org/obo/BFO_0000040) and ([has part](http://purl.obolibrary.org/obo/BFO_0000051) some [protein](http://purl.obolibrary.org/obo/PR_000000001)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) SubClassOf [has part](http://purl.obolibrary.org/obo/BFO_0000051) some [protein](http://purl.obolibrary.org/obo/PR_000000001) -- [stomach](http://purl.obolibrary.org/obo/UBERON_0000945) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "It appears that the stomach has an ancient origin. The stomach first appears in the fish lineage. The prevertebrate chordates do not have a true stomach, whereas the cartilaginous and bony fish do. Although most fish do have a true stomach, some fish species appear to have lost the stomach secondarily. The remaining vertebrate lineages do have a true stomach (at least in the adult animal), although there is great variation in the size and shape of the stomach.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) SubClassOf [material entity](http://purl.obolibrary.org/obo/BFO_0000040) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000408" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### protein-containing molecular entity `http://purl.obolibrary.org/obo/PR_000064867` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1525-142x.2000.00076.x Smith DM, Grasty RC, Theodosiou NA, Tabin CJ, Nascone-Yoder NM, Evolutionary relationships between the amphibian, avian, and mammalian stomachs. Evolution and development (2000)" +#### Added +- [protein-containing molecular entity](http://purl.obolibrary.org/obo/PR_000064867) [id](http://www.geneontology.org/formats/oboInOwl#id) "PR:000064867" -- [stomach](http://purl.obolibrary.org/obo/UBERON_0000945) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "We restrict this to the vertebrate specific structure - see the grouping class 'food storage organ' for analogous structures in other species. Teleosts: Zebrafish is functionally stomach-less, but may retain ontogenic footprint. Although the precise shape and size of the stomach varies widely among different vertebrates, the relative positions of the oesophageal and duodenal openings remain relatively constant. As a result, the organ always curves somewhat to the left before curving back to meet the pyloric sphincter. However, lampreys, hagfishes, chimaeras, lungfishes, and some teleost fish have no stomach at all, with the oesophagus opening directly into the intestine. The gastric lining is usually divided into two regions, an anterior portion lined by fundic glands, and a posterior with pyloric glands. Cardiac glands are unique to mammals, and even then are absent in a number of species. The distributions of these glands vary between species, and do not always correspond with the same regions as in man. Furthermore, in many non-human mammals, a portion of the stomach anterior to the cardiac glands is lined with epithelium essentially identical to that of the oesophagus. Ruminants, in particular, have a complex stomach, the first three chambers of which are all lined with oesophageal mucosa" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP:Stomach#In_other_animals" +- [protein-containing molecular entity](http://purl.obolibrary.org/obo/PR_000064867) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "protein" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PRO:DAN" -- [stomach](http://purl.obolibrary.org/obo/UBERON_0000945) SubClassOf [capable of](http://purl.obolibrary.org/obo/RO_0002215) some [gastric acid secretion](http://purl.obolibrary.org/obo/GO_0001696) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "ISBN:0486692132" +- [protein-containing molecular entity](http://purl.obolibrary.org/obo/PR_000064867) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050565)." -- [stomach](http://purl.obolibrary.org/obo/UBERON_0000945) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Gnathostomata ](http://purl.obolibrary.org/obo/NCBITaxon_7776) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0073040584" +- [protein-containing molecular entity](http://purl.obolibrary.org/obo/PR_000064867) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "protein" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "absent in lampreys and hagfishes" +- [protein-containing molecular entity](http://purl.obolibrary.org/obo/PR_000064867) [label](http://www.w3.org/2000/01/rdf-schema#label) "protein-containing molecular entity" -#### Added -- [stomach](http://purl.obolibrary.org/obo/UBERON_0000945) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Gnathostomata ](http://purl.obolibrary.org/obo/NCBITaxon_7776) +- [protein-containing molecular entity](http://purl.obolibrary.org/obo/PR_000064867) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "protein-containing complex" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PRO:DAN" -- [stomach](http://purl.obolibrary.org/obo/UBERON_0000945) SubClassOf [capable of](http://purl.obolibrary.org/obo/RO_0002215) some [gastric acid secretion](http://purl.obolibrary.org/obo/GO_0001696) +- [protein-containing molecular entity](http://purl.obolibrary.org/obo/PR_000064867) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A molecular entity that minimally consists of a protein." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PRO:DAN" +- [protein-containing molecular entity](http://purl.obolibrary.org/obo/PR_000064867) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "protein aggregate" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PRO:DAN" -### stomach glandular epithelium `http://purl.obolibrary.org/obo/UBERON_0006924` -#### Removed -- [stomach glandular epithelium](http://purl.obolibrary.org/obo/UBERON_0006924) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17623" +- [protein-containing molecular entity](http://purl.obolibrary.org/obo/PR_000064867) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "protein complex" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PRO:DAN" +- Class: [protein-containing molecular entity](http://purl.obolibrary.org/obo/PR_000064867) +- [protein-containing molecular entity](http://purl.obolibrary.org/obo/PR_000064867) EquivalentTo [CHEBI_23367](http://purl.obolibrary.org/obo/CHEBI_23367) and ([has part](http://purl.obolibrary.org/obo/BFO_0000051) some [protein](http://purl.obolibrary.org/obo/PR_000000001)) -### stomach lumen `http://purl.obolibrary.org/obo/UBERON_0013525` -#### Removed -- [stomach lumen](http://purl.obolibrary.org/obo/UBERON_0013525) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organ cavity which is bound by the internal surface of the wall of stomach. Examples: There is only one cavity of stomach[FMA:14585]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:14585" +- [protein-containing molecular entity](http://purl.obolibrary.org/obo/PR_000064867) SubClassOf [has part](http://purl.obolibrary.org/obo/BFO_0000051) some [protein](http://purl.obolibrary.org/obo/PR_000000001) +- [protein-containing molecular entity](http://purl.obolibrary.org/obo/PR_000064867) SubClassOf [CHEBI_23367](http://purl.obolibrary.org/obo/CHEBI_23367) -### stomach muscularis externa `http://purl.obolibrary.org/obo/UBERON_0008856` -#### Removed -- [stomach muscularis externa](http://purl.obolibrary.org/obo/UBERON_0008856) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "the muscularis externa in the stomach differs from that of other GI organs in that it has three layers of smooth muscle instead of two" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" +### proteoglycan binding `http://purl.obolibrary.org/obo/GO_0043394` #### Added -- [stomach muscularis externa](http://purl.obolibrary.org/obo/UBERON_0008856) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [proteoglycan binding](http://purl.obolibrary.org/obo/GO_0043394) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### stomodeum `http://purl.obolibrary.org/obo/UBERON_0000930` -#### Removed -- [stomodeum](http://purl.obolibrary.org/obo/UBERON_0000930) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "the primordial mouth region of the developing head, initially a midline ectodermal depression between the forebrain bulge (cranially) and the heart bulge (caudally) and between the maxillary and mandibular components of the first pharyngeal arch; the stomodeum is separated from the anterior end of the foregut by the buccopharyngeal membrane; the mouth is developed partly from the stomodeum, and partly from the floor of the anterior portion of the foregut; the lips, teeth, and gums are formed from the walls of the stomodeum, but the tongue is developed in the floor of the pharynx" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0012522" - - - [taxon](http://www.geneontology.org/formats/oboInOwl#taxon) "NCBITaxon:40674" +### proteoglycan metabolic process `http://purl.obolibrary.org/obo/GO_0006029` -- [stomodeum](http://purl.obolibrary.org/obo/UBERON_0000930) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "stomodeal" +#### Added +- [proteoglycan metabolic process](http://purl.obolibrary.org/obo/GO_0006029) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [stomodeum](http://purl.obolibrary.org/obo/UBERON_0000930) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anterior part of the embryonic alimentary canal formed as an invagination of the ectoderm; the future mouth.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### proton binding `http://purl.obolibrary.org/obo/GO_1901691` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [proton binding](http://purl.obolibrary.org/obo/GO_1901691) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "al" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001290" +- [proton binding](http://purl.obolibrary.org/obo/GO_1901691) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:1901691" -- [stomodeum](http://purl.obolibrary.org/obo/UBERON_0000930) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "This class groups together disparate structures as all being the anterior part of the early metazoan digestive tract and precursor of the mouth. However, the developmental processes vary, so this class may be split in future. E.g. in mammals it is a rostral depression surrounded by prominences. Outgrowth of the prominences produces a stomodeal cavity." +- [proton binding](http://purl.obolibrary.org/obo/GO_1901691) [label](http://www.w3.org/2000/01/rdf-schema#label) "proton binding" -- [stomodeum](http://purl.obolibrary.org/obo/UBERON_0000930) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000439" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [proton binding](http://purl.obolibrary.org/obo/GO_1901691) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "hydrogen ion binding" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:bm" +- [proton binding](http://purl.obolibrary.org/obo/GO_1901691) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Binding to proton." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:TermGenie" +- [proton binding](http://purl.obolibrary.org/obo/GO_1901691) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "molecular_function" -### strand of axillary hair `http://purl.obolibrary.org/obo/UBERON_0013699` -#### Removed -- [strand of axillary hair](http://purl.obolibrary.org/obo/UBERON_0013699) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_70756](http://purl.obolibrary.org/obo/FMA_70756) +- [proton binding](http://purl.obolibrary.org/obo/GO_1901691) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2012-12-07T13:50:53Z" +- Class: [proton binding](http://purl.obolibrary.org/obo/GO_1901691) +- [proton binding](http://purl.obolibrary.org/obo/GO_1901691) EquivalentTo [binding](http://purl.obolibrary.org/obo/GO_0005488) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_15378](http://purl.obolibrary.org/obo/CHEBI_15378)) -### strand of hair `http://purl.obolibrary.org/obo/UBERON_0001037` -#### Removed -- [strand of hair](http://purl.obolibrary.org/obo/UBERON_0001037) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class defines an individual hair" +- [proton binding](http://purl.obolibrary.org/obo/GO_1901691) SubClassOf [binding](http://purl.obolibrary.org/obo/GO_0005488) -#### Added -- [strand of hair](http://purl.obolibrary.org/obo/UBERON_0001037) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [proton binding](http://purl.obolibrary.org/obo/GO_1901691) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +- [proton binding](http://purl.obolibrary.org/obo/GO_1901691) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_15378](http://purl.obolibrary.org/obo/CHEBI_15378) -### stratum basale of epidermis `http://purl.obolibrary.org/obo/UBERON_0002025` -#### Removed -- [stratum basale of epidermis](http://purl.obolibrary.org/obo/UBERON_0002025) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "consisting of non-keratinized, viable cells, in contrast to the outer (upper) layer of epidermis made up of keratinized, anucleated, non-viable cells" -- [stratum basale of epidermis](http://purl.obolibrary.org/obo/UBERON_0002025) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "replaces damaged cells on outside of body" +### proton channel activity `http://purl.obolibrary.org/obo/GO_0015252` #### Added -- [stratum basale of epidermis](http://purl.obolibrary.org/obo/UBERON_0002025) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [proton channel activity](http://purl.obolibrary.org/obo/GO_0015252) [label](http://www.w3.org/2000/01/rdf-schema#label) "proton channel activity" -- [stratum basale of epidermis](http://purl.obolibrary.org/obo/UBERON_0002025) SubClassOf [structure with developmental contribution from neural crest](http://purl.obolibrary.org/obo/UBERON_0010314) +- [proton channel activity](http://purl.obolibrary.org/obo/GO_0015252) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-9729542" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "OTOP1 transports H+ from the extracellular region to the cytosol" +- [proton channel activity](http://purl.obolibrary.org/obo/GO_0015252) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "hydrogen ion channel activity" -### stratum corneum of epidermis `http://purl.obolibrary.org/obo/UBERON_0002027` -#### Removed -- [stratum corneum of epidermis](http://purl.obolibrary.org/obo/UBERON_0002027) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "some oral epitehlium also has cornified layer / stratum corneum" +- [proton channel activity](http://purl.obolibrary.org/obo/GO_0015252) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Enables the facilitated diffusion of a hydrogen ion (by an energy-independent process) involving passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ISBN:0815340729" -- [stratum corneum of epidermis](http://purl.obolibrary.org/obo/UBERON_0002027) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The keratinized outermost layer of the epidermis, which is periodically shed.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:mtg_transport" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:CAM" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:pr" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [proton channel activity](http://purl.obolibrary.org/obo/GO_0015252) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RHEA:34979" + - [source](http://www.geneontology.org/formats/oboInOwl#source) "skos:broadMatch" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010597" +- [proton channel activity](http://purl.obolibrary.org/obo/GO_0015252) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "molecular_function" -- [stratum corneum of epidermis](http://purl.obolibrary.org/obo/UBERON_0002027) SubClassOf [periderm](http://purl.obolibrary.org/obo/UBERON_0003055) +- [proton channel activity](http://purl.obolibrary.org/obo/GO_0015252) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27278"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -#### Added -- [stratum corneum of epidermis](http://purl.obolibrary.org/obo/UBERON_0002027) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [proton channel activity](http://purl.obolibrary.org/obo/GO_0015252) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0015252" -- [stratum corneum of epidermis](http://purl.obolibrary.org/obo/UBERON_0002027) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [skin epidermis](http://purl.obolibrary.org/obo/UBERON_0001003) +- Class: [proton channel activity](http://purl.obolibrary.org/obo/GO_0015252) +- [proton channel activity](http://purl.obolibrary.org/obo/GO_0015252) EquivalentTo [monoatomic ion channel activity](http://purl.obolibrary.org/obo/GO_0005216) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_15378](http://purl.obolibrary.org/obo/CHEBI_15378)) -### stratum granulosum of epidermis `http://purl.obolibrary.org/obo/UBERON_0002069` +- [proton channel activity](http://purl.obolibrary.org/obo/GO_0015252) SubClassOf [has participant](http://purl.obolibrary.org/obo/RO_0000057) some [CHEBI_15378](http://purl.obolibrary.org/obo/CHEBI_15378) -#### Added -- [stratum granulosum of epidermis](http://purl.obolibrary.org/obo/UBERON_0002069) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [proton channel activity](http://purl.obolibrary.org/obo/GO_0015252) SubClassOf [proton transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015078) +- [proton channel activity](http://purl.obolibrary.org/obo/GO_0015252) SubClassOf [monoatomic ion channel activity](http://purl.obolibrary.org/obo/GO_0005216) -### stratum spinosum of epidermis `http://purl.obolibrary.org/obo/UBERON_0002026` -#### Removed -- [stratum spinosum of epidermis](http://purl.obolibrary.org/obo/UBERON_0002026) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "Has cells that produce and secrete bipolar lipids which prevent evaporation, helping to 'water-proof' the skin. Keratinization begins in the stratum spinosum. [Wikipedia:Stratum_spinosum]" -#### Added -- [stratum spinosum of epidermis](http://purl.obolibrary.org/obo/UBERON_0002026) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +### proton export across plasma membrane `http://purl.obolibrary.org/obo/GO_0120029` +#### Added +- [proton export across plasma membrane](http://purl.obolibrary.org/obo/GO_0120029) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "krc" -### stria vascularis of cochlear duct `http://purl.obolibrary.org/obo/UBERON_0002282` -#### Removed -- [stria vascularis of cochlear duct](http://purl.obolibrary.org/obo/UBERON_0002282) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "represented as a wall in FMA. MESH def implies part of spiral ligament but better represented as adjacency / overlaps" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [proton export across plasma membrane](http://purl.obolibrary.org/obo/GO_0120029) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0120029" -#### Added -- [stria vascularis of cochlear duct](http://purl.obolibrary.org/obo/UBERON_0002282) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [proton export across plasma membrane](http://purl.obolibrary.org/obo/GO_0120029) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/13271"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [proton export across plasma membrane](http://purl.obolibrary.org/obo/GO_0120029) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "proton export from cell" -### striated border microvillus layer `http://purl.obolibrary.org/obo/UBERON_0012425` -#### Removed -- [striated border microvillus layer](http://purl.obolibrary.org/obo/UBERON_0012425) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA class represents an individual microvillus" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [proton export across plasma membrane](http://purl.obolibrary.org/obo/GO_0120029) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The directed movement of hydrogen ions (protons) from inside a cell, across the plasma membrane and into the extracellular region." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:mah" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:9762918" +- [proton export across plasma membrane](http://purl.obolibrary.org/obo/GO_0120029) [label](http://www.w3.org/2000/01/rdf-schema#label) "proton export across plasma membrane" -### striated muscle tissue `http://purl.obolibrary.org/obo/UBERON_0002036` -#### Removed -- [striated muscle tissue](http://purl.obolibrary.org/obo/UBERON_0002036) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Voluntary muscle tissue arranged in bundles of fibers.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [proton export across plasma membrane](http://purl.obolibrary.org/obo/GO_0120029) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2017-03-31T17:39:03Z" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:CAM" +- [proton export across plasma membrane](http://purl.obolibrary.org/obo/GO_0120029) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010762" +- [proton export across plasma membrane](http://purl.obolibrary.org/obo/GO_0120029) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "hydrogen ion export across plasma membrane" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [proton export across plasma membrane](http://purl.obolibrary.org/obo/GO_0120029) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "hydrogen ion export from cell" +- Class: [proton export across plasma membrane](http://purl.obolibrary.org/obo/GO_0120029) +- [proton export across plasma membrane](http://purl.obolibrary.org/obo/GO_0120029) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([has target start location](http://purl.obolibrary.org/obo/RO_0002338) some [cytosol](http://purl.obolibrary.org/obo/GO_0005829)) and ([has target end location](http://purl.obolibrary.org/obo/RO_0002339) some [extracellular region](http://purl.obolibrary.org/obo/GO_0005576)) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [plasma membrane](http://purl.obolibrary.org/obo/GO_0005886)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_15378](http://purl.obolibrary.org/obo/CHEBI_15378)) -### striatum `http://purl.obolibrary.org/obo/UBERON_0002435` -#### Removed -- [striatum](http://purl.obolibrary.org/obo/UBERON_0002435) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA divides 'striatum of neuraxis' into 4, neostriatum is seperate class. In NIF these are synonyms. TODO - check striatum vs corpus striatum see Wikipedia:Striatum#History. Check caudoputamen" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [proton export across plasma membrane](http://purl.obolibrary.org/obo/GO_0120029) SubClassOf [export across plasma membrane](http://purl.obolibrary.org/obo/GO_0140115) -- [striatum](http://purl.obolibrary.org/obo/UBERON_0002435) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "striatal" +- [proton export across plasma membrane](http://purl.obolibrary.org/obo/GO_0120029) SubClassOf [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) -- [striatum](http://purl.obolibrary.org/obo/UBERON_0002435) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0006514](http://purl.obolibrary.org/obo/UBERON_0006514) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +### proton transmembrane transport `http://purl.obolibrary.org/obo/GO_1902600` +#### Added +- [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "pr" -### stroma `http://purl.obolibrary.org/obo/UBERON_0003891` -#### Removed -- [stroma](http://purl.obolibrary.org/obo/UBERON_0003891) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "stromal" +- [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_pir](http://purl.obolibrary.org/obo/go#goslim_pir) +- [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" +- [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0015991" -### stroma of bone marrow `http://purl.obolibrary.org/obo/UBERON_0007195` +- [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0006818" -#### Added -- [stroma of bone marrow](http://purl.obolibrary.org/obo/UBERON_0007195) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "hydrogen transmembrane transport" +- [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "hydrogen ion transport" -### stroma of thyroid gland `http://purl.obolibrary.org/obo/UBERON_0010233` +- [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The directed movement of a proton across a membrane." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:TermGenie" -#### Added -- [stroma of thyroid gland](http://purl.obolibrary.org/obo/UBERON_0010233) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GO_REF:0000069" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:pr" -### stromal choroid plexus macrophage `http://purl.obolibrary.org/obo/CL_4042005` +- [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:1902600" -#### Added -- [stromal choroid plexus macrophage](http://purl.obolibrary.org/obo/CL_4042005) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A choroid plexus macrophage that is part of a choroid plexus stroma." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:38347231" +- [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "ATP hydrolysis coupled proton transport" -- [stromal choroid plexus macrophage](http://purl.obolibrary.org/obo/CL_4042005) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "stromal cpMΦ" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) +- [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "passive proton transport, down the electrochemical gradient" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:38347231" +- [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "hydrogen transport" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37232741" +- [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0015992" -- [stromal choroid plexus macrophage](http://purl.obolibrary.org/obo/CL_4042005) [contributor](http://purl.org/dc/terms/contributor) [0000-0002-0098-8958](https://orcid.org/0000-0002-0098-8958) +- [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "hydrogen ion transmembrane transport" -- [stromal choroid plexus macrophage](http://purl.obolibrary.org/obo/CL_4042005) [date](http://purl.org/dc/terms/date) "2024-03-26T19:21:51Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) +- [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "proton transport" -- [stromal choroid plexus macrophage](http://purl.obolibrary.org/obo/CL_4042005) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "cpstMΦ" - - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) +- [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) [label](http://www.w3.org/2000/01/rdf-schema#label) "proton transmembrane transport" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37626977" +- [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2013-12-20T11:08:37Z" -- [stromal choroid plexus macrophage](http://purl.obolibrary.org/obo/CL_4042005) [label](http://www.w3.org/2000/01/rdf-schema#label) "stromal choroid plexus macrophage"@en +- Class: [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) -- Class: [stromal choroid plexus macrophage](http://purl.obolibrary.org/obo/CL_4042005) +- [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [membrane](http://purl.obolibrary.org/obo/GO_0016020)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_15378](http://purl.obolibrary.org/obo/CHEBI_15378)) -- [stromal choroid plexus macrophage](http://purl.obolibrary.org/obo/CL_4042005) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [choroid plexus stroma](http://purl.obolibrary.org/obo/UBERON_0005206) +- [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) SubClassOf [transmembrane transport](http://purl.obolibrary.org/obo/GO_0055085) -- [stromal choroid plexus macrophage](http://purl.obolibrary.org/obo/CL_4042005) SubClassOf [choroid-plexus macrophage](http://purl.obolibrary.org/obo/CL_0000880) +- [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_15378](http://purl.obolibrary.org/obo/CHEBI_15378) -### structure with developmental contribution from neural crest `http://purl.obolibrary.org/obo/UBERON_0010314` -#### Removed -- [structure with developmental contribution from neural crest](http://purl.obolibrary.org/obo/UBERON_0010314) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Grouping term for query purposes" +### proton transmembrane transporter activity `http://purl.obolibrary.org/obo/GO_0015078` +#### Added +- [proton transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015078) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-917841" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "Acidification of Tf:TfR1 containing endosome" +- [proton transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015078) [label](http://www.w3.org/2000/01/rdf-schema#label) "proton transmembrane transporter activity" -### stylopod `http://purl.obolibrary.org/obo/UBERON_0002472` -#### Removed -- [stylopod](http://purl.obolibrary.org/obo/UBERON_0002472) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "Naming conventions for pod terms under discussion within phenoscape group" +- [proton transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015078) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0015078" -- [stylopod](http://purl.obolibrary.org/obo/UBERON_0002472) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [zeugopod](http://purl.obolibrary.org/obo/UBERON_0002471) +- [proton transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015078) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-170026" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "Protons are translocated from the intermembrane space to the matrix" -- [stylopod](http://purl.obolibrary.org/obo/UBERON_0002472) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "stylopodial" +- [proton transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015078) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "molecular_function" -- [stylopod](http://purl.obolibrary.org/obo/UBERON_0002472) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [autopod region](http://purl.obolibrary.org/obo/UBERON_0002470) +- [proton transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015078) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Enables the transfer of a proton from one side of a membrane to the other." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:ai" +- [proton transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015078) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "hydrogen ion transmembrane transporter activity" +- [proton transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015078) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-164834" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "Enzyme-bound ATP is released" -### stylopodial skeleton `http://purl.obolibrary.org/obo/UBERON_0011583` -#### Removed -- [stylopodial skeleton](http://purl.obolibrary.org/obo/UBERON_0011583) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Proximal element of the limb skeleton consisting of the femur and humerus in the forelimb stylopodium and hindlimb stylopodium respectively.[VSAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "VSAO:NI" +- [proton transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015078) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-1222516" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "Intraphagosomal pH is lowered to 5 by V-ATPase" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0005007" +- [proton transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015078) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "proton transporter activity" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [proton transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015078) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-168313" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "Virion-associated M2 protein mediated ion infusion" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" +- [proton transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015078) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-74723" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "Endosome acidification" -- [stylopodial skeleton](http://purl.obolibrary.org/obo/UBERON_0011583) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "stylopodial" +- Class: [proton transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015078) -- [stylopodial skeleton](http://purl.obolibrary.org/obo/UBERON_0011583) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "propodial" +- [proton transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015078) EquivalentTo [transporter activity](http://purl.obolibrary.org/obo/GO_0005215) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [membrane](http://purl.obolibrary.org/obo/GO_0016020)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_15378](http://purl.obolibrary.org/obo/CHEBI_15378)) -#### Added -- [stylopodial skeleton](http://purl.obolibrary.org/obo/UBERON_0011583) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [proton transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015078) SubClassOf [transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0022857) +- [proton transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015078) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_15378](http://purl.obolibrary.org/obo/CHEBI_15378) -### subclavian artery `http://purl.obolibrary.org/obo/UBERON_0001533` -#### Removed -- [subclavian artery](http://purl.obolibrary.org/obo/UBERON_0001533) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "In human anatomy, the subclavian artery is a major artery of the upper thorax that mainly supplies blood to the head and arms. It is located below the clavicle, hence the name. There is a left subclavian and a right subclavian. On the left side of the body, the subclavian comes directly off the arch of aorta. On the right side of the body, the subclavian arises from the relatively short brachiocephalic artery (trunk) when it bifurcates into the subclavian and the right common carotid artery. The usual branches of the subclavian on both sides of the body are the vertebral artery, the internal thoracic artery, the thyrocervical trunk, the costocervical trunk and the dorsal scapular artery. The subclavian becomes the axillary artery at the lateral border of the first rib[WP]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Subclavian_artery" +- [proton transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0015078) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) -- [subclavian artery](http://purl.obolibrary.org/obo/UBERON_0001533) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The pectoral (subclavian) arteries originate from the dorsal aorta and takes the blood outward into the fin from the paired portion of the dorsal aorta posterior to the last aortic arch. Kimmel et al. 1993[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005086" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +### protoneuromast `http://purl.obolibrary.org/obo/UBERON_2005227` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [protoneuromast](http://purl.obolibrary.org/obo/UBERON_2005227) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" -- [subclavian artery](http://purl.obolibrary.org/obo/UBERON_0001533) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Artery which supplies blood via branches to the various muscles of the shoulder region and to the forelimb.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010232" +### protoplasmic astrocyte `http://purl.obolibrary.org/obo/CL_4042007` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [protoplasmic astrocyte](http://purl.obolibrary.org/obo/CL_4042007) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "This astrocyte extends its branches to several hundred of dendrites to multiple neurons to envelope 100,000 or more synapses. In humans, a protoplasmic astrocyte has an average diameter of 142 µm, and its diameter ranges between 100 and 400 µm. In rodents the average diameter of a protoplasmic astrocites is 56 µm." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:20012068" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:19279265" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +- [protoplasmic astrocyte](http://purl.obolibrary.org/obo/CL_4042007) [date](http://purl.org/dc/terms/date) "2024-04-08T16:01:24Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) -- [subclavian artery](http://purl.obolibrary.org/obo/UBERON_0001533) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [protoplasmic astrocyte](http://purl.obolibrary.org/obo/CL_4042007) [contributor](http://purl.org/dc/terms/contributor) [0000-0002-0098-8958](https://orcid.org/0000-0002-0098-8958) +- [protoplasmic astrocyte](http://purl.obolibrary.org/obo/CL_4042007) [label](http://www.w3.org/2000/01/rdf-schema#label) "protoplasmic astrocyte"@en +- [protoplasmic astrocyte](http://purl.obolibrary.org/obo/CL_4042007) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "An astrocyte with highly branched protrusions, found in neocortex layers 2-6. It is involved with the formation and elimination of synapses, glutamate clearance, modulation of synaptic functions and regulation of blood flow in response to synaptic activity." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:34616062" -### subclavian vein `http://purl.obolibrary.org/obo/UBERON_0001587` -#### Removed -- [subclavian vein](http://purl.obolibrary.org/obo/UBERON_0001587) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Vein which collects blood from the forelimb via the brachial veins and from the muscles and skin of the trunk via the anterior epigastric and lateral veins.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010510" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:25904839" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:19279265" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37139179" +- Class: [protoplasmic astrocyte](http://purl.obolibrary.org/obo/CL_4042007) +- [protoplasmic astrocyte](http://purl.obolibrary.org/obo/CL_4042007) SubClassOf [astrocyte of the cerebral cortex](http://purl.obolibrary.org/obo/CL_0002605) -### subcommissural organ `http://purl.obolibrary.org/obo/UBERON_0002139` -#### Removed -- [subcommissural organ](http://purl.obolibrary.org/obo/UBERON_0002139) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Hypendymal cells being part of the subcommissural organ is not axiomatized as it is rare in non-mammals. Consider using GCIs if this axiom needs to be added." +- [protoplasmic astrocyte](http://purl.obolibrary.org/obo/CL_4042007) SubClassOf [has soma location](http://purl.obolibrary.org/obo/RO_0002100) some [neocortex](http://purl.obolibrary.org/obo/UBERON_0001950) +- [protoplasmic astrocyte](http://purl.obolibrary.org/obo/CL_4042007) SubClassOf [cerebral cortex neuron](http://purl.obolibrary.org/obo/CL_0010012) +- [protoplasmic astrocyte](http://purl.obolibrary.org/obo/CL_4042007) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [neocortex](http://purl.obolibrary.org/obo/UBERON_0001950) -### subcutaneous adipose tissue `http://purl.obolibrary.org/obo/UBERON_0002190` -#### Removed -- [subcutaneous adipose tissue](http://purl.obolibrary.org/obo/UBERON_0002190) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D015434" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) +- [protoplasmic astrocyte](http://purl.obolibrary.org/obo/CL_4042007) SubClassOf [neural crest derived neuron](http://purl.obolibrary.org/obo/CL_0000029) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" -- [subcutaneous adipose tissue](http://purl.obolibrary.org/obo/UBERON_0002190) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "the superficial portion of the subcutaneous tissue which is specialized for fat storage[MP:0011156]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0011156" +### pseudounipolar neuron `http://purl.obolibrary.org/obo/CL_0000105` #### Added -- [subcutaneous adipose tissue](http://purl.obolibrary.org/obo/UBERON_0002190) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [pseudounipolar neuron](http://purl.obolibrary.org/obo/CL_0000105) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009057" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### subcutaneous lymph node `http://purl.obolibrary.org/obo/UBERON_0015453` +### pulmonary artery endothelial cell `http://purl.obolibrary.org/obo/CL_1001568` #### Added -- [subcutaneous lymph node](http://purl.obolibrary.org/obo/UBERON_0015453) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [pulmonary artery endothelial cell](http://purl.obolibrary.org/obo/CL_1001568) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any endothelial cell of vascular tree that is part of some pulmonary artery." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### subdivision of conjunctiva `http://purl.obolibrary.org/obo/UBERON_0010305` +### pulmonary blood vessel remodeling `http://purl.obolibrary.org/obo/GO_0101010` #### Added -- [subdivision of conjunctiva](http://purl.obolibrary.org/obo/UBERON_0010305) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [pulmonary blood vessel remodeling](http://purl.obolibrary.org/obo/GO_0101010) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### subdivision of digestive tract `http://purl.obolibrary.org/obo/UBERON_0004921` +### pulmonary lymphatic vessel `http://purl.obolibrary.org/obo/UBERON_0018227` #### Removed -- [subdivision of digestive tract](http://purl.obolibrary.org/obo/UBERON_0004921) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "intended to denote both embryonic and adult structures. Note the FMA grouping here is not quite correct." - -- [subdivision of digestive tract](http://purl.obolibrary.org/obo/UBERON_0004921) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00100315" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [pulmonary lymphatic vessel](http://purl.obolibrary.org/obo/UBERON_0018227) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### subdivision of organism along appendicular axis `http://purl.obolibrary.org/obo/UBERON_0010758` +### pulmonary part of lymphatic system `http://purl.obolibrary.org/obo/UBERON_0018226` #### Removed -- [subdivision of organism along appendicular axis](http://purl.obolibrary.org/obo/UBERON_0010758) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007018" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [pulmonary part of lymphatic system](http://purl.obolibrary.org/obo/UBERON_0018226) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### subdivision of oviduct `http://purl.obolibrary.org/obo/UBERON_0013515` +### pulmonary vascular system `http://purl.obolibrary.org/obo/UBERON_0008886` #### Removed -- [subdivision of oviduct](http://purl.obolibrary.org/obo/UBERON_0013515) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA class may only represent the uterine portion" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [pulmonary vascular system](http://purl.obolibrary.org/obo/UBERON_0008886) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +#### Added +- [pulmonary vascular system](http://purl.obolibrary.org/obo/UBERON_0008886) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### subdivision of skeleton `http://purl.obolibrary.org/obo/UBERON_0010912` +### pvalb GABAergic cortical interneuron `http://purl.obolibrary.org/obo/CL_4023018` #### Removed -- [subdivision of skeleton](http://purl.obolibrary.org/obo/UBERON_0010912) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster consisting of the skeletal elements that are part of the skeleton.[VSAO]" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "incorrect" +- [pvalb GABAergic cortical interneuron](http://purl.obolibrary.org/obo/CL_4023018) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A GABAergic interneuron located in the cerebral cortex that expresses Parvalbumin." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:27477017" + +#### Added +- [pvalb GABAergic cortical interneuron](http://purl.obolibrary.org/obo/CL_4023018) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A GABAergic interneuron located in the cerebral cortex that expresses Parvalbumin." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:27477017" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "VSAO:curator" +- [pvalb GABAergic cortical interneuron](http://purl.obolibrary.org/obo/CL_4023018) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000042" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" +### pyloric antrum `http://purl.obolibrary.org/obo/UBERON_0001165` +#### Added +- [pyloric antrum](http://purl.obolibrary.org/obo/UBERON_0001165) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### subdivision of spinal cord central canal `http://purl.obolibrary.org/obo/UBERON_0014538` +### pylorus `http://purl.obolibrary.org/obo/UBERON_0001166` +#### Removed +- [pylorus](http://purl.obolibrary.org/obo/UBERON_0001166) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) #### Added -- [subdivision of spinal cord central canal](http://purl.obolibrary.org/obo/UBERON_0014538) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [pylorus](http://purl.obolibrary.org/obo/UBERON_0001166) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### subiculum `http://purl.obolibrary.org/obo/UBERON_0002191` -#### Removed -- [subiculum](http://purl.obolibrary.org/obo/UBERON_0002191) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0004683](http://purl.obolibrary.org/obo/UBERON_0004683) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +### pyramidal neuron `http://purl.obolibrary.org/obo/CL_0000598` -- [subiculum](http://purl.obolibrary.org/obo/UBERON_0002191) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in DHBA subicular cortex is divided into subiculum, prosubiculum and supracallosal subiculum" +#### Added +- [pyramidal neuron](http://purl.obolibrary.org/obo/CL_0000598) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009273" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) + + +### quality `http://purl.obolibrary.org/obo/BFO_0000019` +#### Removed +- [quality](http://purl.obolibrary.org/obo/BFO_0000019) [label](http://www.w3.org/2000/01/rdf-schema#label) "quality"@en -- [subiculum](http://purl.obolibrary.org/obo/UBERON_0002191) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002728](http://purl.obolibrary.org/obo/UBERON_0002728) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +- [quality](http://purl.obolibrary.org/obo/BFO_0000019) SubClassOf [specifically dependent continuant](http://purl.obolibrary.org/obo/BFO_0000020) -- [subiculum](http://purl.obolibrary.org/obo/UBERON_0002191) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "The pyramidal neurons in the subiculum exhibit transitions between two modes of action potential output: bursting and single spiking. The transitions between these two modes is thought to be important for routing information out of the hippocampus. It is the site responsible for ictal activity in some cases of human epilepsy. It has also been implicated in working memory and drug addiction.[Wikipedia:Subiculum]" +- [quality](http://purl.obolibrary.org/obo/BFO_0000019) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) only [quality](http://purl.obolibrary.org/obo/BFO_0000019) -- [subiculum](http://purl.obolibrary.org/obo/UBERON_0002191) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "subicular" -- [subiculum](http://purl.obolibrary.org/obo/UBERON_0002191) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0001953](http://purl.obolibrary.org/obo/UBERON_0001953) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" -- [subiculum](http://purl.obolibrary.org/obo/UBERON_0002191) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "In ABA SUB is part of the retrohippocampal region, along with the entorhinal area. this is in the hippocampal formation but not the hippocampal region" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ABA" +### radial glial cell `http://purl.obolibrary.org/obo/CL_0000681` +#### Added +- [radial glial cell](http://purl.obolibrary.org/obo/CL_0000681) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009292" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### submitter `http://www.geneontology.org/formats/oboInOwl#submitter` +### realizable entity `http://purl.obolibrary.org/obo/BFO_0000017` #### Removed -- AnnotationProperty: [submitter](http://www.geneontology.org/formats/oboInOwl#submitter) +- [realizable entity](http://purl.obolibrary.org/obo/BFO_0000017) [label](http://www.w3.org/2000/01/rdf-schema#label) "realizable entity"@en +- [realizable entity](http://purl.obolibrary.org/obo/BFO_0000017) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A specifically dependent continuant that inheres in continuant entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances."@en +- Class: [realizable entity](http://purl.obolibrary.org/obo/BFO_0000017) -### submucosa `http://purl.obolibrary.org/obo/UBERON_0000009` -#### Removed -- [submucosa](http://purl.obolibrary.org/obo/UBERON_0000009) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "submucosal" +- [realizable entity](http://purl.obolibrary.org/obo/BFO_0000017) DisjointWith [quality](http://purl.obolibrary.org/obo/BFO_0000019) + +- [realizable entity](http://purl.obolibrary.org/obo/BFO_0000017) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) only [realizable entity](http://purl.obolibrary.org/obo/BFO_0000017) + +- [realizable entity](http://purl.obolibrary.org/obo/BFO_0000017) SubClassOf [specifically dependent continuant](http://purl.obolibrary.org/obo/BFO_0000020) -### submucosa of anal canal `http://purl.obolibrary.org/obo/UBERON_0003329` +### receptor complex `http://purl.obolibrary.org/obo/GO_0043235` #### Added -- [submucosa of anal canal](http://purl.obolibrary.org/obo/UBERON_0003329) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [receptor complex](http://purl.obolibrary.org/obo/GO_0043235) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -### submucosa of biliary tree `http://purl.obolibrary.org/obo/UBERON_0004938` +### rectal lumen `http://purl.obolibrary.org/obo/UBERON_0009670` #### Added -- [submucosa of biliary tree](http://purl.obolibrary.org/obo/UBERON_0004938) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [rectal lumen](http://purl.obolibrary.org/obo/UBERON_0009670) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### submucosa of bronchiole `http://purl.obolibrary.org/obo/UBERON_0004952` +### recurrent laryngeal nerve `http://purl.obolibrary.org/obo/UBERON_0003716` #### Added -- [submucosa of bronchiole](http://purl.obolibrary.org/obo/UBERON_0004952) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [recurrent laryngeal nerve](http://purl.obolibrary.org/obo/UBERON_0003716) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### submucosa of bronchus `http://purl.obolibrary.org/obo/UBERON_0001957` +### red pulp of spleen `http://purl.obolibrary.org/obo/UBERON_0001250` +#### Removed +- [red pulp of spleen](http://purl.obolibrary.org/obo/UBERON_0001250) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -#### Added -- [submucosa of bronchus](http://purl.obolibrary.org/obo/UBERON_0001957) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) -### submucosa of trachea `http://purl.obolibrary.org/obo/UBERON_0002202` +### red sensitive photoreceptor cell `http://purl.obolibrary.org/obo/CL_0000497` #### Added -- [submucosa of trachea](http://purl.obolibrary.org/obo/UBERON_0002202) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [red sensitive photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000497) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009224" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### submucosa of urinary bladder `http://purl.obolibrary.org/obo/UBERON_0004943` +### reelin GABAergic cortical interneuron `http://purl.obolibrary.org/obo/CL_4032001` #### Added -- [submucosa of urinary bladder](http://purl.obolibrary.org/obo/UBERON_0004943) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [reelin GABAergic cortical interneuron](http://purl.obolibrary.org/obo/CL_4032001) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### submucosa of uterine tube `http://purl.obolibrary.org/obo/UBERON_0011298` +### regenerating anatomical structure `http://purl.obolibrary.org/obo/UBERON_0007567` #### Added -- [submucosa of uterine tube](http://purl.obolibrary.org/obo/UBERON_0011298) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [regenerating anatomical structure](http://purl.obolibrary.org/obo/UBERON_0007567) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### submucosal gland `http://purl.obolibrary.org/obo/UBERON_0011148` +### regular connective tissue `http://purl.obolibrary.org/obo/UBERON_0007845` #### Removed -- [submucosal gland](http://purl.obolibrary.org/obo/UBERON_0011148) SubClassOf [continuous with](http://purl.obolibrary.org/obo/RO_0002150) some [epithelium of mucosa](http://purl.obolibrary.org/obo/UBERON_0003350) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "perforates" +- [regular connective tissue](http://purl.obolibrary.org/obo/UBERON_0007845) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) #### Added -- [submucosal gland](http://purl.obolibrary.org/obo/UBERON_0011148) SubClassOf [continuous with](http://purl.obolibrary.org/obo/RO_0002150) some [epithelium of mucosa](http://purl.obolibrary.org/obo/UBERON_0003350) +- [regular connective tissue](http://purl.obolibrary.org/obo/UBERON_0007845) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### subserosa of uterine tube `http://purl.obolibrary.org/obo/UBERON_8480037` +### regulates `http://purl.obolibrary.org/obo/RO_0002211` +#### Removed +- [regulates](http://purl.obolibrary.org/obo/RO_0002211) o [has effector activity](http://purl.obolibrary.org/obo/RO_0002025) SubPropertyOf: [regulates](http://purl.obolibrary.org/obo/RO_0002211) + +- [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) o [directly regulates](http://purl.obolibrary.org/obo/RO_0002578) SubPropertyOf: [regulates](http://purl.obolibrary.org/obo/RO_0002211) -#### Added -- [subserosa of uterine tube](http://purl.obolibrary.org/obo/UBERON_8480037) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) -### substantia nigra `http://purl.obolibrary.org/obo/UBERON_0002038` +### regulates activity of `http://purl.obolibrary.org/obo/RO_0011002` #### Removed -- [substantia nigra](http://purl.obolibrary.org/obo/UBERON_0002038) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) the substantia nigra first appears in reptiles and is best developed in primates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [regulates activity of](http://purl.obolibrary.org/obo/RO_0011002) [label](http://www.w3.org/2000/01/rdf-schema#label) "regulates activity of" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [regulates activity of](http://purl.obolibrary.org/obo/RO_0011002) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- ObjectProperty: [regulates activity of](http://purl.obolibrary.org/obo/RO_0011002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001573" +- [regulates activity of](http://purl.obolibrary.org/obo/RO_0011002) Domain [material entity](http://purl.obolibrary.org/obo/BFO_0000040) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0471090588 Hildebrand M, Analysis of vertebrate structure (1983) p.336" +- [regulates activity of](http://purl.obolibrary.org/obo/RO_0011002) Range [material entity](http://purl.obolibrary.org/obo/BFO_0000040) -- [substantia nigra](http://purl.obolibrary.org/obo/UBERON_0002038) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Subdivision of the midbrain anterior to the midbrain tegmentum which contains darkly pigmented neurons[FMA][FMA:67947]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:67947" +- [regulates activity of](http://purl.obolibrary.org/obo/RO_0011002) SubPropertyOf: [causally influences](http://purl.obolibrary.org/obo/RO_0002566) -### substantia propria of cornea `http://purl.obolibrary.org/obo/UBERON_0001777` +### regulates characteristic `http://purl.obolibrary.org/obo/RO_0019000` #### Removed -- [substantia propria of cornea](http://purl.obolibrary.org/obo/UBERON_0001777) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of tissue that is located basal to Bowman's layer and distal to Descemet's membrane and is comprised largely of connective tissue.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:ZDB-PUB-061010-3" +- [regulates characteristic](http://purl.obolibrary.org/obo/RO_0019000) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [regulates characteristic](http://purl.obolibrary.org/obo/RO_0019000) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "gene_ontology" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [regulates characteristic](http://purl.obolibrary.org/obo/RO_0019000) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "regulates_characteristic" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002189" +- [regulates characteristic](http://purl.obolibrary.org/obo/RO_0019000) [label](http://www.w3.org/2000/01/rdf-schema#label) "regulates characteristic" -- [substantia propria of cornea](http://purl.obolibrary.org/obo/UBERON_0001777) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: subclass tissue (CARO:0000043) CHANGED TO: has_developmental_contribution_from tissue (UBERON:0000479)[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [regulates characteristic](http://purl.obolibrary.org/obo/RO_0019000) [id](http://www.geneontology.org/formats/oboInOwl#id) "regulates_characteristic" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [regulates characteristic](http://purl.obolibrary.org/obo/RO_0019000) [contributor](http://purl.org/dc/terms/contributor) [0000-0002-8688-6599](https://orcid.org/0000-0002-8688-6599) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002189" +- [regulates characteristic](http://purl.obolibrary.org/obo/RO_0019000) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0019000" -- [substantia propria of cornea](http://purl.obolibrary.org/obo/UBERON_0001777) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: subclass tissue (CARO:0000043) CHANGED TO: develops_from tissue (UBERON:0000479)[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- ObjectProperty: [regulates characteristic](http://purl.obolibrary.org/obo/RO_0019000) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [regulates characteristic](http://purl.obolibrary.org/obo/RO_0019000) Domain [process](http://purl.obolibrary.org/obo/BFO_0000015) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002189" +- [regulates characteristic](http://purl.obolibrary.org/obo/RO_0019000) Range [quality](http://purl.obolibrary.org/obo/PATO_0000001) -- [substantia propria of cornea](http://purl.obolibrary.org/obo/UBERON_0001777) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [mesenchyme derived from head neural crest](http://purl.obolibrary.org/obo/UBERON_0007213) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0781772214" +- [regulates characteristic](http://purl.obolibrary.org/obo/RO_0019000) SubPropertyOf: [causally related to](http://purl.obolibrary.org/obo/RO_0002410) - - [inferred_by](http://www.geneontology.org/formats/oboInOwl#inferred_by) "cjm" +- [regulates](http://purl.obolibrary.org/obo/RO_0002211) o [regulates characteristic](http://purl.obolibrary.org/obo/RO_0019000) SubPropertyOf: [regulates characteristic](http://purl.obolibrary.org/obo/RO_0019000) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia" -#### Added -- [substantia propria of cornea](http://purl.obolibrary.org/obo/UBERON_0001777) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [mesenchyme derived from head neural crest](http://purl.obolibrary.org/obo/UBERON_0007213) -- [substantia propria of cornea](http://purl.obolibrary.org/obo/UBERON_0001777) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) +### regulation of DNA catabolic process `http://purl.obolibrary.org/obo/GO_1903624` + +#### Added +- [regulation of DNA catabolic process](http://purl.obolibrary.org/obo/GO_1903624) SubClassOf [regulation of macromolecule metabolic process](http://purl.obolibrary.org/obo/GO_0060255) -### substratum of layer of retina `http://purl.obolibrary.org/obo/UBERON_0008921` +### regulation of DNA metabolic process `http://purl.obolibrary.org/obo/GO_0051052` +#### Removed +- [regulation of DNA metabolic process](http://purl.obolibrary.org/obo/GO_0051052) SubClassOf [regulation of macromolecule metabolic process](http://purl.obolibrary.org/obo/GO_0060255) #### Added -- [substratum of layer of retina](http://purl.obolibrary.org/obo/UBERON_0008921) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [regulation of DNA metabolic process](http://purl.obolibrary.org/obo/GO_0051052) SubClassOf [regulation of metabolic process](http://purl.obolibrary.org/obo/GO_0019222) -### sulcus of brain `http://purl.obolibrary.org/obo/UBERON_0013118` -#### Removed -- [sulcus of brain](http://purl.obolibrary.org/obo/UBERON_0013118) [RO_0002174](http://purl.obolibrary.org/obo/RO_0002174) [Mus ](http://purl.obolibrary.org/obo/NCBITaxon_10088) +### regulation of DNA-binding transcription factor activity `http://purl.obolibrary.org/obo/GO_0051090` -- [sulcus of brain](http://purl.obolibrary.org/obo/UBERON_0013118) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Indentation on the surface of the brain or spinal cord that forms a recognizable landmark, e.g., central sulcus, sulcus limitans (CUMBO)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://neurolex.org/wiki/Cumbo_terms" +#### Added +- [regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051090) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" +- [regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051090) [label](http://www.w3.org/2000/01/rdf-schema#label) "regulation of DNA-binding transcription factor activity" +- [regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051090) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:2000823" -### superficial to `http://purl.obolibrary.org/obo/BSPO_0000108` -#### Removed -- [superficial to](http://purl.obolibrary.org/obo/BSPO_0000108) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +- [regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051090) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0051090" -- [superficial to](http://purl.obolibrary.org/obo/BSPO_0000108) [id](http://www.geneontology.org/formats/oboInOwl#id) "superficial_to" +- [regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051090) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "regulation of transcription factor activity" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:dph" -- [superficial to](http://purl.obolibrary.org/obo/BSPO_0000108) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0000108" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:tb" -- [superficial to](http://purl.obolibrary.org/obo/BSPO_0000108) [label](http://www.w3.org/2000/01/rdf-schema#label) "superficial to" +- [regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051090) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "regulation of thyroid hormone receptor activity" -- [superficial to](http://purl.obolibrary.org/obo/BSPO_0000108) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "superficial_to" +- [regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051090) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of sequence-specific DNA binding transcription factor activity" +- [regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051090) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that modulates the frequency, rate or extent of the activity of a transcription factor, any factor involved in the initiation or regulation of transcription." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:ai" +- [regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051090) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:1904167" -### superior mesenteric artery `http://purl.obolibrary.org/obo/UBERON_0001182` -#### Removed -- [superior mesenteric artery](http://purl.obolibrary.org/obo/UBERON_0001182) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "Origin: abdominal aorta; branches, inferior pancreaticoduodenal, jejunal, ileal, ileocolic, right colic, and middle colic arteries; distribution: small intestine, proximal half of colon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "BTO" +- [regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051090) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) +- [regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051090) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "regulation of androgen receptor activity" +- [regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051090) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of DNA binding transcription factor activity" -### superior olivary complex `http://purl.obolibrary.org/obo/UBERON_0002128` -#### Removed -- [superior olivary complex](http://purl.obolibrary.org/obo/UBERON_0002128) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D065832" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- Class: [regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051090) - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) +- [regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051090) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([regulates](http://purl.obolibrary.org/obo/RO_0002211) some [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700)) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +- [regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051090) SubClassOf [regulates](http://purl.obolibrary.org/obo/RO_0002211) some [DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0003700) -- [superior olivary complex](http://purl.obolibrary.org/obo/UBERON_0002128) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In mice, the superior olivary nucleus is a small cylindrical mass on the dorsal surface of the lateral part of the trapezoid body of the pons, and it is situated immediately above the inferior olivary nucleus. It receives projections from the cochlear nucleus and thus is involved in the perception of sound[GO:0021718]" +- [regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051090) SubClassOf [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) -- [superior olivary complex](http://purl.obolibrary.org/obo/UBERON_0002128) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The SOC displays a significant interspecies variation, being largest in bats and rodents and smaller in primates." +- [regulation of DNA-binding transcription factor activity](http://purl.obolibrary.org/obo/GO_0051090) SubClassOf [regulation of molecular function](http://purl.obolibrary.org/obo/GO_0065009) -- [superior olivary complex](http://purl.obolibrary.org/obo/UBERON_0002128) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0006840](http://purl.obolibrary.org/obo/UBERON_0006840) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" -- [superior olivary complex](http://purl.obolibrary.org/obo/UBERON_0002128) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0007634](http://purl.obolibrary.org/obo/UBERON_0007634) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +### regulation of DNA-templated transcription `http://purl.obolibrary.org/obo/GO_0006355` -- [superior olivary complex](http://purl.obolibrary.org/obo/UBERON_0002128) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002597](http://purl.obolibrary.org/obo/UBERON_0002597) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +#### Added +- [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) [label](http://www.w3.org/2000/01/rdf-schema#label) "regulation of DNA-templated transcription" +- [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote](http://purl.obolibrary.org/obo/go#goslim_prokaryote) +- [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of transcription, DNA-templated" -### superior salivatory nucleus `http://purl.obolibrary.org/obo/UBERON_0002149` -#### Removed -- [superior salivatory nucleus](http://purl.obolibrary.org/obo/UBERON_0002149) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002151](http://purl.obolibrary.org/obo/UBERON_0002151) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +- [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/25256"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [superior salivatory nucleus](http://purl.obolibrary.org/obo/UBERON_0002149) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002968](http://purl.obolibrary.org/obo/UBERON_0002968) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +- [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of transcription, DNA-dependent" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH" -- [superior salivatory nucleus](http://purl.obolibrary.org/obo/UBERON_0002149) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002147](http://purl.obolibrary.org/obo/UBERON_0002147) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +- [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_drosophila](http://purl.obolibrary.org/obo/go#goslim_drosophila) -- [superior salivatory nucleus](http://purl.obolibrary.org/obo/UBERON_0002149) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0007632](http://purl.obolibrary.org/obo/UBERON_0007632) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +- [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "regulation of gene-specific transcription" -- [superior salivatory nucleus](http://purl.obolibrary.org/obo/UBERON_0002149) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002963](http://purl.obolibrary.org/obo/UBERON_0002963) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +- [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0032583" -- [superior salivatory nucleus](http://purl.obolibrary.org/obo/UBERON_0002149) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002682](http://purl.obolibrary.org/obo/UBERON_0002682) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +- [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) -- [superior salivatory nucleus](http://purl.obolibrary.org/obo/UBERON_0002149) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0003011](http://purl.obolibrary.org/obo/UBERON_0003011) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +- [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0006355" -- [superior salivatory nucleus](http://purl.obolibrary.org/obo/UBERON_0002149) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002633](http://purl.obolibrary.org/obo/UBERON_0002633) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +- [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0061019" -- [superior salivatory nucleus](http://purl.obolibrary.org/obo/UBERON_0002149) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002143](http://purl.obolibrary.org/obo/UBERON_0002143) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +- [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -- [superior salivatory nucleus](http://purl.obolibrary.org/obo/UBERON_0002149) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of cellular transcription, DNA-dependent" -- [superior salivatory nucleus](http://purl.obolibrary.org/obo/UBERON_0002149) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future superior salivatory nucleus](http://purl.obolibrary.org/obo/UBERON_0010125) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" +- [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0045449" -#### Added -- [superior salivatory nucleus](http://purl.obolibrary.org/obo/UBERON_0002149) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future superior salivatory nucleus](http://purl.obolibrary.org/obo/UBERON_0010125) +- [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:go_curators" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH" -### superior vesical artery `http://purl.obolibrary.org/obo/UBERON_0001312` -#### Removed -- [superior vesical artery](http://purl.obolibrary.org/obo/UBERON_0001312) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The first part of the superior vesical artery represents the terminal section of the previous portion of the umbilical artery (fetal hypogastric artery)[WP]" +- [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_generic](http://purl.obolibrary.org/obo/go#goslim_generic) +- [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "transcriptional control" +- Class: [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) -### supplies `http://purl.obolibrary.org/obo/RO_0002178` -#### Removed -- [supplies](http://purl.obolibrary.org/obo/RO_0002178) [label](http://www.w3.org/2000/01/rdf-schema#label) "supplies" +- [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([regulates](http://purl.obolibrary.org/obo/RO_0002211) some [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351)) -- [supplies](http://purl.obolibrary.org/obo/RO_0002178) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [20064205](http://www.ncbi.nlm.nih.gov/pubmed/20064205) +- [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) SubClassOf [regulates](http://purl.obolibrary.org/obo/RO_0002211) some [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) -- [supplies](http://purl.obolibrary.org/obo/RO_0002178) [id](http://www.geneontology.org/formats/oboInOwl#id) "supplies" +- [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) SubClassOf [regulation of gene expression](http://purl.obolibrary.org/obo/GO_0010468) -- [supplies](http://purl.obolibrary.org/obo/RO_0002178) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002178" -- [supplies](http://purl.obolibrary.org/obo/RO_0002178) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +### regulation of RNA polymerase II regulatory region sequence-specific DNA binding `http://purl.obolibrary.org/obo/GO_1903025` -- [supplies](http://purl.obolibrary.org/obo/RO_0002178) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "supplies" +#### Added +- [regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903025) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -- [supplies](http://purl.obolibrary.org/obo/RO_0002178) Domain [artery](http://purl.obolibrary.org/obo/UBERON_0001637) +- [regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903025) [label](http://www.w3.org/2000/01/rdf-schema#label) "regulation of RNA polymerase II regulatory region sequence-specific DNA binding" +- [regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903025) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2014-05-15T17:55:54Z" +- [regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903025) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -### surface structure `http://purl.obolibrary.org/obo/UBERON_0003102` -#### Removed -- [surface structure](http://purl.obolibrary.org/obo/UBERON_0003102) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organism subdivision which is the collection of anatomical structures on the body surface.[ZFA]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903025) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that modulates the frequency, rate or extent of RNA polymerase II regulatory region sequence-specific DNA binding." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:dph" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000292" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:krc" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:TermGenie" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GO_REF:0000059" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:20026326" +- [regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903025) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "dph" -### surrounded by `http://purl.obolibrary.org/obo/RO_0002219` -#### Removed -- [surrounded by](http://purl.obolibrary.org/obo/RO_0002219) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +- [regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903025) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:1903025" -- [surrounded by](http://purl.obolibrary.org/obo/RO_0002219) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "surrounded_by" +- Class: [regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903025) -- [surrounded by](http://purl.obolibrary.org/obo/RO_0002219) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +- [regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903025) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([regulates](http://purl.obolibrary.org/obo/RO_0002211) some [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977)) -- [surrounded by](http://purl.obolibrary.org/obo/RO_0002219) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) +- [regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903025) SubClassOf [regulates](http://purl.obolibrary.org/obo/RO_0002211) some [RNA polymerase II transcription regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0000977) -- [surrounded by](http://purl.obolibrary.org/obo/RO_0002219) [id](http://www.geneontology.org/formats/oboInOwl#id) "surrounded_by" +- [regulation of RNA polymerase II regulatory region sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_1903025) SubClassOf [regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000677) -- [surrounded by](http://purl.obolibrary.org/obo/RO_0002219) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) -- [surrounded by](http://purl.obolibrary.org/obo/RO_0002219) [label](http://www.w3.org/2000/01/rdf-schema#label) "surrounded by" +### regulation of apoptotic process `http://purl.obolibrary.org/obo/GO_0042981` -- [surrounded by](http://purl.obolibrary.org/obo/RO_0002219) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002219" +#### Added +- [regulation of apoptotic process](http://purl.obolibrary.org/obo/GO_0042981) [never in taxon](http://purl.obolibrary.org/obo/RO_0002161) [Schizosaccharomyces pombe](http://purl.obolibrary.org/obo/NCBITaxon_4896) +- [regulation of apoptotic process](http://purl.obolibrary.org/obo/GO_0042981) DisjointWith [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Schizosaccharomyces pombe](http://purl.obolibrary.org/obo/NCBITaxon_4896) +- [regulation of apoptotic process](http://purl.obolibrary.org/obo/GO_0042981) SubClassOf not ([in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Schizosaccharomyces pombe](http://purl.obolibrary.org/obo/NCBITaxon_4896)) -### surrounds `http://purl.obolibrary.org/obo/RO_0002221` -#### Removed -- [surrounds](http://purl.obolibrary.org/obo/RO_0002221) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "surrounds" +- [regulation of apoptotic process](http://purl.obolibrary.org/obo/GO_0042981) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some (not ([Schizosaccharomyces pombe](http://purl.obolibrary.org/obo/NCBITaxon_4896))) -- [surrounds](http://purl.obolibrary.org/obo/RO_0002221) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) -- [surrounds](http://purl.obolibrary.org/obo/RO_0002221) [id](http://www.geneontology.org/formats/oboInOwl#id) "surrounds" +### regulation of biological process `http://purl.obolibrary.org/obo/GO_0050789` -- [surrounds](http://purl.obolibrary.org/obo/RO_0002221) [label](http://www.w3.org/2000/01/rdf-schema#label) "surrounds" +#### Added +- [regulation of biological process](http://purl.obolibrary.org/obo/GO_0050789) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [surrounds](http://purl.obolibrary.org/obo/RO_0002221) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) -- [surrounds](http://purl.obolibrary.org/obo/RO_0002221) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) +### regulation of bone remodeling `http://purl.obolibrary.org/obo/GO_0046850` -- [surrounds](http://purl.obolibrary.org/obo/RO_0002221) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +#### Added +- [regulation of bone remodeling](http://purl.obolibrary.org/obo/GO_0046850) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) only [Eumetazoa](http://purl.obolibrary.org/obo/NCBITaxon_6072) -- [surrounds](http://purl.obolibrary.org/obo/RO_0002221) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002221" +- [regulation of bone remodeling](http://purl.obolibrary.org/obo/GO_0046850) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Vertebrata ](http://purl.obolibrary.org/obo/NCBITaxon_7742) +- [regulation of bone remodeling](http://purl.obolibrary.org/obo/GO_0046850) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) only [Vertebrata ](http://purl.obolibrary.org/obo/NCBITaxon_7742) -### sweat gland `http://purl.obolibrary.org/obo/UBERON_0001820` +### regulation of border follicle cell migration `http://purl.obolibrary.org/obo/GO_1903684` #### Removed -- [sweat gland](http://purl.obolibrary.org/obo/UBERON_0001820) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A gland that secretes sweat, found in the dermis or subcutaneous tissue, opening by a duct on the body surface. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/sweat+gland" +- [regulation of border follicle cell migration](http://purl.obolibrary.org/obo/GO_1903684) SubClassOf [regulation of reproductive process](http://purl.obolibrary.org/obo/GO_2000241) + - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001467" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### regulation of cardiac muscle cell action potential involved in regulation of contraction `http://purl.obolibrary.org/obo/GO_0098909` + +#### Added +- [regulation of cardiac muscle cell action potential involved in regulation of contraction](http://purl.obolibrary.org/obo/GO_0098909) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### regulation of catecholamine metabolic process `http://purl.obolibrary.org/obo/GO_0042069` +#### Removed +- [regulation of catecholamine metabolic process](http://purl.obolibrary.org/obo/GO_0042069) SubClassOf [regulation of cellular metabolic process](http://purl.obolibrary.org/obo/GO_0031323) -- [sweat gland](http://purl.obolibrary.org/obo/UBERON_0001820) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans a system of apocrine - and merocrine sweat glands is the main method of cooling. Many other mammals rely on panting or other means as a primary source of cooling, but still use sweat glands to aid in body temperature regulation" -- [sweat gland](http://purl.obolibrary.org/obo/UBERON_0001820) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Sweat glands (also called sudoriferous glands) are unique to mammals.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001467" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### regulation of cell activation `http://purl.obolibrary.org/obo/GO_0050865` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [regulation of cell activation](http://purl.obolibrary.org/obo/GO_0050865) [never in taxon](http://purl.obolibrary.org/obo/RO_0002161) [Ascomycota](http://purl.obolibrary.org/obo/NCBITaxon_4890) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [regulation of cell activation](http://purl.obolibrary.org/obo/GO_0050865) DisjointWith [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Ascomycota](http://purl.obolibrary.org/obo/NCBITaxon_4890) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0471090588 Hildebrand M, Analysis of vertebrate structure (1983) p.101" +- [regulation of cell activation](http://purl.obolibrary.org/obo/GO_0050865) SubClassOf not ([in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Ascomycota](http://purl.obolibrary.org/obo/NCBITaxon_4890)) -- [sweat gland](http://purl.obolibrary.org/obo/UBERON_0001820) SubClassOf [has quality](http://purl.obolibrary.org/obo/RO_0000086) some [tubular](http://purl.obolibrary.org/obo/PATO_0002299) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "coiled tubular" +- [regulation of cell activation](http://purl.obolibrary.org/obo/GO_0050865) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some (not ([Ascomycota](http://purl.obolibrary.org/obo/NCBITaxon_4890))) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Tubular_gland" -- [sweat gland](http://purl.obolibrary.org/obo/UBERON_0001820) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [sweat gland placode](http://purl.obolibrary.org/obo/UBERON_0005089) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" +### regulation of cell growth by extracellular stimulus `http://purl.obolibrary.org/obo/GO_0001560` #### Added -- [sweat gland](http://purl.obolibrary.org/obo/UBERON_0001820) SubClassOf [has quality](http://purl.obolibrary.org/obo/RO_0000086) some [tubular](http://purl.obolibrary.org/obo/PATO_0002299) +- [regulation of cell growth by extracellular stimulus](http://purl.obolibrary.org/obo/GO_0001560) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "interpretation of external signals that regulate cell growth" -- [sweat gland](http://purl.obolibrary.org/obo/UBERON_0001820) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [sweat gland placode](http://purl.obolibrary.org/obo/UBERON_0005089) +- [regulation of cell growth by extracellular stimulus](http://purl.obolibrary.org/obo/GO_0001560) [label](http://www.w3.org/2000/01/rdf-schema#label) "regulation of cell growth by extracellular stimulus" +- [regulation of cell growth by extracellular stimulus](http://purl.obolibrary.org/obo/GO_0001560) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of growth by exogenous signal" -### sweat of palm `http://purl.obolibrary.org/obo/UBERON_0014392` -#### Removed -- [sweat of palm](http://purl.obolibrary.org/obo/UBERON_0014392) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "serves a purpose of increasing friction on the palms of hands or the pads of paws[WP]" +- [regulation of cell growth by extracellular stimulus](http://purl.obolibrary.org/obo/GO_0001560) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process in which external signals modulate the frequency, rate or extent of cell growth, the irreversible increase in size of a cell over time." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:dph" +- [regulation of cell growth by extracellular stimulus](http://purl.obolibrary.org/obo/GO_0001560) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0001560" +- [regulation of cell growth by extracellular stimulus](http://purl.obolibrary.org/obo/GO_0001560) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of growth by exogenous stimulus" -### sympathetic ganglion `http://purl.obolibrary.org/obo/UBERON_0001806` -#### Removed -- [sympathetic ganglion](http://purl.obolibrary.org/obo/UBERON_0001806) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D005728" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [regulation of cell growth by extracellular stimulus](http://purl.obolibrary.org/obo/GO_0001560) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of cell growth by sensing of exogenous stimulus" - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) +- [regulation of cell growth by extracellular stimulus](http://purl.obolibrary.org/obo/GO_0001560) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of growth by external stimulus" - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +- [regulation of cell growth by extracellular stimulus](http://purl.obolibrary.org/obo/GO_0001560) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -#### Added -- [sympathetic ganglion](http://purl.obolibrary.org/obo/UBERON_0001806) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) +- [regulation of cell growth by extracellular stimulus](http://purl.obolibrary.org/obo/GO_0001560) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of growth by external signal" +- [regulation of cell growth by extracellular stimulus](http://purl.obolibrary.org/obo/GO_0001560) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of cell growth by detection of exogenous stimulus" -### sympathetic nervous system `http://purl.obolibrary.org/obo/UBERON_0000013` -#### Removed -- [sympathetic nervous system](http://purl.obolibrary.org/obo/UBERON_0000013) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the autonomic nervous system which has opposing physiological effects of the parasympathetic nervous system. Examples include increasing the heart rate or constricting the blood vessels.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [regulation of cell growth by extracellular stimulus](http://purl.obolibrary.org/obo/GO_0001560) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of growth by external stimuli" + +- [regulation of cell growth by extracellular stimulus](http://purl.obolibrary.org/obo/GO_0001560) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of growth by exogenous stimuli" + +- Class: [regulation of cell growth by extracellular stimulus](http://purl.obolibrary.org/obo/GO_0001560) + +- [regulation of cell growth by extracellular stimulus](http://purl.obolibrary.org/obo/GO_0001560) EquivalentTo [regulation of cell growth](http://purl.obolibrary.org/obo/GO_0001558) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [cellular response to stimulus](http://purl.obolibrary.org/obo/GO_0051716)) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010487" +- [regulation of cell growth by extracellular stimulus](http://purl.obolibrary.org/obo/GO_0001560) SubClassOf [regulation of cell growth](http://purl.obolibrary.org/obo/GO_0001558) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [regulation of cell growth by extracellular stimulus](http://purl.obolibrary.org/obo/GO_0001560) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [cellular response to stimulus](http://purl.obolibrary.org/obo/GO_0051716) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" -- [sympathetic nervous system](http://purl.obolibrary.org/obo/UBERON_0000013) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "has developmental contribution from NC in verteberates (https://github.com/obophenotype/uberon/wiki/The-neural-crest)" +### regulation of cellular amino acid biosynthetic process `http://purl.obolibrary.org/obo/GO_2000282` -- [sympathetic nervous system](http://purl.obolibrary.org/obo/UBERON_0000013) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The autonomic nervous system is composed of three divisions: the sympathetic division, the parasympathetic division, and the enteric division. (...) In ray-finned teleost fishes, a sympathetic chain is present, and dual innervation of additional organs can be observed. A similar pattern can be found in amphibians (...). The evolution of the autonomic nervous system has been quite conservative, especially in the tetrapod lineage.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [regulation of cellular amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000282) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "vw" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [regulation of cellular amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000282) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2010-12-10T11:54:19Z" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [regulation of cellular amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000282) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:2000282" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000384" +- [regulation of cellular amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000282) [label](http://www.w3.org/2000/01/rdf-schema#label) "regulation of cellular amino acid biosynthetic process" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0471210054 Butler AB and Hodos W, Comparative vertebrate neuroanatomy: Evolution and Adaptation (2005) p.461-463" +- [regulation of cellular amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000282) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of amino acid biosynthetic process" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:obol" -- [sympathetic nervous system](http://purl.obolibrary.org/obo/UBERON_0000013) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The part of the autonomic nervous system which chiefly contains adrenergic fibres and tends to control and reduce secretions, decrease the contractility and hence the tone of smooth muscles and provoke the contraction of blood vessels. Essentially, it consists of preganglionic fibres from the thoracic and upper lumbar parts of the spinal cord. These fibres, by means of delicate rami communicantes, cross over to ganglia sited in a pair of ganglionated cords on each side of the vertebral column or to more peripheral ganglia. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [regulation of cellular amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000282) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of cellular amino acid synthesis" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:obol" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [regulation of cellular amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000282) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that modulates the frequency, rate or extent of cellular amino acid biosynthetic process." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:obol" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [regulation of cellular amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000282) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of cellular amino acid biosynthesis" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:obol" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000384" +- [regulation of cellular amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000282) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of cellular amino acid anabolism" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:obol" +- [regulation of cellular amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000282) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" +- [regulation of cellular amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000282) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of cellular amino acid formation" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:obol" -### synapsed by `http://purl.obolibrary.org/obo/RO_0002103` -#### Removed -- [synapsed by](http://purl.obolibrary.org/obo/RO_0002103) [id](http://www.geneontology.org/formats/oboInOwl#id) "synapsed_by" +- Class: [regulation of cellular amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000282) -- [synapsed by](http://purl.obolibrary.org/obo/RO_0002103) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) +- [regulation of cellular amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000282) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([regulates](http://purl.obolibrary.org/obo/RO_0002211) some [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652)) -- [synapsed by](http://purl.obolibrary.org/obo/RO_0002103) [label](http://www.w3.org/2000/01/rdf-schema#label) "synapsed by" +- [regulation of cellular amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000282) SubClassOf [regulation of cellular amino acid metabolic process](http://purl.obolibrary.org/obo/GO_0006521) -- [synapsed by](http://purl.obolibrary.org/obo/RO_0002103) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002103" +- [regulation of cellular amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000282) SubClassOf [regulates](http://purl.obolibrary.org/obo/RO_0002211) some [amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_0008652) -- [synapsed by](http://purl.obolibrary.org/obo/RO_0002103) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) +- [regulation of cellular amino acid biosynthetic process](http://purl.obolibrary.org/obo/GO_2000282) SubClassOf [regulation of biosynthetic process](http://purl.obolibrary.org/obo/GO_0009889) -- [synapsed by](http://purl.obolibrary.org/obo/RO_0002103) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) -- [synapsed by](http://purl.obolibrary.org/obo/RO_0002103) [citesAsAuthority](http://purl.org/spar/cito/citesAsAuthority) [22402613](http://www.ncbi.nlm.nih.gov/pubmed/22402613) +### regulation of cellular biosynthetic process `http://purl.obolibrary.org/obo/GO_0031326` -- [synapsed by](http://purl.obolibrary.org/obo/RO_0002103) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +#### Added +- [regulation of cellular biosynthetic process](http://purl.obolibrary.org/obo/GO_0031326) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27189"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [synapsed by](http://purl.obolibrary.org/obo/RO_0002103) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +- [regulation of cellular biosynthetic process](http://purl.obolibrary.org/obo/GO_0031326) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." -- [synapsed by](http://purl.obolibrary.org/obo/RO_0002103) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "synapsed_by" +- [regulation of cellular biosynthetic process](http://purl.obolibrary.org/obo/GO_0031326) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) +### regulation of cellular catabolic process `http://purl.obolibrary.org/obo/GO_0031329` -### synapsed to `http://purl.obolibrary.org/obo/RO_0002120` -#### Removed -- [synapsed to](http://purl.obolibrary.org/obo/RO_0002120) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) +#### Added +- [regulation of cellular catabolic process](http://purl.obolibrary.org/obo/GO_0031329) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27189"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [synapsed to](http://purl.obolibrary.org/obo/RO_0002120) [citesAsAuthority](http://purl.org/spar/cito/citesAsAuthority) [22402613](http://www.ncbi.nlm.nih.gov/pubmed/22402613) +- [regulation of cellular catabolic process](http://purl.obolibrary.org/obo/GO_0031329) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -- [synapsed to](http://purl.obolibrary.org/obo/RO_0002120) [RO_0001900](http://purl.obolibrary.org/obo/RO_0001900) [RO_0001901](http://purl.obolibrary.org/obo/RO_0001901) +- [regulation of cellular catabolic process](http://purl.obolibrary.org/obo/GO_0031329) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." -- [synapsed to](http://purl.obolibrary.org/obo/RO_0002120) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-7073-9172](https://orcid.org/0000-0002-7073-9172) -- [synapsed to](http://purl.obolibrary.org/obo/RO_0002120) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +### regulation of cellular metabolic process `http://purl.obolibrary.org/obo/GO_0031323` +#### Added +- [regulation of cellular metabolic process](http://purl.obolibrary.org/obo/GO_0031323) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." +- [regulation of cellular metabolic process](http://purl.obolibrary.org/obo/GO_0031323) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27189"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -### syndecan-1 `http://purl.obolibrary.org/obo/PR_000001935` -#### Removed -- [syndecan-1](http://purl.obolibrary.org/obo/PR_000001935) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [syndecan-1 (human)](http://purl.obolibrary.org/obo/PR_P18827) +### regulation of cilium assembly `http://purl.obolibrary.org/obo/GO_1902017` +#### Added +- [regulation of cilium assembly](http://purl.obolibrary.org/obo/GO_1902017) [never in taxon](http://purl.obolibrary.org/obo/RO_0002161) [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751) -### synovial fluid `http://purl.obolibrary.org/obo/UBERON_0001090` -#### Removed -- [synovial fluid](http://purl.obolibrary.org/obo/UBERON_0001090) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "It provides nutrients and lubrication for articular cartilage" +- [regulation of cilium assembly](http://purl.obolibrary.org/obo/GO_1902017) DisjointWith [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751) -- [synovial fluid](http://purl.obolibrary.org/obo/UBERON_0001090) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of organism substance that is a clear fluid that occupies the space in synovial joints.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [regulation of cilium assembly](http://purl.obolibrary.org/obo/GO_1902017) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some (not ([Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751))) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005154" +- [regulation of cilium assembly](http://purl.obolibrary.org/obo/GO_1902017) SubClassOf not ([in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### regulation of cytokine production `http://purl.obolibrary.org/obo/GO_0001817` -- [synovial fluid](http://purl.obolibrary.org/obo/UBERON_0001090) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "The fluid contains hyaluronan secreted by fibroblast-like cells in the synovial membrane, lubricin (proteoglycan 4; PRG4) secreted by the surface chondrocytes of the articular cartilage and interstitial fluid filtered from the blood plasma" +#### Added +- [regulation of cytokine production](http://purl.obolibrary.org/obo/GO_0001817) [never in taxon](http://purl.obolibrary.org/obo/RO_0002161) [Saccharomyces cerevisiae](http://purl.obolibrary.org/obo/NCBITaxon_4932) +- [regulation of cytokine production](http://purl.obolibrary.org/obo/GO_0001817) [never in taxon](http://purl.obolibrary.org/obo/RO_0002161) [Schizosaccharomyces pombe](http://purl.obolibrary.org/obo/NCBITaxon_4896) +- [regulation of cytokine production](http://purl.obolibrary.org/obo/GO_0001817) DisjointWith [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Saccharomyces cerevisiae](http://purl.obolibrary.org/obo/NCBITaxon_4932) -### synovial joint `http://purl.obolibrary.org/obo/UBERON_0002217` -#### Removed -- [synovial joint](http://purl.obolibrary.org/obo/UBERON_0002217) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Is a joint that is located at the point of contact of articulating bones allowing movement. The joint has a capsule containing synovial fluid surrounding the articulating bone surfaces.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005153" +- [regulation of cytokine production](http://purl.obolibrary.org/obo/GO_0001817) DisjointWith [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Schizosaccharomyces pombe](http://purl.obolibrary.org/obo/NCBITaxon_4896) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:Curator" +- [regulation of cytokine production](http://purl.obolibrary.org/obo/GO_0001817) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some (not ([Schizosaccharomyces pombe](http://purl.obolibrary.org/obo/NCBITaxon_4896))) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [regulation of cytokine production](http://purl.obolibrary.org/obo/GO_0001817) SubClassOf not ([in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Schizosaccharomyces pombe](http://purl.obolibrary.org/obo/NCBITaxon_4896)) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [regulation of cytokine production](http://purl.obolibrary.org/obo/GO_0001817) SubClassOf not ([in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Saccharomyces cerevisiae](http://purl.obolibrary.org/obo/NCBITaxon_4932)) +- [regulation of cytokine production](http://purl.obolibrary.org/obo/GO_0001817) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some (not ([Saccharomyces cerevisiae](http://purl.obolibrary.org/obo/NCBITaxon_4932))) -### synovial joint of pectoral girdle `http://purl.obolibrary.org/obo/UBERON_0011108` +### regulation of epinephrine uptake `http://purl.obolibrary.org/obo/GO_0051626` #### Removed -- [synovial joint of pectoral girdle](http://purl.obolibrary.org/obo/UBERON_0011108) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA, these are part of the bony pectoral girdle" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" - +- [regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051626) [label](http://www.w3.org/2000/01/rdf-schema#label) "regulation of epinephrine uptake" +- [regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051626) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0051626" -### synovial membrane of synovial joint `http://purl.obolibrary.org/obo/UBERON_0002018` -#### Removed -- [synovial membrane of synovial joint](http://purl.obolibrary.org/obo/UBERON_0002018) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Phylogenetically, synovium is one of the newer attributes of the vertebrate locomotor apparatus. The first synovial joints developed in the piscine jaw of ancestors of modern lungfish by an evolutionary process that modified preexisting fibrous and cartilaginous joints, which were the predominant articulation of the early sea- and land-dwelling vertebrates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051626) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that modulates the frequency, rate or extent of the directed movement of the neurotransmitter epinephrine into a cell." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:ai" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051626) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of epinephrine import" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:dph" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:tb" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:11068553 O'Connel JX, Pathology of the synovium. American Journal of Clinical Pathology (2000)" +- [regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051626) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of adrenaline uptake" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001282" +- [regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051626) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" +- Class: [regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051626) +- [regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051626) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([regulates](http://purl.obolibrary.org/obo/RO_0002211) some [epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051625)) -### system `http://purl.obolibrary.org/obo/RO_0002577` -#### Removed -- [system](http://purl.obolibrary.org/obo/RO_0002577) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "http://www.jbiomedsem.com/content/4/1/43" +- [regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051626) SubClassOf [regulates](http://purl.obolibrary.org/obo/RO_0002211) some [epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051625) -- [system](http://purl.obolibrary.org/obo/RO_0002577) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +- [regulation of epinephrine uptake](http://purl.obolibrary.org/obo/GO_0051626) SubClassOf [regulation of transport](http://purl.obolibrary.org/obo/GO_0051049) -### systemic venous system `http://purl.obolibrary.org/obo/UBERON_0004581` +### regulation of epithelial cell proliferation involved in prostate gland development `http://purl.obolibrary.org/obo/GO_0060768` #### Removed -- [systemic venous system](http://purl.obolibrary.org/obo/UBERON_0004581) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Subdivision of cardiovascular system which has as its parts the right side of heart, the superior vena cava and the inferior vena cava[FMA]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "FMA" +- [regulation of epithelial cell proliferation involved in prostate gland development](http://purl.obolibrary.org/obo/GO_0060768) SubClassOf [regulation of reproductive process](http://purl.obolibrary.org/obo/GO_2000241) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:45626" -- [systemic venous system](http://purl.obolibrary.org/obo/UBERON_0004581) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "In human anatomy, the systemic venous system refers to veins that drain into the right atrium without passing through two vascular beds (i.e. they originate from a set of capillaries and do not pass through a second set of capillaries before reaching the right side of the heart). The term systemic venous system is often used to differentiate veins from veins that drain the pulmonary system (the pulmonary venous system) and veins that drain the digestive tract (the portal venous system). Large veins that are considered part of the systemic venous system are the: Superior vena cava; Inferior vena cava[WP]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Systemic_venous_system" -- [systemic venous system](http://purl.obolibrary.org/obo/UBERON_0004581) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### regulation of gene expression `http://purl.obolibrary.org/obo/GO_0010468` + +#### Added +- [regulation of gene expression](http://purl.obolibrary.org/obo/GO_0010468) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [regulation of gene expression](http://purl.obolibrary.org/obo/GO_0010468) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000277" +### regulation of germ cell proliferation `http://purl.obolibrary.org/obo/GO_1905936` +#### Removed +- [regulation of germ cell proliferation](http://purl.obolibrary.org/obo/GO_1905936) SubClassOf [regulation of reproductive process](http://purl.obolibrary.org/obo/GO_2000241) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2005)" +### regulation of localization `http://purl.obolibrary.org/obo/GO_0032879` -### tachykinin-3 `http://purl.obolibrary.org/obo/PR_000016004` -#### Removed -- [tachykinin-3](http://purl.obolibrary.org/obo/PR_000016004) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [tachykinin-3 (human)](http://purl.obolibrary.org/obo/PR_Q9UHF0) +#### Added +- [regulation of localization](http://purl.obolibrary.org/obo/GO_0032879) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) +- [regulation of localization](http://purl.obolibrary.org/obo/GO_0032879) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/26424"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -### tail external integument structure `http://purl.obolibrary.org/obo/UBERON_3000982` +### regulation of male germ-line stem cell asymmetric division `http://purl.obolibrary.org/obo/GO_1904838` #### Removed -- [tail external integument structure](http://purl.obolibrary.org/obo/UBERON_3000982) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (amphibian_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/aao.owl" +- [regulation of male germ-line stem cell asymmetric division](http://purl.obolibrary.org/obo/GO_1904838) SubClassOf [regulation of reproductive process](http://purl.obolibrary.org/obo/GO_2000241) -### tail vasculature `http://purl.obolibrary.org/obo/UBERON_0010204` +### regulation of mesenchymal cell proliferation involved in prostate gland development `http://purl.obolibrary.org/obo/GO_0060782` #### Removed -- [tail vasculature](http://purl.obolibrary.org/obo/UBERON_0010204) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "isa blood vessel in XAO" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "XAO" +- [regulation of mesenchymal cell proliferation involved in prostate gland development](http://purl.obolibrary.org/obo/GO_0060782) SubClassOf [regulation of reproductive process](http://purl.obolibrary.org/obo/GO_2000241) -### tarsal bone `http://purl.obolibrary.org/obo/UBERON_0001447` -#### Removed -- [tarsal bone](http://purl.obolibrary.org/obo/UBERON_0001447) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In primitive tetrapods, such as Trematops, the tarsus consists of three rows of bones. There are three proximal tarsals, the tibiale, intermedium, and fibulare, named for their points of articulation with the bones of the lower limb. These are followed by a second row of four bones, referred to as the centralia (singular: centrale), and then a row of five distal tarsals, each articulating with a single metatarsal. In the great majority of tetrapods, including all of those alive today, this simple pattern is modified by the loss and fusion of various of the bones.[3] In reptiles and mammals, there are normally just two proximal tarsals, the calcaneus (equivalent to the amphibian fibulare) and the talus (probably derived from a fusion of multiple bones). In mammals, including humans, the talus forms a hinge joint with the tibia, a feature especially well developed in the artiodactyls. The calcaneus is also modified, forming a heel for the attachment of the Achilles tendon. Neither of these adaptations is found in reptiles, which have a relatively simple structure to both bones.[3] The fifth distal tarsal disappears relatively early in evolution, with the remainder becoming the cuneiform and cuboid bones. Reptiles usually retain two centralia, while mammals typically have only one (the navicular).[3] In birds, the tarsus has disappeared, with the proximal tarsals having fused with the tibia, the centralia having disappeared, and the distal bones having fused with the metatarsals to form a single tarsometatarsus bone, effectively giving the leg a third segment" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Tarsus_(skeleton)" +### regulation of molecular function `http://purl.obolibrary.org/obo/GO_0065009` +#### Added +- [regulation of molecular function](http://purl.obolibrary.org/obo/GO_0065009) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### tarsal region `http://purl.obolibrary.org/obo/UBERON_0004454` -#### Removed -- [tarsal region](http://purl.obolibrary.org/obo/UBERON_0004454) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MA has both tarsus (part of foot, has tarsal bone) and ankle (part of hindlimb, has joint, nerve, skin)." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +### regulation of nervous system development `http://purl.obolibrary.org/obo/GO_0051960` -- [tarsal region](http://purl.obolibrary.org/obo/UBERON_0004454) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this term refers to the limb segment. See also: tarsal bones and tarsal skeleton" +#### Added +- [regulation of nervous system development](http://purl.obolibrary.org/obo/GO_0051960) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) only [Eumetazoa](http://purl.obolibrary.org/obo/NCBITaxon_6072) +- [regulation of nervous system development](http://purl.obolibrary.org/obo/GO_0051960) SubClassOf [only in taxon](http://purl.obolibrary.org/obo/RO_0002160) some [Eumetazoa](http://purl.obolibrary.org/obo/NCBITaxon_6072) -### tarsal skeleton `http://purl.obolibrary.org/obo/UBERON_0009879` +### regulation of nitrogen compound metabolic process `http://purl.obolibrary.org/obo/GO_0051171` #### Removed -- [tarsal skeleton](http://purl.obolibrary.org/obo/UBERON_0009879) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we assume MA:tarsus belongs here, as there is a distinct class MA:ankle, with the tarsal bone being part of the former. XAO:tarsus is part of the hindlimb skeleton. FMA set-of class lacks definition but we assume this to be equivalent." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +- [regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051171) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0051171" -- [tarsal skeleton](http://purl.obolibrary.org/obo/UBERON_0009879) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The three main outgroup taxa of tetrapods, panderichthyids, osteolepiforms, and rhizodontids, have endoskeletal elements corresponding to the stylo- and zeugopodial elements in a tetrapod limb. In addition, there are elements that share the position and possibly the developmental derivation of the ulnare and the intermedium. From these observations, most authors have concluded that the stylo- and zeugopodial elements as well as the proximal mesopodial elements have counterparts in the fins of tetrapod ancestors, but there are no indications of wrist or ankle joints.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1002/jez.1100 Wagner GP, Chiu C, The tetrapod limb: A hypothesis on its origin. J Exp Zool (Mol Dev Evol) (2001)" +- [regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051171) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of nitrogen metabolic process" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:tb" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051171) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051171) [label](http://www.w3.org/2000/01/rdf-schema#label) "regulation of nitrogen compound metabolic process" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051171) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving nitrogen or nitrogenous compounds." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:tb" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001160" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:ai" -- [tarsal skeleton](http://purl.obolibrary.org/obo/UBERON_0009879) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Not always associated with digits, in sarcopterygians the ulnare is present without true digits being formed, though their homologous radial elements are present" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PHENOSCAPE:ad" +- [regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051171) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of nitrogen metabolism" -- [tarsal skeleton](http://purl.obolibrary.org/obo/UBERON_0009879) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Segment of the leg corresponding to the tarsus. It consists of several elements that articulate with the tibia and fibula at one end and the metatarsals at the other end.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" +- Class: [regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051171) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000220" +- [regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051171) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([regulates](http://purl.obolibrary.org/obo/RO_0002211) some [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807)) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051171) SubClassOf [regulation of metabolic process](http://purl.obolibrary.org/obo/GO_0019222) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051171) SubClassOf [regulates](http://purl.obolibrary.org/obo/RO_0002211) some [nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0006807) -### tartrate-resistant acid phosphatase type 5 `http://purl.obolibrary.org/obo/PR_000001937` +### regulation of nitrogen cycle metabolic process `http://purl.obolibrary.org/obo/GO_1903314` #### Removed -- [tartrate-resistant acid phosphatase type 5](http://purl.obolibrary.org/obo/PR_000001937) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [tartrate-resistant acid phosphatase type 5 (human)](http://purl.obolibrary.org/obo/PR_P13686) +- [regulation of nitrogen cycle metabolic process](http://purl.obolibrary.org/obo/GO_1903314) SubClassOf [regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051171) +#### Added +- [regulation of nitrogen cycle metabolic process](http://purl.obolibrary.org/obo/GO_1903314) SubClassOf [regulation of metabolic process](http://purl.obolibrary.org/obo/GO_0019222) -### taste bud `http://purl.obolibrary.org/obo/UBERON_0001727` +### regulation of nucleobase-containing compound metabolic process `http://purl.obolibrary.org/obo/GO_0019219` #### Removed -- [taste bud](http://purl.obolibrary.org/obo/UBERON_0001727) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of a number of receptor cell nests located in the epithelium of the papillae of the tongue and in the soft palate, epiglottis, and pharynx that mediate the sense of taste. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [regulation of nucleobase-containing compound metabolic process](http://purl.obolibrary.org/obo/GO_0019219) SubClassOf [regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051171) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [regulation of nucleobase-containing compound metabolic process](http://purl.obolibrary.org/obo/GO_0019219) SubClassOf [regulation of cellular metabolic process](http://purl.obolibrary.org/obo/GO_0031323) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000130" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/taste+bud" +### regulation of ovarian follicle development `http://purl.obolibrary.org/obo/GO_2000354` +#### Removed +- [regulation of ovarian follicle development](http://purl.obolibrary.org/obo/GO_2000354) SubClassOf [regulation of reproductive process](http://purl.obolibrary.org/obo/GO_2000241) -- [taste bud](http://purl.obolibrary.org/obo/UBERON_0001727) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A chemoreceptive organ.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### regulation of phosphorylation `http://purl.obolibrary.org/obo/GO_0042325` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010573" +#### Added +- [regulation of phosphorylation](http://purl.obolibrary.org/obo/GO_0042325) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -- [taste bud](http://purl.obolibrary.org/obo/UBERON_0001727) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [UBERON_0002467](http://purl.obolibrary.org/obo/UBERON_0002467) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://periowiki.wikispot.org/Taste_bud_histology" +- [regulation of phosphorylation](http://purl.obolibrary.org/obo/GO_0042325) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27189"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [taste bud](http://purl.obolibrary.org/obo/UBERON_0001727) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "arise by inductive interactions between epithelial cells and invading gustatory cells from chorda tympani (facial), glossophrayngeal and vagues nerves ISBN:1607950324 (todo - request cell terms from CL)" +- [regulation of phosphorylation](http://purl.obolibrary.org/obo/GO_0042325) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." -- [taste bud](http://purl.obolibrary.org/obo/UBERON_0001727) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, saste buds may be found on the tongue, soft palatte, epiglottis and upper pharynx. In other species they may be found in more unusual places, such as the trunk, or on the barbels or fins of fish." -- [taste bud](http://purl.obolibrary.org/obo/UBERON_0001727) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Experients in amphibia have shown that an intrinsic feature of the pharyngeal endoderm is its ability to generate taste buds and this capacity must have been acquired by the endoderm at the origin of the vertebrates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### regulation of proton transport `http://purl.obolibrary.org/obo/GO_0010155` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [regulation of proton transport](http://purl.obolibrary.org/obo/GO_0010155) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [regulation of proton transport](http://purl.obolibrary.org/obo/GO_0010155) [label](http://www.w3.org/2000/01/rdf-schema#label) "regulation of proton transport" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)" +- [regulation of proton transport](http://purl.obolibrary.org/obo/GO_0010155) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0010155" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000130" +- [regulation of proton transport](http://purl.obolibrary.org/obo/GO_0010155) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that modulates the frequency, rate or extent of proton transport into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:sm" +- Class: [regulation of proton transport](http://purl.obolibrary.org/obo/GO_0010155) +- [regulation of proton transport](http://purl.obolibrary.org/obo/GO_0010155) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([regulates](http://purl.obolibrary.org/obo/RO_0002211) some [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600)) -### taxon `http://www.geneontology.org/formats/oboInOwl#taxon` -#### Removed -- AnnotationProperty: [taxon](http://www.geneontology.org/formats/oboInOwl#taxon) +- [regulation of proton transport](http://purl.obolibrary.org/obo/GO_0010155) SubClassOf [regulates](http://purl.obolibrary.org/obo/RO_0002211) some [proton transmembrane transport](http://purl.obolibrary.org/obo/GO_1902600) +- [regulation of proton transport](http://purl.obolibrary.org/obo/GO_0010155) SubClassOf [regulation of transmembrane transport](http://purl.obolibrary.org/obo/GO_0034762) -### tela choroidea `http://purl.obolibrary.org/obo/UBERON_0005283` +### regulation of response to biotic stimulus `http://purl.obolibrary.org/obo/GO_0002831` #### Removed -- [tela choroidea](http://purl.obolibrary.org/obo/UBERON_0005283) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of tissue that is part of the primitive meninx which forms a fold, roofing a ventricle of the brain and supporting the choroid plexus[ZFA:0000447]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA:0000447" - -- [tela choroidea](http://purl.obolibrary.org/obo/UBERON_0005283) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Note that the structure in ZFA may be different" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" - -- [tela choroidea](http://purl.obolibrary.org/obo/UBERON_0005283) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "Vascularized tela choroidea is choroid plexus." +- [regulation of response to biotic stimulus](http://purl.obolibrary.org/obo/GO_0002831) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) +#### Added +- [regulation of response to biotic stimulus](http://purl.obolibrary.org/obo/GO_0002831) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -### tela choroidea of fourth ventricle `http://purl.obolibrary.org/obo/UBERON_0005287` +### regulation of response to external stimulus `http://purl.obolibrary.org/obo/GO_0032101` #### Removed -- [tela choroidea of fourth ventricle](http://purl.obolibrary.org/obo/UBERON_0005287) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Tela chorioidea that lines the fourth ventricle.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [regulation of response to external stimulus](http://purl.obolibrary.org/obo/GO_0032101) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005158" +#### Added +- [regulation of response to external stimulus](http://purl.obolibrary.org/obo/GO_0032101) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### regulation of response to stimulus `http://purl.obolibrary.org/obo/GO_0048583` +#### Removed +- [regulation of response to stimulus](http://purl.obolibrary.org/obo/GO_0048583) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) #### Added -- [tela choroidea of fourth ventricle](http://purl.obolibrary.org/obo/UBERON_0005287) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [regulation of response to stimulus](http://purl.obolibrary.org/obo/GO_0048583) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -### tela choroidea of telencephalic ventricle `http://purl.obolibrary.org/obo/UBERON_0005289` +### regulation of response to stress `http://purl.obolibrary.org/obo/GO_0080134` +#### Removed +- [regulation of response to stress](http://purl.obolibrary.org/obo/GO_0080134) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) #### Added -- [tela choroidea of telencephalic ventricle](http://purl.obolibrary.org/obo/UBERON_0005289) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [regulation of response to stress](http://purl.obolibrary.org/obo/GO_0080134) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -### telencephalic ventricle `http://purl.obolibrary.org/obo/UBERON_0002285` +### regulation of serotonin biosynthetic process `http://purl.obolibrary.org/obo/GO_1905627` #### Removed -- [telencephalic ventricle](http://purl.obolibrary.org/obo/UBERON_0002285) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The early development of most vertebrate brains is similar (...). The zebrafish neural tube follows the same basic differentiation pattern as the mammalian neural tube (reference 1); The brain develops from three embryonic enlargements of the neural tube, which later differentiate into five regions. A forebrain differentiates into telencephalon and diencephalon. The midbrain, or mesencephalon, remains undivided. The hindbrain divides into the metencephalon and myelencephalon. Cavities within the brain enlarge to form a series of interconnected ventricles (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [regulation of serotonin biosynthetic process](http://purl.obolibrary.org/obo/GO_1905627) SubClassOf [regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051171) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [regulation of serotonin biosynthetic process](http://purl.obolibrary.org/obo/GO_1905627) SubClassOf [regulation of cellular metabolic process](http://purl.obolibrary.org/obo/GO_0031323) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000643" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) p.381-382, ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.500" - -- [telencephalic ventricle](http://purl.obolibrary.org/obo/UBERON_0002285) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The lateral ventricles are part of the ventricular system of the brain. Classified as part of the telencephalon, they are the largest of the ventricles. The lateral ventricles connect to the central third ventricle through the interventricular foramina of Monro[WP]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Lateral_ventricle" +### regulation of spermatid nuclear differentiation `http://purl.obolibrary.org/obo/GO_0045700` +#### Removed +- [regulation of spermatid nuclear differentiation](http://purl.obolibrary.org/obo/GO_0045700) SubClassOf [regulation of reproductive process](http://purl.obolibrary.org/obo/GO_2000241) -- [telencephalic ventricle](http://purl.obolibrary.org/obo/UBERON_0002285) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The two lateral ventricles are a cavity in each of the cerebral hemispheres derived from the cavity of the embryonic neural tube. They are separated from each other by the septum pellucidum, and each communicates with the third ventricle by the foramen of Monro, through which also the choroid plexuses of the lateral ventricles become continuous with that of the third ventricle[GO]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO:0021670" -- [telencephalic ventricle](http://purl.obolibrary.org/obo/UBERON_0002285) SubClassOf [transformation of](http://purl.obolibrary.org/obo/RO_0002494) some [early telencephalic vesicle](http://purl.obolibrary.org/obo/UBERON_0009676) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "material to immaterial" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2" +### regulation of stem cell population maintenance `http://purl.obolibrary.org/obo/GO_2000036` #### Added -- [telencephalic ventricle](http://purl.obolibrary.org/obo/UBERON_0002285) SubClassOf [transformation of](http://purl.obolibrary.org/obo/RO_0002494) some [early telencephalic vesicle](http://purl.obolibrary.org/obo/UBERON_0009676) +- [regulation of stem cell population maintenance](http://purl.obolibrary.org/obo/GO_2000036) [never in taxon](http://purl.obolibrary.org/obo/RO_0002161) [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751) +- [regulation of stem cell population maintenance](http://purl.obolibrary.org/obo/GO_2000036) DisjointWith [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751) -### telencephalon `http://purl.obolibrary.org/obo/UBERON_0001893` -#### Removed -- [telencephalon](http://purl.obolibrary.org/obo/UBERON_0001893) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In mammals the cortex covers almost the whole of the cerebral hemispheres." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Telencephalon#Variation_among_species" - -- [telencephalon](http://purl.obolibrary.org/obo/UBERON_0001893) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "From an evolutionary standpoint, the telencephalon is the most recent brain structure: the amphioxus does not have this structure as a morphological entity. Overt telencephalon is present in the hagfish and lamprey to receive numerous input fibers from various parts of the CNS, similar to gnathostomes.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [regulation of stem cell population maintenance](http://purl.obolibrary.org/obo/GO_2000036) SubClassOf not ([in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [regulation of stem cell population maintenance](http://purl.obolibrary.org/obo/GO_2000036) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some (not ([Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751))) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000283" +### regulation of thyroid hormone generation `http://purl.obolibrary.org/obo/GO_2000609` +#### Removed +- [regulation of thyroid hormone generation](http://purl.obolibrary.org/obo/GO_2000609) SubClassOf [regulation of nitrogen compound metabolic process](http://purl.obolibrary.org/obo/GO_0051171) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/j.ydbio.2005.02.008 Murakami Y, Uchida K, Rijli FM and Kuratani S, Evolution of the brain developmental plan: Insights from agnathans. Developmental Biology (2005)" -- [telencephalon](http://purl.obolibrary.org/obo/UBERON_0001893) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "dolphins are the only species (other than humans) to have cerebra accounting for as much as 2 percent of their body weight." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Telencephalon#Variation_among_species" -- [telencephalon](http://purl.obolibrary.org/obo/UBERON_0001893) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In ray-finned fishes and most pronounced in teleosts the roof plate of the embryonic telencephalon extends laterally with the effect that the paired alar plates forming the hemispheric walls roll out lateroventrally in a process called eversion. This is unlike the development in other vertebrate groups. [ZFA:0000079, ISBN:3764351209]" +### regulation of transcription by RNA polymerase II `http://purl.obolibrary.org/obo/GO_0006357` -- [telencephalon](http://purl.obolibrary.org/obo/UBERON_0001893) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "telencephalic" +#### Added +- [regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006357) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0010551" -- [telencephalon](http://purl.obolibrary.org/obo/UBERON_0001893) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In the amniotes, the cerebrum becomes increasingly large and complex. In reptiles, the paleopallium is much larger than in amphibians, and its growth has pushed the basal nuclei into the central regions of the cerebrum." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Telencephalon#Variation_among_species" +- [regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006357) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0006358" -- [telencephalon](http://purl.obolibrary.org/obo/UBERON_0001893) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the forebrain consisting of paired olfactory bulbs and cerebral hemispheres.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010479" +- [regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006357) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "regulation of transcription from RNA polymerase II promoter, global" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006357) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "global transcription regulation from Pol II promoter" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006357) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that modulates the frequency, rate or extent of transcription mediated by RNA polymerase II." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:go_curators" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH" -- [telencephalon](http://purl.obolibrary.org/obo/UBERON_0001893) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "telenencephalic" +- [regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006357) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0006357" -- [telencephalon](http://purl.obolibrary.org/obo/UBERON_0001893) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [cerebellum](http://purl.obolibrary.org/obo/UBERON_0002037) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ABA" +- [regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006357) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "regulation of gene-specific transcription from RNA polymerase II promoter" -- [telencephalon](http://purl.obolibrary.org/obo/UBERON_0001893) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In the most primitive living vertebrates, the hagfishes and lampreys, the cerebrum is a relatively simple structure receiving nerve impulses from the olfactory bulb." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Telencephalon#Variation_among_species" +- [regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006357) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -- [telencephalon](http://purl.obolibrary.org/obo/UBERON_0001893) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In ray-finned fishes the inner surfaces of the lateral and ventral regions of the cerebrum bulge up into the ventricles." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Telencephalon#Variation_among_species" +- [regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006357) [label](http://www.w3.org/2000/01/rdf-schema#label) "regulation of transcription by RNA polymerase II" -- [telencephalon](http://purl.obolibrary.org/obo/UBERON_0001893) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organ component of neuraxis that has as its parts the cerebral cortex, cerebral white matter, basal ganglia, septum and fornix, as well as subcortical gray and white matter structures[FMA:62000]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:62000" +- [regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006357) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of transcription from Pol II promoter" -- [telencephalon](http://purl.obolibrary.org/obo/UBERON_0001893) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "cerebral" +- [regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006357) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "regulation of global transcription from Pol II promoter" -- [telencephalon](http://purl.obolibrary.org/obo/UBERON_0001893) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The anterior and dorsal forebrain neuromere, includes the olfactory bulb. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006357) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "regulation of transcription from RNA polymerase II promoter" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000079" +- Class: [regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006357) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006357) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([regulates](http://purl.obolibrary.org/obo/RO_0002211) some [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366)) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006357) SubClassOf [regulates](http://purl.obolibrary.org/obo/RO_0002211) some [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366) -- [telencephalon](http://purl.obolibrary.org/obo/UBERON_0001893) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: develops_from presumptive telencephalon (TAO:0000571)[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000079" +- [regulation of transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006357) SubClassOf [regulation of DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006355) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### regulation of transcription regulatory region DNA binding `http://purl.obolibrary.org/obo/GO_2000677` -- [telencephalon](http://purl.obolibrary.org/obo/UBERON_0001893) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The cerebrum of birds has evolved along different lines to that of mammals, although they are similarly enlarged, by comparison with reptiles. However, this enlargement is largely due to the basal ganglia, with the other areas remaining relatively primitive in structure." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Telencephalon#Variation_among_species" +#### Added +- [regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000677) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2011-05-09T03:28:11Z" -- [telencephalon](http://purl.obolibrary.org/obo/UBERON_0001893) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000677) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that modulates the frequency, rate or extent of transcription regulatory region DNA binding." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:obol" +- [regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000677) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "yaf" +- [regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000677) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:2000677" -### telencephalon neural crest `http://purl.obolibrary.org/obo/UBERON_0003850` -#### Removed -- [telencephalon neural crest](http://purl.obolibrary.org/obo/UBERON_0003850) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000677) [label](http://www.w3.org/2000/01/rdf-schema#label) "regulation of transcription regulatory region DNA binding" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000677) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000677) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000799" +- Class: [regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000677) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43" +- [regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000677) EquivalentTo [biological regulation](http://purl.obolibrary.org/obo/GO_0065007) and ([regulates](http://purl.obolibrary.org/obo/RO_0002211) some [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976)) -- [telencephalon neural crest](http://purl.obolibrary.org/obo/UBERON_0003850) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cranial neural crest that is part of the telencephalon.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000677) SubClassOf [regulates](http://purl.obolibrary.org/obo/RO_0002211) some [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000812" +- [regulation of transcription regulatory region DNA binding](http://purl.obolibrary.org/obo/GO_2000677) SubClassOf [regulation of DNA binding](http://purl.obolibrary.org/obo/GO_0051101) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### regulation of transferase activity `http://purl.obolibrary.org/obo/GO_0051338` +#### Removed +- [regulation of transferase activity](http://purl.obolibrary.org/obo/GO_0051338) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) -### telencephalon pia mater `http://purl.obolibrary.org/obo/UBERON_0003552` +### regulation of trophoblast cell migration `http://purl.obolibrary.org/obo/GO_1901163` #### Removed -- [telencephalon pia mater](http://purl.obolibrary.org/obo/UBERON_0003552) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.639" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [regulation of trophoblast cell migration](http://purl.obolibrary.org/obo/GO_1901163) SubClassOf [regulation of reproductive process](http://purl.obolibrary.org/obo/GO_2000241) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000476" +### renal alpha-intercalated cell `http://purl.obolibrary.org/obo/CL_0005011` -- [telencephalon pia mater](http://purl.obolibrary.org/obo/UBERON_0003552) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Pia mater that is part of the telencephalon. [Bgee_curator][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [renal alpha-intercalated cell](http://purl.obolibrary.org/obo/CL_0005011) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009376" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000476" +### renal capsule formation `http://purl.obolibrary.org/obo/GO_0072129` +#### Added +- [renal capsule formation](http://purl.obolibrary.org/obo/GO_0072129) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### temporal bone `http://purl.obolibrary.org/obo/UBERON_0001678` +### renal cortex interstitium `http://purl.obolibrary.org/obo/UBERON_0005270` #### Removed -- [temporal bone](http://purl.obolibrary.org/obo/UBERON_0001678) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "fusion of squamosal + angular (tympanic annulus) [derm.] + petrosal (prootic + opisthotic)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "chond." +- [renal cortex interstitium](http://purl.obolibrary.org/obo/UBERON_0005270) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [temporal bone](http://purl.obolibrary.org/obo/UBERON_0001678) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "The temporal bone consists of four parts: * Squama temporalis * Mastoid portion * Petrous portion (Petrosal ridge) * Tympanic part[WP]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "[WP]" -- [temporal bone](http://purl.obolibrary.org/obo/UBERON_0001678) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In many mammals, as in humans, the petrosal, ectotympanic and squamosal bones synostose to form the temporal bone + styloid process" -- [temporal bone](http://purl.obolibrary.org/obo/UBERON_0001678) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Note the Temporal bone is not explicitly categorized to a part of the cranium in FMA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +### renal intercalated cell `http://purl.obolibrary.org/obo/CL_0005010` -- [temporal bone](http://purl.obolibrary.org/obo/UBERON_0001678) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [chondrocranium](http://purl.obolibrary.org/obo/UBERON_0002241) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "petrosal" - -- [temporal bone](http://purl.obolibrary.org/obo/UBERON_0001678) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [dermatocranium](http://purl.obolibrary.org/obo/UBERON_0003113) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "squamosal plus angular" +#### Added +- [renal intercalated cell](http://purl.obolibrary.org/obo/CL_0005010) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009375" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "temporal series" -- [temporal bone](http://purl.obolibrary.org/obo/UBERON_0001678) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [splanchnocranium](http://purl.obolibrary.org/obo/UBERON_0008895) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "styloid process" +### renal lobule `http://purl.obolibrary.org/obo/UBERON_0009914` #### Added -- [temporal bone](http://purl.obolibrary.org/obo/UBERON_0001678) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [splanchnocranium](http://purl.obolibrary.org/obo/UBERON_0008895) - -- [temporal bone](http://purl.obolibrary.org/obo/UBERON_0001678) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [dermatocranium](http://purl.obolibrary.org/obo/UBERON_0003113) - -- [temporal bone](http://purl.obolibrary.org/obo/UBERON_0001678) SubClassOf [overlaps](http://purl.obolibrary.org/obo/RO_0002131) some [chondrocranium](http://purl.obolibrary.org/obo/UBERON_0002241) +- [renal lobule](http://purl.obolibrary.org/obo/UBERON_0009914) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### temporal cortex `http://purl.obolibrary.org/obo/UBERON_0016538` -#### Removed -- [temporal cortex](http://purl.obolibrary.org/obo/UBERON_0016538) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D013702" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) +### renal pelvis/ureter `http://purl.obolibrary.org/obo/UBERON_0036295` - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +#### Added +- [renal pelvis/ureter](http://purl.obolibrary.org/obo/UBERON_0036295) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) +### renal principal cell `http://purl.obolibrary.org/obo/CL_0005009` -### temporally related to `http://purl.obolibrary.org/obo/RO_0002222` -#### Removed -- [temporally related to](http://purl.obolibrary.org/obo/RO_0002222) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) +#### Added +- [renal principal cell](http://purl.obolibrary.org/obo/CL_0005009) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005322" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [temporally related to](http://purl.obolibrary.org/obo/RO_0002222) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) [s_interval_algebra](https://en.wikipedia.org/wiki/Allen%27s_interval_algebra) -- [temporally related to](http://purl.obolibrary.org/obo/RO_0002222) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +### renal system `http://purl.obolibrary.org/obo/UBERON_0001008` -- [temporally related to](http://purl.obolibrary.org/obo/RO_0002222) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Do not use this relation directly. It is ended as a grouping for relations between occurrents involving the relative timing of their starts and ends." +#### Added +- [renal system](http://purl.obolibrary.org/obo/UBERON_0001008) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005056" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [temporally related to](http://purl.obolibrary.org/obo/RO_0002222) [source](http://purl.org/dc/terms/source) "https://docs.google.com/document/d/1kBv1ep_9g3sTR-SD3jqzFqhuwo9TPNF-l-9fUDbO6rM/edit?pli=1"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +### renal vesicle `http://purl.obolibrary.org/obo/UBERON_0004209` +#### Added +- [renal vesicle](http://purl.obolibrary.org/obo/UBERON_0004209) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### tendon `http://purl.obolibrary.org/obo/UBERON_0000043` -#### Removed -- [tendon](http://purl.obolibrary.org/obo/UBERON_0000043) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Phylogenetically, tendinous tissue first appears in the invertebrate chordate Branchiostoma as myosepta. This two-dimensional array of collagen fibers is highly organized, with fibers running along two primary axes. In hagfish the first linear tendons appear and the myosepta have developed specialized regions with unidirectional fiber orientation - a linear tendon within the flat sheet of myoseptum.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### renal vesicle formation `http://purl.obolibrary.org/obo/GO_0072033` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [renal vesicle formation](http://purl.obolibrary.org/obo/GO_0072033) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/S1095-6433(02)00241-6 Summers AP, Koob TJ, The evolution of tendon - morphology and material properties. Comparative Biochemistry and Physiology-Part A: Molecular and Integrative Physiology (2002)" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001286" +### reproduction `http://purl.obolibrary.org/obo/GO_0000003` +#### Removed +- [reproduction](http://purl.obolibrary.org/obo/GO_0000003) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0019952" -- [tendon](http://purl.obolibrary.org/obo/UBERON_0000043) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA, tendon is an organ component that with parts dense-irregular-connective-tissue of tendon and dense-irregular-connective-tissue of tendon sheath; we follow VSAO in making it a subtype of the former. In VSAO tendons connect muscle to bone; in WP the def states integument (e.g. auricular muscles) - but JB confirms this is not actually tendon but aponeurosis" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [reproduction](http://purl.obolibrary.org/obo/GO_0000003) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "reproductive physiological process" -- [tendon](http://purl.obolibrary.org/obo/UBERON_0000043) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Dense regular connective tissue that connects muscle to bone.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000073" +- [reproduction](http://purl.obolibrary.org/obo/GO_0000003) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0000003" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [reproduction](http://purl.obolibrary.org/obo/GO_0000003) [label](http://www.w3.org/2000/01/rdf-schema#label) "reproduction" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PSPUB:0000170" +- [reproduction](http://purl.obolibrary.org/obo/GO_0000003) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_flybase_ribbon](http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" +- [reproduction](http://purl.obolibrary.org/obo/GO_0000003) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_pir](http://purl.obolibrary.org/obo/go#goslim_pir) +- [reproduction](http://purl.obolibrary.org/obo/GO_0000003) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Wikipedia:Reproduction" +- [reproduction](http://purl.obolibrary.org/obo/GO_0000003) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_agr](http://purl.obolibrary.org/obo/go#goslim_agr) -### term imported `http://purl.obolibrary.org/obo/IAO_0000228` -#### Removed -- [term imported](http://purl.obolibrary.org/obo/IAO_0000228) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "term imported"@en +- [reproduction](http://purl.obolibrary.org/obo/GO_0000003) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:jl" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:isa_complete" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:go_curators" -### term replaced by `http://purl.obolibrary.org/obo/IAO_0100001` -#### Removed -- [term replaced by](http://purl.obolibrary.org/obo/IAO_0100001) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "Person:Alan Ruttenberg"@en + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ISBN:0198506732" -- [term replaced by](http://purl.obolibrary.org/obo/IAO_0100001) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) +- [reproduction](http://purl.obolibrary.org/obo/GO_0000003) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_chembl](http://purl.obolibrary.org/obo/go#goslim_chembl) -- [term replaced by](http://purl.obolibrary.org/obo/IAO_0100001) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "Person:Alan Ruttenberg"@en +- [reproduction](http://purl.obolibrary.org/obo/GO_0000003) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -- [term replaced by](http://purl.obolibrary.org/obo/IAO_0100001) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "term replaced by"@en +- [reproduction](http://purl.obolibrary.org/obo/GO_0000003) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant](http://purl.obolibrary.org/obo/go#goslim_plant) +- [reproduction](http://purl.obolibrary.org/obo/GO_0000003) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0050876" +- Class: [reproduction](http://purl.obolibrary.org/obo/GO_0000003) -### term split `http://purl.obolibrary.org/obo/IAO_0000229` -#### Removed -- [term split](http://purl.obolibrary.org/obo/IAO_0000229) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "term split"@en +- [reproduction](http://purl.obolibrary.org/obo/GO_0000003) SubClassOf [biological_process](http://purl.obolibrary.org/obo/GO_0008150) -### term tracker item `http://purl.obolibrary.org/obo/IAO_0000233` +### reproduction of a single-celled organism `http://purl.obolibrary.org/obo/GO_0032505` #### Removed -- [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg"@en - -- [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +- [reproduction of a single-celled organism](http://purl.obolibrary.org/obo/GO_0032505) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The biological process in which new individuals are produced by one or two single-celled organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:isa_complete" -- [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [pending final vetting](http://purl.obolibrary.org/obo/IAO_0000125) +- [reproduction of a single-celled organism](http://purl.obolibrary.org/obo/GO_0032505) [label](http://www.w3.org/2000/01/rdf-schema#label) "reproduction of a single-celled organism" -- [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "the URI for an OBI Terms ticket at sourceforge, such as https://sourceforge.net/p/obi/obi-terms/772/"@en +- [reproduction of a single-celled organism](http://purl.obolibrary.org/obo/GO_0032505) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0032505" -- [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "term tracker item"@en +- [reproduction of a single-celled organism](http://purl.obolibrary.org/obo/GO_0032505) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -- [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg"@en +- Class: [reproduction of a single-celled organism](http://purl.obolibrary.org/obo/GO_0032505) -- [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) [is_class_level](http://www.geneontology.org/formats/oboInOwl#is_class_level) true +- [reproduction of a single-celled organism](http://purl.obolibrary.org/obo/GO_0032505) SubClassOf [reproduction](http://purl.obolibrary.org/obo/GO_0000003) -### terminal bronchiole epithelium `http://purl.obolibrary.org/obo/UBERON_0001958` +### reproductive behavior `http://purl.obolibrary.org/obo/GO_0019098` #### Removed -- [terminal bronchiole epithelium](http://purl.obolibrary.org/obo/UBERON_0001958) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "A pseudostratified epithelium, containing basal cells, stem cells of the airway, submucosal glands and cartilage rings, is limited to the trachea and large lobar airways in the mouse (Morrisey and Hogan, 2010). This more complex epithelium extends to terminal bronchioles in the human[DOI:10.1242/dev.115469]" +- [reproductive behavior](http://purl.obolibrary.org/obo/GO_0019098) EquivalentTo [behavior](http://purl.obolibrary.org/obo/GO_0007610) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [multicellular organism reproduction](http://purl.obolibrary.org/obo/GO_0032504)) +- [reproductive behavior](http://purl.obolibrary.org/obo/GO_0019098) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [multicellular organism reproduction](http://purl.obolibrary.org/obo/GO_0032504) +- [reproductive behavior](http://purl.obolibrary.org/obo/GO_0019098) SubClassOf [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) -### terminal part of digestive tract `http://purl.obolibrary.org/obo/UBERON_0006866` -#### Removed -- [terminal part of digestive tract](http://purl.obolibrary.org/obo/UBERON_0006866) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005756" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - -- [terminal part of digestive tract](http://purl.obolibrary.org/obo/UBERON_0006866) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class is the superclass of 'rectum', which is currently reserved for the vertebrate structure. May be merged in future." +#### Added +- [reproductive behavior](http://purl.obolibrary.org/obo/GO_0019098) EquivalentTo [behavior](http://purl.obolibrary.org/obo/GO_0007610) and [multicellular organismal reproductive process](http://purl.obolibrary.org/obo/GO_0048609) +- [reproductive behavior](http://purl.obolibrary.org/obo/GO_0019098) SubClassOf [multicellular organismal reproductive process](http://purl.obolibrary.org/obo/GO_0048609) -### terms merged `http://purl.obolibrary.org/obo/IAO_0000227` +### reproductive organ `http://purl.obolibrary.org/obo/UBERON_0003133` #### Removed -- [terms merged](http://purl.obolibrary.org/obo/IAO_0000227) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "terms merged"@en - +- [reproductive organ](http://purl.obolibrary.org/obo/UBERON_0003133) EquivalentTo [organ](http://purl.obolibrary.org/obo/UBERON_0000062) and ([capable of part of](http://purl.obolibrary.org/obo/RO_0002216) some [reproduction](http://purl.obolibrary.org/obo/GO_0000003)) - -### tertiary ovarian follicle `http://purl.obolibrary.org/obo/UBERON_0000037` +- [reproductive organ](http://purl.obolibrary.org/obo/UBERON_0003133) SubClassOf [capable of part of](http://purl.obolibrary.org/obo/RO_0002216) some [reproduction](http://purl.obolibrary.org/obo/GO_0000003) #### Added -- [tertiary ovarian follicle](http://purl.obolibrary.org/obo/UBERON_0000037) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - -### testicular vein `http://purl.obolibrary.org/obo/UBERON_0001144` -#### Removed -- [testicular vein](http://purl.obolibrary.org/obo/UBERON_0001144) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, the right testicular vein generally joins the inferior vena cava; the left testicular vein, unlike the right, often joins the left renal vein instead of the inferior vena cava. The veins emerge from the back of the testis, and receive tributaries from the epididymis; they unite and form a convoluted plexus, called the pampiniform plexus, which constitutes the greater mass of the spermatic cord; the vessels composing this plexus are very numerous, and ascend along the cord, in front of the ductus deferens. Below the subcutaneous inguinal ring, they unite to form three or four veins, which pass along the inguinal canal, and, entering the abdomen through the abdominal inguinal ring, coalesce to form two veins, which ascend on the Psoas major, behind the peritoneum, lying one on either side of the internal spermatic artery. These unite to form a single vein, which opens, on the right side, into the inferior vena cava (at an acute angle), on the left side into the left renal vein (at a right angle). The spermatic veins are provided with valves. The left spermatic vein passes behind the iliac colon and is thus exposed to pressure from the contents of that part of the bowel" +- [reproductive organ](http://purl.obolibrary.org/obo/UBERON_0003133) EquivalentTo [organ](http://purl.obolibrary.org/obo/UBERON_0000062) and ([capable of part of](http://purl.obolibrary.org/obo/RO_0002216) some [reproductive process](http://purl.obolibrary.org/obo/GO_0022414)) +- [reproductive organ](http://purl.obolibrary.org/obo/UBERON_0003133) SubClassOf [capable of part of](http://purl.obolibrary.org/obo/RO_0002216) some [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) -### testis `http://purl.obolibrary.org/obo/UBERON_0000473` +### reproductive process `http://purl.obolibrary.org/obo/GO_0022414` #### Removed -- [testis](http://purl.obolibrary.org/obo/UBERON_0000473) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The testes are descended in metatherian and eutherian mammals, first transabdominally, then inguinoscrotally" - - [taxon](http://www.geneontology.org/formats/oboInOwl#taxon) "NCBITaxon:40674" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0123971756" +- [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) EquivalentTo [biological_process](http://purl.obolibrary.org/obo/GO_0008150) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [reproduction](http://purl.obolibrary.org/obo/GO_0000003)) -- [testis](http://purl.obolibrary.org/obo/UBERON_0000473) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "testicular" +- [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [reproduction](http://purl.obolibrary.org/obo/GO_0000003) -- [testis](http://purl.obolibrary.org/obo/UBERON_0000473) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) while it is likely that Urbilateria lacked a complex somatic reproductive system, it is at present impossible to speculate on whether or not it possessed a true gonad, let alone any other somatic adaptations for reproduction (reference 1); Examination of different vertebrate species shows that the adult gonad is remarkably similar in its morphology across different phylogenetic classes. Surprisingly, however, the cellular and molecular programs employed to create similar organs are not evolutionarily conserved (reference 2).[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant](http://purl.obolibrary.org/obo/go#goslim_plant) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1093/icb/icm052 Extavour CGM, Gray anatomy: phylogenetic patterns of somatic gonad structures and reproductive strategies across the Bilateria. Integrative and Comparative Biology (2007), DOI:10.1146/annurev.cellbio.042308.13350 DeFalco T and Capel B, Gonad morphogenesis in vertebrates: divergent means to a convergent end. Annual review of cell and developmental biology (2009)" +- [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_chembl](http://purl.obolibrary.org/obo/go#goslim_chembl) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000252" +- [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -- [testis](http://purl.obolibrary.org/obo/UBERON_0000473) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Male reproductive organ.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_pir](http://purl.obolibrary.org/obo/go#goslim_pir) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27054"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Wikipedia:Reproduction" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000598" +- [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_agr](http://purl.obolibrary.org/obo/go#goslim_agr) -- [testis](http://purl.obolibrary.org/obo/UBERON_0000473) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004928" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) +- [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_flybase_ribbon](http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon) -### tetrapod frontal bone `http://purl.obolibrary.org/obo/UBERON_0000209` +### reproductive process in single-celled organism `http://purl.obolibrary.org/obo/GO_0022413` #### Removed -- [tetrapod frontal bone](http://purl.obolibrary.org/obo/UBERON_0000209) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VHOG:0001324" - -- [tetrapod frontal bone](http://purl.obolibrary.org/obo/UBERON_0000209) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "In the mouse the parietal originates from cephalic paraxial mesoderm (Jiang 2000; Morriss-Kay 2001), whereas in the chicken it is traced back to either mesodermal (Noden 1978) or neural crest (Couly 1992, 1993)." +- [reproductive process in single-celled organism](http://purl.obolibrary.org/obo/GO_0022413) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [reproduction of a single-celled organism](http://purl.obolibrary.org/obo/GO_0032505) -- [tetrapod frontal bone](http://purl.obolibrary.org/obo/UBERON_0000209) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "fused in humans, paired in other animals" +#### Added +- [reproductive process in single-celled organism](http://purl.obolibrary.org/obo/GO_0022413) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) +- [reproductive process in single-celled organism](http://purl.obolibrary.org/obo/GO_0022413) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27054"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -### theca cell layer `http://purl.obolibrary.org/obo/UBERON_0000155` +### reproductive system `http://purl.obolibrary.org/obo/UBERON_0000990` #### Removed -- [theca cell layer](http://purl.obolibrary.org/obo/UBERON_0000155) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "The theca folliculi are responsible for the production of testosterone from androstenedione in females, and indirectly the production of estrogens by supplying the neighboring granulosa cells with androstenedione that can then be used as a substrate for aromatase. [Wikipedia:Theca_of_follicle]" +- [reproductive system](http://purl.obolibrary.org/obo/UBERON_0000990) EquivalentTo [anatomical system](http://purl.obolibrary.org/obo/UBERON_0000467) and ([capable of part of](http://purl.obolibrary.org/obo/RO_0002216) some [reproduction](http://purl.obolibrary.org/obo/GO_0000003)) + +- [reproductive system](http://purl.obolibrary.org/obo/UBERON_0000990) SubClassOf [capable of part of](http://purl.obolibrary.org/obo/RO_0002216) some [reproduction](http://purl.obolibrary.org/obo/GO_0000003) #### Added -- [theca cell layer](http://purl.obolibrary.org/obo/UBERON_0000155) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [reproductive system](http://purl.obolibrary.org/obo/UBERON_0000990) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004857" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [reproductive system](http://purl.obolibrary.org/obo/UBERON_0000990) EquivalentTo [anatomical system](http://purl.obolibrary.org/obo/UBERON_0000467) and ([capable of part of](http://purl.obolibrary.org/obo/RO_0002216) some [reproductive process](http://purl.obolibrary.org/obo/GO_0022414)) -### thoracic cavity `http://purl.obolibrary.org/obo/UBERON_0002224` -#### Removed -- [thoracic cavity](http://purl.obolibrary.org/obo/UBERON_0002224) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In many species, the diaphragm separates thoracic and abdominal cavities" +- [reproductive system](http://purl.obolibrary.org/obo/UBERON_0000990) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +- [reproductive system](http://purl.obolibrary.org/obo/UBERON_0000990) SubClassOf [capable of part of](http://purl.obolibrary.org/obo/RO_0002216) some [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) -### thoracic cavity artery `http://purl.obolibrary.org/obo/UBERON_0003473` +### respiratory burst at fertilization `http://purl.obolibrary.org/obo/GO_0045729` #### Removed -- [thoracic cavity artery](http://purl.obolibrary.org/obo/UBERON_0003473) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in MA, aorta is classified here - but this is problematic because the abdominal aorta is not in the thoracic cavity" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +- [respiratory burst at fertilization](http://purl.obolibrary.org/obo/GO_0045729) SubClassOf [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) -### thoracic mammary gland `http://purl.obolibrary.org/obo/UBERON_0005200` +### respiratory tube `http://purl.obolibrary.org/obo/UBERON_0000117` #### Removed -- [thoracic mammary gland](http://purl.obolibrary.org/obo/UBERON_0005200) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Most primates have one pair of mammary glands, which are thoracic." - -- [thoracic mammary gland](http://purl.obolibrary.org/obo/UBERON_0005200) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_57983](http://purl.obolibrary.org/obo/FMA_57983) +- [respiratory tube](http://purl.obolibrary.org/obo/UBERON_0000117) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### thoracic region of vertebral column `http://purl.obolibrary.org/obo/UBERON_0006073` -#### Removed -- [thoracic region of vertebral column](http://purl.obolibrary.org/obo/UBERON_0006073) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Region of the vertebral column between the atlas and the sacrum consisting of seven to 285 vertebrae.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000612" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### response to ATP `http://purl.obolibrary.org/obo/GO_0033198` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [response to ATP](http://purl.obolibrary.org/obo/GO_0033198) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:Duellman_and_Trueb_1994" -- [thoracic region of vertebral column](http://purl.obolibrary.org/obo/UBERON_0006073) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "AAO:0000612" +### response to L-glutamate `http://purl.obolibrary.org/obo/GO_1902065` +#### Added +- [response to L-glutamate](http://purl.obolibrary.org/obo/GO_1902065) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### thoracic rib cage `http://purl.obolibrary.org/obo/UBERON_0003252` +### response to abiotic stimulus `http://purl.obolibrary.org/obo/GO_0009628` #### Removed -- [thoracic rib cage](http://purl.obolibrary.org/obo/UBERON_0003252) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster that consists of more than one rib in an individual.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002100" +- [response to abiotic stimulus](http://purl.obolibrary.org/obo/GO_0009628) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [response to abiotic stimulus](http://purl.obolibrary.org/obo/GO_0009628) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" +### response to acetylcholine `http://purl.obolibrary.org/obo/GO_1905144` +#### Added +- [response to acetylcholine](http://purl.obolibrary.org/obo/GO_1905144) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### thoracic segment of trunk `http://purl.obolibrary.org/obo/UBERON_0000915` +### response to acid chemical `http://purl.obolibrary.org/obo/GO_0001101` #### Removed -- [thoracic segment of trunk](http://purl.obolibrary.org/obo/UBERON_0000915) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [appendage](http://purl.obolibrary.org/obo/UBERON_0000026) - -- [thoracic segment of trunk](http://purl.obolibrary.org/obo/UBERON_0000915) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [abdominal segment of trunk](http://purl.obolibrary.org/obo/UBERON_0002417) - -- [thoracic segment of trunk](http://purl.obolibrary.org/obo/UBERON_0000915) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "note that we use the slightly verbose term 'thoracic segment of trunk' to avoid confusuon with insect thorax. todo - taxonomic constraints. Also, in FMA 'thorax' is a synonym for chest" - -- [thoracic segment of trunk](http://purl.obolibrary.org/obo/UBERON_0000915) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [head](http://purl.obolibrary.org/obo/UBERON_0000033) +- [response to acid chemical](http://purl.obolibrary.org/obo/GO_0001101) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) +#### Added +- [response to acid chemical](http://purl.obolibrary.org/obo/GO_0001101) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -### thoracic vertebra `http://purl.obolibrary.org/obo/UBERON_0002347` -#### Removed -- [thoracic vertebra](http://purl.obolibrary.org/obo/UBERON_0002347) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Thoracic vertebrae in all species are defined as those vertebrae which also carry a pair of ribs, and lie caudal to the cervical vertebrae. In humans, they are distinguished by the presence of facets on the sides of the bodies for articulation with the heads of the ribs, and facets on the transverse processes of all, except the eleventh and twelfth, for articulation with the tubercles of the ribs" +### response to aldosterone `http://purl.obolibrary.org/obo/GO_1904044` +#### Added +- [response to aldosterone](http://purl.obolibrary.org/obo/GO_1904044) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### thrombomodulin `http://purl.obolibrary.org/obo/PR_000002105` -#### Removed -- [thrombomodulin](http://purl.obolibrary.org/obo/PR_000002105) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [thrombomodulin (human)](http://purl.obolibrary.org/obo/PR_P07204) +### response to amine `http://purl.obolibrary.org/obo/GO_0014075` +#### Added +- [response to amine](http://purl.obolibrary.org/obo/GO_0014075) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### thymus `http://purl.obolibrary.org/obo/UBERON_0002370` +### response to amino acid `http://purl.obolibrary.org/obo/GO_0043200` #### Removed -- [thymus](http://purl.obolibrary.org/obo/UBERON_0002370) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical structure which originates as several paired thickenings on the dorsal side of the pharyngeal pouches and secretes thymosin.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [response to amino acid](http://purl.obolibrary.org/obo/GO_0043200) EquivalentTo [response to stimulus](http://purl.obolibrary.org/obo/GO_0050896) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33709](http://purl.obolibrary.org/obo/CHEBI_33709)) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +- [response to amino acid](http://purl.obolibrary.org/obo/GO_0043200) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33709](http://purl.obolibrary.org/obo/CHEBI_33709) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010548" - -- [thymus](http://purl.obolibrary.org/obo/UBERON_0002370) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "thymic" +#### Added +- [response to amino acid](http://purl.obolibrary.org/obo/GO_0043200) EquivalentTo [response to stimulus](http://purl.obolibrary.org/obo/GO_0050896) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238)) -- [thymus](http://purl.obolibrary.org/obo/UBERON_0002370) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "A thymus develops in all vertebrates from the endodermal epithelium of certain pharyngeal pouches and from the adjacent ectodermal epithelium. In fishes, all the pouches, or the first four, contribute to thymus formation, but in tetrapods, the number is more restricted. In mammals, only the third and fourth are involved, and the contribution of the third is by far the greater.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [response to amino acid](http://purl.obolibrary.org/obo/GO_0043200) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### response to ammonium ion `http://purl.obolibrary.org/obo/GO_0060359` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000253" +#### Added +- [response to ammonium ion](http://purl.obolibrary.org/obo/GO_0060359) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) p.558" -- [thymus](http://purl.obolibrary.org/obo/UBERON_0002370) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +### response to bacterium `http://purl.obolibrary.org/obo/GO_0009617` #### Added -- [thymus](http://purl.obolibrary.org/obo/UBERON_0002370) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [response to bacterium](http://purl.obolibrary.org/obo/GO_0009617) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### thymus corticomedullary boundary `http://purl.obolibrary.org/obo/UBERON_0003988` +### response to bile acid `http://purl.obolibrary.org/obo/GO_1903412` #### Added -- [thymus corticomedullary boundary](http://purl.obolibrary.org/obo/UBERON_0003988) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [response to bile acid](http://purl.obolibrary.org/obo/GO_1903412) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### thymus epithelium `http://purl.obolibrary.org/obo/UBERON_0003846` +### response to biotic stimulus `http://purl.obolibrary.org/obo/GO_0009607` #### Removed -- [thymus epithelium](http://purl.obolibrary.org/obo/UBERON_0003846) SubClassOf [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) +- [response to biotic stimulus](http://purl.obolibrary.org/obo/GO_0009607) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) #### Added -- [thymus epithelium](http://purl.obolibrary.org/obo/UBERON_0003846) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) - -- [thymus epithelium](http://purl.obolibrary.org/obo/UBERON_0003846) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) - -- [thymus epithelium](http://purl.obolibrary.org/obo/UBERON_0003846) SubClassOf [endo-epithelium](http://purl.obolibrary.org/obo/UBERON_0005911) +- [response to biotic stimulus](http://purl.obolibrary.org/obo/GO_0009607) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -### thymus lobe `http://purl.obolibrary.org/obo/UBERON_0005483` -#### Removed -- [thymus lobe](http://purl.obolibrary.org/obo/UBERON_0005483) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "each lobe of the thymus can be divided into a central medulla and a peripheral cortex which is surrounded by an outer capsule. Each lobe is composed of numerous lobules held together by delicate areolar tissue; the entire organ being enclosed in an investing capsule of a similar but denser structure. The primary lobules vary in size from that of a pin's head to that of a small pea, and are made up of a number of small nodules or follicles.[WP]" +### response to calcium ion `http://purl.obolibrary.org/obo/GO_0051592` #### Added -- [thymus lobe](http://purl.obolibrary.org/obo/UBERON_0005483) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "thymus subunit" - -- [thymus lobe](http://purl.obolibrary.org/obo/UBERON_0005483) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [response to calcium ion](http://purl.obolibrary.org/obo/GO_0051592) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### thymus lobule `http://purl.obolibrary.org/obo/UBERON_0002125` -#### Removed -- [thymus lobule](http://purl.obolibrary.org/obo/UBERON_0002125) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in the mouse, the lobes of the thymus are not subdivided into lobules but only in the central medulla and a peripheral cortex (i.e. there is no distinct sublobulation). In humans, the two thymus lobes are composed of many lobules of various sizes which contain follicles, each comprising a medulla and a cortex. in the rat, the thymus is partially subdivided into lobules separated by thin bands of connective tissue which are continuous with the thin connective tissue capsule.[MP]" - -- [thymus lobule](http://purl.obolibrary.org/obo/UBERON_0002125) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "Lymphocytes, reticular cells and macrophages are found in the lobules" +### response to carbohydrate `http://purl.obolibrary.org/obo/GO_0009743` #### Added -- [thymus lobule](http://purl.obolibrary.org/obo/UBERON_0002125) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [response to carbohydrate](http://purl.obolibrary.org/obo/GO_0009743) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### thymus lymphoid tissue `http://purl.obolibrary.org/obo/UBERON_0003483` +### response to catecholamine `http://purl.obolibrary.org/obo/GO_0071869` #### Added -- [thymus lymphoid tissue](http://purl.obolibrary.org/obo/UBERON_0003483) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [response to catecholamine](http://purl.obolibrary.org/obo/GO_0071869) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### thymus primordium `http://purl.obolibrary.org/obo/UBERON_0005562` +### response to chemical `http://purl.obolibrary.org/obo/GO_0042221` #### Removed -- [thymus primordium](http://purl.obolibrary.org/obo/UBERON_0005562) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A small outgrowth of the pharyngeal epithelium that is the site of lymphocyte cell production. Willett et al, 1999.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001077" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [response to chemical](http://purl.obolibrary.org/obo/GO_0042221) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [response to chemical](http://purl.obolibrary.org/obo/GO_0042221) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) -- [thymus primordium](http://purl.obolibrary.org/obo/UBERON_0005562) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "variability of developmental origin: In fish, thymic primordia are generated by all the pouches except the first. However, in avians the thymus arises from pouches 3 and 4, whereas in humans it is only generated by the third pouch[PMID:16313389] The thymus arises from the second pouch in frogs, 2-6 in cartilaginous fish, 2-3 in reptiles, 3 or 4 in bony fish, birds and mammals. The final number is variable - 5 paired organs in sharks, 4 in caecilians, 3 in urodeles, 1 in many teleost, anurans and many mammals" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0781714125" +- [response to chemical](http://purl.obolibrary.org/obo/GO_0042221) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -- [thymus primordium](http://purl.obolibrary.org/obo/UBERON_0005562) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [vagal neural crest](http://purl.obolibrary.org/obo/UBERON_0005428) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA" +- [response to chemical](http://purl.obolibrary.org/obo/GO_0042221) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://github.com/obophenotype/uberon/wiki/The-neural-crest" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "mesenchymal" +### response to dopamine `http://purl.obolibrary.org/obo/GO_1903350` #### Added -- [thymus primordium](http://purl.obolibrary.org/obo/UBERON_0005562) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [vagal neural crest](http://purl.obolibrary.org/obo/UBERON_0005428) +- [response to dopamine](http://purl.obolibrary.org/obo/GO_1903350) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### thymus primordium endoderm `http://purl.obolibrary.org/obo/UBERON_0008817` +### response to dsDNA `http://purl.obolibrary.org/obo/GO_1990784` #### Added -- [thymus primordium endoderm](http://purl.obolibrary.org/obo/UBERON_0008817) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [response to dsDNA](http://purl.obolibrary.org/obo/GO_1990784) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "sl" +- [response to dsDNA](http://purl.obolibrary.org/obo/GO_1990784) [label](http://www.w3.org/2000/01/rdf-schema#label) "response to dsDNA" -### thymus subunit `http://purl.obolibrary.org/obo/UBERON_0035075` -#### Removed -- [thymus subunit](http://purl.obolibrary.org/obo/UBERON_0035075) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "lobe or lobule of thymus" - -- [thymus subunit](http://purl.obolibrary.org/obo/UBERON_0035075) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +- [response to dsDNA](http://purl.obolibrary.org/obo/GO_1990784) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" -- [thymus subunit](http://purl.obolibrary.org/obo/UBERON_0035075) [id](http://www.geneontology.org/formats/oboInOwl#id) "UBERON:0035075" +- [response to dsDNA](http://purl.obolibrary.org/obo/GO_1990784) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2015-06-24T17:54:13Z" -- [thymus subunit](http://purl.obolibrary.org/obo/UBERON_0035075) [label](http://www.w3.org/2000/01/rdf-schema#label) "thymus subunit" +- [response to dsDNA](http://purl.obolibrary.org/obo/GO_1990784) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:1990784" -- [thymus subunit](http://purl.obolibrary.org/obo/UBERON_0035075) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FMA:71193" +- [response to dsDNA](http://purl.obolibrary.org/obo/GO_1990784) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "response to double-stranded DNA" -- Class: [thymus subunit](http://purl.obolibrary.org/obo/UBERON_0035075) +- [response to dsDNA](http://purl.obolibrary.org/obo/GO_1990784) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a double-stranded DNA stimulus." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:10051633" -- [thymus subunit](http://purl.obolibrary.org/obo/UBERON_0035075) EquivalentTo [organ subunit](http://purl.obolibrary.org/obo/UBERON_0000063) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [thyroid gland](http://purl.obolibrary.org/obo/UBERON_0002046)) +- Class: [response to dsDNA](http://purl.obolibrary.org/obo/GO_1990784) -- [thymus subunit](http://purl.obolibrary.org/obo/UBERON_0035075) SubClassOf [part_of](http://purl.obolibrary.org/obo/BFO_0000050) some [thyroid gland](http://purl.obolibrary.org/obo/UBERON_0002046) +- [response to dsDNA](http://purl.obolibrary.org/obo/GO_1990784) EquivalentTo [response to stimulus](http://purl.obolibrary.org/obo/GO_0050896) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_4705](http://purl.obolibrary.org/obo/CHEBI_4705)) -- [thymus subunit](http://purl.obolibrary.org/obo/UBERON_0035075) SubClassOf [organ subunit](http://purl.obolibrary.org/obo/UBERON_0000063) +- [response to dsDNA](http://purl.obolibrary.org/obo/GO_1990784) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_4705](http://purl.obolibrary.org/obo/CHEBI_4705) +- [response to dsDNA](http://purl.obolibrary.org/obo/GO_1990784) SubClassOf [response to chemical](http://purl.obolibrary.org/obo/GO_0042221) -### thymus trabecula `http://purl.obolibrary.org/obo/UBERON_0004791` +### response to endogenous stimulus `http://purl.obolibrary.org/obo/GO_0009719` +#### Removed +- [response to endogenous stimulus](http://purl.obolibrary.org/obo/GO_0009719) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) #### Added -- [thymus trabecula](http://purl.obolibrary.org/obo/UBERON_0004791) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [response to endogenous stimulus](http://purl.obolibrary.org/obo/GO_0009719) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) -### thyroid artery `http://purl.obolibrary.org/obo/UBERON_0003847` +### response to epinephrine `http://purl.obolibrary.org/obo/GO_0071871` #### Removed -- [thyroid artery](http://purl.obolibrary.org/obo/UBERON_0003847) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the external carotid which supplies blood to the thyroid gland.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [response to epinephrine](http://purl.obolibrary.org/obo/GO_0071871) [label](http://www.w3.org/2000/01/rdf-schema#label) "response to epinephrine" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +- [response to epinephrine](http://purl.obolibrary.org/obo/GO_0071871) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an epinephrine stimulus. Epinephrine is a catecholamine that has the formula C9H13NO3; it is secreted by the adrenal medulla to act as a hormone, and released by certain neurons to act as a neurotransmitter active in the central nervous system." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:mah" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010490" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:BHF" -- [thyroid artery](http://purl.obolibrary.org/obo/UBERON_0003847) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: part_of external carotid (AAO:0010218)[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [response to epinephrine](http://purl.obolibrary.org/obo/GO_0071871) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0071871" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [response to epinephrine](http://purl.obolibrary.org/obo/GO_0071871) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "response to adrenaline stimulus" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:mah" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010490" +- [response to epinephrine](http://purl.obolibrary.org/obo/GO_0071871) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that epinephrine and norepinephrine are ligands for the same receptors, and there are multiple adrenergic receptors." +- [response to epinephrine](http://purl.obolibrary.org/obo/GO_0071871) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" +- [response to epinephrine](http://purl.obolibrary.org/obo/GO_0071871) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "mah" -### thyroid gland `http://purl.obolibrary.org/obo/UBERON_0002046` -#### Removed -- [thyroid gland](http://purl.obolibrary.org/obo/UBERON_0002046) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In larval lampreys, the thyroid originates as an exocrine gland, secreting its hormones into the gut, and associated with the larva's filter-feeding apparatus. In the adult lamprey, the gland separates from the gut, and becomes endocrine, but this path of development may reflect the evolutionary origin of the thyroid. For instance, the closest living relatives of vertebrates, the tunicates and Amphioxus, have a structure very similar to that of larval lampreys, and this also secretes iodine-containing compounds (albeit not thyroxine)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Romer" +- [response to epinephrine](http://purl.obolibrary.org/obo/GO_0071871) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "response to epinephrine stimulus" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:dos" - - [hasScope](http://www.geneontology.org/formats/oboInOwl#hasScope) "NCBITaxon:7746" +- [response to epinephrine](http://purl.obolibrary.org/obo/GO_0071871) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2010-09-13T03:27:48Z" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Thyroid_gland#Other_animals" +- Class: [response to epinephrine](http://purl.obolibrary.org/obo/GO_0071871) -- [thyroid gland](http://purl.obolibrary.org/obo/UBERON_0002046) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (2) a groove in the pharyngeal floor known as the endostyle, or a thyroid gland derived from part of the endostyle (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [response to epinephrine](http://purl.obolibrary.org/obo/GO_0071871) EquivalentTo [response to stimulus](http://purl.obolibrary.org/obo/GO_0050896) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33568](http://purl.obolibrary.org/obo/CHEBI_33568)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [response to epinephrine](http://purl.obolibrary.org/obo/GO_0071871) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33568](http://purl.obolibrary.org/obo/CHEBI_33568) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [response to epinephrine](http://purl.obolibrary.org/obo/GO_0071871) SubClassOf [response to stimulus](http://purl.obolibrary.org/obo/GO_0050896) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000418" -- [thyroid gland](http://purl.obolibrary.org/obo/UBERON_0002046) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Either of paired structures located in the throat which develop from the ventral wall of the pharynx and excretes hormones involved in the morphological and functional changes during metamorphosis as well as influencing other tissues.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### response to estradiol `http://purl.obolibrary.org/obo/GO_0032355` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010544" +#### Added +- [response to estradiol](http://purl.obolibrary.org/obo/GO_0032355) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +### response to external stimulus `http://purl.obolibrary.org/obo/GO_0009605` +#### Removed +- [response to external stimulus](http://purl.obolibrary.org/obo/GO_0009605) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) -- [thyroid gland](http://purl.obolibrary.org/obo/UBERON_0002046) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In tetrapods, the thyroid is always found somewhere in the neck region. In most tetrapod species, there are two paired thyroid glands - that is, the right and left lobes are not joined together. However, there is only ever a single thyroid gland in most mammals, and the shape found in humans is common to many other species" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Romer" +#### Added +- [response to external stimulus](http://purl.obolibrary.org/obo/GO_0009605) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [hasScope](http://www.geneontology.org/formats/oboInOwl#hasScope) "NCBITaxon:32523" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Thyroid_gland#Other_animals" +### response to fungus `http://purl.obolibrary.org/obo/GO_0009620` -- [thyroid gland](http://purl.obolibrary.org/obo/UBERON_0002046) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In fish, it is usually located below the gills and is not always divided into distinct lobes. However, in some teleosts, patches of thyroid tissue are found elsewhere in the body, associated with the kidneys, spleen, heart, or eyes" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Romer" +#### Added +- [response to fungus](http://purl.obolibrary.org/obo/GO_0009620) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [hasScope](http://www.geneontology.org/formats/oboInOwl#hasScope) "NCBITaxon:32443" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Thyroid_gland#Other_animals" +### response to glucagon `http://purl.obolibrary.org/obo/GO_0033762` +#### Added +- [response to glucagon](http://purl.obolibrary.org/obo/GO_0033762) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### thyroid gland medulla `http://purl.obolibrary.org/obo/UBERON_0004827` +### response to glucocorticoid `http://purl.obolibrary.org/obo/GO_0051384` #### Added -- [thyroid gland medulla](http://purl.obolibrary.org/obo/UBERON_0004827) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [response to glucocorticoid](http://purl.obolibrary.org/obo/GO_0051384) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### thyroid primordium `http://purl.obolibrary.org/obo/UBERON_0003091` +### response to glucose `http://purl.obolibrary.org/obo/GO_0009749` #### Removed -- [thyroid primordium](http://purl.obolibrary.org/obo/UBERON_0003091) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Note that we follow EHDAA2 in dividing this into endoderm and mesenchyme. In this ontology we place the broad developmental relationship at this level, and include specific relationships to the pharyngeal endoderm at the level of the endoderm" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" +- [response to glucose](http://purl.obolibrary.org/obo/GO_0009749) EquivalentTo [response to stimulus](http://purl.obolibrary.org/obo/GO_0050896) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_17234](http://purl.obolibrary.org/obo/CHEBI_17234)) -- [thyroid primordium](http://purl.obolibrary.org/obo/UBERON_0003091) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Portion of tissue part of the pharyngeal endoderm that is fated to become thyroid follicle[ZFIN:curator]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [response to glucose](http://purl.obolibrary.org/obo/GO_0009749) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_17234](http://purl.obolibrary.org/obo/CHEBI_17234) -- [thyroid primordium](http://purl.obolibrary.org/obo/UBERON_0003091) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In all vertebrates the thyroid arises from the ventral aspect of the second pouch" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:16313389" +#### Added +- [response to glucose](http://purl.obolibrary.org/obo/GO_0009749) EquivalentTo [response to stimulus](http://purl.obolibrary.org/obo/GO_0050896) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_4167](http://purl.obolibrary.org/obo/CHEBI_4167)) +- [response to glucose](http://purl.obolibrary.org/obo/GO_0009749) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +- [response to glucose](http://purl.obolibrary.org/obo/GO_0009749) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_4167](http://purl.obolibrary.org/obo/CHEBI_4167) -### tibia `http://purl.obolibrary.org/obo/UBERON_0000979` -#### Removed -- [tibia](http://purl.obolibrary.org/obo/UBERON_0000979) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of the two long bones of endochondral origin of the hind-epipodium; it is a straight, simple bone whose section is more or less rectangular at the ends and circular at its central portion.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000890" +### response to glycine `http://purl.obolibrary.org/obo/GO_1905429` + +#### Added +- [response to glycine](http://purl.obolibrary.org/obo/GO_1905429) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### response to glycoprotein `http://purl.obolibrary.org/obo/GO_1904587` +#### Added +- [response to glycoprotein](http://purl.obolibrary.org/obo/GO_1904587) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### tibial tuberosity `http://purl.obolibrary.org/obo/UBERON_7500062` +### response to hexose `http://purl.obolibrary.org/obo/GO_0009746` #### Added -- [tibial tuberosity](http://purl.obolibrary.org/obo/UBERON_7500062) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) - +- [response to hexose](http://purl.obolibrary.org/obo/GO_0009746) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### tissue `http://purl.obolibrary.org/obo/UBERON_0000479` -#### Removed -- [tissue](http://purl.obolibrary.org/obo/UBERON_0000479) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007003" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### response to histamine `http://purl.obolibrary.org/obo/GO_0034776` +#### Added +- [response to histamine](http://purl.obolibrary.org/obo/GO_0034776) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### title `http://purl.org/dc/elements/1.1/title` -#### Removed -- [title](http://purl.org/dc/elements/1.1/title) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "dc-title" -- [title](http://purl.org/dc/elements/1.1/title) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +### response to hormone `http://purl.obolibrary.org/obo/GO_0009725` -- [title](http://purl.org/dc/elements/1.1/title) [is_metadata_tag](http://www.geneontology.org/formats/oboInOwl#is_metadata_tag) true +#### Added +- [response to hormone](http://purl.obolibrary.org/obo/GO_0009725) [never in taxon](http://purl.obolibrary.org/obo/RO_0002161) [Ascomycota](http://purl.obolibrary.org/obo/NCBITaxon_4890) -- [title](http://purl.org/dc/elements/1.1/title) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "http://purl.org/dc/elements/1.1/title" +- [response to hormone](http://purl.obolibrary.org/obo/GO_0009725) [never in taxon](http://purl.obolibrary.org/obo/RO_0002161) [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751) -- [title](http://purl.org/dc/elements/1.1/title) [id](http://www.geneontology.org/formats/oboInOwl#id) "dc-title" +- [response to hormone](http://purl.obolibrary.org/obo/GO_0009725) DisjointWith [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Ascomycota](http://purl.obolibrary.org/obo/NCBITaxon_4890) -- [title](http://purl.org/dc/elements/1.1/title) [label](http://www.w3.org/2000/01/rdf-schema#label) "title" +- [response to hormone](http://purl.obolibrary.org/obo/GO_0009725) DisjointWith [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751) +- [response to hormone](http://purl.obolibrary.org/obo/GO_0009725) SubClassOf not ([in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Ascomycota](http://purl.obolibrary.org/obo/NCBITaxon_4890)) +- [response to hormone](http://purl.obolibrary.org/obo/GO_0009725) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some (not ([Ascomycota](http://purl.obolibrary.org/obo/NCBITaxon_4890))) -### to be replaced with external ontology term `http://purl.obolibrary.org/obo/IAO_0000423` -#### Removed -- [to be replaced with external ontology term](http://purl.obolibrary.org/obo/IAO_0000423) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "to be replaced with external ontology term"@en +- [response to hormone](http://purl.obolibrary.org/obo/GO_0009725) SubClassOf not ([in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751)) -- [to be replaced with external ontology term](http://purl.obolibrary.org/obo/IAO_0000423) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "group:OBI"@en +- [response to hormone](http://purl.obolibrary.org/obo/GO_0009725) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some (not ([Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751))) -- [to be replaced with external ontology term](http://purl.obolibrary.org/obo/IAO_0000423) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "Alan Ruttenberg"@en +### response to iron ion `http://purl.obolibrary.org/obo/GO_0010039` +#### Added +- [response to iron ion](http://purl.obolibrary.org/obo/GO_0010039) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### todo `http://www.geneontology.org/formats/oboInOwl#todo` -#### Removed -- AnnotationProperty: [todo](http://www.geneontology.org/formats/oboInOwl#todo) +### response to light stimulus `http://purl.obolibrary.org/obo/GO_0009416` +#### Added +- [response to light stimulus](http://purl.obolibrary.org/obo/GO_0009416) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### tongue `http://purl.obolibrary.org/obo/UBERON_0001723` -#### Removed -- [tongue](http://purl.obolibrary.org/obo/UBERON_0001723) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The tongue has contributions from all pharyngeal arches which changes with time. The tongue initially begins as swelling rostral to foramen cecum, the median tongue bud.. tongue muscles derive from the somites - http://php.med.unsw.edu.au/embryology/index.php?title=Tongue_Development#Pharyngeal_Arch_Contributions" -- [tongue](http://purl.obolibrary.org/obo/UBERON_0001723) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "lingual" +### response to lipid `http://purl.obolibrary.org/obo/GO_0033993` -- [tongue](http://purl.obolibrary.org/obo/UBERON_0001723) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "glossal" +#### Added +- [response to lipid](http://purl.obolibrary.org/obo/GO_0033993) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [tongue](http://purl.obolibrary.org/obo/UBERON_0001723) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The tongue is the movable, muscular organ on the floor of the mouth of most vertebrates, in many other mammals is the principal organ of taste, aids in the prehension of food, in swallowing, and in modifying the voice as in speech[GO][GO:0043586]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "GO:0043586" -- [tongue](http://purl.obolibrary.org/obo/UBERON_0001723) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A mobile mass of muscular tissue that is covered with mucous membrane, occupies much of the cavity of the mouth, forms part of its floor, bears the organ of taste, and assists in chewing and swallowing. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/tongue" +### response to lipoprotein particle `http://purl.obolibrary.org/obo/GO_0055094` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [response to lipoprotein particle](http://purl.obolibrary.org/obo/GO_0055094) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### response to mineralocorticoid `http://purl.obolibrary.org/obo/GO_0051385` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000419" +#### Added +- [response to mineralocorticoid](http://purl.obolibrary.org/obo/GO_0051385) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [tongue](http://purl.obolibrary.org/obo/UBERON_0001723) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Muscular organ in the floor of the mouth.[FEED]" - - [url](http://www.geneontology.org/formats/oboInOwl#url) "http://www.feedexp.org" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "FEED" +### response to nitrogen compound `http://purl.obolibrary.org/obo/GO_1901698` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-07-02" +#### Added +- [response to nitrogen compound](http://purl.obolibrary.org/obo/GO_1901698) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." -- [tongue](http://purl.obolibrary.org/obo/UBERON_0001723) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Most adult amphibians have a tongue, as do all known reptiles, birds and mammals. Thus it is likely that the tongue appeared with the establishment of tetrapods and this structure seems to be related, to some extant, to the terrestrial lifestyle.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [response to nitrogen compound](http://purl.obolibrary.org/obo/GO_1901698) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [response to nitrogen compound](http://purl.obolibrary.org/obo/GO_1901698) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27194"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [response to nitrogen compound](http://purl.obolibrary.org/obo/GO_1901698) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2002.00073.x Iwasaki S, Evolution of the structure and function of the vertebrate tongue. J Anat (2002)" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000419" +### response to norepinephrine `http://purl.obolibrary.org/obo/GO_0071873` -- [tongue](http://purl.obolibrary.org/obo/UBERON_0001723) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Many species of fish have small folds at the base of their mouths that might informally be called tongues, but they lack a muscular structure like the true tongues found in most tetrapods" +#### Added +- [response to norepinephrine](http://purl.obolibrary.org/obo/GO_0071873) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [tongue](http://purl.obolibrary.org/obo/UBERON_0001723) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future tongue](http://purl.obolibrary.org/obo/UBERON_0010056) - - [evidence](http://www.geneontology.org/formats/oboInOwl#evidence) "definitional" -- [tongue](http://purl.obolibrary.org/obo/UBERON_0001723) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [lingual swellings](http://purl.obolibrary.org/obo/UBERON_0006260) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "anterior 2/3" +### response to organic cyclic compound `http://purl.obolibrary.org/obo/GO_0014070` #### Added -- [tongue](http://purl.obolibrary.org/obo/UBERON_0001723) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [lingual swellings](http://purl.obolibrary.org/obo/UBERON_0006260) +- [response to organic cyclic compound](http://purl.obolibrary.org/obo/GO_0014070) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [tongue](http://purl.obolibrary.org/obo/UBERON_0001723) SubClassOf [immediate transformation of](http://purl.obolibrary.org/obo/RO_0002495) some [future tongue](http://purl.obolibrary.org/obo/UBERON_0010056) +### response to organic substance `http://purl.obolibrary.org/obo/GO_0010033` -### tongue muscle `http://purl.obolibrary.org/obo/UBERON_0000378` -#### Removed -- [tongue muscle](http://purl.obolibrary.org/obo/UBERON_0000378) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The lamprey head contains another group of muscles, the epi- and hypo-branchial muscles (EBM and HBM), derivatives of anterior trunk myotomes. (...) The origin and the migration pattern of HBM precursors are very similar to that of the gnathostome MPP, especially to that of the tongue muscle precursors. Other evidence of homology of lamprey HBM to the gnathostome tongue muscle is that HBM is innervated by the nerve termed the hypoglossal nerve based on its morphological position associated with the head/trunk interface. (...) The HBM-specific expression of the LampPax3/7 gene is consistent with the homology of this muscle to the gnathostome tongue muscle, or to the hypobranchial series as a whole (including the infrahyoid and possibly the diaphragm in mammals).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [response to organic substance](http://purl.obolibrary.org/obo/GO_0010033) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27194"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [response to organic substance](http://purl.obolibrary.org/obo/GO_0010033) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1002/dvdy.20587 Kusakabe R, Kuratani S, Evolution and developmental patterning of the vertebrate skeletal muscles: perspectives from the lamprey. Developmental Dynamics (2005)" +- [response to organic substance](http://purl.obolibrary.org/obo/GO_0010033) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001390" +### response to organonitrogen compound `http://purl.obolibrary.org/obo/GO_0010243` +#### Added +- [response to organonitrogen compound](http://purl.obolibrary.org/obo/GO_0010243) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27194"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -### tongue squamous epithelium `http://purl.obolibrary.org/obo/UBERON_0006919` -#### Removed -- [tongue squamous epithelium](http://purl.obolibrary.org/obo/UBERON_0006919) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "this is a singleton subclass of tongue epithelium in MA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +- [response to organonitrogen compound](http://purl.obolibrary.org/obo/GO_0010243) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." +- [response to organonitrogen compound](http://purl.obolibrary.org/obo/GO_0010243) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) +- [response to organonitrogen compound](http://purl.obolibrary.org/obo/GO_0010243) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### tonsil `http://purl.obolibrary.org/obo/UBERON_0002372` -#### Removed -- [tonsil](http://purl.obolibrary.org/obo/UBERON_0002372) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "the term 'tonsil' can be ambiguous, sometimes refering specifically to the palatine tonsil, sometimes generically to include the cecal tonsils of avians. This class represents lymphoid tissue that is part of the tonsillar ring, in the mouth/throat region" +### response to oxygen-containing compound `http://purl.obolibrary.org/obo/GO_1901700` +#### Added +- [response to oxygen-containing compound](http://purl.obolibrary.org/obo/GO_1901700) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/27194"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -### tonsil germinal center `http://purl.obolibrary.org/obo/UBERON_0013688` -#### Removed -- [tonsil germinal center](http://purl.obolibrary.org/obo/UBERON_0013688) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The germinal center or reaction center is the activated center of a lymphoid follicle in secondary lymphoid tissue where B-lymphocytes are stimulated by antigens and helper T cells (T-lymphocytes, helper-inducer) are stimulated to generate memory cells. Here, the germinal center of a tonsil[TS-1288]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TS-1288" +- [response to oxygen-containing compound](http://purl.obolibrary.org/obo/GO_1901700) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) +- [response to oxygen-containing compound](http://purl.obolibrary.org/obo/GO_1901700) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." -### tonsillar ring `http://purl.obolibrary.org/obo/UBERON_0001735` +### response to peptide `http://purl.obolibrary.org/obo/GO_1901652` #### Removed -- [tonsillar ring](http://purl.obolibrary.org/obo/UBERON_0001735) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The circular lymphoid tissue formed by the lingual, pharyngeal, and facial tonsils." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MGI:cwg" +- [response to peptide](http://purl.obolibrary.org/obo/GO_1901652) EquivalentTo [response to stimulus](http://purl.obolibrary.org/obo/GO_0050896) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670)) - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MP:0002379" +- [response to peptide](http://purl.obolibrary.org/obo/GO_1901652) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670) #### Added -- [tonsillar ring](http://purl.obolibrary.org/obo/UBERON_0001735) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The circular lymphoid tissue formed by the lingual, pharyngeal, and faucial tonsils." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MGI:cwg" +- [response to peptide](http://purl.obolibrary.org/obo/GO_1901652) EquivalentTo [response to stimulus](http://purl.obolibrary.org/obo/GO_0050896) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466)) - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MP:0002379" +- [response to peptide](http://purl.obolibrary.org/obo/GO_1901652) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466) +- [response to peptide](http://purl.obolibrary.org/obo/GO_1901652) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### tooth enamel organ `http://purl.obolibrary.org/obo/UBERON_0005176` -#### Removed -- [tooth enamel organ](http://purl.obolibrary.org/obo/UBERON_0005176) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "NOT develops_from NC[https://github.com/obophenotype/uberon/wiki/The-neural-crest]" - -- [tooth enamel organ](http://purl.obolibrary.org/obo/UBERON_0005176) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A structure that is involved in tooth formation. A bell shape two layer epithelial structure that descends toward the ceratobranchial 5 bone, enclosing the dental mesenchyme. At later times in tooth development the cells at the apex of the bell may be involved in enameloid formation. This structure remains at the base of the erupted tooth and is the source of replacement teeth.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005138" +### response to progesterone `http://purl.obolibrary.org/obo/GO_0032570` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [response to progesterone](http://purl.obolibrary.org/obo/GO_0032570) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" -- [tooth enamel organ](http://purl.obolibrary.org/obo/UBERON_0005176) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "Historically, enamel organ has been the term to describe this structure, but it was attempted unsuccessfully in recent years to change the name to dental organ in order to better represent its multiple functions apart from enamel formation" +### response to serotonin `http://purl.obolibrary.org/obo/GO_1904014` +#### Added +- [response to serotonin](http://purl.obolibrary.org/obo/GO_1904014) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### tooth of lower jaw `http://purl.obolibrary.org/obo/UBERON_0003268` +### response to stimulus `http://purl.obolibrary.org/obo/GO_0050896` #### Removed -- [tooth of lower jaw](http://purl.obolibrary.org/obo/UBERON_0003268) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EHDAA2:0001029" +- [response to stimulus](http://purl.obolibrary.org/obo/GO_0050896) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) #### Added -- [tooth of lower jaw](http://purl.obolibrary.org/obo/UBERON_0003268) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) +- [response to stimulus](http://purl.obolibrary.org/obo/GO_0050896) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) +- [response to stimulus](http://purl.obolibrary.org/obo/GO_0050896) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) -### tooth of upper jaw `http://purl.obolibrary.org/obo/UBERON_0003267` + +### response to stimulus involved in regulation of muscle adaptation `http://purl.obolibrary.org/obo/GO_0014874` #### Added -- [tooth of upper jaw](http://purl.obolibrary.org/obo/UBERON_0003267) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) +- [response to stimulus involved in regulation of muscle adaptation](http://purl.obolibrary.org/obo/GO_0014874) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### tooth placode `http://purl.obolibrary.org/obo/UBERON_0005087` +### response to stress `http://purl.obolibrary.org/obo/GO_0006950` #### Removed -- [tooth placode](http://purl.obolibrary.org/obo/UBERON_0005087) [UBPROP_0000015](http://purl.obolibrary.org/obo/UBPROP_0000015) "In mammals this may be located in the alveolar ridges, but note that some species such as zebrafish have ceratobranchial teeth. Sharks have dermal denticles that share developmental origins. Currently we don't include location information due to this diversity, but in future we may include specific subclasses and/or taxon GCIs." +- [response to stress](http://purl.obolibrary.org/obo/GO_0006950) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_manually_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate) -- [tooth placode](http://purl.obolibrary.org/obo/UBERON_0005087) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Placode that develops into a tooth. The placode is a thickening of the pharyngeal epithelium.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +#### Added +- [response to stress](http://purl.obolibrary.org/obo/GO_0006950) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001153" +### response to superoxide `http://purl.obolibrary.org/obo/GO_0000303` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [response to superoxide](http://purl.obolibrary.org/obo/GO_0000303) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [tooth placode](http://purl.obolibrary.org/obo/UBERON_0005087) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [pharyngeal arch 1](http://purl.obolibrary.org/obo/UBERON_0004362) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "check for other species" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Tooth_development" +### response to testosterone `http://purl.obolibrary.org/obo/GO_0033574` #### Added -- [tooth placode](http://purl.obolibrary.org/obo/UBERON_0005087) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [pharyngeal arch 1](http://purl.obolibrary.org/obo/UBERON_0004362) +- [response to testosterone](http://purl.obolibrary.org/obo/GO_0033574) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### tooth root `http://purl.obolibrary.org/obo/UBERON_0003677` +### response to vasopressin `http://purl.obolibrary.org/obo/GO_1904116` #### Added -- [tooth root](http://purl.obolibrary.org/obo/UBERON_0003677) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [response to vasopressin](http://purl.obolibrary.org/obo/GO_1904116) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### touch receptor cell `http://purl.obolibrary.org/obo/CL_0000200` -#### Removed -- [touch receptor cell](http://purl.obolibrary.org/obo/CL_0000200) SubClassOf [neuronal receptor cell](http://purl.obolibrary.org/obo/CL_0000006) - -- [touch receptor cell](http://purl.obolibrary.org/obo/CL_0000200) SubClassOf [somatosensory neuron](http://purl.obolibrary.org/obo/CL_4023168) +### reticular cell `http://purl.obolibrary.org/obo/CL_0000432` +#### Added +- [reticular cell](http://purl.obolibrary.org/obo/CL_0000432) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009200" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### trabecula `http://purl.obolibrary.org/obo/UBERON_0000440` +### reticulocyte `http://purl.obolibrary.org/obo/CL_0000558` #### Removed -- [trabecula](http://purl.obolibrary.org/obo/UBERON_0000440) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "trabecular" - +- [reticulocyte](http://purl.obolibrary.org/obo/CL_0000558) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +#### Added +- [reticulocyte](http://purl.obolibrary.org/obo/CL_0000558) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009252" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### trabecula carnea `http://purl.obolibrary.org/obo/UBERON_0002511` -#### Removed -- [trabecula carnea](http://purl.obolibrary.org/obo/UBERON_0002511) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "The purpose of the trabeculae carneae is most likely to prevent suction that would occur with a flat surfaced membrane and thus impair the heart's ability to pump efficiently. The trabeculae carneae also serve a similar function to papillary muscles in that their contraction pulls on the chordae tendineae, preventing inversion of the mitral (bicuspid) and tricuspid valves, that is, their bulging towards the atrial chambers, which would lead to subsequent leakage of the blood into the atria. So by the action of papillary muscles on the atrioventricular valves, backflow of the blood from the ventricles into the atria is prevented" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" -- [trabecula carnea](http://purl.obolibrary.org/obo/UBERON_0002511) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Note that WP states they are ventricular, but MP has classes for atrial ventricular carnea." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MP" +### retina horizontal cell `http://purl.obolibrary.org/obo/CL_0000745` #### Added -- [trabecula carnea](http://purl.obolibrary.org/obo/UBERON_0002511) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [retina horizontal cell](http://purl.obolibrary.org/obo/CL_0000745) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009315" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### trabecula of spleen `http://purl.obolibrary.org/obo/UBERON_0001265` +### retina layer formation `http://purl.obolibrary.org/obo/GO_0010842` #### Added -- [trabecula of spleen](http://purl.obolibrary.org/obo/UBERON_0001265) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [retina layer formation](http://purl.obolibrary.org/obo/GO_0010842) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### trachea `http://purl.obolibrary.org/obo/UBERON_0003126` -#### Removed -- [trachea](http://purl.obolibrary.org/obo/UBERON_0003126) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In primitive fishes and most tetrapods, the lungs of adults are usually paired. They lie ventral to the digestive tract and are connected to the outside environment through the trachea.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### retina morphogenesis in camera-type eye `http://purl.obolibrary.org/obo/GO_0060042` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [retina morphogenesis in camera-type eye](http://purl.obolibrary.org/obo/GO_0060042) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000371" +### retina vasculature morphogenesis in camera-type eye `http://purl.obolibrary.org/obo/GO_0061299` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.409" +#### Added +- [retina vasculature morphogenesis in camera-type eye](http://purl.obolibrary.org/obo/GO_0061299) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [trachea](http://purl.obolibrary.org/obo/UBERON_0003126) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The respiratory tube between the larynx and the bronchi. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-29, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### retinal bipolar neuron `http://purl.obolibrary.org/obo/CL_0000748` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [retinal bipolar neuron](http://purl.obolibrary.org/obo/CL_0000748) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009318" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000371" -- [trachea](http://purl.obolibrary.org/obo/UBERON_0003126) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An elongated tube which carries air to and from the lungs.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### retinal cone cell `http://purl.obolibrary.org/obo/CL_0000573` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010140" +#### Added +- [retinal cone cell](http://purl.obolibrary.org/obo/CL_0000573) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009262" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +### retinal ganglion cell `http://purl.obolibrary.org/obo/CL_0000740` -- [trachea](http://purl.obolibrary.org/obo/UBERON_0003126) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in mouse 15-18 C-rings, 15-20 in human." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0123813611" +#### Added +- [retinal ganglion cell](http://purl.obolibrary.org/obo/CL_0000740) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009310" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [trachea](http://purl.obolibrary.org/obo/UBERON_0003126) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In birds, the trachea runs from the pharynx to the syrinx, from which the primary bronchi diverge. Swans have an unusually elongated trachea, part of which is coiled beneath the sternum; this may act as a resonator to amplify sound. In some birds, the cartilagenous rings are complete, and may even be ossified. In amphibians, the trachea is normally extremely short, and leads directly into the lungs, without clear primary bronchi. A longer trachea is, however found in some long-necked salamanders, and in caecilians. While there are irregular cartilagenous nodules on the amphibian trachea, these do not form the rings found in amniotes. The only vertebrate to have lungs, but no trachea, is Polypterus, in which the lungs arise directly from the pharynx." -- [trachea](http://purl.obolibrary.org/obo/UBERON_0003126) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "tracheal" +### retinal progenitor cell `http://purl.obolibrary.org/obo/CL_0002672` +#### Added +- [retinal progenitor cell](http://purl.obolibrary.org/obo/CL_0002672) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### trachea basement membrane `http://purl.obolibrary.org/obo/UBERON_0009653` +### retinal rod cell `http://purl.obolibrary.org/obo/CL_0000604` #### Added -- [trachea basement membrane](http://purl.obolibrary.org/obo/UBERON_0009653) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [retinal rod cell](http://purl.obolibrary.org/obo/CL_0000604) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009275" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### trachea blood vessel `http://purl.obolibrary.org/obo/UBERON_0003505` +### retrograde trans-synaptic signaling by neuropeptide `http://purl.obolibrary.org/obo/GO_0099082` +#### Removed +- [retrograde trans-synaptic signaling by neuropeptide](http://purl.obolibrary.org/obo/GO_0099082) EquivalentTo [trans-synaptic signaling](http://purl.obolibrary.org/obo/GO_0099537) and ([has start location](http://purl.obolibrary.org/obo/RO_0002231) some [postsynapse](http://purl.obolibrary.org/obo/GO_0098794)) and ([has end location](http://purl.obolibrary.org/obo/RO_0002232) some [presynapse](http://purl.obolibrary.org/obo/GO_0098793)) and ([process has causal agent](http://purl.obolibrary.org/obo/RO_0002608) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670)) #### Added -- [trachea blood vessel](http://purl.obolibrary.org/obo/UBERON_0003505) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [retrograde trans-synaptic signaling by neuropeptide](http://purl.obolibrary.org/obo/GO_0099082) EquivalentTo [trans-synaptic signaling](http://purl.obolibrary.org/obo/GO_0099537) and ([has start location](http://purl.obolibrary.org/obo/RO_0002231) some [postsynapse](http://purl.obolibrary.org/obo/GO_0098794)) and ([has end location](http://purl.obolibrary.org/obo/RO_0002232) some [presynapse](http://purl.obolibrary.org/obo/GO_0098793)) and ([process has causal agent](http://purl.obolibrary.org/obo/RO_0002608) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466)) -### trachea cartilage `http://purl.obolibrary.org/obo/UBERON_0003604` +### retrograde trans-synaptic signaling by neuropeptide, modulating synaptic transmission `http://purl.obolibrary.org/obo/GO_0099083` #### Removed -- [trachea cartilage](http://purl.obolibrary.org/obo/UBERON_0003604) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "in mammals the rings are incomplete, in avians the rings are complete." +- [retrograde trans-synaptic signaling by neuropeptide, modulating synaptic transmission](http://purl.obolibrary.org/obo/GO_0099083) EquivalentTo [trans-synaptic signaling](http://purl.obolibrary.org/obo/GO_0099537) and ([regulates](http://purl.obolibrary.org/obo/RO_0002211) some [chemical synaptic transmission](http://purl.obolibrary.org/obo/GO_0007268)) and ([has start location](http://purl.obolibrary.org/obo/RO_0002231) some [postsynapse](http://purl.obolibrary.org/obo/GO_0098794)) and ([has end location](http://purl.obolibrary.org/obo/RO_0002232) some [presynapse](http://purl.obolibrary.org/obo/GO_0098793)) and ([process has causal agent](http://purl.obolibrary.org/obo/RO_0002608) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670)) +#### Added +- [retrograde trans-synaptic signaling by neuropeptide, modulating synaptic transmission](http://purl.obolibrary.org/obo/GO_0099083) EquivalentTo [trans-synaptic signaling](http://purl.obolibrary.org/obo/GO_0099537) and ([regulates](http://purl.obolibrary.org/obo/RO_0002211) some [chemical synaptic transmission](http://purl.obolibrary.org/obo/GO_0007268)) and ([has start location](http://purl.obolibrary.org/obo/RO_0002231) some [postsynapse](http://purl.obolibrary.org/obo/GO_0098794)) and ([has end location](http://purl.obolibrary.org/obo/RO_0002232) some [presynapse](http://purl.obolibrary.org/obo/GO_0098793)) and ([process has causal agent](http://purl.obolibrary.org/obo/RO_0002608) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466)) -### trachea gland `http://purl.obolibrary.org/obo/UBERON_0005203` -#### Removed -- [trachea gland](http://purl.obolibrary.org/obo/UBERON_0005203) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "These glands secrete mucus, lysozyme, defensins, and other agents that help protect the lungs from particles and infectious agents." +### retrotrapezoid nucleus neuron `http://purl.obolibrary.org/obo/CL_1000001` +#### Added +- [retrotrapezoid nucleus neuron](http://purl.obolibrary.org/obo/CL_1000001) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any neuron that has its soma located in some retrotrapezoid nucleus." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### tracheal submucosal gland ciliated duct `http://purl.obolibrary.org/obo/UBERON_8600011` +### rhombomere formation `http://purl.obolibrary.org/obo/GO_0021594` #### Added -- [tracheal submucosal gland ciliated duct](http://purl.obolibrary.org/obo/UBERON_8600011) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [rhombomere formation](http://purl.obolibrary.org/obo/GO_0021594) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### tracheobronchial tree `http://purl.obolibrary.org/obo/UBERON_0007196` +### rhombomere morphogenesis `http://purl.obolibrary.org/obo/GO_0021593` #### Added -- [tracheobronchial tree](http://purl.obolibrary.org/obo/UBERON_0007196) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) +- [rhombomere morphogenesis](http://purl.obolibrary.org/obo/GO_0021593) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### trans-acting T-cell-specific transcription factor GATA-3 `http://purl.obolibrary.org/obo/PR_000001941` +### ribosome `http://purl.obolibrary.org/obo/GO_0005840` #### Removed -- [trans-acting T-cell-specific transcription factor GATA-3](http://purl.obolibrary.org/obo/PR_000001941) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [trans-acting T-cell-specific transcription factor GATA-3 (human)](http://purl.obolibrary.org/obo/PR_P23771) +- [ribosome](http://purl.obolibrary.org/obo/GO_0005840) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +#### Added +- [ribosome](http://purl.obolibrary.org/obo/GO_0005840) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) +- [ribosome](http://purl.obolibrary.org/obo/GO_0005840) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -### transcription factor PU.1 `http://purl.obolibrary.org/obo/PR_000001944` -#### Removed -- [transcription factor PU.1](http://purl.obolibrary.org/obo/PR_000001944) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [transcription factor PU.1 (human)](http://purl.obolibrary.org/obo/PR_P17947) +- [ribosome](http://purl.obolibrary.org/obo/GO_0005840) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) +- [ribosome](http://purl.obolibrary.org/obo/GO_0005840) SubClassOf [has part](http://purl.obolibrary.org/obo/BFO_0000051) some [protein](http://purl.obolibrary.org/obo/PR_000000001) -### transcription factor SOX-2 `http://purl.obolibrary.org/obo/PR_000015426` -#### Removed -- [transcription factor SOX-2](http://purl.obolibrary.org/obo/PR_000015426) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [transcription factor SOX-2 (human)](http://purl.obolibrary.org/obo/PR_P48431) +### ribosome biogenesis `http://purl.obolibrary.org/obo/GO_0042254` +#### Added +- [ribosome biogenesis](http://purl.obolibrary.org/obo/GO_0042254) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) -### transferrin receptor protein 1 `http://purl.obolibrary.org/obo/PR_000001945` -#### Removed -- [transferrin receptor protein 1](http://purl.obolibrary.org/obo/PR_000001945) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [transferrin receptor protein 1 (human)](http://purl.obolibrary.org/obo/PR_P02786) +### rod bipolar cell `http://purl.obolibrary.org/obo/CL_0000751` +#### Added +- [rod bipolar cell](http://purl.obolibrary.org/obo/CL_0000751) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009321" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [rod bipolar cell](http://purl.obolibrary.org/obo/CL_0000751) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### transformation of `http://purl.obolibrary.org/obo/RO_0002494` -#### Removed -- [transformation of](http://purl.obolibrary.org/obo/RO_0002494) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "transformation_of" -- [transformation of](http://purl.obolibrary.org/obo/RO_0002494) [id](http://www.geneontology.org/formats/oboInOwl#id) "transformation_of" +### role `http://purl.obolibrary.org/obo/BFO_0000023` +#### Removed +- [role](http://purl.obolibrary.org/obo/BFO_0000023) [label](http://www.w3.org/2000/01/rdf-schema#label) "role"@en -- [transformation of](http://purl.obolibrary.org/obo/RO_0002494) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +- [role](http://purl.obolibrary.org/obo/BFO_0000023) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A realizable entity the manifestation of which brings about some result or end that is not essential to a continuant in virtue of the kind of thing that it is but that can be served or participated in by that kind of continuant in some kinds of natural, social or institutional contexts."@en -- [transformation of](http://purl.obolibrary.org/obo/RO_0002494) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +- Class: [role](http://purl.obolibrary.org/obo/BFO_0000023) -- [transformation of](http://purl.obolibrary.org/obo/RO_0002494) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002494" +- [role](http://purl.obolibrary.org/obo/BFO_0000023) SubClassOf [realizable entity](http://purl.obolibrary.org/obo/BFO_0000017) -### transitively anteriorly connected to `http://purl.obolibrary.org/obo/uberon/core#transitively_anteriorly_connected_to` +### role of `http://purl.obolibrary.org/obo/RO_0000081` #### Removed -- Transitive: [transitively anteriorly connected to](http://purl.obolibrary.org/obo/uberon/core#transitively_anteriorly_connected_to) +- [role of](http://purl.obolibrary.org/obo/RO_0000081) [label](http://www.w3.org/2000/01/rdf-schema#label) "role of"@en +- [role of](http://purl.obolibrary.org/obo/RO_0000081) [editor note](http://purl.obolibrary.org/obo/IAO_0000116) "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists."@en +- [role of](http://purl.obolibrary.org/obo/RO_0000081) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence"@en -### transitively distally connected to `http://purl.obolibrary.org/obo/uberon/core#transitively_distally_connected_to` -#### Removed -- Transitive: [transitively distally connected to](http://purl.obolibrary.org/obo/uberon/core#transitively_distally_connected_to) +- [role of](http://purl.obolibrary.org/obo/RO_0000081) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." +- ObjectProperty: [role of](http://purl.obolibrary.org/obo/RO_0000081) +- [role of](http://purl.obolibrary.org/obo/RO_0000081) InverseOf [has role](http://purl.obolibrary.org/obo/RO_0000087) -### transitively proximally connected to `http://purl.obolibrary.org/obo/uberon/core#transitively_proximally_connected_to` -#### Removed -- Transitive: [transitively proximally connected to](http://purl.obolibrary.org/obo/uberon/core#transitively_proximally_connected_to) +- [role of](http://purl.obolibrary.org/obo/RO_0000081) SubPropertyOf: [characteristic of](http://purl.obolibrary.org/obo/RO_0000052) -### transmembrane emp24 domain-containing protein 1 `http://purl.obolibrary.org/obo/PR_000016401` -#### Removed -- [transmembrane emp24 domain-containing protein 1](http://purl.obolibrary.org/obo/PR_000016401) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [transmembrane emp24 domain-containing protein 1 (human)](http://purl.obolibrary.org/obo/PR_Q13445) +### rosehip neuron `http://purl.obolibrary.org/obo/CL_0008032` +#### Added +- [rosehip neuron](http://purl.obolibrary.org/obo/CL_0008032) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### transparent `http://purl.obolibrary.org/obo/PATO_0000964` -#### Removed -- [transparent](http://purl.obolibrary.org/obo/PATO_0000964) [RO_0002604](http://purl.obolibrary.org/obo/RO_0002604) [opaque](http://purl.obolibrary.org/obo/PATO_0000963) +### saliva-secreting gland `http://purl.obolibrary.org/obo/UBERON_0001044` +#### Added +- [saliva-secreting gland](http://purl.obolibrary.org/obo/UBERON_0001044) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005382" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### transparent eye structure `http://purl.obolibrary.org/obo/UBERON_0005389` +### scalp `http://purl.obolibrary.org/obo/UBERON_0000403` #### Removed -- [transparent eye structure](http://purl.obolibrary.org/obo/UBERON_0005389) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "directing or focusing light onto light receptors" +- [scalp](http://purl.obolibrary.org/obo/UBERON_0000403) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +#### Added +- [scalp](http://purl.obolibrary.org/obo/UBERON_0000403) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### transudate `http://purl.obolibrary.org/obo/UBERON_0007779` -#### Removed -- [transudate](http://purl.obolibrary.org/obo/UBERON_0007779) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "characteristically low in protein and cellular content (unless there has been secondary concentration)" +### scapula pre-cartilage condensation `http://purl.obolibrary.org/obo/UBERON_0006291` -- [transudate](http://purl.obolibrary.org/obo/UBERON_0007779) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "transudative" +#### Added +- [scapula pre-cartilage condensation](http://purl.obolibrary.org/obo/UBERON_0006291) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +### scleral cell `http://purl.obolibrary.org/obo/CL_0000347` -### transverse cervical artery `http://purl.obolibrary.org/obo/UBERON_0012324` -#### Removed -- [transverse cervical artery](http://purl.obolibrary.org/obo/UBERON_0012324) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Unclear if MA class belongs here or in parent" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +#### Added +- [scleral cell](http://purl.obolibrary.org/obo/CL_0000347) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009174" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [scleral cell](http://purl.obolibrary.org/obo/CL_0000347) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### transverse colon `http://purl.obolibrary.org/obo/UBERON_0001157` +### scolopale cell `http://purl.obolibrary.org/obo/CL_0000382` #### Removed -- [transverse colon](http://purl.obolibrary.org/obo/UBERON_0001157) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D044684" +- [scolopale cell](http://purl.obolibrary.org/obo/CL_0000382) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005219" + +#### Added +- [scolopale cell](http://purl.obolibrary.org/obo/CL_0000382) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005219" - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +### scolopidial ligament cell `http://purl.obolibrary.org/obo/CL_0000407` +#### Removed +- [scolopidial ligament cell](http://purl.obolibrary.org/obo/CL_0000407) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005221" + +#### Added +- [scolopidial ligament cell](http://purl.obolibrary.org/obo/CL_0000407) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005221" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### sebaceous gland placode `http://purl.obolibrary.org/obo/UBERON_0005088` -### transverse process of cervical vertebra `http://purl.obolibrary.org/obo/UBERON_0018143` -#### Removed -- [transverse process of cervical vertebra](http://purl.obolibrary.org/obo/UBERON_0018143) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "May be homologous with the cervical ribs of some vertebrates" +#### Added +- [sebaceous gland placode](http://purl.obolibrary.org/obo/UBERON_0005088) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +### sebum secreting cell proliferation `http://purl.obolibrary.org/obo/GO_1990654` -### transverse process of vertebra `http://purl.obolibrary.org/obo/UBERON_0001077` -#### Removed -- [transverse process of vertebra](http://purl.obolibrary.org/obo/UBERON_0001077) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Projections on each side of the vertebra from the point where the neural arch lamina joins the pedicel for the articulation with the head of a single-headed rib or the upper head of a double-headed rib. Also called diapophyses. They provide surfaces for the attachment of muscles. In anurans, the term transverse process is used in reference to the processes associated with the presacral and postsacral vertebrae." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:0000698" +#### Added +- [sebum secreting cell proliferation](http://purl.obolibrary.org/obo/GO_1990654) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### secondary crest myofibroblast `http://purl.obolibrary.org/obo/CL_4033016` -### trapezius muscle `http://purl.obolibrary.org/obo/UBERON_0002380` -#### Removed -- [trapezius muscle](http://purl.obolibrary.org/obo/UBERON_0002380) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The sternomastoid and the three parts of the trapezius are branchiomeric muscles that have secondarily acquired an attachment to the pectoral girdle. They evolved from the fish cucullaris.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [secondary crest myofibroblast](http://purl.obolibrary.org/obo/CL_4033016) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### secondary lens fiber `http://purl.obolibrary.org/obo/CL_0002225` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.345" +#### Added +- [secondary lens fiber](http://purl.obolibrary.org/obo/CL_0002225) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000834" -- [trapezius muscle](http://purl.obolibrary.org/obo/UBERON_0002380) SubClassOf [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) some [acromion](http://purl.obolibrary.org/obo/UBERON_0002497) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "posterior border of the lateral third of the clavicle acromion process and spine of scapula" +### secondary metabolic process `http://purl.obolibrary.org/obo/GO_0019748` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" +#### Added +- [secondary metabolic process](http://purl.obolibrary.org/obo/GO_0019748) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) -- [trapezius muscle](http://purl.obolibrary.org/obo/UBERON_0002380) SubClassOf [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) some [lateral border of scapula](http://purl.obolibrary.org/obo/UBERON_0007173) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "posterior border of the lateral third of the clavicle acromion process and spine of scapula" +- [secondary metabolic process](http://purl.obolibrary.org/obo/GO_0019748) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" -- [trapezius muscle](http://purl.obolibrary.org/obo/UBERON_0002380) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [neural spine](http://purl.obolibrary.org/obo/UBERON_0001076) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" +### secondary motor neuron (sensu Teleostei) `http://purl.obolibrary.org/obo/CL_0000536` - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "external occipital protuberance nuchal ligament medial superior nuchal line spinous processes of vertebrae C7-T12" +#### Added +- [secondary motor neuron (sensu Teleostei)](http://purl.obolibrary.org/obo/CL_0000536) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009247" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [trapezius muscle](http://purl.obolibrary.org/obo/UBERON_0002380) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [nuchal ligament](http://purl.obolibrary.org/obo/UBERON_0000351) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "dbpedia" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "external occipital protuberance nuchal ligament medial superior nuchal line spinous processes of vertebrae C7-T12" +### secondary neuron (sensu Teleostei) `http://purl.obolibrary.org/obo/CL_0000535` #### Added -- [trapezius muscle](http://purl.obolibrary.org/obo/UBERON_0002380) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [neural spine](http://purl.obolibrary.org/obo/UBERON_0001076) +- [secondary neuron (sensu Teleostei)](http://purl.obolibrary.org/obo/CL_0000535) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009246" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [trapezius muscle](http://purl.obolibrary.org/obo/UBERON_0002380) SubClassOf [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) some [acromion](http://purl.obolibrary.org/obo/UBERON_0002497) +- [secondary neuron (sensu Teleostei)](http://purl.obolibrary.org/obo/CL_0000535) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [trapezius muscle](http://purl.obolibrary.org/obo/UBERON_0002380) SubClassOf [has muscle origin](http://purl.obolibrary.org/obo/RO_0002372) some [nuchal ligament](http://purl.obolibrary.org/obo/UBERON_0000351) -- [trapezius muscle](http://purl.obolibrary.org/obo/UBERON_0002380) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +### secondary ovarian follicle `http://purl.obolibrary.org/obo/UBERON_0000036` +#### Removed +- [secondary ovarian follicle](http://purl.obolibrary.org/obo/UBERON_0000036) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [trapezius muscle](http://purl.obolibrary.org/obo/UBERON_0002380) SubClassOf [has muscle insertion](http://purl.obolibrary.org/obo/RO_0002373) some [lateral border of scapula](http://purl.obolibrary.org/obo/UBERON_0007173) -### trapezius pre-muscle mass `http://purl.obolibrary.org/obo/UBERON_0010955` +### secondary spermatocyte `http://purl.obolibrary.org/obo/CL_0000657` +#### Removed +- [secondary spermatocyte](http://purl.obolibrary.org/obo/CL_0000657) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004941" #### Added -- [trapezius pre-muscle mass](http://purl.obolibrary.org/obo/UBERON_0010955) SubClassOf [head mesenchyme from mesoderm](http://purl.obolibrary.org/obo/UBERON_0006904) +- [secondary spermatocyte](http://purl.obolibrary.org/obo/CL_0000657) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004941" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### tributary of `http://purl.obolibrary.org/obo/RO_0002376` +### secretion of lacrimal gland `http://purl.obolibrary.org/obo/UBERON_0001827` #### Removed -- [tributary of](http://purl.obolibrary.org/obo/RO_0002376) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "drains into" - -- [tributary of](http://purl.obolibrary.org/obo/RO_0002376) [label](http://www.w3.org/2000/01/rdf-schema#label) "tributary of" +- [secretion of lacrimal gland](http://purl.obolibrary.org/obo/UBERON_0001827) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [tributary of](http://purl.obolibrary.org/obo/RO_0002376) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "This relation can be used for geographic features (e.g. rivers) as well as anatomical structures (veins, arteries)"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -- [tributary of](http://purl.obolibrary.org/obo/RO_0002376) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" -- [tributary of](http://purl.obolibrary.org/obo/RO_0002376) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "inferior epigastric vein tributary_of external iliac vein" - -- [tributary of](http://purl.obolibrary.org/obo/RO_0002376) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "tributary_of" +### semen `http://purl.obolibrary.org/obo/UBERON_0001968` -- [tributary of](http://purl.obolibrary.org/obo/RO_0002376) [IAO_0000112](http://purl.obolibrary.org/obo/IAO_0000112) "Deschutes River tributary_of Columbia River" +#### Added +- [semen](http://purl.obolibrary.org/obo/UBERON_0001968) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [tributary of](http://purl.obolibrary.org/obo/RO_0002376) [id](http://www.geneontology.org/formats/oboInOwl#id) "tributary_of" -- [tributary of](http://purl.obolibrary.org/obo/RO_0002376) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "http://www.medindia.net/glossary/venous_tributary.htm" +### seminal fluid secreting gland `http://purl.obolibrary.org/obo/UBERON_0006868` -- [tributary of](http://purl.obolibrary.org/obo/RO_0002376) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "http://en.wikipedia.org/wiki/Tributary" +#### Added +- [seminal fluid secreting gland](http://purl.obolibrary.org/obo/UBERON_0006868) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004958" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [tributary of](http://purl.obolibrary.org/obo/RO_0002376) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "drains to" -- [tributary of](http://purl.obolibrary.org/obo/RO_0002376) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) [0000-0002-6601-2165](https://orcid.org/0000-0002-6601-2165) +### seminal vesicle morphogenesis `http://purl.obolibrary.org/obo/GO_0061682` +#### Removed +- [seminal vesicle morphogenesis](http://purl.obolibrary.org/obo/GO_0061682) SubClassOf [developmental process involved in reproduction](http://purl.obolibrary.org/obo/GO_0003006) -- [tributary of](http://purl.obolibrary.org/obo/RO_0002376) [IAO_0000118](http://purl.obolibrary.org/obo/IAO_0000118) "tributary channel of" -- [tributary of](http://purl.obolibrary.org/obo/RO_0002376) [IAO_0000114](http://purl.obolibrary.org/obo/IAO_0000114) [requires discussion](http://purl.obolibrary.org/obo/IAO_0000428) -- [tributary of](http://purl.obolibrary.org/obo/RO_0002376) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "RO:0002376" +### sense organ `http://purl.obolibrary.org/obo/UBERON_0000020` +#### Added +- [sense organ](http://purl.obolibrary.org/obo/UBERON_0000020) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005155" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### trigeminal ganglion `http://purl.obolibrary.org/obo/UBERON_0001675` -#### Removed -- [trigeminal ganglion](http://purl.obolibrary.org/obo/UBERON_0001675) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In Xenopus, the profundal and the trigeminal ganglia are separate distally but fused at their proximal end as they condense around NF stage 24." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:21452441" +### sensory epithelial cell `http://purl.obolibrary.org/obo/CL_0000098` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "XAO:0004093" +#### Added +- [sensory epithelial cell](http://purl.obolibrary.org/obo/CL_0000098) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009050" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [trigeminal ganglion](http://purl.obolibrary.org/obo/UBERON_0001675) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A prominent collection of touch-sensory neurons of the trigeminal or fifth cranial nerve, positioned beside the brain between the eye and the ear. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000295" +### sensory hair cell `http://purl.obolibrary.org/obo/CL_0000855` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [sensory hair cell](http://purl.obolibrary.org/obo/CL_0000855) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009366" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" -- [trigeminal ganglion](http://purl.obolibrary.org/obo/UBERON_0001675) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +### sensory nerve `http://purl.obolibrary.org/obo/UBERON_0001027` #### Added -- [trigeminal ganglion](http://purl.obolibrary.org/obo/UBERON_0001675) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) +- [sensory nerve](http://purl.obolibrary.org/obo/UBERON_0001027) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005136" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### trigeminal nerve `http://purl.obolibrary.org/obo/UBERON_0001645` +### sensory neuron `http://purl.obolibrary.org/obo/CL_0000101` #### Removed -- [trigeminal nerve](http://purl.obolibrary.org/obo/UBERON_0001645) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Nerve consists of motor and sensory components. Ganglion cells of the sensory component form the proximal part of the trigeminal (Gasserian) ganglion. From the ganglion 3 major rami innervate jaws, snout, and buccal roof.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" +- [sensory neuron](http://purl.obolibrary.org/obo/CL_0000101) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005124" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010470" +#### Added +- [sensory neuron](http://purl.obolibrary.org/obo/CL_0000101) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [human_reference_atlas](http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [sensory neuron](http://purl.obolibrary.org/obo/CL_0000101) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009053" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [sensory neuron](http://purl.obolibrary.org/obo/CL_0000101) [present in taxon](http://purl.obolibrary.org/obo/RO_0002175) [Homo sapiens](http://purl.obolibrary.org/obo/NCBITaxon_9606) -- [trigeminal nerve](http://purl.obolibrary.org/obo/UBERON_0001645) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (5) cranial nerves (...) (reference 1); Phylogenetically, the cranial nerves are thought to have evolved from dorsal and ventral nerves of a few anterior spinal nerves that became incorporated into the braincase. Dorsal and ventral nerves fuse in the trunk but not in the head, and they produce two series: dorsal cranial nerves (V, VII, IX, and X) and ventral cranial nerves (III, IV, VI, and XIII) (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [sensory neuron](http://purl.obolibrary.org/obo/CL_0000101) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005124" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43, ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.625" +### sensory processing neuron `http://purl.obolibrary.org/obo/CL_0000379` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [sensory processing neuron](http://purl.obolibrary.org/obo/CL_0000379) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009185" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000704" -- [trigeminal nerve](http://purl.obolibrary.org/obo/UBERON_0001645) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "the ophthalmic usually usually merges with the other two. In some vertebrates, the ophthalmic emerges from the brain separately[Kardong] The trigeminal nerve has 3 branches in mammals - similar branches are present in nonmammalian vertebrates, but in some a separate profundus nerve that corresponds to opthalmic branch in mammls" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0471888893" +### sensory system `http://purl.obolibrary.org/obo/UBERON_0001032` +#### Added +- [sensory system](http://purl.obolibrary.org/obo/UBERON_0001032) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007692" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [sensory system](http://purl.obolibrary.org/obo/UBERON_0001032) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -### trigeminal neural crest `http://purl.obolibrary.org/obo/UBERON_0005563` -#### Removed -- [trigeminal neural crest](http://purl.obolibrary.org/obo/UBERON_0005563) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000269" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### sequence-specific DNA binding `http://purl.obolibrary.org/obo/GO_0043565` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0043565) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "molecular_function" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0043565) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Binding to DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:jl" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43" +- [sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0043565) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "sequence specific DNA binding" -- [trigeminal neural crest](http://purl.obolibrary.org/obo/UBERON_0005563) SubClassOf [head mesenchyme](http://purl.obolibrary.org/obo/UBERON_0005253) +- [sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0043565) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0043565" -#### Added -- [trigeminal neural crest](http://purl.obolibrary.org/obo/UBERON_0005563) SubClassOf [mesenchyme derived from head neural crest](http://purl.obolibrary.org/obo/UBERON_0007213) +- [sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0043565) [label](http://www.w3.org/2000/01/rdf-schema#label) "sequence-specific DNA binding" +- Class: [sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0043565) -### trigeminal nuclear complex `http://purl.obolibrary.org/obo/UBERON_0007641` -#### Removed -- [trigeminal nuclear complex](http://purl.obolibrary.org/obo/UBERON_0007641) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D014278" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) +- [sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0043565) SubClassOf [DNA binding](http://purl.obolibrary.org/obo/GO_0003677) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" -- [trigeminal nuclear complex](http://purl.obolibrary.org/obo/UBERON_0007641) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in MA and FMA this is part of the pons / pontime tegmentum. We weaken this to overlaps to avoid inconsistency. In NIF this is a composite structure spanning multiple regions, which is more appropriate." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +### sequence-specific double-stranded DNA binding `http://purl.obolibrary.org/obo/GO_1990837` +#### Added +- [sequence-specific double-stranded DNA binding](http://purl.obolibrary.org/obo/GO_1990837) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "sequence-specific dsDNA binding" +- [sequence-specific double-stranded DNA binding](http://purl.obolibrary.org/obo/GO_1990837) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2015-08-25T17:30:06Z" -### trigeminal nucleus `http://purl.obolibrary.org/obo/UBERON_0002925` -#### Removed -- [trigeminal nucleus](http://purl.obolibrary.org/obo/UBERON_0002925) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "massive inconsistencies between GO, MA, wikipedia. Part of pons in MA, but this leads to inconsistencies with ABA." - - [url](http://www.geneontology.org/formats/oboInOwl#url) "https://github.com/obophenotype/mouse-anatomy-ontology/issues/58" +- [sequence-specific double-stranded DNA binding](http://purl.obolibrary.org/obo/GO_1990837) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Binding to double-stranded DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA, e.g. promotor binding or rDNA binding." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:dos" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "GO" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:sl" +- [sequence-specific double-stranded DNA binding](http://purl.obolibrary.org/obo/GO_1990837) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "molecular_function" +- [sequence-specific double-stranded DNA binding](http://purl.obolibrary.org/obo/GO_1990837) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "sl" -### trigeminal placode complex `http://purl.obolibrary.org/obo/UBERON_0003070` -#### Removed -- [trigeminal placode complex](http://purl.obolibrary.org/obo/UBERON_0003070) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The ectodermal rudiment of the trigeminal ganglion, distinguishable during much of the segmentation period. Kimmel et al, 1995.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [sequence-specific double-stranded DNA binding](http://purl.obolibrary.org/obo/GO_1990837) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:1990837" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000162" +- [sequence-specific double-stranded DNA binding](http://purl.obolibrary.org/obo/GO_1990837) [label](http://www.w3.org/2000/01/rdf-schema#label) "sequence-specific double-stranded DNA binding" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- Class: [sequence-specific double-stranded DNA binding](http://purl.obolibrary.org/obo/GO_1990837) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [sequence-specific double-stranded DNA binding](http://purl.obolibrary.org/obo/GO_1990837) SubClassOf [double-stranded DNA binding](http://purl.obolibrary.org/obo/GO_0003690) -- [trigeminal placode complex](http://purl.obolibrary.org/obo/UBERON_0003070) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The dorsolateral placodes (trigeminal and vestibular) develop from ectoderm lateral to the brain (...). In summary, the collective term 'placodes' refers to some rather different structures, probably with different evolutionary origins. Some sensory placodes (at least the otic and olfactory) may have homologues in basal chordates. Even if this is so, it is apparent that they were elaborated considerably during early vertebrate evolution. Epibranchial and dorsolateral placodes appear to be new; we infer that their origin depended on the evolution of specific inductive signals.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1073/pnas.97.9.4449 Shimeld SM and Holland PW. Vertebrate innovations. PNAS (2000)" +- [sequence-specific double-stranded DNA binding](http://purl.obolibrary.org/obo/GO_1990837) SubClassOf [sequence-specific DNA binding](http://purl.obolibrary.org/obo/GO_0043565) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### sequestering of calcium ion `http://purl.obolibrary.org/obo/GO_0051208` +#### Removed +- [sequestering of calcium ion](http://purl.obolibrary.org/obo/GO_0051208) EquivalentTo [maintenance of location](http://purl.obolibrary.org/obo/GO_0051235) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_39124](http://purl.obolibrary.org/obo/CHEBI_39124)) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000109" +- [sequestering of calcium ion](http://purl.obolibrary.org/obo/GO_0051208) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_39124](http://purl.obolibrary.org/obo/CHEBI_39124) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [sequestering of calcium ion](http://purl.obolibrary.org/obo/GO_0051208) EquivalentTo [maintenance of location](http://purl.obolibrary.org/obo/GO_0051235) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_29108](http://purl.obolibrary.org/obo/CHEBI_29108)) -- [trigeminal placode complex](http://purl.obolibrary.org/obo/UBERON_0003070) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "Consider naming this 'trigeminal placode complex'. Also, Fig9-5 of ISBN:0471888893 calls this the profundus placode; XAO says 'profundal and the trigeminal ganglia are separate distally but fused at their proximal end...'" +- [sequestering of calcium ion](http://purl.obolibrary.org/obo/GO_0051208) SubClassOf [has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_29108](http://purl.obolibrary.org/obo/CHEBI_29108) -- [trigeminal placode complex](http://purl.obolibrary.org/obo/UBERON_0003070) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The ectodermal precursor of the trigeminal ganglion. The profundal and the trigeminal ganglia are separate distally but fused at their proximal end as they condense around NF stage 24.[XAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "XAO" +### serine family amino acid metabolic process `http://purl.obolibrary.org/obo/GO_0009069` +#### Added +- [serine family amino acid metabolic process](http://purl.obolibrary.org/obo/GO_0009069) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### trigone of urinary bladder `http://purl.obolibrary.org/obo/UBERON_0001257` -#### Removed -- [trigone of urinary bladder](http://purl.obolibrary.org/obo/UBERON_0001257) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Embryologically, the trigone of the bladder is derived from the caudal end of mesonephric ducts, which is of mesodermal origin (the rest of the bladder is endodermal). In the female the mesonephric ducts regresses, causing the trigone to be less prominent, but still present" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" -- [trigone of urinary bladder](http://purl.obolibrary.org/obo/UBERON_0001257) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "The area is very sensitive to expansion and once stretched to a certain degree, the urinary bladder signals the brain of its need to empty. The signals become stronger as the bladder continues to fill." +### serotonergic neuron `http://purl.obolibrary.org/obo/CL_0000850` +#### Removed +- [serotonergic neuron](http://purl.obolibrary.org/obo/CL_0000850) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005133" #### Added -- [trigone of urinary bladder](http://purl.obolibrary.org/obo/UBERON_0001257) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [serotonergic neuron](http://purl.obolibrary.org/obo/CL_0000850) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009361" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [serotonergic neuron](http://purl.obolibrary.org/obo/CL_0000850) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005133" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### trophectoderm `http://purl.obolibrary.org/obo/UBERON_0004345` -#### Removed -- [trophectoderm](http://purl.obolibrary.org/obo/UBERON_0004345) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The outer cellular layer of the mammalian blastocyst. [Evolution, Fourth_Edition_(2006)_McGraw-Hill, Function, Vertebrates:_Comparative_Anatomy, p.750, see_Kardong_KV][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### serotonin receptor activity `http://purl.obolibrary.org/obo/GO_0099589` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [serotonin receptor activity](http://purl.obolibrary.org/obo/GO_0099589) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000979" -- [trophectoderm](http://purl.obolibrary.org/obo/UBERON_0004345) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "BTO has this has part of the trophoblast" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "BTO" +### serotonin secreting cell `http://purl.obolibrary.org/obo/CL_0000458` -- [trophectoderm](http://purl.obolibrary.org/obo/UBERON_0004345) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) the trophoblast develops rapidly so that contact may be made with the maternal uterine tissues when conditions are appropriate. We have here an excellent example of an embryonic adaptation, the development of a structure never present in either adult or embryo of 'lower' vertebrates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0721676685 Romer AS, Parsons TS, Vertebrate body (1977) p.105-106" +#### Added +- [serotonin secreting cell](http://purl.obolibrary.org/obo/CL_0000458) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009213" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### serotonin transport `http://purl.obolibrary.org/obo/GO_0006837` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [serotonin transport](http://purl.obolibrary.org/obo/GO_0006837) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000979" -- [trophectoderm](http://purl.obolibrary.org/obo/UBERON_0004345) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "trophectodermal" +### serous membrane `http://purl.obolibrary.org/obo/UBERON_0000042` +#### Removed +- [serous membrane](http://purl.obolibrary.org/obo/UBERON_0000042) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### trophoblast `http://purl.obolibrary.org/obo/UBERON_0000088` +### serous sac `http://purl.obolibrary.org/obo/UBERON_0005906` #### Removed -- [trophoblast](http://purl.obolibrary.org/obo/UBERON_0000088) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The postimplantation derivatives of the trophectoderm, which make up most of the fetal part of the placenta" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:19829370" +- [serous sac](http://purl.obolibrary.org/obo/UBERON_0005906) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [trophoblast](http://purl.obolibrary.org/obo/UBERON_0000088) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "the mesectodermal cell layer arising from the trophectoderm that erodes the uterine mucosa and contributes to the formation of the placenta[MP]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "MP" +#### Added +- [serous sac](http://purl.obolibrary.org/obo/UBERON_0005906) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0-683-40008-8" - - [external_class_label](http://www.geneontology.org/formats/oboInOwl#external_class_label) "trophoblast layer" +### sesamoid element `http://purl.obolibrary.org/obo/UBERON_0013631` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "MP:0005031" +#### Added +- [sesamoid element](http://purl.obolibrary.org/obo/UBERON_0013631) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-23" -- [trophoblast](http://purl.obolibrary.org/obo/UBERON_0000088) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "trophoblastic" +### sex-specific anatomical structure `http://purl.obolibrary.org/obo/UBERON_0014402` +#### Added +- [sex-specific anatomical structure](http://purl.obolibrary.org/obo/UBERON_0014402) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### truncus arteriosus `http://purl.obolibrary.org/obo/UBERON_0002061` +### sexual reproduction `http://purl.obolibrary.org/obo/GO_0019953` #### Removed -- [truncus arteriosus](http://purl.obolibrary.org/obo/UBERON_0002061) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "assume spelling error for ncit" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ncit" +- [sexual reproduction](http://purl.obolibrary.org/obo/GO_0019953) SubClassOf [reproduction](http://purl.obolibrary.org/obo/GO_0000003) +#### Added +- [sexual reproduction](http://purl.obolibrary.org/obo/GO_0019953) SubClassOf [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) -### trunk `http://purl.obolibrary.org/obo/UBERON_0002100` -#### Removed -- [trunk](http://purl.obolibrary.org/obo/UBERON_0002100) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [head](http://purl.obolibrary.org/obo/UBERON_0000033) +### shoulder `http://purl.obolibrary.org/obo/UBERON_0001467` + +#### Added +- [shoulder](http://purl.obolibrary.org/obo/UBERON_0001467) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [trunk](http://purl.obolibrary.org/obo/UBERON_0002100) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organism subdivision which is the part of the body posterior to the head and anterior to the tail.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### shoulder connective tissue `http://purl.obolibrary.org/obo/UBERON_0003579` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [shoulder connective tissue](http://purl.obolibrary.org/obo/UBERON_0003579) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001115" -- [trunk](http://purl.obolibrary.org/obo/UBERON_0002100) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [appendage](http://purl.obolibrary.org/obo/UBERON_0000026) - - [exceptions](http://www.geneontology.org/formats/oboInOwl#exceptions) "ZFA" +### shoulder joint `http://purl.obolibrary.org/obo/UBERON_0016884` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://github.com/obophenotype/uberon/issues/378" +#### Added +- [shoulder joint](http://purl.obolibrary.org/obo/UBERON_0016884) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [status](http://www.geneontology.org/formats/oboInOwl#status) "pending" -- [trunk](http://purl.obolibrary.org/obo/UBERON_0002100) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organism subdivision that is the part of the body posterior to the head and anterior to the tail.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010339" +### sigmoid colon `http://purl.obolibrary.org/obo/UBERON_0001159` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [sigmoid colon](http://purl.obolibrary.org/obo/UBERON_0001159) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +### signal release `http://purl.obolibrary.org/obo/GO_0023061` +#### Added +- [signal release](http://purl.obolibrary.org/obo/GO_0023061) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### trunk neural crest `http://purl.obolibrary.org/obo/UBERON_0003083` +### signal transduction `http://purl.obolibrary.org/obo/GO_0007165` #### Removed -- [trunk neural crest](http://purl.obolibrary.org/obo/UBERON_0003083) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [signal transduction](http://purl.obolibrary.org/obo/GO_0007165) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "signal transduction by protein phosphorylation" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [signal transduction](http://purl.obolibrary.org/obo/GO_0007165) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "signal transduction by conformational transition" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [signal transduction](http://purl.obolibrary.org/obo/GO_0007165) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "signal transduction by trans-phosphorylation" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43" +- [signal transduction](http://purl.obolibrary.org/obo/GO_0007165) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "signalling pathway" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:mah" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000062" +- [signal transduction](http://purl.obolibrary.org/obo/GO_0007165) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "signal transduction by cis-phosphorylation" -- [trunk neural crest](http://purl.obolibrary.org/obo/UBERON_0003083) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Post-cranial portion of the neural crest. Exact anatomical derivations not experimentally resolved in amphibians.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" +#### Added +- [signal transduction](http://purl.obolibrary.org/obo/GO_0007165) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "signalling pathway" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [signal transduction](http://purl.obolibrary.org/obo/GO_0007165) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010582" +### signaling `http://purl.obolibrary.org/obo/GO_0023052` #### Added -- [trunk neural crest](http://purl.obolibrary.org/obo/UBERON_0003083) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [signaling](http://purl.obolibrary.org/obo/GO_0023052) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -- [trunk neural crest](http://purl.obolibrary.org/obo/UBERON_0003083) SubClassOf [structure with developmental contribution from neural crest](http://purl.obolibrary.org/obo/UBERON_0010314) +- [signaling](http://purl.obolibrary.org/obo/GO_0023052) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) -### trunk of intercostal nerve `http://purl.obolibrary.org/obo/UBERON_0002327` -#### Removed -- [trunk of intercostal nerve](http://purl.obolibrary.org/obo/UBERON_0002327) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:18227" +### signaling receptor activity `http://purl.obolibrary.org/obo/GO_0038023` + +#### Added +- [signaling receptor activity](http://purl.obolibrary.org/obo/GO_0038023) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) +### simple columnar epithelial cell `http://purl.obolibrary.org/obo/CL_0000146` -### trunk of sciatic nerve `http://purl.obolibrary.org/obo/UBERON_0002004` -#### Removed -- [trunk of sciatic nerve](http://purl.obolibrary.org/obo/UBERON_0002004) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:18577" +#### Added +- [simple columnar epithelial cell](http://purl.obolibrary.org/obo/CL_0000146) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009089" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +### simple columnar epithelium `http://purl.obolibrary.org/obo/UBERON_0000485` -### trunk or cervical vertebra `http://purl.obolibrary.org/obo/UBERON_0004451` -#### Removed -- [trunk or cervical vertebra](http://purl.obolibrary.org/obo/UBERON_0004451) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "it's not clear if the XAO class belongs here or below" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "XAO" +#### Added +- [simple columnar epithelium](http://purl.obolibrary.org/obo/UBERON_0000485) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007027" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [trunk or cervical vertebra](http://purl.obolibrary.org/obo/UBERON_0004451) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In humans, there are 24 presacral vertebrae (7 cervical, 12 thoracic, and 5 lumbar)" +### single ciliated epithelial cell `http://purl.obolibrary.org/obo/CL_0005013` +#### Added +- [single ciliated epithelial cell](http://purl.obolibrary.org/obo/CL_0005013) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005243" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### trunk region of vertebral column `http://purl.obolibrary.org/obo/UBERON_0009568` -#### Removed -- [trunk region of vertebral column](http://purl.obolibrary.org/obo/UBERON_0009568) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "AAO:0000612" -- [trunk region of vertebral column](http://purl.obolibrary.org/obo/UBERON_0009568) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Region of the vertebral column between the atlas and the sacrum consisting of seven to 285 vertebrae.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000612" +### single fate stem cell `http://purl.obolibrary.org/obo/CL_0000035` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [single fate stem cell](http://purl.obolibrary.org/obo/CL_0000035) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009013" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:Duellman_and_Trueb_1994" +### skeletal ligament `http://purl.obolibrary.org/obo/UBERON_0008846` +#### Removed +- [skeletal ligament](http://purl.obolibrary.org/obo/UBERON_0008846) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) +#### Added +- [skeletal ligament](http://purl.obolibrary.org/obo/UBERON_0008846) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### trunk taste bud `http://purl.obolibrary.org/obo/UBERON_0034726` +### skeletal muscle myoblast `http://purl.obolibrary.org/obo/CL_0000515` #### Added -- [trunk taste bud](http://purl.obolibrary.org/obo/UBERON_0034726) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [skeletal muscle myoblast](http://purl.obolibrary.org/obo/CL_0000515) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009236" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### trunk vertebra `http://purl.obolibrary.org/obo/UBERON_0011677` -#### Removed -- [trunk vertebra](http://purl.obolibrary.org/obo/UBERON_0011677) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_72066](http://purl.obolibrary.org/obo/FMA_72066) +### skeletal muscle satellite cell `http://purl.obolibrary.org/obo/CL_0000594` +#### Added +- [skeletal muscle satellite cell](http://purl.obolibrary.org/obo/CL_0000594) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009272" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### tube `http://purl.obolibrary.org/obo/UBERON_0000025` -#### Removed -- [tube](http://purl.obolibrary.org/obo/UBERON_0000025) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "tubular" +### skeletal muscle satellite cell activation `http://purl.obolibrary.org/obo/GO_0014719` -- [tube](http://purl.obolibrary.org/obo/UBERON_0000025) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "not every anatomical conduit is a tube - for example, a bone foramen is an opening in the bone, and there is no distinct separate tube structure. Tubes may transport large mixed objects (for example, a bolus of food in the digestive tube) or they may transport the secretions of a single gland (for example, gland ducts)" +#### Added +- [skeletal muscle satellite cell activation](http://purl.obolibrary.org/obo/GO_0014719) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### skeletal muscle satellite cell maintenance involved in skeletal muscle regeneration `http://purl.obolibrary.org/obo/GO_0014834` -### tubotympanic recess epithelium `http://purl.obolibrary.org/obo/UBERON_0010020` -#### Removed -- [tubotympanic recess epithelium](http://purl.obolibrary.org/obo/UBERON_0010020) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The tympanic cavity and auditory tube of an amniote develop from the first embryonic pharyngeal pouch, so they are homologous to the first gill pouch, or spiracle, of a fish. We are uncertain whether this homology strictly applies to the middle ear cavity and auditory tube of lissamphibians, which show certain peculiarities in their development.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.417" +#### Added +- [skeletal muscle satellite cell maintenance involved in skeletal muscle regeneration](http://purl.obolibrary.org/obo/GO_0014834) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### skeletal muscle satellite cell migration `http://purl.obolibrary.org/obo/GO_1902766` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [skeletal muscle satellite cell migration](http://purl.obolibrary.org/obo/GO_1902766) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001297" +### skeletal muscle tissue growth `http://purl.obolibrary.org/obo/GO_0048630` +#### Added +- [skeletal muscle tissue growth](http://purl.obolibrary.org/obo/GO_0048630) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### tumor necrosis factor receptor superfamily member 11A `http://purl.obolibrary.org/obo/PR_000001954` -#### Removed -- [tumor necrosis factor receptor superfamily member 11A](http://purl.obolibrary.org/obo/PR_000001954) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [tumor necrosis factor receptor superfamily member 11A (human)](http://purl.obolibrary.org/obo/PR_Q9Y6Q6) +### skeletal musculature `http://purl.obolibrary.org/obo/UBERON_0018254` +#### Added +- [skeletal musculature](http://purl.obolibrary.org/obo/UBERON_0018254) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### tunica adventitia of blood vessel `http://purl.obolibrary.org/obo/UBERON_0005734` -#### Removed -- [tunica adventitia of blood vessel](http://purl.obolibrary.org/obo/UBERON_0005734) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The outermost layer of a blood vessel, surrounding the tunica media. It is mainly composed of collagen. The collagen serves to anchor the blood vessel to nearby organs, giving it stability[Wikipedia:Tunica_externa_(vessels)]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Tunica_externa_(vessels)" +### skeletal tissue `http://purl.obolibrary.org/obo/UBERON_0004755` +#### Added +- [skeletal tissue](http://purl.obolibrary.org/obo/UBERON_0004755) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### tunica fibrosa of eyeball `http://purl.obolibrary.org/obo/UBERON_0012430` + +### skeleton `http://purl.obolibrary.org/obo/UBERON_0004288` #### Added -- [tunica fibrosa of eyeball](http://purl.obolibrary.org/obo/UBERON_0012430) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [skeleton](http://purl.obolibrary.org/obo/UBERON_0004288) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -### tunica intima `http://purl.obolibrary.org/obo/UBERON_0002523` -#### Removed -- [tunica intima](http://purl.obolibrary.org/obo/UBERON_0002523) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The tunica intima (or just intima) is the innermost layer of an artery or vein. It is made up of one layer of endothelial cells and is supported by an internal elastic lamina. The endothelial cells are in direct contact with the blood flow. The inner coat (tunica intima) can be separated from the middle by a little maceration, or it may be stripped off in small pieces; but, on account of its friability, it cannot be separated as a complete membrane. It is a fine, transparent, colorless structure which is highly elastic, and, after death, is commonly corrugated into longitudinal wrinkles. The inner coat consists of: A layer of pavement endothelium, the cells of which are polygonal, oval, or fusiform, and have very distinct round or oval nuclei. This endothelium is brought into view most distinctly by staining with silver nitrate. A subendothelial layer, consisting of delicate connective tissue with branched cells lying in the interspaces of the tissue; in arteries of less than 2 mm. in diameter the subendothelial layer consists of a single stratum of stellate cells, and the connective tissue is only largely developed in vessels of a considerable size. An elastic or fenestrated layer, which consists of a membrane containing a net-work of elastic fibers, having principally a longitudinal direction, and in which, under the microscope, small elongated apertures or perforations may be seen, giving it a fenestrated appearance. It was therefore called by Henle the fenestrated membrane. This membrane forms the chief thickness of the inner coat, and can be separated into several layers, some of which present the appearance of a network of longitudinal elastic fibers, and others a more membranous character, marked by pale lines having a longitudinal direction. In minute arteries the fenestrated membrane is a very thin layer; but in the larger arteries, and especially in the aorta, it has a very considerable thickness. [WP,unvetted].[Wikipedia]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "Wikipedia" +### skin appendage placode `http://purl.obolibrary.org/obo/UBERON_0011817` + +#### Added +- [skin appendage placode](http://purl.obolibrary.org/obo/UBERON_0011817) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Tunica_intima" -- [tunica intima](http://purl.obolibrary.org/obo/UBERON_0002523) SubClassOf [surrounded by](http://purl.obolibrary.org/obo/RO_0002219) some [tunica media](http://purl.obolibrary.org/obo/UBERON_0002522) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "check for exceptions, e.g. capillaries" +### skin bony tubercle `http://purl.obolibrary.org/obo/UBERON_0017163` #### Added -- [tunica intima](http://purl.obolibrary.org/obo/UBERON_0002523) SubClassOf [surrounded by](http://purl.obolibrary.org/obo/RO_0002219) some [tunica media](http://purl.obolibrary.org/obo/UBERON_0002522) +- [skin bony tubercle](http://purl.obolibrary.org/obo/UBERON_0017163) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### tympanic membrane `http://purl.obolibrary.org/obo/UBERON_0002364` +### skin of body `http://purl.obolibrary.org/obo/UBERON_0002097` #### Removed -- [tympanic membrane](http://purl.obolibrary.org/obo/UBERON_0002364) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "most AOs consider this part of the middle ear, so we go with this and place it in the middle ear as a border to the external, although it could be considered to overlap the external ear in that it has an EAM layer as part - for this reason we do not consider middle and external ear to be spatially disjoint." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:11237469" +- [skin of body](http://purl.obolibrary.org/obo/UBERON_0002097) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [tympanic membrane](http://purl.obolibrary.org/obo/UBERON_0002364) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The tympanic membrane (TM) has three layers, two epithelia provided by the external acoustic meatus (EAM) and the MEC, derived respectively from the first pharyngeal cleft and pouch, and a mesenchymally derived fibrous stratum" -- [tympanic membrane](http://purl.obolibrary.org/obo/UBERON_0002364) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The thin membrane which closes externally the cavity of the middle ear and is deeply sited at the bottom of the external auditory meatus. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001146" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### slow muscle cell `http://purl.obolibrary.org/obo/CL_0000189` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [slow muscle cell](http://purl.obolibrary.org/obo/CL_0000189) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009116" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" -- [tympanic membrane](http://purl.obolibrary.org/obo/UBERON_0002364) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In particular, a tympanic membrane was not present in the earliest tetrapods (...). An ear utilizing a tympanic membrane evolved independently at least three times in tetrapods: (1) in the lineage that leads to anurans (frogs), (2) in the line of evolution to turtles and diapsids, and (3) in the late synapsid lineage that gave rise to mammals.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.418" +### slow muscle myoblast `http://purl.obolibrary.org/obo/CL_0000857` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001146" +#### Added +- [slow muscle myoblast](http://purl.obolibrary.org/obo/CL_0000857) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009368" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### small molecule binding `http://purl.obolibrary.org/obo/GO_0036094` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [small molecule binding](http://purl.obolibrary.org/obo/GO_0036094) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) +- [small molecule binding](http://purl.obolibrary.org/obo/GO_0036094) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) +- [small molecule binding](http://purl.obolibrary.org/obo/GO_0036094) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) -### tyrosine-protein kinase Mer `http://purl.obolibrary.org/obo/PR_000010329` -#### Removed -- [tyrosine-protein kinase Mer](http://purl.obolibrary.org/obo/PR_000010329) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [tyrosine-protein kinase Mer (human)](http://purl.obolibrary.org/obo/PR_Q12866) +### small molecule biosynthetic process `http://purl.obolibrary.org/obo/GO_0044283` +#### Added +- [small molecule biosynthetic process](http://purl.obolibrary.org/obo/GO_0044283) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) -### tyrosine-protein kinase receptor UFO `http://purl.obolibrary.org/obo/PR_000004528` -#### Removed -- [tyrosine-protein kinase receptor UFO](http://purl.obolibrary.org/obo/PR_000004528) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [tyrosine-protein kinase receptor UFO (human)](http://purl.obolibrary.org/obo/PR_P30530) +### smooth muscle cell `http://purl.obolibrary.org/obo/CL_0000192` +#### Added +- [smooth muscle cell](http://purl.obolibrary.org/obo/CL_0000192) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009118" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### tyrosine-protein phosphatase non-receptor type substrate 1 `http://purl.obolibrary.org/obo/PR_000001968` -#### Removed -- [tyrosine-protein phosphatase non-receptor type substrate 1](http://purl.obolibrary.org/obo/PR_000001968) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [tyrosine-protein phosphatase non-receptor type substrate 1 (human)](http://purl.obolibrary.org/obo/PR_P78324) +### smooth muscle cell derived foam cell `http://purl.obolibrary.org/obo/CL_0000892` +#### Added +- [smooth muscle cell derived foam cell](http://purl.obolibrary.org/obo/CL_0000892) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### umbilical cord `http://purl.obolibrary.org/obo/UBERON_0002331` -#### Removed -- [umbilical cord](http://purl.obolibrary.org/obo/UBERON_0002331) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "umbilical" -- [umbilical cord](http://purl.obolibrary.org/obo/UBERON_0002331) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The connecting cord from the developing embryo or fetus to the placenta. During prenatal development, the umbilical cord comes from the same zygote as the fetus and (in humans) normally contains two arteries (the umbilical arteries) and one vein (the umbilical vein), buried within Wharton's jelly. The umbilical vein supplies the fetus with oxygenated, nutrient-rich blood from the placenta.property_value, external_definition the umbilical arteries return the deoxygenated, nutrient-depleted blood[WP]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Umbilical_cord" +### smooth muscle myoblast `http://purl.obolibrary.org/obo/CL_0000514` +#### Added +- [smooth muscle myoblast](http://purl.obolibrary.org/obo/CL_0000514) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009235" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### uncondensed odontogenic mesenchyme `http://purl.obolibrary.org/obo/UBERON_0003856` +### sncg GABAergic cortical interneuron `http://purl.obolibrary.org/obo/CL_4023015` #### Removed -- [uncondensed odontogenic mesenchyme](http://purl.obolibrary.org/obo/UBERON_0003856) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Mesenchyme enclosed by dental organ.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [sncg GABAergic cortical interneuron](http://purl.obolibrary.org/obo/CL_4023015) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A GABAergic neuron located in the cerebral cortex that expresses Gamma-synuclein" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:33186530" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005139" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [sncg GABAergic cortical interneuron](http://purl.obolibrary.org/obo/CL_4023015) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A GABAergic neuron located in the cerebral cortex that expresses Gamma-synuclein" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:33186530" -- [uncondensed odontogenic mesenchyme](http://purl.obolibrary.org/obo/UBERON_0003856) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Mesenchyme enclosed by dental organ.[MP]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "J:153554" +- [sncg GABAergic cortical interneuron](http://purl.obolibrary.org/obo/CL_4023015) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "MP" -- [uncondensed odontogenic mesenchyme](http://purl.obolibrary.org/obo/UBERON_0003856) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [mesenchyme derived from head neural crest](http://purl.obolibrary.org/obo/UBERON_0007213) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "see comments" +### somatic cell DNA recombination `http://purl.obolibrary.org/obo/GO_0016444` #### Added -- [uncondensed odontogenic mesenchyme](http://purl.obolibrary.org/obo/UBERON_0003856) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [mesenchyme derived from head neural crest](http://purl.obolibrary.org/obo/UBERON_0007213) +- [somatic cell DNA recombination](http://purl.obolibrary.org/obo/GO_0016444) [never in taxon](http://purl.obolibrary.org/obo/RO_0002161) [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751) +- [somatic cell DNA recombination](http://purl.obolibrary.org/obo/GO_0016444) DisjointWith [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751) -### uncurated `http://purl.obolibrary.org/obo/IAO_0000124` -#### Removed -- [uncurated](http://purl.obolibrary.org/obo/IAO_0000124) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "uncurated"@en +- [somatic cell DNA recombination](http://purl.obolibrary.org/obo/GO_0016444) SubClassOf not ([in taxon](http://purl.obolibrary.org/obo/RO_0002162) some [Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751)) +- [somatic cell DNA recombination](http://purl.obolibrary.org/obo/GO_0016444) SubClassOf [in taxon](http://purl.obolibrary.org/obo/RO_0002162) some (not ([Fungi](http://purl.obolibrary.org/obo/NCBITaxon_4751))) -### undifferentiated genital tubercle `http://purl.obolibrary.org/obo/UBERON_0005876` +### somatic muscle cell `http://purl.obolibrary.org/obo/CL_0008004` #### Removed -- [undifferentiated genital tubercle](http://purl.obolibrary.org/obo/UBERON_0005876) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In mammalian embryos, male and female external genitalia develop from the genital tubercle.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [somatic muscle cell](http://purl.obolibrary.org/obo/CL_0008004) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005073" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [somatic muscle cell](http://purl.obolibrary.org/obo/CL_0008004) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005073" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1242/dev.036830 Seifert AW, Yamaguchi T, Cohn MJ, Functional and phylogenetic analysis shows that Fgf8 is a marker of genital induction in mammals but is not required for external genital development. Development (2009)" +### somatic stem cell `http://purl.obolibrary.org/obo/CL_0000723` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000583" +#### Added +- [somatic stem cell](http://purl.obolibrary.org/obo/CL_0000723) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009307" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [undifferentiated genital tubercle](http://purl.obolibrary.org/obo/UBERON_0005876) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "embryonic anlage of the external genitalia, which emerges as paired swellings ventral to the cloacal membrane, is proposed to be derived from all three germ layers, and gives rise to the penis, clitoris, scrotum, labia, and foreskin; GT development is indistinguishable in male and female mouse embryos until ~E16, when the urethral plate begins to be masculinized to form the penile urethra, marking the beginning of an androgen-dependent phase of sexual differentiation[MP]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "MP" -- [undifferentiated genital tubercle](http://purl.obolibrary.org/obo/UBERON_0005876) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "GT development is indistinguishable in male and female mouse embryos until approximately E16, when the urethral plate begins to be masculinized to form the penile urethra, marking the beginning of an androgen-dependent phase of sexual differentiation[MP:0011771]" +### somatomotor neuron `http://purl.obolibrary.org/obo/CL_0005024` -- [undifferentiated genital tubercle](http://purl.obolibrary.org/obo/UBERON_0005876) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "todo - add taxon constraints" +#### Added +- [somatomotor neuron](http://purl.obolibrary.org/obo/CL_0005024) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005733" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [undifferentiated genital tubercle](http://purl.obolibrary.org/obo/UBERON_0005876) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "All amniotes studied to date initiate external genital development with the formation of paired genital swellings. In mammals, archosaurs, and turtles, these swellings merge to form a single genital tubercle, the precursor of the penis and clitoris[PMID:24960313]" -- [undifferentiated genital tubercle](http://purl.obolibrary.org/obo/UBERON_0005876) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The eminence in the embryo which develops into the clitoris or penis. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### somatostatin binding `http://purl.obolibrary.org/obo/GO_0120023` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [somatostatin binding](http://purl.obolibrary.org/obo/GO_0120023) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000583" +### somatostatin secreting cell `http://purl.obolibrary.org/obo/CL_0000172` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/genital+tubercle" +#### Added +- [somatostatin secreting cell](http://purl.obolibrary.org/obo/CL_0000172) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009105" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [undifferentiated genital tubercle](http://purl.obolibrary.org/obo/UBERON_0005876) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we assume the EMAPA class is the undifferentiated form based on TS timings" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EMAPA" +- [somatostatin secreting cell](http://purl.obolibrary.org/obo/CL_0000172) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any secretory cell that is capable of some somatostatin secretion." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" +### somatotropin secreting cell `http://purl.obolibrary.org/obo/CL_0000295` -### unilaminar epithelium `http://purl.obolibrary.org/obo/UBERON_0000490` -#### Removed -- [unilaminar epithelium](http://purl.obolibrary.org/obo/UBERON_0000490) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Epithelium that consists of a single layer of epithelial cells.[CARO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://orcid.org/0000-0001-9114-8737" +#### Added +- [somatotropin secreting cell](http://purl.obolibrary.org/obo/CL_0000295) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009155" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "CARO" +### somite `http://purl.obolibrary.org/obo/UBERON_0002329` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "CARO:0000073" +#### Added +- [somite](http://purl.obolibrary.org/obo/UBERON_0002329) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:45561" +### somitogenesis `http://purl.obolibrary.org/obo/GO_0001756` +#### Added +- [somitogenesis](http://purl.obolibrary.org/obo/GO_0001756) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### universal `http://purl.obolibrary.org/obo/IAO_0000410` -#### Removed -- [universal](http://purl.obolibrary.org/obo/IAO_0000410) [IAO_0000117](http://purl.obolibrary.org/obo/IAO_0000117) "Alan Ruttenberg"@en -- [universal](http://purl.obolibrary.org/obo/IAO_0000410) [IAO_0000119](http://purl.obolibrary.org/obo/IAO_0000119) "A Formal Theory of Substances, Qualities, and Universals, http://ontology.buffalo.edu/bfo/SQU.pdf"@en +### spatial region `http://purl.obolibrary.org/obo/BFO_0000006` +#### Removed +- [spatial region](http://purl.obolibrary.org/obo/BFO_0000006) [label](http://www.w3.org/2000/01/rdf-schema#label) "spatial region"@en -- [universal](http://purl.obolibrary.org/obo/IAO_0000410) [IAO_0000111](http://purl.obolibrary.org/obo/IAO_0000111) "universal"@en +- [spatial region](http://purl.obolibrary.org/obo/BFO_0000006) SubClassOf [immaterial entity](http://purl.obolibrary.org/obo/BFO_0000141) -### upper arm bone `http://purl.obolibrary.org/obo/UBERON_0004250` +### specifically dependent continuant `http://purl.obolibrary.org/obo/BFO_0000020` #### Removed -- [upper arm bone](http://purl.obolibrary.org/obo/UBERON_0004250) [UBPROP_0000006](http://purl.obolibrary.org/obo/UBPROP_0000006) "https://github.com/obophenotype/uberon/wiki/Skeleton-partonomy-Design-Pattern"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - +- [specifically dependent continuant](http://purl.obolibrary.org/obo/BFO_0000020) [label](http://www.w3.org/2000/01/rdf-schema#label) "specifically dependent continuant"@en +- [specifically dependent continuant](http://purl.obolibrary.org/obo/BFO_0000020) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])"@en -### upper arm epithelium `http://purl.obolibrary.org/obo/UBERON_0005228` -#### Removed -- [upper arm epithelium](http://purl.obolibrary.org/obo/UBERON_0005228) SubClassOf [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) +- [specifically dependent continuant](http://purl.obolibrary.org/obo/BFO_0000020) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same."@en -#### Added -- [upper arm epithelium](http://purl.obolibrary.org/obo/UBERON_0005228) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) +- [specifically dependent continuant](http://purl.obolibrary.org/obo/BFO_0000020) DisjointWith [generically dependent continuant](http://purl.obolibrary.org/obo/BFO_0000031) +- [specifically dependent continuant](http://purl.obolibrary.org/obo/BFO_0000020) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### upper digestive tract `http://purl.obolibrary.org/obo/UBERON_0004908` -#### Removed -- [upper digestive tract](http://purl.obolibrary.org/obo/UBERON_0004908) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "WP: small intestine, large intestine, anus. Anal canal not part of LGIT according to FMA, but anus is considered part of LGIT according to WP. Duodenum overlaps both U/L. In Galen, entire GI tract excludes esophagus" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [specifically dependent continuant](http://purl.obolibrary.org/obo/BFO_0000020) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) only [specifically dependent continuant](http://purl.obolibrary.org/obo/BFO_0000020) -### upper jaw region `http://purl.obolibrary.org/obo/UBERON_0001709` +### sperm `http://purl.obolibrary.org/obo/CL_0000019` #### Removed -- [upper jaw region](http://purl.obolibrary.org/obo/UBERON_0001709) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Subsequent vertebrate evolution has also involved major alterations to the pharynx; perhaps the most notable occurred with the evolution of the gnathostomes. This involved substantial modifications to the most anterior pharyngeal segments, with the jaw forming from the first, anterior, pharyngeal segment, while the second formed its supporting apparatus, the hyoid.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [sperm](http://purl.obolibrary.org/obo/CL_0000019) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004954" + +#### Added +- [sperm](http://purl.obolibrary.org/obo/CL_0000019) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009006" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [sperm](http://purl.obolibrary.org/obo/CL_0000019) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004954" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [sperm](http://purl.obolibrary.org/obo/CL_0000019) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000454" +### sperm axoneme assembly `http://purl.obolibrary.org/obo/GO_0007288` +#### Removed +- [sperm axoneme assembly](http://purl.obolibrary.org/obo/GO_0007288) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) -- [upper jaw region](http://purl.obolibrary.org/obo/UBERON_0001709) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Note isa/partof difference MA/FMA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" -- [upper jaw region](http://purl.obolibrary.org/obo/UBERON_0001709) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [lower jaw region](http://purl.obolibrary.org/obo/UBERON_0001710) -- [upper jaw region](http://purl.obolibrary.org/obo/UBERON_0001709) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Superior maxillary arch located on the anterior and lateral sides of the skull.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" +### sperm flagellum assembly `http://purl.obolibrary.org/obo/GO_0120316` +#### Removed +- [sperm flagellum assembly](http://purl.obolibrary.org/obo/GO_0120316) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000620" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### sperm motility `http://purl.obolibrary.org/obo/GO_0097722` #### Added -- [upper jaw region](http://purl.obolibrary.org/obo/UBERON_0001709) SubClassOf [structure with developmental contribution from neural crest](http://purl.obolibrary.org/obo/UBERON_0010314) +- [sperm motility](http://purl.obolibrary.org/obo/GO_0097722) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### upper leg epithelium `http://purl.obolibrary.org/obo/UBERON_0005225` +### sperm nuclear envelope removal `http://purl.obolibrary.org/obo/GO_0035040` #### Removed -- [upper leg epithelium](http://purl.obolibrary.org/obo/UBERON_0005225) SubClassOf [epithelium](http://purl.obolibrary.org/obo/UBERON_0000483) +- [sperm nuclear envelope removal](http://purl.obolibrary.org/obo/GO_0035040) SubClassOf [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) -#### Added -- [upper leg epithelium](http://purl.obolibrary.org/obo/UBERON_0005225) SubClassOf [ecto-epithelium](http://purl.obolibrary.org/obo/UBERON_0010371) -### upper lip `http://purl.obolibrary.org/obo/UBERON_0001834` +### spermatic cord `http://purl.obolibrary.org/obo/UBERON_0005352` #### Removed -- [upper lip](http://purl.obolibrary.org/obo/UBERON_0001834) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Lip that covers the lower portion of the mouth. [ZFIN:Curator][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [spermatic cord](http://purl.obolibrary.org/obo/UBERON_0005352) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001750" -- [upper lip](http://purl.obolibrary.org/obo/UBERON_0001834) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Lip that covers the upper portion of the mouth.[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001970" +### spermatid `http://purl.obolibrary.org/obo/CL_0000018` +#### Removed +- [spermatid](http://purl.obolibrary.org/obo/CL_0000018) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004942" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [spermatid](http://purl.obolibrary.org/obo/CL_0000018) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004942" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" +- [spermatid](http://purl.obolibrary.org/obo/CL_0000018) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005769" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [spermatid](http://purl.obolibrary.org/obo/CL_0000018) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### upper respiratory conduit `http://purl.obolibrary.org/obo/UBERON_0015787` +### spermatid nucleus differentiation `http://purl.obolibrary.org/obo/GO_0007289` #### Removed -- [upper respiratory conduit](http://purl.obolibrary.org/obo/UBERON_0015787) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster which consists a segment of the upper respiratory tract[FMA:265132]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:265132" +- [spermatid nucleus differentiation](http://purl.obolibrary.org/obo/GO_0007289) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) -#### Added -- [upper respiratory conduit](http://purl.obolibrary.org/obo/UBERON_0015787) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) -### upper respiratory tract `http://purl.obolibrary.org/obo/UBERON_0001557` +### spermatocyte `http://purl.obolibrary.org/obo/CL_0000017` #### Removed -- [upper respiratory tract](http://purl.obolibrary.org/obo/UBERON_0001557) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "Some specify that the glottis (vocal cords) is the defining line between the upper and lower respiratory tracts;[2] yet even others make the line at the cricoid cartilage. The FMA includes nose, nasopharynx, oropharynx and larynx[WP]" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [spermatocyte](http://purl.obolibrary.org/obo/CL_0000017) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004936" + +#### Added +- [spermatocyte](http://purl.obolibrary.org/obo/CL_0000017) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004936" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [upper respiratory tract](http://purl.obolibrary.org/obo/UBERON_0001557) [RO_0002171](http://purl.obolibrary.org/obo/RO_0002171) [lower respiratory tract](http://purl.obolibrary.org/obo/UBERON_0001558) +- [spermatocyte](http://purl.obolibrary.org/obo/CL_0000017) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009005" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [spermatocyte](http://purl.obolibrary.org/obo/CL_0000017) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### ureter `http://purl.obolibrary.org/obo/UBERON_0000056` +### spermatocyte division `http://purl.obolibrary.org/obo/GO_0048137` #### Removed -- [ureter](http://purl.obolibrary.org/obo/UBERON_0000056) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "in humans, consists of adventitial, muscular and mucoa layers" +- [spermatocyte division](http://purl.obolibrary.org/obo/GO_0048137) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) -- [ureter](http://purl.obolibrary.org/obo/UBERON_0000056) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The first embryonic hint of a metanephros is the formation of the metanephric duct that appears as a ureteric diverticulum arising at the base of preexisting mesonephric duct. The ureteric diverticulum grows dorsally into the posterior region of the nephric ridge. Here it enlarges and stimulates the growth of metanephric tubules that come to make up the metanephric kidney. The metanephros becomes the adult kidney of amniotes, and the metanephric duct is usually called the ureter.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [spermatocyte division](http://purl.obolibrary.org/obo/GO_0048137) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### spermatogonial cell division `http://purl.obolibrary.org/obo/GO_0007284` +#### Removed +- [spermatogonial cell division](http://purl.obolibrary.org/obo/GO_0007284) SubClassOf [cellular process involved in reproduction in multicellular organism](http://purl.obolibrary.org/obo/GO_0022412) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000605" +#### Added +- [spermatogonial cell division](http://purl.obolibrary.org/obo/GO_0007284) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.543" -- [ureter](http://purl.obolibrary.org/obo/UBERON_0000056) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical structure consisting of long narrow duct which carries urine from the kidney to the urinary bladder.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010254" +### spermatogonium `http://purl.obolibrary.org/obo/CL_0000020` +#### Removed +- [spermatogonium](http://purl.obolibrary.org/obo/CL_0000020) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004934" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [spermatogonium](http://purl.obolibrary.org/obo/CL_0000020) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004935" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [spermatogonium](http://purl.obolibrary.org/obo/CL_0000020) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009007" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" +- [spermatogonium](http://purl.obolibrary.org/obo/CL_0000020) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004934" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [ureter](http://purl.obolibrary.org/obo/UBERON_0000056) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "ureteric" +- [spermatogonium](http://purl.obolibrary.org/obo/CL_0000020) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004935" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [ureter](http://purl.obolibrary.org/obo/UBERON_0000056) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "ureteral" -- [ureter](http://purl.obolibrary.org/obo/UBERON_0000056) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The duct of amniotes that carries urine from a metanephric kidney to the urinary bladder. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-29, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### spinal accessory motor neuron `http://purl.obolibrary.org/obo/CL_0000741` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [spinal accessory motor neuron](http://purl.obolibrary.org/obo/CL_0000741) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009311" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000605" +### spinal cord interneuron `http://purl.obolibrary.org/obo/CL_0005000` +#### Added +- [spinal cord interneuron](http://purl.obolibrary.org/obo/CL_0005000) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0000778" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### ureter luminal urothelium `http://purl.obolibrary.org/obo/UBERON_0011947` +### spinal cord radial glial cell `http://purl.obolibrary.org/obo/CL_1000073` #### Added -- [ureter luminal urothelium](http://purl.obolibrary.org/obo/UBERON_0011947) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [spinal cord radial glial cell](http://purl.obolibrary.org/obo/CL_1000073) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any radial glial cell that is part of some spinal cord." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### ureteral valve `http://purl.obolibrary.org/obo/UBERON_0015420` +### splanchnocranium `http://purl.obolibrary.org/obo/UBERON_0008895` #### Added -- [ureteral valve](http://purl.obolibrary.org/obo/UBERON_0015420) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [splanchnocranium](http://purl.obolibrary.org/obo/UBERON_0008895) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### ureteric bud `http://purl.obolibrary.org/obo/UBERON_0000084` +### splenic marginal zone macrophage `http://purl.obolibrary.org/obo/CL_0000872` #### Removed -- [ureteric bud](http://purl.obolibrary.org/obo/UBERON_0000084) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Outgrowth of the mesonephric duct that penetrates the metanephric mesoderm and forms the ureter, renal pelvis, major and minor calyces and collecting ducts[VHOG:0000541]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "VHOG:0000541" - -- [ureteric bud](http://purl.obolibrary.org/obo/UBERON_0000084) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Outgrowth of the mesonephric duct that penetrates the metanephric mesoderm and forms the ureter, renal pelvis, major and minor calyces and collecting ducts. [Embryology, See_Dudek_RW_and_Fix_JD, Third_Edition_(2004)_Philadelphia:_Lippincott_William_and_Wilkins, p.137][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000541" +- [splenic marginal zone macrophage](http://purl.obolibrary.org/obo/CL_0000872) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [ureteric bud](http://purl.obolibrary.org/obo/UBERON_0000084) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The first embryonic hint of a metanephros is the formation of the metanephric duct that appears as a ureteric diverticulum arising at the base of preexisting mesonephric duct. The ureteric diverticulum grows dorsally into the posterior region of the nephric ridge. Here it enlarges and stimulates the growth of metanephric tubules that come to make up the metanephric kidney. The metanephros becomes the adult kidney of amniotes, and the metanephric duct is usually called the ureter.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### splenic metallophillic macrophage `http://purl.obolibrary.org/obo/CL_0000873` +#### Removed +- [splenic metallophillic macrophage](http://purl.obolibrary.org/obo/CL_0000873) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000541" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.543" -- [ureteric bud](http://purl.obolibrary.org/obo/UBERON_0000084) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) +### splenic red pulp macrophage `http://purl.obolibrary.org/obo/CL_0000874` +#### Removed +- [splenic red pulp macrophage](http://purl.obolibrary.org/obo/CL_0000874) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### urethra `http://purl.obolibrary.org/obo/UBERON_0000057` +### splenic white pulp macrophage `http://purl.obolibrary.org/obo/CL_0000876` #### Removed -- [urethra](http://purl.obolibrary.org/obo/UBERON_0000057) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "urethral" +- [splenic white pulp macrophage](http://purl.obolibrary.org/obo/CL_0000876) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -- [urethra](http://purl.obolibrary.org/obo/UBERON_0000057) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In human males, the urethra travels through the penis, and carries semen as well as urine. In females, the urethra is shorter and emerges above the vaginal opening." -- [urethra](http://purl.obolibrary.org/obo/UBERON_0000057) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [primitive urogenital sinus](http://purl.obolibrary.org/obo/UBERON_0000164) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "pelvic part of UG sinus gives rise to prostatic and membranous parts of urethra" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia" +### spongiotrophoblast layer developmental growth `http://purl.obolibrary.org/obo/GO_0090214` #### Added -- [urethra](http://purl.obolibrary.org/obo/UBERON_0000057) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [primitive urogenital sinus](http://purl.obolibrary.org/obo/UBERON_0000164) +- [spongiotrophoblast layer developmental growth](http://purl.obolibrary.org/obo/GO_0090214) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### urethra mesenchymal layer `http://purl.obolibrary.org/obo/UBERON_0015418` +### squamous epithelial cell `http://purl.obolibrary.org/obo/CL_0000076` #### Added -- [urethra mesenchymal layer](http://purl.obolibrary.org/obo/UBERON_0015418) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [squamous epithelial cell](http://purl.obolibrary.org/obo/CL_0000076) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009039" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### urethra muscle tissue `http://purl.obolibrary.org/obo/UBERON_0003829` +### sst GABAergic cortical interneuron `http://purl.obolibrary.org/obo/CL_4023017` +#### Removed +- [sst GABAergic cortical interneuron](http://purl.obolibrary.org/obo/CL_4023017) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A GABAergic neuron located in the cerebral cortex that expresses somatostatin (sst)" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:27477017" #### Added -- [urethra muscle tissue](http://purl.obolibrary.org/obo/UBERON_0003829) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [sst GABAergic cortical interneuron](http://purl.obolibrary.org/obo/CL_4023017) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A GABAergic neuron located in the cerebral cortex that expresses somatostatin (sst)" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:27477017" -### urethral gland `http://purl.obolibrary.org/obo/UBERON_0001338` -#### Removed -- [urethral gland](http://purl.obolibrary.org/obo/UBERON_0001338) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "NCIT:C12339 paraurethral gland belongs here" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "NCIT" +- [sst GABAergic cortical interneuron](http://purl.obolibrary.org/obo/CL_4023017) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -#### Added -- [urethral gland](http://purl.obolibrary.org/obo/UBERON_0001338) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +### sst chodl GABAergic cortical interneuron `http://purl.obolibrary.org/obo/CL_4023121` +#### Removed +- [sst chodl GABAergic cortical interneuron](http://purl.obolibrary.org/obo/CL_4023121) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A sst GABAergic cortical interneuron that also expresses Chodl. These neurons are rare and correspond to the only known cortical interneurons with long-range projection." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:33372656" + + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:15845086" -### urethral meatus `http://purl.obolibrary.org/obo/UBERON_0012240` + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:31209381" #### Added -- [urethral meatus](http://purl.obolibrary.org/obo/UBERON_0012240) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [sst chodl GABAergic cortical interneuron](http://purl.obolibrary.org/obo/CL_4023121) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A sst GABAergic cortical interneuron that also expresses Chodl. These neurons are rare and correspond to the only known cortical interneurons with long-range projection." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:33372656" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:15845086" -### urinary bladder `http://purl.obolibrary.org/obo/UBERON_0001255` -#### Removed -- [urinary bladder](http://purl.obolibrary.org/obo/UBERON_0001255) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The urinary bladder evolved in tetrapods. Birds to not possess a true urinary bladder, although Palaeognathae have an undifferentiated cloacal outpocketing that serves a similar function[https://github.com/obophenotype/uberon/issues/454]" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" -- [urinary bladder](http://purl.obolibrary.org/obo/UBERON_0001255) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A saccular organ in which urine accumulates before discharge from the body. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-29, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:31209381" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### stellate interneuron `http://purl.obolibrary.org/obo/CL_0000691` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000740" +#### Added +- [stellate interneuron](http://purl.obolibrary.org/obo/CL_0000691) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009297" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) + +- [stellate interneuron](http://purl.obolibrary.org/obo/CL_0000691) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any interneuron that has characteristic some stellate morphology." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [urinary bladder](http://purl.obolibrary.org/obo/UBERON_0001255) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical structure which consists of a membranous sac used to temporarily store urine until it is excreted from the body.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000623" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### stellate neuron `http://purl.obolibrary.org/obo/CL_0000122` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [stellate neuron](http://purl.obolibrary.org/obo/CL_0000122) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009072" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" -- [urinary bladder](http://purl.obolibrary.org/obo/UBERON_0001255) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In tetrapods, the urinary bladder arises as an outpocketing of the cloaca. (...) The tetrapod urinary bladder appears first among amphibians and is present in Sphenodon, turtles, most lizards, ostriches among birds, and all mammals.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### stem cell `http://purl.obolibrary.org/obo/CL_0000034` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [stem cell](http://purl.obolibrary.org/obo/CL_0000034) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005957" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.577-78" +### stem cell division `http://purl.obolibrary.org/obo/GO_0017145` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000740" +#### Added +- [stem cell division](http://purl.obolibrary.org/obo/GO_0017145) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [urinary bladder](http://purl.obolibrary.org/obo/UBERON_0001255) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "vesical" -- [urinary bladder](http://purl.obolibrary.org/obo/UBERON_0001255) [never_in_taxon](http://purl.obolibrary.org/obo/RO_0002161) [Aves](http://purl.obolibrary.org/obo/NCBITaxon_8782) - - [editor](http://www.geneontology.org/formats/oboInOwl#editor) "https://orcid.org/0000-0003-3308-6245" +### stem cell of epidermis `http://purl.obolibrary.org/obo/CL_1000428` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "https://github.com/obophenotype/uberon/issues/454" +#### Added +- [stem cell of epidermis](http://purl.obolibrary.org/obo/CL_1000428) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0007122" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [id](http://www.geneontology.org/formats/oboInOwl#id) "GOTAX:0010073" -- [urinary bladder](http://purl.obolibrary.org/obo/UBERON_0001255) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [primitive urogenital sinus](http://purl.obolibrary.org/obo/UBERON_0000164) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "upper part of UG sinus" +### stem cell population maintenance `http://purl.obolibrary.org/obo/GO_0019827` #### Added -- [urinary bladder](http://purl.obolibrary.org/obo/UBERON_0001255) SubClassOf [develops from](http://purl.obolibrary.org/obo/RO_0002202) some [primitive urogenital sinus](http://purl.obolibrary.org/obo/UBERON_0000164) +- [stem cell population maintenance](http://purl.obolibrary.org/obo/GO_0019827) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### urinary bladder urothelium `http://purl.obolibrary.org/obo/UBERON_0004645` -#### Removed -- [urinary bladder urothelium](http://purl.obolibrary.org/obo/UBERON_0004645) [UBPROP_0000010](http://purl.obolibrary.org/obo/UBPROP_0000010) "5-7 cell layers thick in contracted bladder, 2-3 cells thick in distended bladder; lines renal pelvis, ureters, bladder, most of urethra but not distal urethra" +### stem cell proliferation `http://purl.obolibrary.org/obo/GO_0072089` + +#### Added +- [stem cell proliferation](http://purl.obolibrary.org/obo/GO_0072089) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) + -- [urinary bladder urothelium](http://purl.obolibrary.org/obo/UBERON_0004645) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "NCIT:C13318" +### steroid binding `http://purl.obolibrary.org/obo/GO_0005496` #### Added -- [urinary bladder urothelium](http://purl.obolibrary.org/obo/UBERON_0004645) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [steroid binding](http://purl.obolibrary.org/obo/GO_0005496) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [urinary bladder urothelium](http://purl.obolibrary.org/obo/UBERON_0004645) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) +### steroid hormone secreting cell `http://purl.obolibrary.org/obo/CL_0000174` -### urine `http://purl.obolibrary.org/obo/UBERON_0001088` -#### Removed -- [urine](http://purl.obolibrary.org/obo/UBERON_0001088) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "kidney excreta from some taxa (e.g. in aves) may not be liquid" +#### Added +- [steroid hormone secreting cell](http://purl.obolibrary.org/obo/CL_0000174) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any secretory cell that is capable of some steroid hormone secretion." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" +- [steroid hormone secreting cell](http://purl.obolibrary.org/obo/CL_0000174) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009106" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### url `http://www.geneontology.org/formats/oboInOwl#url` +### stomach glandular region `http://purl.obolibrary.org/obo/UBERON_0011953` #### Removed -- AnnotationProperty: [url](http://www.geneontology.org/formats/oboInOwl#url) +- [stomach glandular region](http://purl.obolibrary.org/obo/UBERON_0011953) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### urogenital fold `http://purl.obolibrary.org/obo/UBERON_0004876` -#### Removed -- [urogenital fold](http://purl.obolibrary.org/obo/UBERON_0004876) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "Less commonly, urogenital fold refers to the fold in the mesonephros which is the precursor of e.g. the suspensory ligament of the ovary. This is the case in older versions of Gray's anatomy[WP]" +### stomach neuroendocrine cell `http://purl.obolibrary.org/obo/CL_1000222` +#### Added +- [stomach neuroendocrine cell](http://purl.obolibrary.org/obo/CL_1000222) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any neuroendocrine cell that is part of some stomach." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### urogenital sinus epithelium `http://purl.obolibrary.org/obo/UBERON_0004902` -#### Removed -- [urogenital sinus epithelium](http://purl.obolibrary.org/obo/UBERON_0004902) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we follow EHDAA2 in dividing the UGS into epithelium and lumen" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" +### stomodeum `http://purl.obolibrary.org/obo/UBERON_0000930` #### Added -- [urogenital sinus epithelium](http://purl.obolibrary.org/obo/UBERON_0004902) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) +- [stomodeum](http://purl.obolibrary.org/obo/UBERON_0000930) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00000439" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [urogenital sinus epithelium](http://purl.obolibrary.org/obo/UBERON_0004902) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +### stratified cuboidal epithelial cell `http://purl.obolibrary.org/obo/CL_0000241` -### urogenital sinus mesenchyme `http://purl.obolibrary.org/obo/UBERON_0009845` -#### Removed -- [urogenital sinus mesenchyme](http://purl.obolibrary.org/obo/UBERON_0009845) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Androgen receptor (AR) activation releases instructive signals from UGM that acts on UGS epithelium (UGE) to stimulate cell proliferation, form prostate ductal progenitors (prostatic buds), and regulate cell adhesion dynamics to permit prostatic bud outgrowth" +#### Added +- [stratified cuboidal epithelial cell](http://purl.obolibrary.org/obo/CL_0000241) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009145" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +### stratified epithelial cell `http://purl.obolibrary.org/obo/CL_0000079` -### urokinase plasminogen activator surface receptor `http://purl.obolibrary.org/obo/PR_000001969` -#### Removed -- [urokinase plasminogen activator surface receptor](http://purl.obolibrary.org/obo/PR_000001969) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [urokinase plasminogen activator surface receptor (human)](http://purl.obolibrary.org/obo/PR_Q03405) +#### Added +- [stratified epithelial cell](http://purl.obolibrary.org/obo/CL_0000079) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009042" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +- [stratified epithelial cell](http://purl.obolibrary.org/obo/CL_0000079) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### urorectal septum `http://purl.obolibrary.org/obo/UBERON_0005760` -#### Removed -- [urorectal septum](http://purl.obolibrary.org/obo/UBERON_0005760) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In mammals the lowly monotremes still have a cloaca. Higher types have done away with this structure and have a separate anal outlet for the rectum. The monotreme cloaca shows the initiation of this subdivision. The cloaca has such includes only the distal part, roughly comparable to the proctodeum. The more proximal part is divided into (1) a large dorsal passage into which the intestine opens, the coprodeum, and (2) a ventral portion, the urodeum with which the bladder connects. (...) the development of the placental mammals recapitulates in many respects the phylogenetic story. In the sexually indifferent stage of placental mammal there is a cloaca. While the indifferent stage still persists, a septum develops, and extends out to the closing membrane. This divides the cloaca into two chambers: a coprodeum continuous with the gut above, and a urodeum or urogenital sinus below.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000018" +### stratified epithelial stem cell `http://purl.obolibrary.org/obo/CL_0000357` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [stratified epithelial stem cell](http://purl.obolibrary.org/obo/CL_0000357) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009180" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0721676678 Romer AS, Vertebrate body (1970) p.388-89 and Figure 300" +### stratified keratinized epithelial stem cell `http://purl.obolibrary.org/obo/CL_1000083` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [stratified keratinized epithelial stem cell](http://purl.obolibrary.org/obo/CL_1000083) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009371" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [urorectal septum](http://purl.obolibrary.org/obo/UBERON_0005760) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "A ridge of mesoderm covered with endoderm that in the early developing embryo divides the endodermal cloaca into the urogenital sinus and the rectum. [TFD][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000018" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### stratified squamous epithelial cell `http://purl.obolibrary.org/obo/CL_0000240` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [stratified squamous epithelial cell](http://purl.obolibrary.org/obo/CL_0000240) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009144" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/urorectal+septum" +### stratum granulosum cell `http://purl.obolibrary.org/obo/CL_0000712` +#### Added +- [stratum granulosum cell](http://purl.obolibrary.org/obo/CL_0000712) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any epidermal cell that is part of some stratum granulosum of epidermis." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### urothelium `http://purl.obolibrary.org/obo/UBERON_0000365` +### stratum spinosum of epidermis `http://purl.obolibrary.org/obo/UBERON_0002026` #### Removed -- [urothelium](http://purl.obolibrary.org/obo/UBERON_0000365) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "NCIT:C13318" - -- [urothelium](http://purl.obolibrary.org/obo/UBERON_0000365) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "urothelial" +- [stratum spinosum of epidermis](http://purl.obolibrary.org/obo/UBERON_0002026) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### urothelium of ureter `http://purl.obolibrary.org/obo/UBERON_0001254` -#### Removed -- [urothelium of ureter](http://purl.obolibrary.org/obo/UBERON_0001254) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "MP treats ureter urothelium and ureter luminal urothelium as exact synonyms, yes MA treats these as distinct; see also: transitional epithelium vs urothelium" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MP" +### stretch receptor cell `http://purl.obolibrary.org/obo/CL_1000082` #### Added -- [urothelium of ureter](http://purl.obolibrary.org/obo/UBERON_0001254) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [stretch receptor cell](http://purl.obolibrary.org/obo/CL_1000082) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009370" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [urothelium of ureter](http://purl.obolibrary.org/obo/UBERON_0001254) SubClassOf [meso-epithelium](http://purl.obolibrary.org/obo/UBERON_0012275) +### striated muscle cell `http://purl.obolibrary.org/obo/CL_0000737` -### uterine cervix `http://purl.obolibrary.org/obo/UBERON_0000002` -#### Removed -- [uterine cervix](http://purl.obolibrary.org/obo/UBERON_0000002) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The evolution of mammals is associated with radical changes in their reproductive biology, particularly the structure and function of the female reproductive organs. These changes include the evolution of the uterus, cervix, vagina, placenta and specialized cell types associated with each of those structures.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001359" +#### Added +- [striated muscle cell](http://purl.obolibrary.org/obo/CL_0000737) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005784" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### stroma of bone marrow `http://purl.obolibrary.org/obo/UBERON_0007195` +#### Removed +- [stroma of bone marrow](http://purl.obolibrary.org/obo/UBERON_0007195) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1098/rspb.2004.2848 Lynch VJ, Roth JJ, Takahashi K, Dunn CW, Nonaka DF, Stopper GF, Wagner GP, Adaptive evolution of HoxA-11 and HoxA-13 at the origin of the uterus in mammals. Proceedings of the Royal Society of London, Series B (2004)" -- [uterine cervix](http://purl.obolibrary.org/obo/UBERON_0000002) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The narrow caudal end of the uterus that opens into the vagina. [TFD][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001359" +### stromal cell `http://purl.obolibrary.org/obo/CL_0000499` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [stromal cell](http://purl.obolibrary.org/obo/CL_0000499) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009226" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [stromal cell](http://purl.obolibrary.org/obo/CL_0000499) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/uterine+cervix" +### structural cell `http://purl.obolibrary.org/obo/CL_0000293` -- [uterine cervix](http://purl.obolibrary.org/obo/UBERON_0000002) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "cervical" +#### Added +- [structural cell](http://purl.obolibrary.org/obo/CL_0000293) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005745" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) +### structure with developmental contribution from neural crest `http://purl.obolibrary.org/obo/UBERON_0010314` -### uterine tube infundibulum `http://purl.obolibrary.org/obo/UBERON_0003984` -#### Removed -- [uterine tube infundibulum](http://purl.obolibrary.org/obo/UBERON_0003984) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The third part of the uterine tube is the infundibulum. It terminates with the ostium of Fallopian tube, surrounded by fimbriae, one of which is attached to the ovary[Wikipedia:Infundibulum_of_uterine_tube]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Infundibulum_of_uterine_tube" +#### Added +- [structure with developmental contribution from neural crest](http://purl.obolibrary.org/obo/UBERON_0010314) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [uterine tube infundibulum](http://purl.obolibrary.org/obo/UBERON_0003984) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In mammals, the uterine tube infundibulum is part of the fallopian tube. In birds, where there is no fallopian tube, the uterine tube infundibulum is part of the oviduct." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "https://orcid.org/0000-0002-2825-0621" +### subcommissural organ `http://purl.obolibrary.org/obo/UBERON_0002139` +#### Removed +- [subcommissural organ](http://purl.obolibrary.org/obo/UBERON_0002139) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### uteroglobin `http://purl.obolibrary.org/obo/PR_000014505` -#### Removed -- [uteroglobin](http://purl.obolibrary.org/obo/PR_000014505) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [uteroglobin (human)](http://purl.obolibrary.org/obo/PR_P11684) +### subdivision of digestive tract `http://purl.obolibrary.org/obo/UBERON_0004921` +#### Added +- [subdivision of digestive tract](http://purl.obolibrary.org/obo/UBERON_0004921) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00100315" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### uterus `http://purl.obolibrary.org/obo/UBERON_0000995` -#### Removed -- [uterus](http://purl.obolibrary.org/obo/UBERON_0000995) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The hollow muscular organ in female mammals in which the blastocyst normally becomes embedded and in which the developing embryo and fetus is nourished. Its cavity opens into the vagina below and into a uterine tube on either side. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### subdivision of organism along appendicular axis `http://purl.obolibrary.org/obo/UBERON_0010758` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [subdivision of organism along appendicular axis](http://purl.obolibrary.org/obo/UBERON_0010758) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007018" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/uterus" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001137" +### subpial interlaminar astrocyte `http://purl.obolibrary.org/obo/CL_4042011` -- [uterus](http://purl.obolibrary.org/obo/UBERON_0000995) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "An infundibulum, uterine tube, uterus, and vagina also differentiate along the oviducts of eutherian mammals.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [subpial interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042011) [contributor](http://purl.org/dc/terms/contributor) [0000-0002-0098-8958](https://orcid.org/0000-0002-0098-8958) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [subpial interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042011) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "An interlaminar astrocyte type whose soma is part of the upper first layer of the neocortex and its processes extend to a pia surface." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:32930323" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37139179" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001137" +- [subpial interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042011) [label](http://www.w3.org/2000/01/rdf-schema#label) "subpial interlaminar astrocyte"@en - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.678" +- [subpial interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042011) [date](http://purl.org/dc/terms/date) "2024-04-08T16:39:09Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) -- [uterus](http://purl.obolibrary.org/obo/UBERON_0000995) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Most animals that lay eggs, such as birds and reptiles, have an oviduct instead of a uterus. In monotremes, mammals which lay eggs and include the platypus, either the term uterus or oviduct is used to describe the same organ, but the egg does not develop a placenta within the mother and thus does not receive further nourishment after formation and fertilization. Marsupials have two uteruses, each of which connect to a lateral vagina and which both use a third, middle 'vagina' which functions as the birth canal. Marsupial embryos form a choriovitelline 'placenta' (which can be thought of as something between a monotreme egg and a 'true' placenta), in which the egg's yolk sac supplies a large part of the embryo's nutrition but also attaches to the uterine wall and takes nutrients from the mother's bloodstream." +- Class: [subpial interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042011) -- [uterus](http://purl.obolibrary.org/obo/UBERON_0000995) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Two uteruses usually form initially in a female fetus, and in placental mammals they may partially or completely fuse into a single uterus depending on the species. In many species with two uteruses, only one is functional. Humans and other higher primates such as chimpanzees, along with horses, usually have a single completely fused uterus, although in some individuals the uteruses may not have completely fused [Wikipedia:Uterus]" +- [subpial interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042011) SubClassOf [interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042009) -- [uterus](http://purl.obolibrary.org/obo/UBERON_0000995) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "uterine" +- [subpial interlaminar astrocyte](http://purl.obolibrary.org/obo/CL_4042011) SubClassOf [connected to](http://purl.obolibrary.org/obo/RO_0002170) some [pia mater](http://purl.obolibrary.org/obo/UBERON_0002361) +### subserosa `http://purl.obolibrary.org/obo/UBERON_0012375` -### uterus or analog `http://purl.obolibrary.org/obo/UBERON_0006834` -#### Removed -- [uterus or analog](http://purl.obolibrary.org/obo/UBERON_0006834) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004924" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +#### Added +- [subserosa](http://purl.obolibrary.org/obo/UBERON_0012375) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +### substance P secreting cell `http://purl.obolibrary.org/obo/CL_0000505` -### utricle of membranous labyrinth `http://purl.obolibrary.org/obo/UBERON_0001853` -#### Removed -- [utricle of membranous labyrinth](http://purl.obolibrary.org/obo/UBERON_0001853) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In gnathostomes, each membranous labyrinth has three semicircular ducts that connect with a chamber known as the utriculus.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [substance P secreting cell](http://purl.obolibrary.org/obo/CL_0000505) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009230" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### sulcus limitans of neural tube `http://purl.obolibrary.org/obo/UBERON_0005478` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.413-414" +#### Added +- [sulcus limitans of neural tube](http://purl.obolibrary.org/obo/UBERON_0005478) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000289" -- [utricle of membranous labyrinth](http://purl.obolibrary.org/obo/UBERON_0001853) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The portion of the membranous labyrinth of the ear into which the semicircular ducts find their outlet. [Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier, adapted_from_Dorian_AF][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### superior olivary nucleus formation `http://purl.obolibrary.org/obo/GO_0021720` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [superior olivary nucleus formation](http://purl.obolibrary.org/obo/GO_0021720) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000289" +### superior olivary nucleus morphogenesis `http://purl.obolibrary.org/obo/GO_0021719` +#### Added +- [superior olivary nucleus morphogenesis](http://purl.obolibrary.org/obo/GO_0021719) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### uvea `http://purl.obolibrary.org/obo/UBERON_0001768` -#### Removed -- [uvea](http://purl.obolibrary.org/obo/UBERON_0001768) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "uveal" +### superoxide metabolic process `http://purl.obolibrary.org/obo/GO_0006801` #### Added -- [uvea](http://purl.obolibrary.org/obo/UBERON_0001768) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) - -- [uvea](http://purl.obolibrary.org/obo/UBERON_0001768) SubClassOf [structure with developmental contribution from neural crest](http://purl.obolibrary.org/obo/UBERON_0010314) +- [superoxide metabolic process](http://purl.obolibrary.org/obo/GO_0006801) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### vagal neural crest `http://purl.obolibrary.org/obo/UBERON_0005428` -#### Removed -- [vagal neural crest](http://purl.obolibrary.org/obo/UBERON_0005428) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### supporting cell `http://purl.obolibrary.org/obo/CL_0000630` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [supporting cell](http://purl.obolibrary.org/obo/CL_0000630) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009387" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43" +### surface of bone `http://purl.obolibrary.org/obo/UBERON_4200230` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001208" +#### Added +- [surface of bone](http://purl.obolibrary.org/obo/UBERON_4200230) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -- [vagal neural crest](http://purl.obolibrary.org/obo/UBERON_0005428) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Vagal neural crest is adjacent to the first seven somites gives rise to both ganglionic and ectomesenchymal derivatives.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### sustentacular cell `http://purl.obolibrary.org/obo/CL_0000703` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [sustentacular cell](http://purl.obolibrary.org/obo/CL_0000703) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009302" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000818" -- [vagal neural crest](http://purl.obolibrary.org/obo/UBERON_0005428) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In chicken fate mapping studies it was found to originate from neural crest residing between Somite 1-7 (S1-7); In mouse it is considered to be derived from rhombencephalic (post otic) neural crest cells and trunk neural crest cells (anterior to S5)" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "filemaps.com" +### sweat gland placode `http://purl.obolibrary.org/obo/UBERON_0005089` #### Added -- [vagal neural crest](http://purl.obolibrary.org/obo/UBERON_0005428) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [sweat gland placode](http://purl.obolibrary.org/obo/UBERON_0005089) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### vagina `http://purl.obolibrary.org/obo/UBERON_0000996` -#### Removed -- [vagina](http://purl.obolibrary.org/obo/UBERON_0000996) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "vaginal" +### sympathetic neuron `http://purl.obolibrary.org/obo/CL_0011103` -- [vagina](http://purl.obolibrary.org/obo/UBERON_0000996) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The genital canal in the female, leading from the opening of the vulva to the cervix of the uterus. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/vagina" +#### Added +- [sympathetic neuron](http://purl.obolibrary.org/obo/CL_0011103) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005777" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### synapse `http://purl.obolibrary.org/obo/GO_0045202` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [synapse](http://purl.obolibrary.org/obo/GO_0045202) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001138" -- [vagina](http://purl.obolibrary.org/obo/UBERON_0000996) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organ with organ cavity which connects the cervical canal of uterus to the vestibule of vagina.[FMA]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "FMA" +### synaptic signaling via neuropeptide `http://purl.obolibrary.org/obo/GO_0099538` +#### Removed +- [synaptic signaling via neuropeptide](http://purl.obolibrary.org/obo/GO_0099538) EquivalentTo [synaptic signaling](http://purl.obolibrary.org/obo/GO_0099536) and ([process has causal agent](http://purl.obolibrary.org/obo/RO_0002608) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670)) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-11-29" +- [synaptic signaling via neuropeptide](http://purl.obolibrary.org/obo/GO_0099538) SubClassOf [process has causal agent](http://purl.obolibrary.org/obo/RO_0002608) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "FMA:19949" +#### Added +- [synaptic signaling via neuropeptide](http://purl.obolibrary.org/obo/GO_0099538) EquivalentTo [synaptic signaling](http://purl.obolibrary.org/obo/GO_0099536) and ([process has causal agent](http://purl.obolibrary.org/obo/RO_0002608) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466)) -- [vagina](http://purl.obolibrary.org/obo/UBERON_0000996) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The distal end of the oviducts differentiates as a vagina in Metatheria and Eutheria.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [synaptic signaling via neuropeptide](http://purl.obolibrary.org/obo/GO_0099538) SubClassOf [process has causal agent](http://purl.obolibrary.org/obo/RO_0002608) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### synchondrosis `http://purl.obolibrary.org/obo/UBERON_0002215` +#### Removed +- [synchondrosis](http://purl.obolibrary.org/obo/UBERON_0002215) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001138" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.688" -- [vagina](http://purl.obolibrary.org/obo/UBERON_0000996) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "'The distal end of the oviducts differentiates as a vagina in Metatheria and Eutheria.' Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective, Third Edition (2001) Orlando Fla.: Harcourt College Publishers, p.688" +### synchronous hermaphroditic organism `http://purl.obolibrary.org/obo/UBERON_0010899` +#### Added +- [synchronous hermaphroditic organism](http://purl.obolibrary.org/obo/UBERON_0010899) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### vagina orifice `http://purl.obolibrary.org/obo/UBERON_0012317` +### syncytium formation `http://purl.obolibrary.org/obo/GO_0006949` #### Added -- [vagina orifice](http://purl.obolibrary.org/obo/UBERON_0012317) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [syncytium formation](http://purl.obolibrary.org/obo/GO_0006949) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### vagina sebaceous gland `http://purl.obolibrary.org/obo/UBERON_0003485` +### synovial cell `http://purl.obolibrary.org/obo/CL_0000214` #### Added -- [vagina sebaceous gland](http://purl.obolibrary.org/obo/UBERON_0003485) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [synovial cell](http://purl.obolibrary.org/obo/CL_0000214) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009131" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### vagina smooth muscle `http://purl.obolibrary.org/obo/UBERON_0004223` -#### Removed -- [vagina smooth muscle](http://purl.obolibrary.org/obo/UBERON_0004223) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:30997" +### taste bud formation `http://purl.obolibrary.org/obo/GO_0061195` +#### Added +- [taste bud formation](http://purl.obolibrary.org/obo/GO_0061195) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### vaginal fluid `http://purl.obolibrary.org/obo/UBERON_0036243` -#### Removed -- [vaginal fluid](http://purl.obolibrary.org/obo/UBERON_0036243) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0003084" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### taste receptor cell `http://purl.obolibrary.org/obo/CL_0000209` + +#### Added +- [taste receptor cell](http://purl.obolibrary.org/obo/CL_0000209) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009126" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) +### tendon cell `http://purl.obolibrary.org/obo/CL_0000388` +#### Added +- [tendon cell](http://purl.obolibrary.org/obo/CL_0000388) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009189" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### vaginal sphincter `http://purl.obolibrary.org/obo/UBERON_0012487` +### tendon formation `http://purl.obolibrary.org/obo/GO_0035992` #### Added -- [vaginal sphincter](http://purl.obolibrary.org/obo/UBERON_0012487) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [tendon formation](http://purl.obolibrary.org/obo/GO_0035992) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### vagus nerve `http://purl.obolibrary.org/obo/UBERON_0001759` +### tendon sheath `http://purl.obolibrary.org/obo/UBERON_0000304` #### Removed -- [vagus nerve](http://purl.obolibrary.org/obo/UBERON_0001759) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Nerve consisting of branchiomotor and visceral efferent fibers which branch and innervate the smooth muscles and glands of the heart, lungs, esophagus, and stomach as well as some throat muscles. Sensory fibers supply mucosa of the mouth and pharynx.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" +- [tendon sheath](http://purl.obolibrary.org/obo/UBERON_0000304) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [tendon sheath](http://purl.obolibrary.org/obo/UBERON_0000304) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010475" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### terminal Schwann cell `http://purl.obolibrary.org/obo/CL_0000692` -- [vagus nerve](http://purl.obolibrary.org/obo/UBERON_0001759) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (5) cranial nerves (...) (reference 1); Phylogenetically, the cranial nerves are thought to have evolved from dorsal and ventral nerves of a few anterior spinal nerves that became incorporated into the braincase. Dorsal and ventral nerves fuse in the trunk but not in the head, and they produce two series: dorsal cranial nerves (V, VII, IX, and X) and ventral cranial nerves (III, IV, VI, and XIII) (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [terminal Schwann cell](http://purl.obolibrary.org/obo/CL_0000692) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "tSC" + - [has_synonym_type](http://www.geneontology.org/formats/oboInOwl#hasSynonymType) [abbreviation](http://purl.obolibrary.org/obo/OMO_0003000) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:18803315" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43, ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.625" +- [terminal Schwann cell](http://purl.obolibrary.org/obo/CL_0000692) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "perisynaptic Schwann cell" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:18803315" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [terminal Schwann cell](http://purl.obolibrary.org/obo/CL_0000692) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "teloglia" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:18803315" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000737" +- [terminal Schwann cell](http://purl.obolibrary.org/obo/CL_0000692) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009298" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [vagus nerve](http://purl.obolibrary.org/obo/UBERON_0001759) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [basal plate metencephalon](http://purl.obolibrary.org/obo/UBERON_0005239) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "motor" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia" +### terminal part of digestive tract `http://purl.obolibrary.org/obo/UBERON_0006866` #### Added -- [vagus nerve](http://purl.obolibrary.org/obo/UBERON_0001759) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [basal plate metencephalon](http://purl.obolibrary.org/obo/UBERON_0005239) - - -### valve `http://purl.obolibrary.org/obo/UBERON_0003978` -#### Removed -- [valve](http://purl.obolibrary.org/obo/UBERON_0003978) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "valvular" - - +- [terminal part of digestive tract](http://purl.obolibrary.org/obo/UBERON_0006866) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005756" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### vas deferens `http://purl.obolibrary.org/obo/UBERON_0001000` -#### Removed -- [vas deferens](http://purl.obolibrary.org/obo/UBERON_0001000) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Most vertebrates have some form of duct to transfer the sperm from the testes to the urethra. In cartilaginous fish and amphibians, sperm is carried through the archinephric duct, which also partially helps to transport urine from the kidneys. In teleosts, there is a distinct sperm duct, separate from the ureters, and often called the vas deferens, although probably not truly homologous with that in humans. In cartilaginous fishes, the part of the archinephric duct closest to the testis is coiled up to form an epididymis. Below this are a number of small glands secreting components of the seminal fluid. The final portion of the duct also receives ducts from the kidneys in most species. In amniotes, however, the archinephric duct has become a true vas deferens, and is used only for conducting sperm, never urine. As in cartilaginous fish, the upper part of the duct forms the epididymis. In many species, the vas deferens ends in a small sac for storing sperm. The only vertebrates to lack any structure resembling a vas deferens are the primitive jawless fishes, which release sperm directly into the body cavity, and then into the surrounding water through a simple opening in the body wall." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" +- [terminal part of digestive tract](http://purl.obolibrary.org/obo/UBERON_0006866) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [vas deferens](http://purl.obolibrary.org/obo/UBERON_0001000) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The continuation of the archinephric duct, now called the deferent duct, extends caudally to the cloaca or to the part of the mammalian urethra that is derived from the cloaca.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.670" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### tertiary ovarian follicle `http://purl.obolibrary.org/obo/UBERON_0000037` +#### Removed +- [tertiary ovarian follicle](http://purl.obolibrary.org/obo/UBERON_0000037) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001135" +### testis `http://purl.obolibrary.org/obo/UBERON_0000473` +#### Added +- [testis](http://purl.obolibrary.org/obo/UBERON_0000473) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004928" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### vasa recta ascending limb `http://purl.obolibrary.org/obo/UBERON_0009091` -#### Removed -- [vasa recta ascending limb](http://purl.obolibrary.org/obo/UBERON_0009091) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "This class was created in order to align KUPO with CL. The original class was undefined, and the intended meaning is not clear, may be obsoleted in future. The vasa recta is parallel to the loop of Henles, this may refer to the portion of the vasa recta parallel to the ascending limb" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "CL" +### testosterone biosynthetic process `http://purl.obolibrary.org/obo/GO_0061370` #### Added -- [vasa recta ascending limb](http://purl.obolibrary.org/obo/UBERON_0009091) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [testosterone biosynthetic process](http://purl.obolibrary.org/obo/GO_0061370) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### vasa recta cell `http://purl.obolibrary.org/obo/CL_1001036` +### testosterone secreting cell `http://purl.obolibrary.org/obo/CL_0000177` #### Added -- [vasa recta cell](http://purl.obolibrary.org/obo/CL_1001036) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A cell that is part of a vasa recta." - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:12529271" +- [testosterone secreting cell](http://purl.obolibrary.org/obo/CL_0000177) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any secretory cell that is capable of some testosterone secretion." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:24381184" +- [testosterone secreting cell](http://purl.obolibrary.org/obo/CL_0000177) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009107" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### vasa recta descending limb `http://purl.obolibrary.org/obo/UBERON_0009202` -#### Removed -- [vasa recta descending limb](http://purl.obolibrary.org/obo/UBERON_0009202) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "This class was created in order to align KUPO with CL. The original class was undefined, and the intended meaning is not clear, may be obsoleted in future. The vasa recta is parallel to the loop of Henles, this may refer to the portion of the vasa recta parallel to the descending limb" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "CL" +### tether cell `http://purl.obolibrary.org/obo/CL_0002450` #### Added -- [vasa recta descending limb](http://purl.obolibrary.org/obo/UBERON_0009202) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [tether cell](http://purl.obolibrary.org/obo/CL_0002450) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005565" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### vascular endothelial growth factor receptor 2 `http://purl.obolibrary.org/obo/PR_000002112` -#### Removed -- [vascular endothelial growth factor receptor 2](http://purl.obolibrary.org/obo/PR_000002112) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [vascular endothelial growth factor receptor 2 (human)](http://purl.obolibrary.org/obo/PR_P35968) +### theca cell `http://purl.obolibrary.org/obo/CL_0000503` +#### Added +- [theca cell](http://purl.obolibrary.org/obo/CL_0000503) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009229" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### vascular plexus `http://purl.obolibrary.org/obo/UBERON_0005629` +### thecogen cell `http://purl.obolibrary.org/obo/CL_0000380` #### Removed -- [vascular plexus](http://purl.obolibrary.org/obo/UBERON_0005629) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "In a vascular plexus, the contents of the vessels mix. A plexus allows blood to flow via multiple routes. If one branch of the plexus is obstructed, the blood may flow via the open branches[Wikipedia:Plexus#Circulatory_system]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Plexus#Circulatory_system" - +- [thecogen cell](http://purl.obolibrary.org/obo/CL_0000380) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005173" +#### Added +- [thecogen cell](http://purl.obolibrary.org/obo/CL_0000380) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005173" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### vascular system `http://purl.obolibrary.org/obo/UBERON_0007798` -#### Removed -- [vascular system](http://purl.obolibrary.org/obo/UBERON_0007798) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The cardiovascular and lymphatic systems, collectively[ncithesaurus:Vascular_System]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ncithesaurus:Vascular_System" -- [vascular system](http://purl.obolibrary.org/obo/UBERON_0007798) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in both MA and BTO, the arterial system and venous sytem are subtypes of the vascular system" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "MA" +### thermoreceptor cell `http://purl.obolibrary.org/obo/CL_0000205` +#### Added +- [thermoreceptor cell](http://purl.obolibrary.org/obo/CL_0000205) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009123" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### vasculature `http://purl.obolibrary.org/obo/UBERON_0002049` -#### Removed -- [vasculature](http://purl.obolibrary.org/obo/UBERON_0002049) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "vascular" +### thromboblast `http://purl.obolibrary.org/obo/CL_0000828` +#### Added +- [thromboblast](http://purl.obolibrary.org/obo/CL_0000828) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009351" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### vasculature of eye `http://purl.obolibrary.org/obo/UBERON_0002203` +### thymus `http://purl.obolibrary.org/obo/UBERON_0002370` #### Removed -- [vasculature of eye](http://purl.obolibrary.org/obo/UBERON_0002203) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "not part of the eye in ZFA. Note this changed to a blood vessel in ZFA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "ZFA" +- [thymus](http://purl.obolibrary.org/obo/UBERON_0002370) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### vasculature of liver `http://purl.obolibrary.org/obo/UBERON_0006877` +### thymus corticomedullary boundary `http://purl.obolibrary.org/obo/UBERON_0003988` #### Removed -- [vasculature of liver](http://purl.obolibrary.org/obo/UBERON_0006877) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "the EHDAA2 term and the FMA term may not be exact equivalents - check" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" +- [thymus corticomedullary boundary](http://purl.obolibrary.org/obo/UBERON_0003988) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### vasculature of respiratory integument `http://purl.obolibrary.org/obo/UBERON_3010200` +### thymus lobule `http://purl.obolibrary.org/obo/UBERON_0002125` #### Removed -- [vasculature of respiratory integument](http://purl.obolibrary.org/obo/UBERON_3010200) [UBPROP_0000004](http://purl.obolibrary.org/obo/UBPROP_0000004) "This class was sourced from an external ontology (amphibian_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://purl.obolibrary.org/obo/aao.owl" +- [thymus lobule](http://purl.obolibrary.org/obo/UBERON_0002125) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### vasculature of retina `http://purl.obolibrary.org/obo/UBERON_0004864` -#### Removed -- [vasculature of retina](http://purl.obolibrary.org/obo/UBERON_0004864) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "XAO:0004153" +### thyroid diverticulum `http://purl.obolibrary.org/obo/UBERON_0007689` -- [vasculature of retina](http://purl.obolibrary.org/obo/UBERON_0004864) [never_in_taxon](http://purl.obolibrary.org/obo/RO_0002161) [Aves](http://purl.obolibrary.org/obo/NCBITaxon_8782) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:21622558" +#### Added +- [thyroid diverticulum](http://purl.obolibrary.org/obo/UBERON_0007689) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:2772405" - - [submitter](http://www.geneontology.org/formats/oboInOwl#submitter) "michaelerice" +### thyroid hormone secreting cell `http://purl.obolibrary.org/obo/CL_0000452` +#### Added +- [thyroid hormone secreting cell](http://purl.obolibrary.org/obo/CL_0000452) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009210" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### vein `http://purl.obolibrary.org/obo/UBERON_0001638` -#### Removed -- [vein](http://purl.obolibrary.org/obo/UBERON_0001638) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001743" +### thyrotroph `http://purl.obolibrary.org/obo/CL_0000476` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [thyrotroph](http://purl.obolibrary.org/obo/CL_0000476) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009218" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### tissue `http://purl.obolibrary.org/obo/UBERON_0000479` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2006)" +#### Added +- [tissue](http://purl.obolibrary.org/obo/UBERON_0000479) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00007003" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -- [vein](http://purl.obolibrary.org/obo/UBERON_0001638) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Part of the circulatory system composed of blood vessels which carry blood from other organs, tissues, and cells to the heart.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010212" +### tissue morphogenesis `http://purl.obolibrary.org/obo/GO_0048729` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [tissue morphogenesis](http://purl.obolibrary.org/obo/GO_0048729) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:BJB" -- [vein](http://purl.obolibrary.org/obo/UBERON_0001638) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "venous" +### tissue-resident macrophage `http://purl.obolibrary.org/obo/CL_0000864` +#### Removed +- [tissue-resident macrophage](http://purl.obolibrary.org/obo/CL_0000864) [present in taxon](http://purl.obolibrary.org/obo/RO_0002175) [Homo sapiens](http://purl.obolibrary.org/obo/NCBITaxon_9606) -- [vein](http://purl.obolibrary.org/obo/UBERON_0001638) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_63814](http://purl.obolibrary.org/obo/FMA_63814) +- [tissue-resident macrophage](http://purl.obolibrary.org/obo/CL_0000864) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [human_reference_atlas](http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas) -### vein of abdomen `http://purl.obolibrary.org/obo/UBERON_0013126` +### title `http://purl.org/dc/terms/title` #### Removed -- [vein of abdomen](http://purl.obolibrary.org/obo/UBERON_0013126) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "this class groups all veins that are in the abdomen. The term 'abdominal vein' may have specific meanings in different contexts. The lateral abdominal veins are present in fishes but usually merged or absent in tetrapods; in amphibians, the L&R abdominal veins merge into the ventral abdominal vein" +- AnnotationProperty: [title](http://purl.org/dc/terms/title) -### venous blood `http://purl.obolibrary.org/obo/UBERON_0013756` -#### Removed -- [venous blood](http://purl.obolibrary.org/obo/UBERON_0013756) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0006187" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### tolerance induction in mucosal-associated lymphoid tissue `http://purl.obolibrary.org/obo/GO_0002401` + +#### Added +- [tolerance induction in mucosal-associated lymphoid tissue](http://purl.obolibrary.org/obo/GO_0002401) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) +### tongue `http://purl.obolibrary.org/obo/UBERON_0001723` +#### Added +- [tongue](http://purl.obolibrary.org/obo/UBERON_0001723) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### venous dural sinus `http://purl.obolibrary.org/obo/UBERON_0005486` +### tooth bud `http://purl.obolibrary.org/obo/UBERON_0008281` #### Added -- [venous dural sinus](http://purl.obolibrary.org/obo/UBERON_0005486) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [tooth bud](http://purl.obolibrary.org/obo/UBERON_0008281) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### venous system `http://purl.obolibrary.org/obo/UBERON_0004582` -#### Removed -- [venous system](http://purl.obolibrary.org/obo/UBERON_0004582) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### tooth placode `http://purl.obolibrary.org/obo/UBERON_0005087` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [tooth placode](http://purl.obolibrary.org/obo/UBERON_0005087) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000277" +### tormogen cell `http://purl.obolibrary.org/obo/CL_0000372` +#### Removed +- [tormogen cell](http://purl.obolibrary.org/obo/CL_0000372) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005171" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2005)" +#### Added +- [tormogen cell](http://purl.obolibrary.org/obo/CL_0000372) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005171" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### totipotent stem cell `http://purl.obolibrary.org/obo/CL_0000052` -### venous valve `http://purl.obolibrary.org/obo/UBERON_0006675` -#### Removed -- [venous valve](http://purl.obolibrary.org/obo/UBERON_0006675) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D055422" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +#### Added +- [totipotent stem cell](http://purl.obolibrary.org/obo/CL_0000052) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009024" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +### touch receptor cell `http://purl.obolibrary.org/obo/CL_0000200` #### Added -- [venous valve](http://purl.obolibrary.org/obo/UBERON_0006675) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [touch receptor cell](http://purl.obolibrary.org/obo/CL_0000200) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any neuron that is capable of some detection of mechanical stimulus involved in sensory perception of touch." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### ventral horn of spinal cord `http://purl.obolibrary.org/obo/UBERON_0002257` -#### Removed -- [ventral horn of spinal cord](http://purl.obolibrary.org/obo/UBERON_0002257) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The anterior horn of the spinal cord (or anterior cornu, or anterior column, or ventral horn) is the ventral (front) grey matter section of the spinal cord. The anterior horn contains motor neurons that affect the axial muscles while the posterior horn receives information regarding touch and sensation. The anterior horn is where the cell bodies of alpha motorneurons are located[Wikipedia:Anterior_horn_of_spinal_cord]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Anterior_horn_of_spinal_cord" +### trabecula formation `http://purl.obolibrary.org/obo/GO_0060343` +#### Added +- [trabecula formation](http://purl.obolibrary.org/obo/GO_0060343) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### ventral mesentery `http://purl.obolibrary.org/obo/UBERON_0009668` -#### Removed -- [ventral mesentery](http://purl.obolibrary.org/obo/UBERON_0009668) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "degenerates during development except foregut portion" +### trabecula morphogenesis `http://purl.obolibrary.org/obo/GO_0061383` +#### Added +- [trabecula morphogenesis](http://purl.obolibrary.org/obo/GO_0061383) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### ventral mesogastrium `http://purl.obolibrary.org/obo/UBERON_0005626` +### tracheobronchial tree `http://purl.obolibrary.org/obo/UBERON_0007196` #### Removed -- [ventral mesogastrium](http://purl.obolibrary.org/obo/UBERON_0005626) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The mesentery that originates from the ventral side of the peritoneal cavity.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [tracheobronchial tree](http://purl.obolibrary.org/obo/UBERON_0007196) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005133" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### trans-synaptic signaling by neuropeptide `http://purl.obolibrary.org/obo/GO_0099540` +#### Removed +- [trans-synaptic signaling by neuropeptide](http://purl.obolibrary.org/obo/GO_0099540) EquivalentTo [trans-synaptic signaling](http://purl.obolibrary.org/obo/GO_0099537) and ([process has causal agent](http://purl.obolibrary.org/obo/RO_0002608) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670)) -- [ventral mesogastrium](http://purl.obolibrary.org/obo/UBERON_0005626) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The ventral sheet of the primitive mesentery that encloses the stomach. The lesser omentum develops from the ventral mesogastrium. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [trans-synaptic signaling by neuropeptide](http://purl.obolibrary.org/obo/GO_0099540) EquivalentTo [trans-synaptic signaling](http://purl.obolibrary.org/obo/GO_0099537) and ([process has causal agent](http://purl.obolibrary.org/obo/RO_0002608) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### trans-synaptic signaling by neuropeptide, modulating synaptic transmission `http://purl.obolibrary.org/obo/GO_0099551` +#### Removed +- [trans-synaptic signaling by neuropeptide, modulating synaptic transmission](http://purl.obolibrary.org/obo/GO_0099551) EquivalentTo [trans-synaptic signaling](http://purl.obolibrary.org/obo/GO_0099537) and ([regulates](http://purl.obolibrary.org/obo/RO_0002211) some [chemical synaptic transmission](http://purl.obolibrary.org/obo/GO_0007268)) and ([process has causal agent](http://purl.obolibrary.org/obo/RO_0002608) some [CHEBI_16670](http://purl.obolibrary.org/obo/CHEBI_16670)) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/mesogastrium" +#### Added +- [trans-synaptic signaling by neuropeptide, modulating synaptic transmission](http://purl.obolibrary.org/obo/GO_0099551) EquivalentTo [trans-synaptic signaling](http://purl.obolibrary.org/obo/GO_0099537) and ([regulates](http://purl.obolibrary.org/obo/RO_0002211) some [chemical synaptic transmission](http://purl.obolibrary.org/obo/GO_0007268)) and ([process has causal agent](http://purl.obolibrary.org/obo/RO_0002608) some [CHEBI_60466](http://purl.obolibrary.org/obo/CHEBI_60466)) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000351" +### transcription by RNA polymerase II `http://purl.obolibrary.org/obo/GO_0006366` +#### Added +- [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "The synthesis of RNA from a DNA template by RNA polymerase II (RNAP II), originating at an RNA polymerase II promoter. Includes transcription of messenger RNA (mRNA) and certain small nuclear RNAs (snRNAs)." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:jl" -### ventral pancreas `http://purl.obolibrary.org/obo/UBERON_0009709` + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ISBN:0321000382" -#### Added -- [ventral pancreas](http://purl.obolibrary.org/obo/UBERON_0009709) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH" +- [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0032568" -### ventral pancreatic bud `http://purl.obolibrary.org/obo/UBERON_0003924` -#### Removed -- [ventral pancreatic bud](http://purl.obolibrary.org/obo/UBERON_0003924) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The ventral pancreatic bud becomes the head and uncinate process, and comes from the hepatic diverticulum[WP]" +- [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_yeast](http://purl.obolibrary.org/obo/go#goslim_yeast) -- [ventral pancreatic bud](http://purl.obolibrary.org/obo/UBERON_0003924) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "the ventral pancreas and liver are derived from a common precursor cell population[PMID:16417468]. TODO - add this relationship." +- [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0006366" -- [ventral pancreatic bud](http://purl.obolibrary.org/obo/UBERON_0003924) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In chick, Xenopus laevis, and the teleost fish Medaka, the pancreas develops from three buds that emerge from the gut tube, two from its ventral aspect, and one from its dorsal aspect. In mouse, although there are initially three buds that arise from the gut tube at the point of contact between the endoderm and the vasculature, the pancreas develops from only two of these buds, one dorsal and one ventral. (...) In this study, we use a transgenic zebrafish line (...). We provide evidence for the existence of two distinct pancreatic anlagen - a ventral anterior bud and a dorsal posterior bud - that join to form the definitive pancreas (reference 1); The pancreas develops from the fusion of distinct endoderm-derived dorsal and ventral diverticula. In humans, by day 35 of development, the ventral pancreatic bud begins to migrate backwards and comes into contact and eventually fuses with the dorsal pancreatic bud during the sixth week of development (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "biological_process" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "gene-specific transcription from RNA polymerase II promoter" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "specific transcription from RNA polymerase II promoter" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:mah" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001429" +- [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/14854"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/S0012-1606(03)00308-7 Field HA, Dong PD, Beis D, Stainier DY, Formation of the digestive system in zebrafish. II. Pancreas morphogenesis. Developmental Biology (2003), DOI:10.2337/diabetes.49.2.225 Polak M, Bouchareb-Banaei L, Scharfmann R, Czernichow P, Early pattern of differentiation in the human pancreas. Diabetes (2000)" +- [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "transcription from RNA polymerase II promoter" +- [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "general transcription from RNA polymerase II promoter" +- [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366) [label](http://www.w3.org/2000/01/rdf-schema#label) "transcription by RNA polymerase II" -### ventral pancreatic duct `http://purl.obolibrary.org/obo/UBERON_0001064` -#### Removed -- [ventral pancreatic duct](http://purl.obolibrary.org/obo/UBERON_0001064) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "These data show that ducts within the zebrafish pancreas originally arise in situ from isolated progenitor cells rather than arising from reiterative branching of the pancreatic epithelium. This process of pancreatic duct formation in zebrafish may be analogous to the mechanism of duct formation in the mammalian mammary and salivary glands. (...) A related mechanism of duct formation has also been proposed to occur within the mammalian pancreatic epithelium.[uncertain][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0032569" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "transcription from Pol II promoter" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "RNA polymerase II transcription factor activity" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000256" +- Class: [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/j.ydbio.2005.04.035 Yee NS, Lorent K, Pack M, Exocrine pancreas development in zebrafish. Developmental Biology (2005)" +- [transcription by RNA polymerase II](http://purl.obolibrary.org/obo/GO_0006366) SubClassOf [DNA-templated transcription](http://purl.obolibrary.org/obo/GO_0006351) -- [ventral pancreatic duct](http://purl.obolibrary.org/obo/UBERON_0001064) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "Upon reaching its final destination, the ventral pancreatic bud fuses with the much larger dorsal pancreatic bud. At this point of fusion, the main ducts of the ventral and dorsal pancreatic buds fuse, forming the duct of Wirsung, the main pancreatic duct." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "WP" +### transcription cis-regulatory region binding `http://purl.obolibrary.org/obo/GO_0000976` +#### Added +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "bacterial-type RNA polymerase transcription regulatory region sequence-specific DNA binding" -### ventral part of pharyngeal pouch 3 `http://purl.obolibrary.org/obo/UBERON_0010026` -#### Removed -- [ventral part of pharyngeal pouch 3](http://purl.obolibrary.org/obo/UBERON_0010026) [UBPROP_0000011](http://purl.obolibrary.org/obo/UBPROP_0000011) "The ventral wings fuse to form the cytoreticular cells of the thymus[WP] the caudal ventral part of the pouch gives rise to the thymus epithelium" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP" +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "transcription regulatory region DNA binding" -- [ventral part of pharyngeal pouch 3](http://purl.obolibrary.org/obo/UBERON_0010026) SubClassOf [foregut epithelium](http://purl.obolibrary.org/obo/UBERON_0015833) +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "transcription regulatory region sequence-specific DNA binding" -- [ventral part of pharyngeal pouch 3](http://purl.obolibrary.org/obo/UBERON_0010026) SubClassOf [unilaminar epithelium](http://purl.obolibrary.org/obo/UBERON_0000490) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "EHDAA2" +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Binding to a specific sequence of DNA that is part of a regulatory region that controls transcription of that section of the DNA. The transcribed region might be described as a gene, cistron, or operon." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH" -#### Added -- [ventral part of pharyngeal pouch 3](http://purl.obolibrary.org/obo/UBERON_0010026) SubClassOf [endoderm of foregut](http://purl.obolibrary.org/obo/UBERON_0003258) +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "regulatory region DNA binding" +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "eubacterial-type RNA polymerase regulatory region DNA binding" -### ventral part of pharyngeal pouch 4 `http://purl.obolibrary.org/obo/UBERON_0010028` -#### Removed -- [ventral part of pharyngeal pouch 4](http://purl.obolibrary.org/obo/UBERON_0010028) SubClassOf [foregut epithelium](http://purl.obolibrary.org/obo/UBERON_0015833) +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0000984" -- [ventral part of pharyngeal pouch 4](http://purl.obolibrary.org/obo/UBERON_0010028) SubClassOf [unilaminar epithelium](http://purl.obolibrary.org/obo/UBERON_0000490) +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0001017" -#### Added -- [ventral part of pharyngeal pouch 4](http://purl.obolibrary.org/obo/UBERON_0010028) SubClassOf [endoderm of foregut](http://purl.obolibrary.org/obo/UBERON_0003258) +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/19312"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "eubacterial-type RNA polymerase regulatory region sequence-specific DNA binding" -### ventral part of telencephalon `http://purl.obolibrary.org/obo/UBERON_0000204` -#### Removed -- [ventral part of telencephalon](http://purl.obolibrary.org/obo/UBERON_0000204) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "BTO term refers specifically to the avian structure" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "BTO" +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) [label](http://www.w3.org/2000/01/rdf-schema#label) "transcription cis-regulatory region binding" -- [ventral part of telencephalon](http://purl.obolibrary.org/obo/UBERON_0000204) SubClassOf [dorsal to](http://purl.obolibrary.org/obo/BSPO_0000098) some [pallium](http://purl.obolibrary.org/obo/UBERON_0000203) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "separated by cell-free region" +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "krc" -#### Added -- [ventral part of telencephalon](http://purl.obolibrary.org/obo/UBERON_0000204) SubClassOf [dorsal to](http://purl.obolibrary.org/obo/BSPO_0000098) some [pallium](http://purl.obolibrary.org/obo/UBERON_0000203) +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0044212" +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/20791"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) -### ventral striatum `http://purl.obolibrary.org/obo/UBERON_0005403` -#### Removed -- [ventral striatum](http://purl.obolibrary.org/obo/UBERON_0005403) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D066328" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "molecular_function" - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "Note that this term is meant to also capture non-specific binding to regulatory regions. Also, to minimize ambiguity in the use of the word "promoter" in GO, we have chosen the phrase "transcription regulatory region" to refer to all of the regulatory regions. Regulatory regions in the DNA which control initiation may include the "core promoter" where the basal transcription machinery binds, the "core promoter proximal region" where regulatory factors other than the basal machinery bind. There are also additional regulatory regions, in both the DNA and the RNA transcript, which regulate elongation or termination of transcription." - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) [has narrow synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "bacterial-type RNA polymerase regulatory region DNA binding" -- [ventral striatum](http://purl.obolibrary.org/obo/UBERON_0005403) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The term ventral striatum refers to a composite structure of the endbrain that is defined in the striatopallidal system by connectivity and neurochemical staining. It includes the nucleus accumbens, the most ventral portions of the caudate nucleus and the putamen, the rostrolateral portion of the olfactory tubercle, the islands of Calleja and a rostral subcommissural portion of substantia innominata. The boundary between the ventral striatum and dorsal striatum is indistinct in sections stained for Nissl substance ( Heimer-1995 )." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "neuronames:2341" +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0000976" +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2010-08-10T02:58:18Z" +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0000975" -### ventral to `http://purl.obolibrary.org/obo/BSPO_0000102` -#### Removed -- [ventral to](http://purl.obolibrary.org/obo/BSPO_0000102) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "uberon" +- Class: [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) -- [ventral to](http://purl.obolibrary.org/obo/BSPO_0000102) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BSPO:0000102" +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) SubClassOf [transcription regulatory region nucleic acid binding](http://purl.obolibrary.org/obo/GO_0001067) -- [ventral to](http://purl.obolibrary.org/obo/BSPO_0000102) [label](http://www.w3.org/2000/01/rdf-schema#label) "ventral to" +- [transcription cis-regulatory region binding](http://purl.obolibrary.org/obo/GO_0000976) SubClassOf [sequence-specific double-stranded DNA binding](http://purl.obolibrary.org/obo/GO_1990837) -- [ventral to](http://purl.obolibrary.org/obo/BSPO_0000102) [shorthand](http://www.geneontology.org/formats/oboInOwl#shorthand) "ventral_to" -- [ventral to](http://purl.obolibrary.org/obo/BSPO_0000102) [id](http://www.geneontology.org/formats/oboInOwl#id) "ventral_to" +### transcription regulator activity `http://purl.obolibrary.org/obo/GO_0140110` +#### Added +- [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2017-10-18T07:05:44Z" +- [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -### ventricular system of brain `http://purl.obolibrary.org/obo/UBERON_0005282` -#### Removed -- [ventricular system of brain](http://purl.obolibrary.org/obo/UBERON_0005282) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The early development of most vertebrate brains is similar (...). The zebrafish neural tube follows the same basic differentiation pattern as the mammalian neural tube (reference 1); The brain develops from three embryonic enlargements of the neural tube, which later differentiate into five regions. A forebrain differentiates into telencephalon and diencephalon. The midbrain, or mesencephalon, remains undivided. The hindbrain divides into the metencephalon and myelencephalon. Cavities within the brain enlarge to form a series of interconnected ventricles (reference 2).[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000005" +- [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/23609"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [gocheck_do_not_annotate](http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_flybase_ribbon](http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) p.381-382, ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.500" +- [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A molecular function that controls the rate, timing and/or magnitude of gene transcription. The function of transcriptional regulators is to modulate gene expression at the transcription step so that they are expressed in the right cell at the right time and in the right amount throughout the life of the cell and the organism. Genes are transcriptional units, and include bacterial operons." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH-2018" -#### Added -- [ventricular system of brain](http://purl.obolibrary.org/obo/UBERON_0005282) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:pg" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Wikipedia:Transcription_factor" -### ventricular system of central nervous system `http://purl.obolibrary.org/obo/UBERON_0005281` +- [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0140110" -#### Added -- [ventricular system of central nervous system](http://purl.obolibrary.org/obo/UBERON_0005281) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/13588"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) [label](http://www.w3.org/2000/01/rdf-schema#label) "transcription regulator activity" -### venule `http://purl.obolibrary.org/obo/UBERON_0001979` -#### Removed -- [venule](http://purl.obolibrary.org/obo/UBERON_0001979) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Multi-tissue structure part of the blood vasculature formed by the anastomosis of capillaries. Venules carry blood toward the heart.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "molecular_function" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_generic](http://purl.obolibrary.org/obo/go#goslim_generic) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote](http://purl.obolibrary.org/obo/go#goslim_prokaryote) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0005315" +- [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) +- [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant](http://purl.obolibrary.org/obo/go#goslim_plant) +- [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "pg" -### vermiform appendix `http://purl.obolibrary.org/obo/UBERON_0001154` -#### Removed -- [vermiform appendix](http://purl.obolibrary.org/obo/UBERON_0001154) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Organ with organ cavity which is continuous proximally with the cecum and distally terminates in the tip of the appendix. Examples: There is only one appendix[FMA:14542]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:14542" +- Class: [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) -- [vermiform appendix](http://purl.obolibrary.org/obo/UBERON_0001154) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "A comparative anatomical approach reveals three apparent morphotypes of the cecal appendix, as well as appendix-like structures in some species that lack a true cecal appendix. Cladistic analyses indicate that the appendix has evolved independently at least twice (at least once in diprotodont marsupials and at least once in Euarchontoglires), shows a highly significant (P < 0.0001) phylogenetic signal in its distribution, and has been maintained in mammalian evolution for 80 million years or longer.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) SubClassOf [molecular_function](http://purl.obolibrary.org/obo/GO_0003674) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### transcription regulator complex `http://purl.obolibrary.org/obo/GO_0005667` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1420-9101.2009.01809.x Smith HF, Fisher RE, Everett ML, Thomas AD, Randal Bollinger R, Parker W, Comparative anatomy and phylogenetic distribution of the mammalian cecal appendix. Journal of Evolutionary Biology (2009)" +#### Added +- [transcription regulator complex](http://purl.obolibrary.org/obo/GO_0005667) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A protein complex that is capable of associating with DNA by direct binding, or via other DNA-binding proteins or complexes, and regulating transcription." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:jl" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001306" +- [transcription regulator complex](http://purl.obolibrary.org/obo/GO_0005667) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0005667" -- [vermiform appendix](http://purl.obolibrary.org/obo/UBERON_0001154) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "appendiceal" +- [transcription regulator complex](http://purl.obolibrary.org/obo/GO_0005667) [label](http://www.w3.org/2000/01/rdf-schema#label) "transcription regulator complex" +- [transcription regulator complex](http://purl.obolibrary.org/obo/GO_0005667) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "jl" +- [transcription regulator complex](http://purl.obolibrary.org/obo/GO_0005667) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2013-08-28T12:11:37Z" -### version `http://www.geneontology.org/formats/oboInOwl#version` -#### Removed -- AnnotationProperty: [version](http://www.geneontology.org/formats/oboInOwl#version) +- [transcription regulator complex](http://purl.obolibrary.org/obo/GO_0005667) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "cellular_component" +- [transcription regulator complex](http://purl.obolibrary.org/obo/GO_0005667) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0044797" +- [transcription regulator complex](http://purl.obolibrary.org/obo/GO_0005667) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "transcription factor complex" -### vertebra `http://purl.obolibrary.org/obo/UBERON_0002412` -#### Removed -- [vertebra](http://purl.obolibrary.org/obo/UBERON_0002412) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Endochondral bone that forms around the notochord and is part of the vertebral column.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [transcription regulator complex](http://purl.obolibrary.org/obo/GO_0005667) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_pir](http://purl.obolibrary.org/obo/go#goslim_pir) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001189" +- [transcription regulator complex](http://purl.obolibrary.org/obo/GO_0005667) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "nuclear transcription factor complex" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [transcription regulator complex](http://purl.obolibrary.org/obo/GO_0005667) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0044798" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [transcription regulator complex](http://purl.obolibrary.org/obo/GO_0005667) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "cytoplasmic transcription factor complex" -- [vertebra](http://purl.obolibrary.org/obo/UBERON_0002412) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "BTO:0006196" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- Class: [transcription regulator complex](http://purl.obolibrary.org/obo/GO_0005667) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +- [transcription regulator complex](http://purl.obolibrary.org/obo/GO_0005667) EquivalentTo [protein-containing complex](http://purl.obolibrary.org/obo/GO_0032991) and ([capable of](http://purl.obolibrary.org/obo/RO_0002215) some [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110)) - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) +- [transcription regulator complex](http://purl.obolibrary.org/obo/GO_0005667) SubClassOf [protein-containing complex](http://purl.obolibrary.org/obo/GO_0032991) -- [vertebra](http://purl.obolibrary.org/obo/UBERON_0002412) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Main component of the vertebral column. It consists of two essential parts, a dorsal neural arch and a ventral centrum.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [transcription regulator complex](http://purl.obolibrary.org/obo/GO_0005667) SubClassOf [capable of](http://purl.obolibrary.org/obo/RO_0002215) some [transcription regulator activity](http://purl.obolibrary.org/obo/GO_0140110) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:Pugener_and_Maglia_2008" +- [transcription regulator complex](http://purl.obolibrary.org/obo/GO_0005667) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000691" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### transcription regulatory region nucleic acid binding `http://purl.obolibrary.org/obo/GO_0001067` +#### Added +- [transcription regulatory region nucleic acid binding](http://purl.obolibrary.org/obo/GO_0001067) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "molecular_function" +- [transcription regulatory region nucleic acid binding](http://purl.obolibrary.org/obo/GO_0001067) [label](http://www.w3.org/2000/01/rdf-schema#label) "transcription regulatory region nucleic acid binding" -### vertebra cartilage element `http://purl.obolibrary.org/obo/UBERON_0011094` -#### Removed -- [vertebra cartilage element](http://purl.obolibrary.org/obo/UBERON_0011094) [present_in_taxon](http://purl.obolibrary.org/obo/RO_0002175) [NCBITaxon_7764](http://purl.obolibrary.org/obo/NCBITaxon_7764) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "vertebra-like cartilage in hagfish are homologous to gnathostome vertebrae. mesenchymal cells express Pax1/9 and Twist" +- [transcription regulatory region nucleic acid binding](http://purl.obolibrary.org/obo/GO_0001067) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0001067" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMC3157150" +- [transcription regulatory region nucleic acid binding](http://purl.obolibrary.org/obo/GO_0001067) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "krc" -- [vertebra cartilage element](http://purl.obolibrary.org/obo/UBERON_0011094) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "This class is a superclass of individual vertebral cartilage condensations. Note that EHDAA2 represents these as condensation groups" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" +- [transcription regulatory region nucleic acid binding](http://purl.obolibrary.org/obo/GO_0001067) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "regulatory region nucleic acid binding" +- [transcription regulatory region nucleic acid binding](http://purl.obolibrary.org/obo/GO_0001067) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/20791"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [transcription regulatory region nucleic acid binding](http://purl.obolibrary.org/obo/GO_0001067) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2010-10-21T04:08:56Z" -### vertebral bone 1 `http://purl.obolibrary.org/obo/UBERON_0001092` -#### Removed -- [vertebral bone 1](http://purl.obolibrary.org/obo/UBERON_0001092) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "First postcranial vertebra, which is modified anteriorly to articulate with the skull.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000709" +- [transcription regulatory region nucleic acid binding](http://purl.obolibrary.org/obo/GO_0001067) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Binding to a nucleic acid region that regulates a nucleic acid-based process. Such processes include transcription, DNA replication, and DNA repair." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:txnOH" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- Class: [transcription regulatory region nucleic acid binding](http://purl.obolibrary.org/obo/GO_0001067) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [transcription regulatory region nucleic acid binding](http://purl.obolibrary.org/obo/GO_0001067) SubClassOf [nucleic acid binding](http://purl.obolibrary.org/obo/GO_0003676) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:Duellman_and_Trueb_1994" -- [vertebral bone 1](http://purl.obolibrary.org/obo/UBERON_0001092) [UBPROP_0000107](http://purl.obolibrary.org/obo/UBPROP_0000107) "1"^^[nonNegativeInteger](http://www.w3.org/2001/XMLSchema#nonNegativeInteger) +### transcription repressor complex `http://purl.obolibrary.org/obo/GO_0017053` -- [vertebral bone 1](http://purl.obolibrary.org/obo/UBERON_0001092) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Vertebra that is posteriorly adjacent to the neurocranium.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001167" +#### Added +- [transcription repressor complex](http://purl.obolibrary.org/obo/GO_0017053) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "nuclear transcriptional repressor complex" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [transcription repressor complex](http://purl.obolibrary.org/obo/GO_0017053) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A protein complex that possesses activity that prevents or downregulates transcription." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:mah" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [transcription repressor complex](http://purl.obolibrary.org/obo/GO_0017053) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0090568" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" +- [transcription repressor complex](http://purl.obolibrary.org/obo/GO_0017053) [id](http://www.geneontology.org/formats/oboInOwl#id) "GO:0017053" +- [transcription repressor complex](http://purl.obolibrary.org/obo/GO_0017053) [has_alternative_id](http://www.geneontology.org/formats/oboInOwl#hasAlternativeId) "GO:0090569" +- [transcription repressor complex](http://purl.obolibrary.org/obo/GO_0017053) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "cytoplasmic transcriptional repressor complex" -### vertebral bone 2 `http://purl.obolibrary.org/obo/UBERON_0001093` -#### Removed -- [vertebral bone 2](http://purl.obolibrary.org/obo/UBERON_0001093) [UBPROP_0000107](http://purl.obolibrary.org/obo/UBPROP_0000107) "2"^^[nonNegativeInteger](http://www.w3.org/2001/XMLSchema#nonNegativeInteger) +- [transcription repressor complex](http://purl.obolibrary.org/obo/GO_0017053) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "transcription factor inhibitor complex" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "GOC:bhm" -- [vertebral bone 2](http://purl.obolibrary.org/obo/UBERON_0001093) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "not the same as ZFA term 'axis'" +- [transcription repressor complex](http://purl.obolibrary.org/obo/GO_0017053) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_pir](http://purl.obolibrary.org/obo/go#goslim_pir) -- [vertebral bone 2](http://purl.obolibrary.org/obo/UBERON_0001093) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Vertebra that is posteriorly adjacent to vertebra 1.[TAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001168" +- [transcription repressor complex](http://purl.obolibrary.org/obo/GO_0017053) [label](http://www.w3.org/2000/01/rdf-schema#label) "transcription repressor complex" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +- [transcription repressor complex](http://purl.obolibrary.org/obo/GO_0017053) [has_obo_namespace](http://www.geneontology.org/formats/oboInOwl#hasOBONamespace) "cellular_component" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [transcription repressor complex](http://purl.obolibrary.org/obo/GO_0017053) [created by](http://www.geneontology.org/formats/oboInOwl#created_by) "tb" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" +- [transcription repressor complex](http://purl.obolibrary.org/obo/GO_0017053) [creation date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2014-05-09T13:23:51Z" +- [transcription repressor complex](http://purl.obolibrary.org/obo/GO_0017053) [has exact synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "transcriptional repressor complex" +- Class: [transcription repressor complex](http://purl.obolibrary.org/obo/GO_0017053) -### vertebral canal `http://purl.obolibrary.org/obo/UBERON_0006692` -#### Removed -- [vertebral canal](http://purl.obolibrary.org/obo/UBERON_0006692) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Canal formed by the vertebral centra ventrally, the pedicels laterally, and the neural arches dorsally that encloses and protects the spinal cord.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" +- [transcription repressor complex](http://purl.obolibrary.org/obo/GO_0017053) EquivalentTo [protein-containing complex](http://purl.obolibrary.org/obo/GO_0032991) and ([capable of](http://purl.obolibrary.org/obo/RO_0002215) some [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217)) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +- [transcription repressor complex](http://purl.obolibrary.org/obo/GO_0017053) SubClassOf [capable of](http://purl.obolibrary.org/obo/RO_0002215) some [DNA-binding transcription repressor activity](http://purl.obolibrary.org/obo/GO_0001217) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000693" +- [transcription repressor complex](http://purl.obolibrary.org/obo/GO_0017053) SubClassOf [transcription regulator complex](http://purl.obolibrary.org/obo/GO_0005667) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" -- [vertebral canal](http://purl.obolibrary.org/obo/UBERON_0006692) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D013115" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) +### transepithelial transport `http://purl.obolibrary.org/obo/GO_0070633` - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +#### Added +- [transepithelial transport](http://purl.obolibrary.org/obo/GO_0070633) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### transit amplifying cell `http://purl.obolibrary.org/obo/CL_0009010` -### vertebral centrum element `http://purl.obolibrary.org/obo/UBERON_0016491` -#### Removed -- [vertebral centrum element](http://purl.obolibrary.org/obo/UBERON_0016491) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "the main cylindrical portion of the vertebra ventral to the vertebral canal" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0000141,ISBN:0-683-40008-8,PMID:10572046" +#### Added +- [transit amplifying cell](http://purl.obolibrary.org/obo/CL_0009010) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [vertebral centrum element](http://purl.obolibrary.org/obo/UBERON_0016491) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Skeletal element that surrounds the notochord.[VSAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000183" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### transitional epithelial cell `http://purl.obolibrary.org/obo/CL_0000244` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "VSAO:curator" +#### Added +- [transitional epithelial cell](http://purl.obolibrary.org/obo/CL_0000244) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009148" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" -- [vertebral centrum element](http://purl.obolibrary.org/obo/UBERON_0016491) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "The vertebral centrum may be cartilaginous, develop as cartilage but be replaced by bone or mineralized, or form directly through intramembranous ossification." +### transitional stage B cell `http://purl.obolibrary.org/obo/CL_0000818` +#### Added +- [transitional stage B cell](http://purl.obolibrary.org/obo/CL_0000818) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009345" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### vertebral column `http://purl.obolibrary.org/obo/UBERON_0001130` +### translation `http://purl.obolibrary.org/obo/GO_0006412` #### Removed -- [vertebral column](http://purl.obolibrary.org/obo/UBERON_0001130) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Vertebrata is characterized by three synapomorphies. First, vertebrates have a backbone composed of vertebrae (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +- [translation](http://purl.obolibrary.org/obo/GO_0006412) EquivalentTo [biosynthetic process](http://purl.obolibrary.org/obo/GO_0009058) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [gene expression](http://purl.obolibrary.org/obo/GO_0010467)) and ([has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_16541](http://purl.obolibrary.org/obo/CHEBI_16541)) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [translation](http://purl.obolibrary.org/obo/GO_0006412) SubClassOf [has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_16541](http://purl.obolibrary.org/obo/CHEBI_16541) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [translation](http://purl.obolibrary.org/obo/GO_0006412) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.53" +- [translation](http://purl.obolibrary.org/obo/GO_0006412) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001142" +- [translation](http://purl.obolibrary.org/obo/GO_0006412) EquivalentTo [biosynthetic process](http://purl.obolibrary.org/obo/GO_0009058) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [gene expression](http://purl.obolibrary.org/obo/GO_0010467)) and ([has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_36080](http://purl.obolibrary.org/obo/CHEBI_36080)) -- [vertebral column](http://purl.obolibrary.org/obo/UBERON_0001130) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Anatomical cluster that consists of all the vertebra in the body.[VSAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +- [translation](http://purl.obolibrary.org/obo/GO_0006412) SubClassOf [has primary output](http://purl.obolibrary.org/obo/RO_0004008) some [CHEBI_36080](http://purl.obolibrary.org/obo/CHEBI_36080) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "VSAO:curator" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VSAO:0000185" +### translation initiation ternary complex `http://purl.obolibrary.org/obo/GO_0044207` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VSAO" +#### Added +- [translation initiation ternary complex](http://purl.obolibrary.org/obo/GO_0044207) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -- [vertebral column](http://purl.obolibrary.org/obo/UBERON_0001130) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The vertebral column consists of a series of vertebrae connected by ligaments. It provides a supporting axis for the body and protects the spinal cord. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### translational initiation `http://purl.obolibrary.org/obo/GO_0006413` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [translational initiation](http://purl.obolibrary.org/obo/GO_0006413) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/vertebral+column" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001142" +### transmembrane receptor protein tyrosine kinase activity `http://purl.obolibrary.org/obo/GO_0004714` +#### Added +- [transmembrane receptor protein tyrosine kinase activity](http://purl.obolibrary.org/obo/GO_0004714) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-177930" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "GAB1 phosphorylation by EGFR kinase" -### vertebral element `http://purl.obolibrary.org/obo/UBERON_0010913` +### transmembrane receptor protein tyrosine kinase signaling pathway `http://purl.obolibrary.org/obo/GO_0007169` #### Removed -- [vertebral element](http://purl.obolibrary.org/obo/UBERON_0010913) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "vertebral" +- [transmembrane receptor protein tyrosine kinase signaling pathway](http://purl.obolibrary.org/obo/GO_0007169) [label](http://www.w3.org/2000/01/rdf-schema#label) "transmembrane receptor protein tyrosine kinase signaling pathway" -- [vertebral element](http://purl.obolibrary.org/obo/UBERON_0010913) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In contrast to lampreys and jawed vertebrates, hagfishes were thought to lack vertebrae. Now, long overlooked vertebral rudiments have been analysed in hagfish, suggesting that vertebrae existed in the last common ancestor of all vertebrates.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [transmembrane receptor protein tyrosine kinase signaling pathway](http://purl.obolibrary.org/obo/GO_0007169) [label](http://www.w3.org/2000/01/rdf-schema#label) "cell surface receptor protein tyrosine kinase signaling pathway" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [transmembrane receptor protein tyrosine kinase signaling pathway](http://purl.obolibrary.org/obo/GO_0007169) [has_broad_synonym](http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym) "transmembrane receptor protein serine/threonine kinase signaling pathway" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +- [transmembrane receptor protein tyrosine kinase signaling pathway](http://purl.obolibrary.org/obo/GO_0007169) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/26955"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001143" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1016/j.cub.2011.07.014 Janvier P, Comparative anatomy: all vertebrates do have vertebrae. Current Biology (2011)" +### transmembrane transport `http://purl.obolibrary.org/obo/GO_0055085` -- [vertebral element](http://purl.obolibrary.org/obo/UBERON_0010913) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "we include a distinct subclass for bony vertebra" +#### Added +- [transmembrane transport](http://purl.obolibrary.org/obo/GO_0055085) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -- [vertebral element](http://purl.obolibrary.org/obo/UBERON_0010913) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Typically an endochondral element, in salamanders there is an argument that vertebral development is perichondral and not preformed in cartilage" +- [transmembrane transport](http://purl.obolibrary.org/obo/GO_0055085) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) +### transmembrane transporter activity `http://purl.obolibrary.org/obo/GO_0022857` -### vertebral foramen `http://purl.obolibrary.org/obo/UBERON_0001131` -#### Removed -- [vertebral foramen](http://purl.obolibrary.org/obo/UBERON_0001131) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Opening on the vertebra for a spinal nerve as it emerges from the spinal canal.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" +#### Added +- [transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0022857) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-434650" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "MATEs mediate extrusion of xenobiotics" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000729" +- [transmembrane transporter activity](http://purl.obolibrary.org/obo/GO_0022857) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### transport `http://purl.obolibrary.org/obo/GO_0006810` +#### Added +- [transport](http://purl.obolibrary.org/obo/GO_0006810) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) +- [transport](http://purl.obolibrary.org/obo/GO_0006810) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) -### vesical vein `http://purl.obolibrary.org/obo/UBERON_0002460` -#### Removed -- [vesical vein](http://purl.obolibrary.org/obo/UBERON_0002460) [UBPROP_0000202](http://purl.obolibrary.org/obo/UBPROP_0000202) [FMA_70911](http://purl.obolibrary.org/obo/FMA_70911) +### transport across blood-brain barrier `http://purl.obolibrary.org/obo/GO_0150104` +#### Added +- [transport across blood-brain barrier](http://purl.obolibrary.org/obo/GO_0150104) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### vestibular labyrinth `http://purl.obolibrary.org/obo/UBERON_0001862` -#### Removed -- [vestibular labyrinth](http://purl.obolibrary.org/obo/UBERON_0001862) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "SCTID:181188003" -- [vestibular labyrinth](http://purl.obolibrary.org/obo/UBERON_0001862) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17815" +### transport across blood-cerebrospinal fluid barrier `http://purl.obolibrary.org/obo/GO_0150195` + +#### Added +- [transport across blood-cerebrospinal fluid barrier](http://purl.obolibrary.org/obo/GO_0150195) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [vestibular labyrinth](http://purl.obolibrary.org/obo/UBERON_0001862) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D014722" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) +### transporter activity `http://purl.obolibrary.org/obo/GO_0005215` +#### Removed +- [transporter activity](http://purl.obolibrary.org/obo/GO_0005215) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-178215" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "SMAD7:SMURF1 complex is exported to the cytosol" - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +- [transporter activity](http://purl.obolibrary.org/obo/GO_0005215) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "Reactome:R-HSA-168313" + - [label](http://www.w3.org/2000/01/rdf-schema#label) "Virion-associated M2 protein mediated ion infusion" #### Added -- [vestibular labyrinth](http://purl.obolibrary.org/obo/UBERON_0001862) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [transporter activity](http://purl.obolibrary.org/obo/GO_0005215) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_prokaryote_ribbon](http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon) +- [transporter activity](http://purl.obolibrary.org/obo/GO_0005215) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) -### vestibular system `http://purl.obolibrary.org/obo/UBERON_0004681` -#### Removed -- [vestibular system](http://purl.obolibrary.org/obo/UBERON_0004681) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA and NIF have no part information for this class. This is a GAT in FMA" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [transporter activity](http://purl.obolibrary.org/obo/GO_0005215) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) -- [vestibular system](http://purl.obolibrary.org/obo/UBERON_0004681) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The vestibular system, which contributes to our balance and our sense of spatial orientation, is the sensory system that provides the dominant input about movement and equilibrioception. Together with the cochlea, a part of the auditory system, it constitutes the labyrinth of the inner ear, situated in the vestibulum in the inner ear. As our movements consist of rotations and translations, the vestibular system comprises two components: the semicircular canal system, which indicate rotational movements; and the otoliths, which indicate linear accelerations. The vestibular system sends signals primarily to the neural structures that control our eye movements, and to the muscles that keep us upright. The projections to the former provide the anatomical basis of the vestibulo-ocular reflex, which is required for clear vision; and the projections to the muscles that control our posture are necessary to keep us upright[Wikipedia:Vestibular_system]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Vestibular_system" +### transporter complex `http://purl.obolibrary.org/obo/GO_1990351` +#### Added +- [transporter complex](http://purl.obolibrary.org/obo/GO_1990351) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -### vestibulo-auditory system `http://purl.obolibrary.org/obo/UBERON_0002105` -#### Removed -- [vestibulo-auditory system](http://purl.obolibrary.org/obo/UBERON_0002105) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:36002" -- [vestibulo-auditory system](http://purl.obolibrary.org/obo/UBERON_0002105) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The sensory system used for balance and hearing.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" +### transudate `http://purl.obolibrary.org/obo/UBERON_0007779` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [transudate](http://purl.obolibrary.org/obo/UBERON_0007779) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000631" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### transverse colon `http://purl.obolibrary.org/obo/UBERON_0001157` +#### Added +- [transverse colon](http://purl.obolibrary.org/obo/UBERON_0001157) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### vestibulocochlear ganglion `http://purl.obolibrary.org/obo/UBERON_0002827` +### trichogen cell `http://purl.obolibrary.org/obo/CL_0000374` #### Removed -- [vestibulocochlear ganglion](http://purl.obolibrary.org/obo/UBERON_0002827) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The sensory ganglion of the ear. (See Anatomical Atlas entry for statoacoustic ganglion by T. Whitfield.)[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +- [trichogen cell](http://purl.obolibrary.org/obo/CL_0000374) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005169" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [trichogen cell](http://purl.obolibrary.org/obo/CL_0000374) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005169" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000588" +### trophectoderm `http://purl.obolibrary.org/obo/UBERON_0004345` -- [vestibulocochlear ganglion](http://purl.obolibrary.org/obo/UBERON_0002827) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "The cell bodies of the cochlear nerve lie within the central aspect of the cochlea and are collectively known as the spiral ganglion. This name reflects the fact that the cell bodies, considered as a unit, have a spiral (or perhaps more accurately, a helical) shape, reflecting the shape of the cochlea. The terms 'cochlear nerve fiber' and 'spiral ganglion cell' are used, to some degree, interchangeably, although the former may be used to more specifically refer to the central axons of the cochlear nerve. These central axons exit the cochlea at its base, where it forms a nerve trunk. In humans, this aspect of the nerve is roughly one inch in length. It projects centrally to the brainstem, where its fibers synapse with the cell bodies of the cochlear nucleus" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Cochlear_nerve" +#### Added +- [trophectoderm](http://purl.obolibrary.org/obo/UBERON_0004345) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [vestibulocochlear ganglion](http://purl.obolibrary.org/obo/UBERON_0002827) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(During the development of the inner ear in a vertebrate embryo) As the otic placode invaginates into a cup neuroblasts delaminate from the anterior ventral aspect of the otic epithelium to give rise to neurons of the vestibulocochlear (statoacoustic) ganglion of cranial nerve VIII.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### trophectodermal cell proliferation `http://purl.obolibrary.org/obo/GO_0001834` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [trophectodermal cell proliferation](http://purl.obolibrary.org/obo/GO_0001834) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "PMID:21452441 Park BY, Saint-Jeannet JP, Induction and Segregation of the Vertebrate Cranial Placodes. Developmental Biology (2010)" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000696" +### trophoblast `http://purl.obolibrary.org/obo/UBERON_0000088` +#### Added +- [trophoblast](http://purl.obolibrary.org/obo/UBERON_0000088) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### vestibulocochlear nerve `http://purl.obolibrary.org/obo/UBERON_0001648` +### trophoblast cell migration `http://purl.obolibrary.org/obo/GO_0061450` #### Removed -- [vestibulocochlear nerve](http://purl.obolibrary.org/obo/UBERON_0001648) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (5) cranial nerves (...) (reference 1); Phylogenetically, the cranial nerves are thought to have evolved from dorsal and ventral nerves of a few anterior spinal nerves that became incorporated into the braincase. Dorsal and ventral nerves fuse in the trunk but not in the head, and they produce two series: dorsal cranial nerves (V, VII, IX, and X) and ventral cranial nerves (III, IV, VI, and XIII) (reference 2).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +- [trophoblast cell migration](http://purl.obolibrary.org/obo/GO_0061450) SubClassOf [reproductive process](http://purl.obolibrary.org/obo/GO_0022414) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43, ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.625" - - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [trophoblast cell migration](http://purl.obolibrary.org/obo/GO_0061450) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000695" -- [vestibulocochlear nerve](http://purl.obolibrary.org/obo/UBERON_0001648) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Nerve primarily composed of special somatic afferent fibers innervating the inner ear, and is involved in balance, position, and hearing.[AAO]" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### tube formation `http://purl.obolibrary.org/obo/GO_0035148` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:DSM" +#### Added +- [tube formation](http://purl.obolibrary.org/obo/GO_0035148) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010473" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### tube morphogenesis `http://purl.obolibrary.org/obo/GO_0035239` +#### Added +- [tube morphogenesis](http://purl.obolibrary.org/obo/GO_0035239) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### vimentin `http://purl.obolibrary.org/obo/PR_000017298` -#### Removed -- [vimentin](http://purl.obolibrary.org/obo/PR_000017298) [crossSpeciesExactMatch](https://w3id.org/semapv/vocab/crossSpeciesExactMatch) [vimentin (human)](http://purl.obolibrary.org/obo/PR_P08670) +### tubotympanic recess lumen `http://purl.obolibrary.org/obo/UBERON_0005625` +#### Added +- [tubotympanic recess lumen](http://purl.obolibrary.org/obo/UBERON_0005625) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### visceral abdominal adipose tissue `http://purl.obolibrary.org/obo/UBERON_0014454` +### tunica adventitia of blood vessel `http://purl.obolibrary.org/obo/UBERON_0005734` #### Removed -- [visceral abdominal adipose tissue](http://purl.obolibrary.org/obo/UBERON_0014454) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Adipose tissue located inside the peritoneal cavity, packed in between internal organs and torso. An excess of visceral fat is known as central obesity, or belly fat, the pot belly or beer belly effect, in which the abdomen protrudes excessively[BTO:0004041]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "BTO:0004041" +- [tunica adventitia of blood vessel](http://purl.obolibrary.org/obo/UBERON_0005734) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### visceral endoderm `http://purl.obolibrary.org/obo/UBERON_0004877` +### tunica fibrosa of eyeball `http://purl.obolibrary.org/obo/UBERON_0012430` #### Removed -- [visceral endoderm](http://purl.obolibrary.org/obo/UBERON_0004877) [UBPROP_0000013](http://purl.obolibrary.org/obo/UBPROP_0000013) "Gilbert uses visceral endoderm as a synonym for primitive endoderm/hypoblast" +- [tunica fibrosa of eyeball](http://purl.obolibrary.org/obo/UBERON_0012430) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### visceral pleura `http://purl.obolibrary.org/obo/UBERON_0002401` +### tunica intima `http://purl.obolibrary.org/obo/UBERON_0002523` #### Removed -- [visceral pleura](http://purl.obolibrary.org/obo/UBERON_0002401) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Each lung is invested by an exceedingly delicate serous membrane, the pleura, which is arranged in the form of a closed invaginated sac. A portion of the serous membrane covers the surface of the lung and dips into the fissures between its lobes; it is called the pulmonary pleura (or visceral pleura). The visceral pleura is attached directly to the lungs[Wikipedia:Visceral_pleura]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Visceral_pleura" - -- [visceral pleura](http://purl.obolibrary.org/obo/UBERON_0002401) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "FMA treats this as part of the lungs" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +- [tunica intima](http://purl.obolibrary.org/obo/UBERON_0002523) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) #### Added -- [visceral pleura](http://purl.obolibrary.org/obo/UBERON_0002401) SubClassOf [mixed endoderm/mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0000077) +- [tunica intima](http://purl.obolibrary.org/obo/UBERON_0002523) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### visceral serous membrane `http://purl.obolibrary.org/obo/UBERON_0022350` +### tympanic cavity `http://purl.obolibrary.org/obo/UBERON_0004114` #### Added -- [visceral serous membrane](http://purl.obolibrary.org/obo/UBERON_0022350) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [tympanic cavity](http://purl.obolibrary.org/obo/UBERON_0004114) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### visceral serous pericardium `http://purl.obolibrary.org/obo/UBERON_0002425` -#### Removed -- [visceral serous pericardium](http://purl.obolibrary.org/obo/UBERON_0002425) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:16589" - +### tympanic membrane `http://purl.obolibrary.org/obo/UBERON_0002364` +#### Added +- [tympanic membrane](http://purl.obolibrary.org/obo/UBERON_0002364) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### viscus `http://purl.obolibrary.org/obo/UBERON_0002075` -#### Removed -- [viscus](http://purl.obolibrary.org/obo/UBERON_0002075) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An internal organ of the body; especially: one (as the heart, liver, or intestine) located in the great cavity of the trunk proper.[AAO]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0010386" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +### type 2 cone bipolar cell (sensu Mus) `http://purl.obolibrary.org/obo/CL_0000754` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +#### Added +- [type 2 cone bipolar cell (sensu Mus)](http://purl.obolibrary.org/obo/CL_0000754) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "BTO:0001491" -- [viscus](http://purl.obolibrary.org/obo/UBERON_0002075) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "general anatomical term in FMA. Note that we place the MA class here temporarily, although properly systems should be distinguished from organs." - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" +### type B pancreatic cell `http://purl.obolibrary.org/obo/CL_0000169` +#### Added +- [type B pancreatic cell](http://purl.obolibrary.org/obo/CL_0000169) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009102" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### visual system `http://purl.obolibrary.org/obo/UBERON_0002104` -#### Removed -- [visual system](http://purl.obolibrary.org/obo/UBERON_0002104) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "The sensory system used for sight.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:EJS" +### type D enteroendocrine cell `http://purl.obolibrary.org/obo/CL_0000502` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [type D enteroendocrine cell](http://purl.obolibrary.org/obo/CL_0000502) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009228" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000632" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +### type II pneumocyte `http://purl.obolibrary.org/obo/CL_0002063` +#### Added +- [type II pneumocyte](http://purl.obolibrary.org/obo/CL_0002063) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### vitelline artery `http://purl.obolibrary.org/obo/UBERON_0006002` -#### Removed -- [vitelline artery](http://purl.obolibrary.org/obo/UBERON_0006002) SubClassOf [connecting branch of](http://purl.obolibrary.org/obo/RO_0002252) some [dorsal aorta](http://purl.obolibrary.org/obo/UBERON_0005805) - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "ventral branch" +### umbilical cord `http://purl.obolibrary.org/obo/UBERON_0002331` #### Added -- [vitelline artery](http://purl.obolibrary.org/obo/UBERON_0006002) SubClassOf [connecting branch of](http://purl.obolibrary.org/obo/RO_0002252) some [dorsal aorta](http://purl.obolibrary.org/obo/UBERON_0005805) +- [umbilical cord](http://purl.obolibrary.org/obo/UBERON_0002331) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### vitelline vein `http://purl.obolibrary.org/obo/UBERON_0005487` -#### Removed -- [vitelline vein](http://purl.obolibrary.org/obo/UBERON_0005487) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of two veins that run upward at first in front, and subsequently on either side of the intestinal canal. They unite on the ventral aspect of the canal, and beyond this are connected to one another by two anastomotic branches, one on the dorsal, and the other on the ventral aspect of the duodenal portion of the intestine, which is thus encircled by two venous rings; into the middle or dorsal anastomosis the superior mesenteric vein opens. The portions of the veins above the upper ring become interrupted by the developing liver and broken up by it into a plexus of small capillary-like vessels termed sinusoids.[XAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "XAO" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "XAO:0004147" +### umbilical cord morphogenesis `http://purl.obolibrary.org/obo/GO_0036304` -- [vitelline vein](http://purl.obolibrary.org/obo/UBERON_0005487) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Within each vertebrate group, the veins compose a few main functional systems that arise embryologically from what seems to be a common developmental pattern. (...) Early in development, three major sets of paired veins are present: the vitelline veins from the yolk sac, the cardinal veins from the body of the embryo itself, and the lateral abdominal veins from the pelvic region. The paired vitelline veins are among the first vessels to appear in the embryo. They arise over the yolk and follow the yolk stalk into the body. They then turn anteriorly, continue along the gut, and enter the sinus venosus.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [umbilical cord morphogenesis](http://purl.obolibrary.org/obo/GO_0036304) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### umbrella cell of urothelium `http://purl.obolibrary.org/obo/CL_4030056` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000401" +#### Added +- [umbrella cell of urothelium](http://purl.obolibrary.org/obo/CL_4030056) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [human_reference_atlas](http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.460" +- [umbrella cell of urothelium](http://purl.obolibrary.org/obo/CL_4030056) [present in taxon](http://purl.obolibrary.org/obo/RO_0002175) [Homo sapiens](http://purl.obolibrary.org/obo/NCBITaxon_9606) -- [vitelline vein](http://purl.obolibrary.org/obo/UBERON_0005487) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "check zfa (no text def). Check vitelline/omphalomesenteric distinction in XAO" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "XAO" +### undifferentiated genital tubercle `http://purl.obolibrary.org/obo/UBERON_0005876` +#### Added +- [undifferentiated genital tubercle](http://purl.obolibrary.org/obo/UBERON_0005876) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### vitreous body `http://purl.obolibrary.org/obo/UBERON_0001798` -#### Removed -- [vitreous body](http://purl.obolibrary.org/obo/UBERON_0001798) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [neurectoderm](http://purl.obolibrary.org/obo/UBERON_0002346) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0781772214" - - [notes](http://www.geneontology.org/formats/oboInOwl#notes) "neural ectoderm of optic cup" +### unipolar neuron `http://purl.obolibrary.org/obo/CL_0000106` #### Added -- [vitreous body](http://purl.obolibrary.org/obo/UBERON_0001798) SubClassOf [has developmental contribution from](http://purl.obolibrary.org/obo/RO_0002254) some [neurectoderm](http://purl.obolibrary.org/obo/UBERON_0002346) - -- [vitreous body](http://purl.obolibrary.org/obo/UBERON_0001798) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [unipolar neuron](http://purl.obolibrary.org/obo/CL_0000106) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009058" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### vitreous humor `http://purl.obolibrary.org/obo/UBERON_0001797` -#### Removed -- [vitreous humor](http://purl.obolibrary.org/obo/UBERON_0001797) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D014822" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [LexicalMatching](https://w3id.org/semapv/vocab/LexicalMatching) +### upper digestive tract `http://purl.obolibrary.org/obo/UBERON_0004908` - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +#### Added +- [upper digestive tract](http://purl.obolibrary.org/obo/UBERON_0004908) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +### upper lip `http://purl.obolibrary.org/obo/UBERON_0001834` -### vomer `http://purl.obolibrary.org/obo/UBERON_0002396` -#### Removed -- [vomer](http://purl.obolibrary.org/obo/UBERON_0002396) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D055172" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +#### Added +- [upper lip](http://purl.obolibrary.org/obo/UBERON_0001834) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +### upper urinary tract `http://purl.obolibrary.org/obo/UBERON_0011143` -- [vomer](http://purl.obolibrary.org/obo/UBERON_0002396) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "In bony fish, the vomers are flattened, paired, bones forming the anterior part of the roof of the mouth, just behind the premaxillary bones. In many species, they have teeth, supplementing those in the jaw proper; in some extinct species the teeth on the vomers were actually larger than the primary set. In amphibians and reptiles, the vomers become narrower, due to the presence of the enlarged choanae (the inner part of the nostrils) on either side, and they may extend further back in the jaw. They are typically small in birds, where they form the upper hind part of the beak, again being located between the choanae. In mammals, the vomers have become narrower still, and are fused into a single, vertically oriented bone. The development of the hard palate beneath the vomer means that the bone is now located in a nasal chamber, separate from the mouth[WP]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Wikipedia:Vomer#In_other_animals" +#### Added +- [upper urinary tract](http://purl.obolibrary.org/obo/UBERON_0011143) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -- [vomer](http://purl.obolibrary.org/obo/UBERON_0002396) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Dermal bone that underlies the mesethmoid and inserts in a fossa on the anteroventral surface of the parasphenoid.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### ureter adventitial cell `http://purl.obolibrary.org/obo/CL_1000708` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [ureter adventitial cell](http://purl.obolibrary.org/obo/CL_1000708) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any ureteral cell that is part of some adventitia of ureter." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000308" -- [vomer](http://purl.obolibrary.org/obo/UBERON_0002396) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Paired, palatal bones of intramembranous origin that lie ventral to the olfactory region and help to floor the nasal capsules.[AAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "AAO:LAP" +### ureter smooth muscle cell `http://purl.obolibrary.org/obo/CL_1000979` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-06-20" +#### Added +- [ureter smooth muscle cell](http://purl.obolibrary.org/obo/CL_1000979) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [human_reference_atlas](http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "AAO:0000633" +- [ureter smooth muscle cell](http://purl.obolibrary.org/obo/CL_1000979) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any smooth muscle cell that is part of some muscular coat of ureter." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "AAO" +- [ureter smooth muscle cell](http://purl.obolibrary.org/obo/CL_1000979) [present in taxon](http://purl.obolibrary.org/obo/RO_0002175) [Homo sapiens](http://purl.obolibrary.org/obo/NCBITaxon_9606) -- [vomer](http://purl.obolibrary.org/obo/UBERON_0002396) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: overlaps mesethmoid-vomer joint (TAO:0001680)[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### ureter urothelial cell `http://purl.obolibrary.org/obo/CL_1000706` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000308" +#### Added +- [ureter urothelial cell](http://purl.obolibrary.org/obo/CL_1000706) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any urothelial cell that is part of some urothelium of ureter." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -- [vomer](http://purl.obolibrary.org/obo/UBERON_0002396) [UBPROP_0000005](http://purl.obolibrary.org/obo/UBPROP_0000005) "The vomer is paired in some taxa (e.g., Amia) while unpaired in others (e.g., teleosts).[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-06" +### ureteral cell `http://purl.obolibrary.org/obo/CL_1000601` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "Curator" +#### Added +- [ureteral cell](http://purl.obolibrary.org/obo/CL_1000601) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any cell that is part of some ureter." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000308" -- [vomer](http://purl.obolibrary.org/obo/UBERON_0002396) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship loss: overlaps autopalatine-vomer joint (TAO:0001784)[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### ureteric bud cell `http://purl.obolibrary.org/obo/CL_4030066` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +#### Added +- [ureteric bud cell](http://purl.obolibrary.org/obo/CL_4030066) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0000308" +### urethra cell `http://purl.obolibrary.org/obo/CL_1001320` +#### Added +- [urethra cell](http://purl.obolibrary.org/obo/CL_1001320) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any cell that is part of some urethra." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### vomerine dentition `http://purl.obolibrary.org/obo/UBERON_0017615` -#### Removed -- [vomerine dentition](http://purl.obolibrary.org/obo/UBERON_0017615) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "AAO:0000635" +### urethra urothelial cell `http://purl.obolibrary.org/obo/CL_1001430` +#### Added +- [urethra urothelial cell](http://purl.obolibrary.org/obo/CL_1001430) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any urothelial cell that is part of some urethra urothelium." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" -### vomerine tooth `http://purl.obolibrary.org/obo/UBERON_0004767` -#### Removed -- [vomerine tooth](http://purl.obolibrary.org/obo/UBERON_0004767) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "AAO:0000635" -- [vomerine tooth](http://purl.obolibrary.org/obo/UBERON_0004767) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Tooth that is attached to the vomer.[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +### uriniferous tubule `http://purl.obolibrary.org/obo/UBERON_0007684` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001631" +#### Added +- [uriniferous tubule](http://purl.obolibrary.org/obo/UBERON_0007684) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "TAO:wd" +### urogenital fold `http://purl.obolibrary.org/obo/UBERON_0004876` -- [vomerine tooth](http://purl.obolibrary.org/obo/UBERON_0004767) [UBPROP_0000002](http://purl.obolibrary.org/obo/UBPROP_0000002) "relationship type change: OBO_REL:part_of vomer (TAO:0000308) CHANGED TO: attaches_to vomer (UBERON:0002396)[TAO]" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" +#### Added +- [urogenital fold](http://purl.obolibrary.org/obo/UBERON_0004876) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0001631" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### urogenital sinus lumen `http://purl.obolibrary.org/obo/UBERON_0009844` +#### Added +- [urogenital sinus lumen](http://purl.obolibrary.org/obo/UBERON_0009844) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### vomeronasal organ `http://purl.obolibrary.org/obo/UBERON_0002255` -#### Removed -- [vomeronasal organ](http://purl.obolibrary.org/obo/UBERON_0002255) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "Generally formed only in tetrapods; lungfish have rudimentary VN organs; true VN organs are not normally found in recent fishes, birds, aquatic reptiles, aquatic mammals (Bertmar 1980). Humans: Its presence in many animals has been widely studied and the importance of the vomeronasal system to the role of reproduction and social behavior (through influence on anterior hypothalamus) has been shown in many studies. Its presence and functionality in humans was controversial, though most studies agree the organ regresses during fetal development. Many genes essential for VNO function in animals (such as TRPC2) are non-functional in humans (Liman ER. Use it or lose it: molecular evolution of sensory signaling in primates. Pflugers Arch. 2006;453(2):125-31.)" +### urothelial cell `http://purl.obolibrary.org/obo/CL_0000731` -- [vomeronasal organ](http://purl.obolibrary.org/obo/UBERON_0002255) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "An organ thought to supplement the olfactory system in receiving pheromonic communication. The sensory part of the organ is in two long, thin sacs, situated on either side of the nasal septum at its base. [TFD][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [urothelial cell](http://purl.obolibrary.org/obo/CL_0000731) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009308" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### uterine resident macrophage `http://purl.obolibrary.org/obo/CL_4033064` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000665" +#### Added +- [uterine resident macrophage](http://purl.obolibrary.org/obo/CL_4033064) [present in taxon](http://purl.obolibrary.org/obo/RO_0002175) [Homo sapiens](http://purl.obolibrary.org/obo/NCBITaxon_9606) - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/vomeronasal+organ" +- [uterine resident macrophage](http://purl.obolibrary.org/obo/CL_4033064) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [human_reference_atlas](http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas) -- [vomeronasal organ](http://purl.obolibrary.org/obo/UBERON_0002255) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) the vomeronasal organ is known only in some tetrapods. It is absent in most turtles, crocodiles, birds, some bats, and aquatic mammals. In amphibians, it is in a recessed area off the main nasal cavity. (...) In mammals possesing this organ, it is an isolated area of olfactory membrane within the nasal cavity that is usually connected to the mouth via the nasopalatine duct (reference 1); The opinions concerning the presence and functioning of the vomeronasal organ in humans are controversial. The vomeronasal cavities appear early in human foetuses. (...) Historical examination of the nasal septum revealed the presence of vomeronasal cavities in approximately 70% of adults. In contrast to the situation in other mammals, the organ is not supported by a rigid tube of bone or cartilage (reference 2); (...) the best evidence for the homology of the human VNO to that of other primates (and of mammals in general) is ontogenetic in nature, based on a common embryonic origin from a thickening (vomeronasal primordium) on the medial aspect of each olfactory pit (reference 3); (...) suggesting that lungfish possess a region homologous to the accessory olfactory bulb of tetrapods. Based on these results, it seems appropriate to refer to the recess epithelium as a primordium of the vomeronasal organ (reference 4). [debated][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +### uterine wall growth `http://purl.obolibrary.org/obo/GO_0042702` - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +#### Added +- [uterine wall growth](http://purl.obolibrary.org/obo/GO_0042702) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000665" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.669 (ref.1), http://www.ncbi.nlm.nih.gov/pubmed/9866877 Doving KB, Trotier D, Review: Structure and function of the vomeronasal organ. The Journal of Experimental Biology (1998) (ref.2), DOI:10.1046/j.1469-7580.2001.19810077.x Smith TD, Siegel MI, Bonar CJ, Bhatnagar KP, Mooney MP, Burrows AM, Smith MA, Maico LM, The existence of the vomeronasal organ in postnatal chimpanzees and evidence for its homology with that of humans. J Anat (2001) (ref.3) , DOI:10.1002/ar.22415 Nakamuta S, Nakamuta N, Taniguchi K, Taniguchi K, Histological and ultrastructural characteristics of the primordial vomeronasal organ in lungfish. Anat Rec (Hoboken) (2012) (ref.4)" +### uterus `http://purl.obolibrary.org/obo/UBERON_0000995` +#### Added +- [uterus](http://purl.obolibrary.org/obo/UBERON_0000995) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### wall of anal canal `http://purl.obolibrary.org/obo/UBERON_0036362` +### uterus or analog `http://purl.obolibrary.org/obo/UBERON_0006834` #### Added -- [wall of anal canal](http://purl.obolibrary.org/obo/UBERON_0036362) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [uterus or analog](http://purl.obolibrary.org/obo/UBERON_0006834) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004924" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### wall of blood vessel `http://purl.obolibrary.org/obo/UBERON_0035965` +### vacuolar amino acid transmembrane transport `http://purl.obolibrary.org/obo/GO_0034487` +#### Removed +- [vacuolar amino acid transmembrane transport](http://purl.obolibrary.org/obo/GO_0034487) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [vacuolar membrane](http://purl.obolibrary.org/obo/GO_0005774)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_33709](http://purl.obolibrary.org/obo/CHEBI_33709)) #### Added -- [wall of blood vessel](http://purl.obolibrary.org/obo/UBERON_0035965) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [vacuolar amino acid transmembrane transport](http://purl.obolibrary.org/obo/GO_0034487) EquivalentTo [transport](http://purl.obolibrary.org/obo/GO_0006810) and ([results in transport across](http://purl.obolibrary.org/obo/RO_0002342) some [vacuolar membrane](http://purl.obolibrary.org/obo/GO_0005774)) and ([has primary input](http://purl.obolibrary.org/obo/RO_0004009) some [CHEBI_35238](http://purl.obolibrary.org/obo/CHEBI_35238)) -### wall of central canal of spinal cord `http://purl.obolibrary.org/obo/UBERON_0036658` +### vacuole `http://purl.obolibrary.org/obo/GO_0005773` #### Added -- [wall of central canal of spinal cord](http://purl.obolibrary.org/obo/UBERON_0036658) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [vacuole](http://purl.obolibrary.org/obo/GO_0005773) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) + +- [vacuole](http://purl.obolibrary.org/obo/GO_0005773) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_plant_ribbon](http://purl.obolibrary.org/obo/go#goslim_plant_ribbon) -### wall of eyeball `http://purl.obolibrary.org/obo/UBERON_0036925` +### vascular associated smooth muscle cell `http://purl.obolibrary.org/obo/CL_0000359` #### Added -- [wall of eyeball](http://purl.obolibrary.org/obo/UBERON_0036925) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [vascular associated smooth muscle cell](http://purl.obolibrary.org/obo/CL_0000359) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009181" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### wall of gallbladder `http://purl.obolibrary.org/obo/UBERON_0036343` +### vascular cord `http://purl.obolibrary.org/obo/UBERON_0006965` +#### Removed +- [vascular cord](http://purl.obolibrary.org/obo/UBERON_0006965) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) #### Added -- [wall of gallbladder](http://purl.obolibrary.org/obo/UBERON_0036343) SubClassOf [endoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004119) - +- [vascular cord](http://purl.obolibrary.org/obo/UBERON_0006965) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### wall of heart `http://purl.obolibrary.org/obo/UBERON_0037144` -#### Added -- [wall of heart](http://purl.obolibrary.org/obo/UBERON_0037144) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +### vascular leptomeningeal cell `http://purl.obolibrary.org/obo/CL_4023051` +#### Removed +- [vascular leptomeningeal cell](http://purl.obolibrary.org/obo/CL_4023051) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A type of mesothelial fibroblast that is derived from the neural crest, is localized on blood vessels, and is a key component of the pia and arachnoid membranes surrounding the brain." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:27284195" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:30096314" -### wall of lacrimal duct `http://purl.obolibrary.org/obo/UBERON_0037237` + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:29443965" #### Added -- [wall of lacrimal duct](http://purl.obolibrary.org/obo/UBERON_0037237) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [vascular leptomeningeal cell](http://purl.obolibrary.org/obo/CL_4023051) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A type of mesothelial fibroblast that is derived from the neural crest, is localized on blood vessels, and is a key component of the pia and arachnoid membranes surrounding the brain." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:27284195" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:30096314" -### wall of membranous labyrinth `http://purl.obolibrary.org/obo/UBERON_0037191` + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" -#### Added -- [wall of membranous labyrinth](http://purl.obolibrary.org/obo/UBERON_0037191) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:29443965" -### wall of orbit `http://purl.obolibrary.org/obo/UBERON_0037089` +### vascular lymphangioblast `http://purl.obolibrary.org/obo/CL_0005022` #### Added -- [wall of orbit](http://purl.obolibrary.org/obo/UBERON_0037089) SubClassOf [neural crest-derived structure](http://purl.obolibrary.org/obo/UBERON_0010313) +- [vascular lymphangioblast](http://purl.obolibrary.org/obo/CL_0005022) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009395" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### wall of ureter `http://purl.obolibrary.org/obo/UBERON_0009916` +### vascular plexus `http://purl.obolibrary.org/obo/UBERON_0005629` +#### Removed +- [vascular plexus](http://purl.obolibrary.org/obo/UBERON_0005629) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) #### Added -- [wall of ureter](http://purl.obolibrary.org/obo/UBERON_0009916) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [vascular plexus](http://purl.obolibrary.org/obo/UBERON_0005629) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### wall of urethra `http://purl.obolibrary.org/obo/UBERON_0036521` +### vasculature `http://purl.obolibrary.org/obo/UBERON_0002049` #### Added -- [wall of urethra](http://purl.obolibrary.org/obo/UBERON_0036521) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [vasculature](http://purl.obolibrary.org/obo/UBERON_0002049) SubClassOf [independent continuant](http://purl.obolibrary.org/obo/BFO_0000004) -### wall of urinary bladder `http://purl.obolibrary.org/obo/UBERON_0001256` +### vasculature of eye `http://purl.obolibrary.org/obo/UBERON_0002203` #### Added -- [wall of urinary bladder](http://purl.obolibrary.org/obo/UBERON_0001256) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [vasculature of eye](http://purl.obolibrary.org/obo/UBERON_0002203) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### wall of uterine tube `http://purl.obolibrary.org/obo/UBERON_0036441` +### venous system `http://purl.obolibrary.org/obo/UBERON_0004582` +#### Removed +- [venous system](http://purl.obolibrary.org/obo/UBERON_0004582) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) #### Added -- [wall of uterine tube](http://purl.obolibrary.org/obo/UBERON_0036441) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [venous system](http://purl.obolibrary.org/obo/UBERON_0004582) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### wall of vagina `http://purl.obolibrary.org/obo/UBERON_0036523` +### vermiform appendix `http://purl.obolibrary.org/obo/UBERON_0001154` #### Added -- [wall of vagina](http://purl.obolibrary.org/obo/UBERON_0036523) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [vermiform appendix](http://purl.obolibrary.org/obo/UBERON_0001154) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### wall of ventricular system of brain `http://purl.obolibrary.org/obo/UBERON_0036661` +### vertebral column `http://purl.obolibrary.org/obo/UBERON_0001130` #### Added -- [wall of ventricular system of brain](http://purl.obolibrary.org/obo/UBERON_0036661) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [vertebral column](http://purl.obolibrary.org/obo/UBERON_0001130) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### white adipose tissue `http://purl.obolibrary.org/obo/UBERON_0001347` -#### Removed -- [white adipose tissue](http://purl.obolibrary.org/obo/UBERON_0001347) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D052436" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +### vertebral element `http://purl.obolibrary.org/obo/UBERON_0010913` - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) +#### Added +- [vertebral element](http://purl.obolibrary.org/obo/UBERON_0010913) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" -- [white adipose tissue](http://purl.obolibrary.org/obo/UBERON_0001347) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Adipose tissue, cells of which contain a single large lipid droplet." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA" +### vesicle targeting `http://purl.obolibrary.org/obo/GO_0006903` +#### Added +- [vesicle targeting](http://purl.obolibrary.org/obo/GO_0006903) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### white matter `http://purl.obolibrary.org/obo/UBERON_0002316` -#### Removed -- [white matter](http://purl.obolibrary.org/obo/UBERON_0002316) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Multi-tissue structure comprised largely of myelinated axons.[TAO]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFIN:curator" +### vesicle-mediated intercellular transport `http://purl.obolibrary.org/obo/GO_0110077` - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "TAO:0002142" +#### Added +- [vesicle-mediated intercellular transport](http://purl.obolibrary.org/obo/GO_0110077) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "endosomal trafficking" - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "TAO" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-08-14" +### vesicle-mediated transport `http://purl.obolibrary.org/obo/GO_0016192` -- [white matter](http://purl.obolibrary.org/obo/UBERON_0002316) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MESH:D066127" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +#### Added +- [vesicle-mediated transport](http://purl.obolibrary.org/obo/GO_0016192) [in_subset](http://www.geneontology.org/formats/oboInOwl#inSubset) [goslim_euk_cellular_processes_ribbon](http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon) - - [author_id](https://w3id.org/sssom/author_id) [0000-0001-9439-5346](https://orcid.org/0000-0001-9439-5346) - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" +### vesicle-mediated transport in synapse `http://purl.obolibrary.org/obo/GO_0099003` -- [white matter](http://purl.obolibrary.org/obo/UBERON_0002316) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "nlx_anat_101177 seems to have been lost in the transition from NIFGA to Neurolex" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "NIF" +#### Added +- [vesicle-mediated transport in synapse](http://purl.obolibrary.org/obo/GO_0099003) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [see also](http://www.w3.org/2000/01/rdf-schema#seeAlso) "https://github.com/SciCrunch/NIF-Ontology/issues/83" -- [white matter](http://purl.obolibrary.org/obo/UBERON_0002316) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "Cell part cluster consisting predominantly of neurites in the brain and the spinal cord[FMA:83929]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "FMA:83929" +### vesicle-mediated transport to the plasma membrane `http://purl.obolibrary.org/obo/GO_0098876` -- [white matter](http://purl.obolibrary.org/obo/UBERON_0002316) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "The myelination of axons by glial cells was the last major step in the evolution of cells in the vertebrate nervous system, and white-matter tracts are key to the architecture of the mammalian brain.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [vesicle-mediated transport to the plasma membrane](http://purl.obolibrary.org/obo/GO_0098876) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### vip GABAergic cortical interneuron `http://purl.obolibrary.org/obo/CL_4023016` +#### Removed +- [vip GABAergic cortical interneuron](http://purl.obolibrary.org/obo/CL_4023016) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A GABAergic neuron located in the cerebral cortex that expresses vasoactive intestinal polypeptide" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:33186530" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1038/nature09614 Nave KA, Myelination and support of axonal integrity by glia. Nature (2010)" +#### Added +- [vip GABAergic cortical interneuron](http://purl.obolibrary.org/obo/CL_4023016) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A GABAergic neuron located in the cerebral cortex that expresses vasoactive intestinal polypeptide" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37824655" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0001764" + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:33186530" +- [vip GABAergic cortical interneuron](http://purl.obolibrary.org/obo/CL_4023016) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### white matter of telencephalon `http://purl.obolibrary.org/obo/UBERON_0011299` +### visceral muscle cell `http://purl.obolibrary.org/obo/CL_0008007` #### Removed -- [white matter of telencephalon](http://purl.obolibrary.org/obo/UBERON_0011299) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "CNS white matter that is part of the telencephalon[ZFA:0000597]." - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ZFA:0000597" - +- [visceral muscle cell](http://purl.obolibrary.org/obo/CL_0008007) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005070" +#### Added +- [visceral muscle cell](http://purl.obolibrary.org/obo/CL_0008007) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00005070" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) -### white pulp of spleen `http://purl.obolibrary.org/obo/UBERON_0001959` -#### Removed -- [white pulp of spleen](http://purl.obolibrary.org/obo/UBERON_0001959) [UBPROP_0000009](http://purl.obolibrary.org/obo/UBPROP_0000009) "The white pulp contains T cells, B cells and accessory cells. The function of the white pulp is to mount an immunological response to antigens within the blood. The white pulp is present in the form of a periarteriolar lymphoid sheath. This sheath contains B cell follicles and T cells. At the edge of the T zone is a region known as the marginal zone where larger lymphocytes and antigen presenting dendritic cells are located. [Wikipedia:White_pulp]" +### visceromotor neuron `http://purl.obolibrary.org/obo/CL_0005025` +#### Added +- [visceromotor neuron](http://purl.obolibrary.org/obo/CL_0005025) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005732" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### wrist joint `http://purl.obolibrary.org/obo/UBERON_0001491` -#### Removed -- [wrist joint](http://purl.obolibrary.org/obo/UBERON_0001491) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in FMA this includes radio-carpal and radio-ulnar *ligaments*" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "FMA" -- [wrist joint](http://purl.obolibrary.org/obo/UBERON_0001491) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:19205" +### visible light photoreceptor cell `http://purl.obolibrary.org/obo/CL_0000488` +#### Added +- [visible light photoreceptor cell](http://purl.obolibrary.org/obo/CL_0000488) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009219" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -### yolk sac `http://purl.obolibrary.org/obo/UBERON_0001040` +### visual pigment cell (sensu Nematoda and Protostomia) `http://purl.obolibrary.org/obo/CL_0001658` #### Removed -- [yolk sac](http://purl.obolibrary.org/obo/UBERON_0001040) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Structures homologous to the four extraembryonic membranes of reptiles and birds appear in mammals: amnion, chorion, yolk sac, and allantois.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000830" - - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.187" +- [visual pigment cell (sensu Nematoda and Protostomia)](http://purl.obolibrary.org/obo/CL_0001658) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004230" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" - - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [visual pigment cell (sensu Nematoda and Protostomia)](http://purl.obolibrary.org/obo/CL_0001658) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBbt:00004230" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" -- [yolk sac](http://purl.obolibrary.org/obo/UBERON_0001040) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In therians, a structure homologous to the yolk sac is is present, but contains no yolk platelets. Instead it is filled with fluid [ISBN:0073040584 (Vertebrates, Kardong)]" +### visual pigment cell (sensu Vertebrata) `http://purl.obolibrary.org/obo/CL_0000343` -- [yolk sac](http://purl.obolibrary.org/obo/UBERON_0001040) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "the extraembryonic tissue membrane, formed from the visceral endoderm and the extraembryonic mesoderm, which is located ventral to the embryonic disc and is connected to the presumptive midgut of the embryo; the yolk that it contains is the site of embryonic hematopoiesis and vitelline circulation is involved in early embryonic circulation; it is the origin of the primordial germ cells" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "MP:0001718" +#### Added +- [visual pigment cell (sensu Vertebrata)](http://purl.obolibrary.org/obo/CL_0000343) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009171" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [yolk sac](http://purl.obolibrary.org/obo/UBERON_0001040) [UBPROP_0000001](http://purl.obolibrary.org/obo/UBPROP_0000001) "One of the extraembryonic fetal membranes that balloons out from the fetal midgut. [TFD][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000830" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### visual system neuron `http://purl.obolibrary.org/obo/CL_0008028` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [visual system neuron](http://purl.obolibrary.org/obo/CL_0008028) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "Any neuron that is capable of part of some visual perception." + - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "FBC:Autogenerated" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://medical-dictionary.thefreedictionary.com/yolk+sac" +### water channel activity `http://purl.obolibrary.org/obo/GO_0015250` +#### Added +- [water channel activity](http://purl.obolibrary.org/obo/GO_0015250) [term tracker item](http://purl.obolibrary.org/obo/IAO_0000233) "https://github.com/geneontology/go-ontology/issues/26941"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI) +- [water channel activity](http://purl.obolibrary.org/obo/GO_0015250) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "MetaCyc:TRANS-RXN-145" -### yolk sac cavity `http://purl.obolibrary.org/obo/UBERON_0005251` -#### Removed -- [yolk sac cavity](http://purl.obolibrary.org/obo/UBERON_0005251) [UBPROP_0000008](http://purl.obolibrary.org/obo/UBPROP_0000008) "In mammals, the yolk sac cavity contains fluid rather than platelets" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:0073040584" -- [yolk sac cavity](http://purl.obolibrary.org/obo/UBERON_0005251) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "in EHDAA2, there are separate primary and secondary yolk sac cavities" - - [external_ontology](http://www.geneontology.org/formats/oboInOwl#external_ontology) "EHDAA2" +### water transport `http://purl.obolibrary.org/obo/GO_0006833` +#### Added +- [water transport](http://purl.obolibrary.org/obo/GO_0006833) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### zeugopod `http://purl.obolibrary.org/obo/UBERON_0002471` +### white pulp of spleen `http://purl.obolibrary.org/obo/UBERON_0001959` #### Removed -- [zeugopod](http://purl.obolibrary.org/obo/UBERON_0002471) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "zeugopodial" - +- [white pulp of spleen](http://purl.obolibrary.org/obo/UBERON_0001959) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) -### zeugopodial skeleton `http://purl.obolibrary.org/obo/UBERON_0011584` -#### Removed -- [zeugopodial skeleton](http://purl.obolibrary.org/obo/UBERON_0011584) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "zeugopodial" -- [zeugopodial skeleton](http://purl.obolibrary.org/obo/UBERON_0011584) [UBPROP_0000007](http://purl.obolibrary.org/obo/UBPROP_0000007) "zygopodial" +### wound healing `http://purl.obolibrary.org/obo/GO_0042060` #### Added -- [zeugopodial skeleton](http://purl.obolibrary.org/obo/UBERON_0011584) SubClassOf [mesoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004120) +- [wound healing](http://purl.obolibrary.org/obo/GO_0042060) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### zona pellucida `http://purl.obolibrary.org/obo/UBERON_0000086` -#### Removed -- [zona pellucida](http://purl.obolibrary.org/obo/UBERON_0000086) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "VHOG:0000720" +### xanthoblast `http://purl.obolibrary.org/obo/CL_0005002` -- [zona pellucida](http://purl.obolibrary.org/obo/UBERON_0000086) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "Outside the plasma membrane, three envelopes surround the ovum. The first, the primary egg envelope, lies between the plasma membrane and the surrounding cells of the ovary. The most consistent component of this primary layer is the vitelline membrane, a transparent jacket of fibrous protein. In mammals, the homologous structure is called the zona pellucida.[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [xanthoblast](http://purl.obolibrary.org/obo/CL_0005002) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0005245" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### xanthophore cell `http://purl.obolibrary.org/obo/CL_0000430` - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.159" +#### Added +- [xanthophore cell](http://purl.obolibrary.org/obo/CL_0000430) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0009198" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000720" +- [xanthophore cell](http://purl.obolibrary.org/obo/CL_0000430) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) +### yolk cell `http://purl.obolibrary.org/obo/CL_0000428` -### zone of skin `http://purl.obolibrary.org/obo/UBERON_0000014` -#### Removed -- [zone of skin](http://purl.obolibrary.org/obo/UBERON_0000014) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EHDAA2:0001844" +#### Added +- [yolk cell](http://purl.obolibrary.org/obo/CL_0000428) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "ZFA:0000084" + - [mapping_justification](https://w3id.org/sssom/mapping_justification) [UnspecifiedMatching](https://w3id.org/semapv/vocab/UnspecifiedMatching) -- [zone of skin](http://purl.obolibrary.org/obo/UBERON_0000014) [IAO_0000232](http://purl.obolibrary.org/obo/IAO_0000232) "Note the distinction between the entire skin of the body, of which there is only 1 in an organism, and zones of skin, of which there can be many. Examples: skin of knee" -- [zone of skin](http://purl.obolibrary.org/obo/UBERON_0000014) [UBPROP_0000012](http://purl.obolibrary.org/obo/UBPROP_0000012) "we assume that mouse, HOG and GAID all mean zone of skin when they say skin. We also choose skin as an exact synonym, as it is more intuitive" +### yolk sac `http://purl.obolibrary.org/obo/UBERON_0001040` -- [zone of skin](http://purl.obolibrary.org/obo/UBERON_0000014) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "(...) it is well-established that neural crest cells contribute to both the dermal skeleton (craniofacial bone, teeth, and the caudal fin rays of teleosts) and the integument, including craniofacial dermis and all pigment cells outside the retina (...).[well established][VHOG]" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +#### Added +- [yolk sac](http://purl.obolibrary.org/obo/UBERON_0001040) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" +### yolk sac hematopoietic stem cell `http://purl.obolibrary.org/obo/CL_0002354` +#### Removed +- [yolk sac hematopoietic stem cell](http://purl.obolibrary.org/obo/CL_0002354) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000860" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "DOI:10.1111/j.1469-7580.2008.01043.x Vickaryous MK, Sire JY, The integumentary skeleton of tetrapods: origin, evolution, and development. J Anat (2009)" -- [zone of skin](http://purl.obolibrary.org/obo/UBERON_0000014) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "EMAPA:17525" +### zeaxanthin metabolic process `http://purl.obolibrary.org/obo/GO_1901825` #### Added -- [zone of skin](http://purl.obolibrary.org/obo/UBERON_0000014) SubClassOf [ectoderm-derived structure](http://purl.obolibrary.org/obo/UBERON_0004121) +- [zeaxanthin metabolic process](http://purl.obolibrary.org/obo/GO_1901825) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -### zygomaticotemporal nerve `http://purl.obolibrary.org/obo/UBERON_0036264` -#### Removed -- [zygomaticotemporal nerve](http://purl.obolibrary.org/obo/UBERON_0036264) SubClassOf [nerve](http://purl.obolibrary.org/obo/UBERON_0001021) +### zone of bone organ `http://purl.obolibrary.org/obo/UBERON_0005913` #### Added -- [zygomaticotemporal nerve](http://purl.obolibrary.org/obo/UBERON_0036264) SubClassOf [nerve of head region](http://purl.obolibrary.org/obo/UBERON_0011779) +- [zone of bone organ](http://purl.obolibrary.org/obo/UBERON_0005913) SubClassOf [continuant](http://purl.obolibrary.org/obo/BFO_0000002) -### zygote stage `http://purl.obolibrary.org/obo/UBERON_0000106` +### zone of skin `http://purl.obolibrary.org/obo/UBERON_0000014` #### Removed -- [zygote stage](http://purl.obolibrary.org/obo/UBERON_0000106) [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "IDOMAL:0000302" - - [mapping_justification](https://w3id.org/sssom/mapping_justification) [ManualMappingCuration](https://w3id.org/semapv/vocab/ManualMappingCuration) +- [zone of skin](http://purl.obolibrary.org/obo/UBERON_0000014) SubClassOf [protein-containing material entity](http://purl.obolibrary.org/obo/PR_000050567) + - - [mapping_provider](https://w3id.org/sssom/mapping_provider) "https://github.com/biopragmatics/biomappings" - - [author_id](https://w3id.org/sssom/author_id) [0000-0003-4423-4370](https://orcid.org/0000-0003-4423-4370) +### zygospore formation `http://purl.obolibrary.org/obo/GO_0034296` + +#### Added +- [zygospore formation](http://purl.obolibrary.org/obo/GO_0034296) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) -- [zygote stage](http://purl.obolibrary.org/obo/UBERON_0000106) [UBPROP_0000003](http://purl.obolibrary.org/obo/UBPROP_0000003) "As in all metazoans, eumetazoan development begins with a fertilized egg, or zygote.[well established][VHOG]" - - [external_class](http://www.geneontology.org/formats/oboInOwl#external_class) "VHOG:0000745" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "http://bgee.unil.ch/" +### zygote asymmetric cell division `http://purl.obolibrary.org/obo/GO_0010070` - - [ontology](http://www.geneontology.org/formats/oboInOwl#ontology) "VHOG" +#### Added +- [zygote asymmetric cell division](http://purl.obolibrary.org/obo/GO_0010070) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) - - [date_retrieved](http://www.geneontology.org/formats/oboInOwl#date_retrieved) "2012-09-17" - - [source](http://www.geneontology.org/formats/oboInOwl#source) "ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.107" +### zygotic determination of anterior/posterior axis, embryo `http://purl.obolibrary.org/obo/GO_0007354` +#### Added +- [zygotic determination of anterior/posterior axis, embryo](http://purl.obolibrary.org/obo/GO_0007354) SubClassOf [occurrent](http://purl.obolibrary.org/obo/BFO_0000003) diff --git a/src/ontology/reports/basic-report.tsv b/src/ontology/reports/basic-report.tsv index d296a82c3..d5b5da876 100644 --- a/src/ontology/reports/basic-report.tsv +++ b/src/ontology/reports/basic-report.tsv @@ -1,6 +1,6 @@ ?cls ?def ?xrefs "Any process that stops, prevents, or reduces the frequency, rate, or extent of plasmacytoid dendritic cell cytokine production." - "Anatomical system that has as its parts the organs devoted to the ingestion, digestion, and assimilation of food and the discharge of residual wastes." "BILA:0000082 MIAA:0000018 MAT:0000018 AAO:0000129 Wikipedia:Digestive_system galen:DigestiveSystem MESH:D004064 SCTID:278859004 ncithesaurus:Digestive_System MA:0002431 EFO:0000793 TAO:0000339 XAO:0000125 GAID:278 CALOHA:TS-1293 FMA:7152 TADS:0000170 ZFA:0000339 WBbt:0005748 BTO:0000058" + "Anatomical system that has as its parts the organs devoted to the ingestion, digestion, and assimilation of food and the discharge of residual wastes." "BILA:0000082 MIAA:0000018 MAT:0000018 AAO:0000129 Wikipedia:Digestive_system galen:DigestiveSystem MESH:D004064 SCTID:278859004 ncithesaurus:Digestive_System MA:0002431 EFO:0000793 TAO:0000339 XAO:0000125 GAID:278 CALOHA:TS-1293 FMA:7152 TADS:0000170 FBbt:00005055 ZFA:0000339 WBbt:0005748 BTO:0000058" "A developmental process, independent of morphogenetic (shape) change, that is required for the vestibulocochlear nerve to attain its fully functional state. This sensory nerve innervates the membranous labyrinth of the inner ear. The vestibular branch innervates the vestibular apparatus that senses head position changes relative to gravity. The auditory branch innervates the cochlear duct, which is connected to the three bony ossicles which transduce sound waves into fluid movement in the cochlea." "Any process that stops, prevents, or reduces the frequency, rate or extent of a response to an external stimulus." "An eomesodermin that is encoded in the genome of mouse." "UniProtKB:O54839" @@ -11,18 +11,17 @@ "Any process that modulates the frequency, rate or extent of iron ions import across plasma membrane." "A tyrosine-protein kinase receptor UFO that is encoded in the genome of mouse." "UniProtKB:Q00993" - "An extracellular matrix secreting cell that secretes collagen." + "An extracellular matrix secreting cell that secretes collagen." "ZFA:0009287" "Any process that modulates the frequency, rate or extent of cell proliferation in midbrain." "A mucosa that is part of a ejaculatory duct [Automatically generated definition]." "FMA:19373" "A lactosylceramide 4-alpha-galactosyltransferase that is encoded in the genome of human." "UniProtKB:Q9NPC4" "Any process that stops, prevents or reduces the frequency, rate or extent of cardiac neural crest cell migration involved in outflow tract morphogenesis." "Capsule surrounding lymph node composed of connective tissue with some plain muscle fibers." "UMLS:C0229699 FMA:74604 EMAPA:35524 SCTID:327532004 NCIT:C33028 MA:0000739 Wikipedia:Lymph_node_capsule" "Spinal cord structure that is part of the ventricular system and is filled with cerebral-spinal fluid and runs the length of the spinal cord." "HBA:9422 Wikipedia:Central_canal_of_spinal_cord EHDAA2:0004361 BAMS:CC NCIT:C12891 TAO:0000938 MA:0001117 BIRNLEX:1409 DMBA:126652042 DHBA:146035108 neuronames:1733 MBA:164 ZFA:0000938 FMA:78497 SCTID:279447004 EMAPA:35789 BAMS:C UMLS:C0459414" - "A smooth muscle cell that is part of the tracheobronchial tree." "The reproductive developmental process whose specific outcome is the progression of the baculum over time, from its formation to the mature structure." "A homeostatic process involved in the maintenance of a steady state level of monoatomic cations within a cell. Monatomic cations (also called simple cations) are cations consisting of exactly one atom." - "Cranial motor neuron which innervates muscles derived from the branchial (pharyngeal) arches." "PMID:14699587" + "Cranial motor neuron which innervates muscles derived from the branchial (pharyngeal) arches." "ZFA:0005731 PMID:14699587" "A capillary that is part of a lung." "FMA:14121" "A hemoglobin subunit zeta that is encoded in the genome of human." "UniProtKB:P02008" @@ -44,7 +43,7 @@ "An excitatory glutamatergic neuron transcriptomically related to the CT subclass, with a soma preferentially located in the bottom of L6 of the primary motor cortex." "GC_ID:1" "The fibrous connective tissue that surrounds the root of a tooth, separating it from and attaching it to the alveolar bone. It extends from the base of the gingival mucosa to the fundus of the bony socket, and its main function is to hold the tooth in its socket[BTO]." "BTO:0001020 Wikipedia:Periodontal_fiber CALOHA:TS-0763 EMAPA:35679 SCTID:245775004 FMA:56665 GAID:1259 MA:0002467" - + "FBbt:00004217" "Any process that modulates the rate, frequency or extent of the differentiation of a neuroendocrine cell in the stomach." "A developmental process, independent of morphogenetic (shape) change, that is required for the olfactory nerve to attain its fully functional state. The olfactory nerve is a collection of sensory nerve rootlets that extend down from the olfactory bulb to the olfactory mucosa of the upper parts of the nasal cavity. This nerve conducts odor information to the brainstem." @@ -59,7 +58,7 @@ "Any process that activates, maintains or increases the frequency, rate or extent of glutamatergic synaptic transmission, the process of communication from a neuron to another neuron across a synapse using the neurotransmitter glutamate." "A lung lobe is one of the rounded projections that compose the lung[GO]." "NCIT:C34021 galen:LobeOfLung UMLS:C0225752 EMAPA:36281 MA:0003098 FMA:7311 SCTID:245524004" "A hepatic artery that is part of a right lobe of liver." "EMAPA:37376 FMA:14778 MA:0003097" - "A specialized hair cell that has an elongated kinocilium upon which an otolith accretes. The tether cell then anchors the otolith in place." + "A specialized hair cell that has an elongated kinocilium upon which an otolith accretes. The tether cell then anchors the otolith in place." "ZFA:0005565" "The controlled breakdown of the basement membrane in the context of a normal process such as imaginal disc eversion." "The process in which a relatively unspecialized cell acquires specialized features of a trophoblast giant cell of the placenta. Trophoblast giant cells are the cell of the placenta that line the maternal decidua." "EMAPA:16893 EHDAA:3217 EHDAA2:0000179" @@ -103,7 +102,7 @@ "An ecto-epithelial cell of the buccal region of the viscerocranial mucosa." "FMA:70577" "The regulated exocytosis of secretory granules containing preformed mediators such as proteases, lipases, and inflammatory mediators by a neutrophil." "The orderly movement of an intestinal epithelial cell from one site to another, often during the development of a multicellular organism." - + "FBbt:00004215" "EMAPA:35979" "The part of a synapse that is part of the post-synaptic cell." "Any process that modulates the frequency, rate or extent of signal transduction." @@ -118,7 +117,7 @@ "A smooth muscle of the eye, running radially in the iris that functions as a dilator. [WP,unvetted]." "BTO:0001371 EMAPA:35286 Wikipedia:Iris_dilator_muscle UMLS:C0229190 NCIT:C32463 FMA:49158 MA:0001288 SCTID:280890008" "An epithelial cell found in C. elegans that firmly hold the outer body wall and the lips to the inner cylinder of the pharynx in a manner that keeps these organs from breaking apart, while still giving each organ freedom of movement during feeding." "WBbt:0005793" "Replacement bone that forms within cartilage." "XAO:0004018 FMA:24321 AAO:0010776 AEO:0000083 EHDAA2:0003083 BTO:0002157 TAO:0001591 VSAO:0000145 ZFA:0001591" - "The adjustable membrane, composed of the stroma and pigmented epithelium, located just in front of the crystalline lens within the eye." "MA:0000273 Wikipedia:Iris_(anatomy) BTO:0000653 NCIT:C12737 EFO:0004245 VHOG:0000101 TAO:0001238 GAID:917 MESH:D007498 XAO:0000185 AAO:0010347 EMAPA:19154 FMA:58235 ZFA:0001238 SCTID:181164000 EV:0100345 CALOHA:TS-0491 UMLS:C0022077" + "The adjustable membrane, composed of the stroma and pigmented epithelium, located just in front of the crystalline lens within the eye." "MA:0000273 Wikipedia:Iris_(anatomy) BTO:0000653 NCIT:C12737 EFO:0004245 VHOG:0000101 TAO:0001238 GAID:917 MESH:D007498 XAO:0000185 AAO:0010347 EMAPA:19154 FMA:58235 ZFA:0001238 EV:0100345 SCTID:181164000 CALOHA:TS-0491 UMLS:C0022077" "The change in morphology and behavior of a mature or immature natural killer T cell resulting from exposure to a mitogen, cytokine, chemokine, cellular ligand, or an antigen for which it is specific." "Mesodermal cell that is axially located and gives rise to the cells of the notochord." "Any process that modulates the frequency, rate or extent of metanephric glomerular visceral epithelial cell development." @@ -131,7 +130,7 @@ "The process in which a relatively unspecialized cell acquires specialized features of a lung ciliated cell. A lung ciliated cell is a specialized lung epithelial cell that contains cilia for moving substances released from lung secretory cells." "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of organic acids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." "Any process that stops, prevents, or reduces the frequency, rate or extent of muscle cell differentiation." - "A peptide hormone secreting cell that produces growth hormone, somatotropin." + "A peptide hormone secreting cell that produces growth hormone, somatotropin." "ZFA:0009155" "A bone that is part of a the pedal digitopodium skeleton - i.e. the toes or the metatarsal skeleton." "A cell cycle process by which the cell nucleus divides as part of a meiotic cell cycle in the female germline." "A response to protect an organism from a directly detected or perceived external threat from a nematode or nematodes, which results in restriction of damage to the organism attacked or prevention/recovery from the infection caused by the attack." @@ -139,8 +138,8 @@ "Formation of a complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2 (either eIF2 in eukaryotes, or IF2 in prokaryotes). In prokaryotes, fMet-tRNA (initiator) is used rather than Met-tRNA (initiator)." "The directed movement of histamine into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Histamine is a physiologically active amine, found in plant and animal tissue and released from mast cells as part of an allergic reaction in humans." "Cell that has the potential to form a skeletal cell type (e.g. cells in periosteum, cells in marrow) and produce extracellular matrix (often mineralized) and skeletal tissue (often mineralized)." - "The muscles associated with the larynx." "UMLS:C0023054 NCIT:C32934 BTO:0001626 Wikipedia:Muscles_of_larynx GAID:144 MA:0001768 MESH:D007821 EMAPA:35473 FMA:46562 SCTID:181744001" - "Cell that is part of the migratory cranial neural crest population. Migratory cranial neural crest cells develop from premigratory cranial neural crest cells and have undergone epithelial to mesenchymal transition and delamination." + "The muscles associated with the larynx." "UMLS:C0023054 NCIT:C32934 BTO:0001626 Wikipedia:Muscles_of_larynx MA:0001768 GAID:144 MESH:D007821 EMAPA:35473 FMA:46562 SCTID:181744001" + "Cell that is part of the migratory cranial neural crest population. Migratory cranial neural crest cells develop from premigratory cranial neural crest cells and have undergone epithelial to mesenchymal transition and delamination." "ZFA:0007091" "The ossified region of endochondral and membranous bone located in the clitoris of most mammals except humans; it is homologous to the penile bone (aka as baculum, penis bone or os penis) in male mammals." "MA:0000387 EMAPA:30823" "The unpaired embryonic prominence that is formed by the tissues surrounding the forebrain vesicle and develops into the forehead and bridge of the nose/snout." "Wikipedia:Frontonasal_prominence EHDAA:4778 EMAPA:16681 VHOG:0001319 SCTID:361486000 EHDAA2:0000578 NCIT:C34182 UMLS:C1517321 FMA:293101" "EHDAA:4406 FMA:67611 EHDAA2:0004046 galen:Valve EHDAA:1892" @@ -163,7 +162,6 @@ "An epithelial cell that is part of the outer root sheath." "A vertebral arch that is part of the first cervical vertebra." "SCTID:272708001 Wikipedia:Arch_of_the_atlas FMA:23975" "Any process that modulates the frequency, rate or extent of establishment of T cell polarity." - "KUPO:0001064" "The expansion of a cardiac muscle cell population by cell division." "A pre-BCR positive B cell that is CD38-high." @@ -195,27 +193,28 @@ "An astrocyte of the cerebral cortex." "CD4-positive, alpha-beta memory T cell with the phenotype CCR7-negative, CD127-positive, CD45RA-negative, CD45RO-positive, and CD25-negative." "An alveolar duct that is part of a left lung [Automatically generated definition]." "NCIT:C49250 EMAPA:19183 MA:0001776 UMLS:C1708672" - "An epithelial cell of the intrahepatic portion of the bile duct. These cells are flattened or cuboidal in shape, and have a small nuclear-to-cytoplasmic ratio relative to large/extrahepatic cholangiocytes." + "An epithelial cell of the intrahepatic portion of the bile duct. These cells are flattened or cuboidal in shape, and have a small nuclear-to-cytoplasmic ratio relative to large/extrahepatic cholangiocytes." "ZFA:0009379" "Mesenchyme that is part of a developing upper jaw [Automatically generated definition]." "VHOG:0001099 EMAPA:17929 EHDAA2:0002124 EHDAA:8031" "Any process that activates or increases the frequency, rate or extent of glomerular filtration. Glomerular filtration is the processs whereby blood is filtered by the glomerulus into the renal tubule." "A protein that is a translation product of the KLRB1 gene or its closely related paralogs (KLRB1A-F). There are lineage-specific expansions in mouse and rat." "PIRSF:PIRSF038804" - "Anatomical structure that has as its parts two or more portions of tissue of at least two different types and which through specific morphogenetic processes forms a single distinct structural unit demarcated by bona-fide boundaries from other distinct structural units of different types." "BILA:0000055 VHOG:0001762 TGMA:0001847 AAO:0010048 ZFA:0001488 HAO:0000055 TAO:0001488 CARO:0000055 AEO:0000055 XAO:0003037 EHDAA2:0003055" + "Anatomical structure that has as its parts two or more portions of tissue of at least two different types and which through specific morphogenetic processes forms a single distinct structural unit demarcated by bona-fide boundaries from other distinct structural units of different types." "BILA:0000055 VHOG:0001762 FBbt:00007010 TGMA:0001847 AAO:0010048 ZFA:0001488 HAO:0000055 TAO:0001488 CARO:0000055 AEO:0000055 XAO:0003037 EHDAA2:0003055" "A mucosa that is part of a neck of urinary bladder [Automatically generated definition]." "FMA:17846" "Vein that carries blood away from the liver[ZFA]." "FMA:14337 galen:HepaticVein TAO:0000670 UMLS:C0019155 MA:0003015 Wikipedia:Hepatic_vein ZFA:0000670 EMAPA:19221 AAO:0010216 GAID:534 XAO:0000387 NCIT:C32736 MESH:D006503 SCTID:278191001" "The regulated production of heat in response to short term environmental changes, such as stress, diet or reduced temperature." - "Large intrinsic neuron located in the granule layer of the cerebellar cortex that extends its dendrites into the molecular layer where they receive contact from parallel fibers. The axon of the Golgi cell ramifies densely in the granule layer and enters into a complex arrangement with mossy fiber terminals and granule cell dendrites to form the cerebellar glomerulus. Llinas, Walton and Lang. In The Synaptic Organization of the Brain. 5th ed. 2004." "MESH:D000080906" + "Large intrinsic neuron located in the granule layer of the cerebellar cortex that extends its dendrites into the molecular layer where they receive contact from parallel fibers. The axon of the Golgi cell ramifies densely in the granule layer and enters into a complex arrangement with mossy fiber terminals and granule cell dendrites to form the cerebellar glomerulus. Llinas, Walton and Lang. In The Synaptic Organization of the Brain. 5th ed. 2004." "ZFA:0009069 MESH:D000080906" "A vascular endothelial growth factor receptor 2 that is encoded in the genome of human." "DTO:03100560 UniProtKB:P35968" "MA:0002264 FMA:18890 EMAPA:37158" "The elimination of ammonium ions from an excretory cell." + "Any process that modulates the frequency, rate or extent of proton transport into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." "An epithelium that is part of a crypt of Lieberkuhn." "NCIT:C83191 UMLS:C2826787" - + "ZFA:0009201" "A funnel shaped proximal portion of the ureter that is formed by convergence of the major calices [MP]." "UMLS:C0227666 EMAPA:17948 GAID:426 MESH:D007682 NCIT:C12887 Wikipedia:Renal_pelvis galen:RenalPelvis SCTID:362221007 CALOHA:TS-2230 FMA:15575 MA:0000374" "The triangular region on the periphery of the liver lobules that contain a bile duct and a terminal branch of the hepatic artery and portal vein, and may also include a lymphatic vessel." "NCIT:C33341 MA:0002498 FMA:14653 UMLS:C0682620" - "Anterior part of the embryonic digestive tract that develops into a mouth. The stomodeum includes as parts an invagination of the ectoderm and the stomodeal cavity." "EHDAA2:0001929 Wikipedia:Stomodeum FMA:295846 EMAPA:16263 UMLS:C1514977 TGMA:0000135 TAO:0001290 BTO:0004224 NCIT:C34306 ZFA:0001290 XAO:0000269" + "Anterior part of the embryonic digestive tract that develops into a mouth. The stomodeum includes as parts an invagination of the ectoderm and the stomodeal cavity." "EHDAA2:0001929 Wikipedia:Stomodeum FMA:295846 FBbt:00000439 EMAPA:16263 UMLS:C1514977 TGMA:0000135 TAO:0001290 BTO:0004224 NCIT:C34306 ZFA:0001290 XAO:0000269" "The process in which the anatomical structures of branches in an epithelial tube are generated and organized. A tube is a long hollow cylinder." - "VHOG:0001351 EHDAA2:0000171 EMAPA_RETIRED:16565 EMAPA:16561" + "VHOG:0001351 EMAPA_RETIRED:16565 EHDAA2:0000171 EMAPA:16561" "Obsolete. Use PO:0025017 from Plant Ontology instead. A plant cell that arises through meiosis and develops into a gametophyte." - "Skeletogenic cell that produces cementum (a bony substance that covers the root of a tooth), is part of the odontogenic papilla, and develops from a precementoblast cell." "CALOHA:TS-1164 FMA:63002" + "Skeletogenic cell that produces cementum (a bony substance that covers the root of a tooth), is part of the odontogenic papilla, and develops from a precementoblast cell." "ZFA:0009030 CALOHA:TS-1164 FMA:63002" "A monostratified retinal ganglion cell that has post synaptic terminals in sublaminar layer S2 and is depolarized by decreased illumination of their receptive field center" "The process whose specific outcome is the progression of the cerebellar molecular layer nerve over time, from its formation to the mature structure. The molecular layer is the outermost layer of the cerebellar cortex. It contains the parallel fibers of the granule cells, interneurons such as stellate and basket cells, and the dendrites of the underlying Purkinje cells." "An epithelium that is part of a embryonic cloaca." "EHDAA2:0004585" @@ -228,7 +227,7 @@ "The process in which relatively unspecialized cells acquire specialized structural and/or functional features that characterize the cells of the pronephric nephron tubule as it progresses from its formation to the mature state." "The regulated release of any mineralocorticoid into the circulatory system. Mineralocorticoids are a class of steroid hormones that regulate water and electrolyte metabolism." "Anteriosuperior, smooth-walled portion of the cavity of the right ventricle, beginning at the supraventricular crest and terminating in the pulmonary trunk." "UMLS:C1881209 SCTID:244379003 NCIT:C61368 FMA:7216 EMAPA:37926" - "The epidermis is the entire outer epithelial layer of an animal, it may be a single layer that produces an extracellular material (e.g. the cuticle of arthropods) or a complex stratified squamous epithelium, as in the case of many vertebrate species[GO]." "BSA:0000073 HAO:0000298 BTO:0000313 WBbt:0005733 TADS:0000109 Wikipedia:Epidermis_(zoology)" + "The epidermis is the entire outer epithelial layer of an animal, it may be a single layer that produces an extracellular material (e.g. the cuticle of arthropods) or a complex stratified squamous epithelium, as in the case of many vertebrate species[GO]." "BSA:0000073 HAO:0000298 BTO:0000313 FBbt:00004993 WBbt:0005733 TADS:0000109 Wikipedia:Epidermis_(zoology)" "The process in which a precursor cell type acquires the specialized features of a myeloid progenitor cell. Myeloid progenitor cells include progenitor cells for any of the myeloid lineages." "The sensory nerve subdivision of the trigeminal nerve that transmits sensory information from the orbit and its contents, the nasal cavity and the skin of the nose and forehead." "AAO:0010648 Wikipedia:Ophthalmic_nerve MA:0001104 VHOG:0001349 NCIT:C33215 EMAPA:17800 BTO:0000926 EHDAA2:0002088 UMLS:C0029082 EHDAA:3744 GAID:837 SCTID:280210000 MESH:D009882 FMA:52621" "A mucosa that is part of a seminal vesicle [Automatically generated definition]." "SCTID:252260007 FMA:19405" @@ -243,11 +242,12 @@ "GC_ID:1" "The aspect of the prostate facing the pubic symphysis." "FMA:19591 SCTID:279696001 NCIT:C13089 UMLS:C0227960" "Binding to a ribosome." + "Any blood vessel endothelial cell that is part of some heart." "FMA:24218 SCTID:123852005 XAO:0000040" "Any process that stops, prevents or reduces the frequency, rate or extent of trophectodermal cell proliferation." "An enteroendocrine cell that is located in the small intestine." "The multiplication or reproduction of epithelial cells, resulting in the expansion of a cell population that contributes to the progression of the prostate gland over time." - "Combining with a signal and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity by catalysis of the reaction: ATP + a protein-L-tyrosine = ADP + a protein-L-tyrosine phosphate." "Reactome:R-HSA-169905 Reactome:R-HSA-8987202 Reactome:R-HSA-74742 Reactome:R-HSA-8987070 Reactome:R-HSA-8986995 Reactome:R-HSA-8983300 EC:2.7.10.1 Reactome:R-HSA-8987150 Reactome:R-HSA-167019 Reactome:R-HSA-8950537 Reactome:R-HSA-8950364 Reactome:R-HSA-8983424 Reactome:R-HSA-8950354 Reactome:R-HSA-8987040 Reactome:R-HSA-8950269 MetaCyc:2.7.10.1-RXN Reactome:R-HSA-8982163 Reactome:R-HSA-8853792 Reactome:R-HSA-8950757 Reactome:R-HSA-6784324 Reactome:R-HSA-8950485 Reactome:R-HSA-74711 Reactome:R-HSA-8852552 Reactome:R-HSA-8950453 Reactome:R-HSA-8987042 Reactome:R-HSA-198295 Reactome:R-HSA-8987255 Reactome:R-HSA-167683 Reactome:R-HSA-8950405 Reactome:R-HSA-8950423 Reactome:R-HSA-8986985 Reactome:R-HSA-8987012 Reactome:R-HSA-166544 Reactome:R-HSA-8986994 Reactome:R-HSA-8983371 Reactome:R-HSA-8987084 Reactome:R-HSA-8987141 Reactome:R-HSA-8987179 Reactome:R-HSA-8987129 Reactome:R-HSA-8987096 Reactome:R-HSA-8983309 Reactome:R-HSA-177933 Reactome:R-HSA-8950340 Reactome:R-HSA-8950591" + "Combining with a signal and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity by catalysis of the reaction: ATP + a protein-L-tyrosine = ADP + a protein-L-tyrosine phosphate." "Reactome:R-HSA-169905 Reactome:R-HSA-8987202 Reactome:R-HSA-74742 Reactome:R-HSA-8987070 Reactome:R-HSA-8986995 Reactome:R-HSA-8983300 EC:2.7.10.1 Reactome:R-HSA-8987150 Reactome:R-HSA-167019 Reactome:R-HSA-8950537 Reactome:R-HSA-8950364 Reactome:R-HSA-8983424 Reactome:R-HSA-8950354 Reactome:R-HSA-8987040 Reactome:R-HSA-8950269 MetaCyc:2.7.10.1-RXN Reactome:R-HSA-8982163 Reactome:R-HSA-8853792 Reactome:R-HSA-8950757 Reactome:R-HSA-6784324 Reactome:R-HSA-8950485 Reactome:R-HSA-74711 Reactome:R-HSA-8852552 Reactome:R-HSA-8950453 Reactome:R-HSA-8987042 Reactome:R-HSA-198295 Reactome:R-HSA-8987255 Reactome:R-HSA-167683 Reactome:R-HSA-8950405 Reactome:R-HSA-8950423 Reactome:R-HSA-8986985 Reactome:R-HSA-8987012 Reactome:R-HSA-166544 Reactome:R-HSA-8986994 Reactome:R-HSA-8983371 Reactome:R-HSA-8987084 Reactome:R-HSA-8987141 Reactome:R-HSA-8987179 Reactome:R-HSA-8987129 Reactome:R-HSA-177930 Reactome:R-HSA-8987096 Reactome:R-HSA-8983309 Reactome:R-HSA-177933 Reactome:R-HSA-8950340 Reactome:R-HSA-8950591" "An epithelium that is part of a iris [Automatically generated definition]." "MA:0002826 EMAPA:35447 FMA:58517" "The process in which an antigen-presenting cell expresses peptide antigen in association with an MHC protein complex on its cell surface, including proteolysis and transport steps for the peptide antigen both prior to and following assembly with the MHC protein complex. The peptide antigen is typically, but not always, processed from an endogenous or exogenous protein." "An NKG2-A/NKG2-B type II integral membrane protein that is encoded in the genome of human." "UniProtKB:P26715 Reactome:R-HSA-3006545" @@ -260,10 +260,9 @@ "The middle layer of the heart, comprised mainly of striated cardiac muscle fibers." "MESH:D009206 VHOG:0000083 SCTID:362012001 XAO:0000065 NCIT:C12371 galen:Myocardium AAO:0010410 EFO:0000819 RETIRED_EHDAA2:0001220 TAO:0001319 FMA:9462 BTO:0000901 MA:0000164 EHDAA2:0004150 EV:0100022 Wikipedia:Myocardium UMLS:C0027061 CALOHA:TS-0440 ZFA:0001319 BSA:0000089 GAID:173 MAT:0000453" "Any process that activates or increases the frequency, rate or extent of plasmatocyte differentiation." "Any process that an organism uses to control its balance, the orientation of the organism (or the head of the organism) in relation to the source of gravity. In humans and animals, balance is perceived through visual cues, the labyrinth system of the inner ears and information from skin pressure receptors and muscle and joint receptors." - "A leukocyte with a single non-segmented nucleus in the mature form." "CALOHA:TS-0768 BTO:0000878 FMA:86713" + "A leukocyte with a single non-segmented nucleus in the mature form." "ZFA:0009357 CALOHA:TS-0768 BTO:0000878 FMA:86713" "Cells forming a framework supporting the organ of Corti. Specific cells are those of Claudius, Deiters and Hensen." - - "A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism." + "A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism." "ZFA:0009130" "The outer phalangeal cells of the organ of Corti. This cell holds the base of the hair cell in a cup-shaped depression." "FMA:75725" "Joint in which the articulating bones or cartilages are connected by an articular capsule which encloses a synovial membrane and a synovial cavity. Examples: Temporomandibular joint, knee joint.[FMA]." "MA:0000322 FMA:7501 CALOHA:TS-2138 SCTID:113234001 Wikipedia:Synovial_joint NCIT:C32461 galen:SynovialJoint ZFA:0005153 TAO:0005153 AEO:0000183 EHDAA2:0003183" "Any process that modulates the frequency, rate or extent of skeletal muscle growth." @@ -275,7 +274,7 @@ "Any vein within the general circulation that transports blood back to the right atrium of the heart." "NCIT:C33719 FMA:66644 UMLS:C0447117 SCTID:244389004" "A lymphocyte antigen 6A-2/6E-1 that is encoded in the genome of mouse." "UniProtKB:P05533" "Any process in which a receptor is transported to, and/or maintained at the synapse, the junction between a nerve fiber of one neuron and another neuron or muscle fiber or glial cell." - + "FBbt:00004219" "The region of the organism associated with the visceral organs." "FMA:231424 BTO:0001489 AEO:0000103" "A basophil mast progenitor cell that is Beta-7 integrin-high, Kit-positive FcRgammaII/III-positive and Sca1-negative." "The body of stomach is the part of the stomach that lies between the fundus above and the pyloric antrum below; its boundaries are poorly defined[GO]." "EMAPA:35810 BTO:0000505 Wikipedia:Body_of_stomach MA:0002559 SCTID:362140009 galen:GastricCorpus NCIT:C12258 FMA:14560 UMLS:C0227230" @@ -283,7 +282,7 @@ "FMA:14621" "A muscle layer that is part of a fallopian tube." "EMAPA:29046 SCTID:259488000 FMA:18318" "A B-cell lymphoma 6 protein that is encoded in the genome of mouse." "UniProtKB:P41183" - "A precursor cell destined to differentiate into smooth muscle myocytes." "FMA:84798" + "A precursor cell destined to differentiate into smooth muscle myocytes." "ZFA:0009235 FMA:84798" "The lipid bilayer surrounding a cytoplasmic vesicle." "The group of motor neurons residing in the pons that innervate the muscles of facial expression." "BAMS:7 VHOG:0001412 BM:Pons-VII BAMS:7N DHBA:12420 BAMS:VII NCIT:C12898 EHDAA2:0004638 FMA:54572 MESH:D065828 EV:0100267 UMLS:C0228740 MA:0001014 EMAPA:35338 SCTID:280166009" "An endoglin that is encoded in the genome of human." "UniProtKB:P17813" @@ -294,11 +293,12 @@ "A crystal cell that derives from the larval lymph gland." "Any process that activates or increases the frequency, rate or extent of nephron tubule epithelial cell differentiation." "A protein that is a translation product of the human NCR1 gene or a 1:1 ortholog thereof." + "A mature B cell that serves as an intermediate stage in the differentiation of naive B cells into a plasmablast. A preplasmablast expresses CD30 and IL-6R and lacks expression of CD20, CD23, CD38 and CD138." "A vessel of the microcirculature, lying between the arterioles and venules; includes capillaries (blood and lymphatic), metarterioles and arteriovenous anastomoses." "TAO:0005251 MESH:D055806 ZFA:0005251" "The morphogenetic process in which the foregut region specified to become the pancreas forms a bud." "The directed movement of a protein to a specific location in a postsynaptic membrane." "A component of a cell contained within (but not including) the plasma membrane. In eukaryotes it includes the nucleus and cytoplasm." "Wikipedia:Intracellular" - "A cell of the middle germ layer of the embryo." "FMA:72554" + "A cell of the middle germ layer of the embryo." "ZFA:0009138 FMA:72554" "An orbitosphenoid endochondral element that is composed primarily of a pre-cartilage condensation." "EHDAA2:0003449" "The change in morphology and behavior of a eosinophil resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor." @@ -312,7 +312,6 @@ "A large, progesterone secreting cell in the corpus luteum that develops from the granulosa cells." "FMA:18689" "A fallopian tube that is part of a left side of organism [Automatically generated definition]." "UMLS:C0227902 MA:0001716 NCIT:C32959 SCTID:280107002 FMA:18484 EMAPA:37368" "A type II NK T cell that has been recently activated, secretes interferon-gamma, and has the phenotype CD69-positive and downregulated NK markers." - "The directed movement of a pole cell (germline progenitors in insects) from its site of production at the posterior pole of the embryo through to the site where the gonads will form." "Any process that modulates the frequency, rate or extent of action potential creation, propagation or termination in a cardiac muscle cell contributing to the regulation of its contraction." "Blood vessel formation in the heart when new vessels emerge from the proliferation of pre-existing blood vessels." "Immune response taking place in the Peyer's patch, nodular lymphoid structures on the serosal surface of the small intestine." @@ -325,6 +324,7 @@ "The multiplication or reproduction of cells, resulting in the expansion of the population in the embryonic placenta." "Any melanocyte of skin that is part of a skin of face." "Any process that modulates the frequency, rate or extent of basidiospore formation, a process in which a sexually produced fungal spore is formed on a basidium in the fungi Basidiomycetes." + "Any process that activates or increases the frequency, rate or extent of neutrophil activation." "The process in which a naive B cell acquires the specialized features of a mature or memory B cell during an immune response." "The self-renewing division of a stem cell. A stem cell is an undifferentiated cell, in the embryo or adult, that can undergo unlimited division and give rise to one or several different cell types." @@ -341,7 +341,7 @@ "An endothelial transcription factor GATA-2 that is encoded in the genome of mouse." "UniProtKB:O09100" "Any process that activates, maintains or increases the frequency, rate or extent of frequency, rate or extent of basidiospore formation, a process in which a sexually produced fungal spore is formed on a basidium in the fungi basidiomycetes." "OBSOLETE. A myoepithelial cell that is part of the mammary gland." - "An array of photoreceptors and any supporting cells found in an eye." + "An array of photoreceptors and any supporting cells found in an eye." "FBbt:00004200" "A gland that is located in or around the ocular region, nearer the outer canthi." "Formation of myofibrils, the repeating units of striated muscle." "An ecto-epithelial cell of the gingival region of the viscerocranial mucosa." "FMA:70579" @@ -387,7 +387,7 @@ "The chemical reactions and pathways resulting in the formation of ketones, a class of organic compounds that contain the carbonyl group, CO, and in which the carbonyl group is bonded only to carbon atoms. The general formula for a ketone is RCOR, where R and R are alkyl or aryl groups." "Any process that modulates the frequency, rate or extent of glial cell migration." "A fallopian tube that is part of a right side of organism [Automatically generated definition]." "NCIT:C33475 FMA:18483 SCTID:280106006 MA:0001717 EMAPA:37369 UMLS:C0227900" - + "ZFA:0000084" "Any process that modulates the frequency, rate or extent of macrophage migration." "Enables the directed movement of lipids into, out of or within a cell, or between cells." "Reactome:R-HSA-5683714 Reactome:R-HSA-6801250 Reactome:R-HSA-5682311 Reactome:R-HSA-5688397 Reactome:R-HSA-1369028 Reactome:R-HSA-5683672 Reactome:R-HSA-8866329 Reactome:R-HSA-1369052 Reactome:R-HSA-8848053 Reactome:R-HSA-174786 Reactome:R-HSA-5682285" "A smooth muscle cell that is part of the cecum." "FMA:15681" @@ -405,7 +405,6 @@ "A retractable double-layered fold of skin and mucous membrane that covers the glans penis or clitoris. Glands may also be present." "NCIT:C12323" "An epithelium that is part of a shoulder [Automatically generated definition]." "EMAPA:17422 EHDAA:4182 VHOG:0000761 EHDAA:6230 EHDAA2:0001835" "The process whose specific outcome is the progression of the optic nerve over time, from its formation to the mature structure. The sensory optic nerve originates from the bipolar cells of the retina and conducts visual information to the brainstem. The optic nerve exits the back of the eye in the orbit, enters the optic canal, and enters the central nervous system at the optic chiasm (crossing) where the nerve fibers become the optic tract just prior to entering the hindbrain." - "A CD8-positive, alpha-beta T cell that has the phenotype CXCR3-negative, CCR6-positive, CCR5-high, CD45RA-negative, and capable of producing IL-17 and some IFNg." "A lumican that is encoded in the genome of mouse." "UniProtKB:P51885" "The lipid bilayer surrounding any of the compartments of the Golgi apparatus." @@ -421,7 +420,6 @@ "A nerve root that is part of a accessory XI nerve." "BIRNLEX:1580 DHBA:12883 neuronames:703 DMBA:17749 Wikipedia:Cranial_root_of_accessory_nerves BAMS:c11n SCTID:280187004" "Catalysis of a biochemical reaction at physiological temperatures in which one of the substrates is a glycoprotein." "Cell of the nasopharyngeal epithelium." "CALOHA:TS-2398" - "Part of the hippocampal formation that is bounded by the entorhinal cortex and area CA1. It is characterized on the CA1 border by an abrupt widening of the pyramidal cell layer. A molecular layer is present that is continuous with that of CA1, although the stratum radiatum is no longer present. The stratum oriens is also not present. adapted from Paxinos, G. The rat central nervous system, 2nd ed, Academic Press, San Diego, 1995, pg. 468)." "Wikipedia:Subiculum FMA:74414 UMLS:C0152316 SCTID:369097009 neuronames:188 NCIT:C33648 PBA:128012354 BAMS:SUB BAMS:S BM:Tel-Cx-SB MBA:502 MA:0000960 PBA:10054 BIRNLEX:1305 BTO:0003087 DHBA:10302 DMBA:16163 HBA:12896 DHBA:10301 EMAPA:35832" "The process in which a relatively unspecialized cell acquires specialized features of a neuromast support cell. Support cells are non-sensory cells of the neuromast that extend between the sensory hair cells from the basement membrane to the apical surface; they are surrounded by mantle cells." "A thymocyte that has a T cell receptor consisting of a gamma chain containing Vgamma2 segment, and a delta chain. This cell type is CD4-negative, CD8-negative and CD24-negative." @@ -431,6 +429,7 @@ "Any process that stops, prevents or reduces the frequency, rate or extent of T cell costimulation." "A protein that is a translation product of the mouse Cd209b gene or a 1:1 ortholog thereof." "A bone marrow proteoglycan isoform 1 that is encoded in the genome of human." "UniProtKB:P13727-1" + "Any epithelial cell that is part of some mesonephric nephron tubule." "The behavior of an organism in response to an odor." "A pia mater that is part of a hindbrain [Automatically generated definition]." "EMAPA:17786 EHDAA2:0000772 VHOG:0000466 MA:0000990" "The segment of the rib that connects to a vertebra[MP]. a small part of the rib composed of the head, neck, tuberculum and a short proximal part of the body[PMID]." "MA:0001400 EMAPA:37495" @@ -445,7 +444,7 @@ "Mesenteric artery that supplies the whole length of the small intestine except the superior part of the duodenum. It also supplies the cecum and the ascending part of the colon and about half the transverse part of the colon. It arises from the anterior surface of the aorta below the celiac artery at the level of the first lumbar vertebra." "EHDAA2:0001949 Wikipedia:Superior_mesenteric_artery GAID:502 EMAPA:18619 SCTID:362048004 BTO:0002303 UMLS:C0162861 VHOG:0000754 NCIT:C33685 EHDAA:5313 MA:0002005 MESH:D017538 FMA:14749 galen:SuperiorMesentericArtery EHDAA:3358" "The skull can be divided into two: the neurocranium and the facial skeleton." "FMA:54964" "A metanephric glomerular visceral epithelial cell is a specialized epithelial cell that contains 'feet' that interdigitate with the 'feet' of other glomerular epithelial cells in the metanephros[GO]." - "Orifice at the opposite end of an animal's digestive tract from the mouth. Its function is to expel feces, unwanted semi-solid matter produced during digestion, which, depending on the type of animal, may be one or more of: matter which the animal cannot digest, such as bones; food material after all the nutrients have been extracted, for example cellulose or lignin; ingested matter which would be toxic if it remained in the digestive tract; and dead or excess gut bacteria and other endosymbionts." "TADS:0000066 TGMA:0001279 FMA:15711 BTO:0001680 EV:0100082 WBbt:0005364 SCTID:181262009 UMLS:C0003461 galen:Anus GAID:312 Wikipedia:Anus MA:0000331 CALOHA:TS-2005 NCIT:C43362" + "Orifice at the opposite end of an animal's digestive tract from the mouth. Its function is to expel feces, unwanted semi-solid matter produced during digestion, which, depending on the type of animal, may be one or more of: matter which the animal cannot digest, such as bones; food material after all the nutrients have been extracted, for example cellulose or lignin; ingested matter which would be toxic if it remained in the digestive tract; and dead or excess gut bacteria and other endosymbionts." "TADS:0000066 TGMA:0001279 FMA:15711 BTO:0001680 EV:0100082 WBbt:0005364 SCTID:181262009 UMLS:C0003461 galen:Anus GAID:312 Wikipedia:Anus MA:0000331 CALOHA:TS-2005 NCIT:C43362 FBbt:00047153" "Any process that modulates the frequency, rate or extent of the formation and development of a tooth or teeth." "A knoblike tooth primordium that develops into the mature tooth and consists of enamel organ, dental papilla, and dental sac enclosing them." "MESH:D014083 FMA:306006 BTO:0001838 SCTID:53301001 NCIT:C34313 UMLS:C0040442" "Any process that activates or increases the frequency, rate or extent of pigment cell differentiation." @@ -480,7 +479,7 @@ "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an acetylcholine stimulus." "Any process that modulates the frequency, rate or extent of hemocyte differentiation." "A secretory cell of ectodermal origin. This cell may have important functions in fatty acid and hydrocarbon metabolism and is metabolically linked to the fat body and tracheae. This cell is exclusive of arthropods." "FBbt:00004995" - "The lobar bronchus is the major airway within the respiratory tree that starts by division of the principal bronchi on both sides and ends at the point of its own subdivision into tertiary or segmental bronchi[GO]." "SCTID:245509008 Wikipedia:Secondary_bronchus MA:0000437 EHDAA:8213 NCIT:C32998 EHDAA:8187 EMAPA:32696 UMLS:C0225653 EHDAA:8203 EHDAA:4993 FMA:7406 EHDAA:4977 EHDAA:4985 EHDAA:4955 EHDAA:4963 EHDAA:8175 EHDAA:8225" + "The lobar bronchus is the major airway within the respiratory tree that starts by division of the principal bronchi on both sides and ends at the point of its own subdivision into tertiary or segmental bronchi[GO]." "SCTID:245509008 Wikipedia:Secondary_bronchus MA:0000437 EHDAA:8213 NCIT:C32998 EHDAA:8187 EMAPA:32696 UMLS:C0225653 EHDAA:8203 EHDAA:4993 FMA:7406 EHDAA:4977 EHDAA:4985 EHDAA:4955 EHDAA:4963 EHDAA:8225 EHDAA:8175" "A protein that is encoded in the genome of Mus musculus." "Any process that activates or increases the frequency, rate or extent of CD8-positive, alpha-beta T cell differentiation." "Any process that stops, prevents, or reduces the frequency, rate, or extent of interleukin-2 production." @@ -518,7 +517,7 @@ "Any process that activates or increases the frequency, rate or extent of cell migration." "Any process that modulates the frequency, rate, or extent of tissue remodeling." "The metacarpophalangeal joints (MCP) are of the condyloid kind, formed by the reception of the rounded heads of the metacarpal bones into shallow cavities on the proximal ends of the first phalanges, with the exception of that of the thumb, which presents more of the characters of a ginglymoid joint. Arthritis of the MCP is a distinguishing feature of Rheumatoid Arthritis, as opposed to the distal interphalangeal joint in osteoarthritis. [WP,unvetted]." "SCTID:280995004 EMAPA:19302 FMA:35246 MESH:D008662 GAID:255 galen:MetacarpoPhalangealJoint Wikipedia:Metacarpophalangeal_joint NCIT:C33106 UMLS:C0025525 SCTID:370651001 MA:0000453" - "A specialized mononuclear osteoclast associated with the absorption and removal of bone, precursor of multinuclear osteoclasts." + "A specialized mononuclear osteoclast associated with the absorption and removal of bone, precursor of multinuclear osteoclasts." "ZFA:0009329" "The part of the circulatory system that lies within the subcutaneous tissue layers close to the surface of the skin." "FMA:225275" "The superficial gray matter of the cerebellum. It consists of three main layers, the molecular layer, the Purkinje cell layer and the granule cell layer." "DHBA:10657 UMLS:C1284087 MA:0000199 CALOHA:TS-2000 BAMS:CBX BM:CB-Cbx BIRNLEX:1566 BAMS:CbCx DMBA:16939 VHOG:0001597 Wikipedia:Cerebellar_cortex EMAPA:35211 SCTID:361593004 MESH:D002525 FMA:72248 GAID:596 BAMS:CB neuronames:647 EV:0100294 HBA:4697 NCIT:C49216 MBA:528 BTO:0000043 UMLS:C0007759" "A sphenoid bone or its cartilage or pre-cartilage precursor." @@ -529,20 +528,20 @@ "The progression of a cardiac chamber over time, from its formation to the mature structure. A cardiac chamber is an enclosed cavity within the heart." "FMA:54908 SCTID:361937006 UMLS:C0225486 NCIT:C12244" "Any process that decreases the rate, frequency, or extent of the regulated release of a peptide hormone from secretory granules." - "A precursor in the monocytic series, being a cell intermediate in development between the monoblast and monocyte. This cell is CD11b-positive and has fine azurophil granules." "FMA:83551 BTO:0004657" + "A precursor in the monocytic series, being a cell intermediate in development between the monoblast and monocyte. This cell is CD11b-positive and has fine azurophil granules." "ZFA:0009253 FMA:83551 BTO:0004657" "A transitional population of migrating mesenchymal cells that derive from somites and that will become muscle cells." "EHDAA2_RETIRED:0003431 BTO:0000742 EMAPA:32841 EHDAA:1721 ZFA:0001056 TAO:0001056 EHDAA:1739 UMLS:C1513802 EHDAA:1733 FMA:295658 EHDAA:1727 AEO:0001018 NCIT:C34214 XAO:0000315 Wikipedia:Myotome AAO:0011067 VHOG:0001244 SCTID:344535001" "A polarized cell that is juxtaposed to fibrocytes in the underlying spiral ligament. This cell type secretes potassium ions derived from fibrocytes through gap junctions." "The dorsal region of the optic cup that gives rise to the dorsal part of the retina." "Anatomical cluster consisting of the hematopoietic system and the lymphoid system, or its analogs." "FMA:74562 EMAPA:18765 EHDAA2:0004615 CALOHA:TS-2018 MA:0000013" "Any process that stops, prevents, or reduces the frequency, rate or extent of protein kinase activity." - "An epithelial cell that has its apical plasma membrane folded into microvilli to provide ample surface for the absorption of nutrients from the intestinal lumen." "BTO:0000398 MESH:D020895 FMA:62122" + "An epithelial cell that has its apical plasma membrane folded into microvilli to provide ample surface for the absorption of nutrients from the intestinal lumen." "ZFA:0009269 BTO:0000398 MESH:D020895 FMA:62122" "An integrin alpha-IIb that is encoded in the genome of human." "UniProtKB:P08514" "The directed movement of iron ions from outside of a cell into the cytoplasmic compartment. This may occur via transport across the plasma membrane or via endocytosis." "Any process that stops, prevents or reduces the frequency, rate or extent of pronephric nephron tubule development." "A mature natural killer cell that has the phenotype CD56-low, CD16-positive and which is capable of cytotoxicity and cytokine production." "A transitional myocyte that is part of the atrial branch of anterior internodal tract." "FMA:263156" "KUPO:0001009" - "Cell that is part of the migratory trunk neural crest population. Migratory trunk neural crest cells develop from premigratory trunk neural crest cells and have undergone epithelial to mesenchymal transition and delamination." + "Cell that is part of the migratory trunk neural crest population. Migratory trunk neural crest cells develop from premigratory trunk neural crest cells and have undergone epithelial to mesenchymal transition and delamination." "ZFA:0007095" "Any process that stops, prevents, or reduces the frequency, rate or extent of natural killer cell proliferation." "Mesenchyme that develops_from a neural crest and is part of a 2nd arch mesenchyme." "EHDAA2:0000068 EMAPA:16281" "Any process that activates or increases the frequency, rate or extent of mitotic nuclear envelope disassembly." @@ -581,7 +580,7 @@ "An animal opsin that is a translation product of the human OPN4 gene or a 1:1 ortholog thereof." "IUPHARobj:2758" "A glial fibrillary acidic protein that is encoded in the genome of human." "Reactome:R-HSA-9625195 UniProtKB:P14136 Reactome:R-HSA-1253311" "The orderly movement of a smooth muscle cell from one site to another, often during the development of a multicellular organism." - "A rounded cell that is usually situated next to sinusoids; secretes follicular stimulating hormone (FSH) and luteinizing hormone (LH)." "BTO:0002482 FMA:83100" + "A rounded cell that is usually situated next to sinusoids; secretes follicular stimulating hormone (FSH) and luteinizing hormone (LH)." "ZFA:0009202 BTO:0002482 FMA:83100" "The process in which the anatomical structure of the vestibulocochlear nerve is generated and organized. This sensory nerve innervates the membranous labyrinth of the inner ear. The vestibular branch innervates the vestibular apparatus that senses head position changes relative to gravity. The auditory branch innervates the cochlear duct, which is connected to the three bony ossicles which transduce sound waves into fluid movement in the cochlea." "Any process that activates or increases the frequency, rate, or extent of interleukin-13 production." "Any process that activates or increases the frequency, rate or extent of the controlled release of bile acid from a cell or a tissue." @@ -599,10 +598,10 @@ "Any process that modulates the frequency, rate or extent of excitatory postsynaptic potential (EPSP). EPSP is a process that leads to a temporary increase in postsynaptic potential due to the flow of positively charged ions into the postsynaptic cell. The flow of ions that causes an EPSP is an excitatory postsynaptic current (EPSC) and makes it easier for the neuron to fire an action potential." "The stage of development at which the animal is fully formed, including immaturity and maturity. Includes both sexually immature stage, and adult stage." "WBls:0000041 XtroDO:0000084 EFO:0001272 BTO:0001043 BilaDO:0000004 FBdv:00005369" "A portion of smooth muscle tissue that is part of a digestive system [Automatically generated definition]." "EMAPA:35117 MA:0001523" - "b is a generically dependent continuant = Def. b is a continuant that g-depends_on one or more other entities. (axiom label in BFO2 Reference: [074-001])"@en + "A DNA-binding transcription factor activity that represses or decreases the transcription of specific gene sets." "GC_ID:1" - "A lymphoid progenitor cell of the T cell lineage, with some lineage specific marker expression, but not yet fully committed to the T cell lineage." + "A lymphoid progenitor cell of the T cell lineage, with some lineage specific marker expression, but not yet fully committed to the T cell lineage." "ZFA:0009350" "Epithelial layer that is part of the external part of the nose." "FMA:63143" "A smooth muscle cell that is part of any lymphatic vessel." "Obsolete. Use PO:0000071 from Plant Ontology instead. A specialized parenchyma cell associated with a sieve-tube member in angiosperm phloem and arising from the same mother cell as the sieve-tube member." @@ -610,6 +609,7 @@ "The chemical reactions and pathways resulting in the breakdown of histamine, a physiologically active amine, found in plant and animal tissue and released from mast cells as part of an allergic reaction in humans." "A V(D)J recombination-activating protein 2 that is encoded in the genome of mouse." "UniProtKB:P21784" "A circumventricular organ that is capable of secreting substances into the cerebrospinal fluid." "neuronames:2857 EMAPA:35759 MA:0002943" + "An interlaminar astrocyte whose soma is part of the first layer of a neocortex and is in contact with a pia surface." "Any process that modulates the frequency, rate or extent of T-helper 1 cell cytokine production." "The process whose specific outcome is the progression of the compound eye over time, from its formation to the mature structure. The compound eye is an organ of sight that contains multiple repeating units, often arranged hexagonally. Each unit has its own lens and photoreceptor cell(s) and can generate either a single pixelated image or multiple images, per eye." "The process in which the anatomical structures of a neuron projection are generated and organized. A neuron projection is any process extending from a neural cell, such as axons or dendrites." @@ -649,6 +649,7 @@ "A rounded, mitotically active stem cell which is the source of new cells of the taste bud; located basally." "FMA:62380" "Any process that modulates the frequency, rate or extent of mesenchymal cell apoptotic process involved in metanephros development." "The directed killing of a target cell by a neutrophil." + "A DNA-binding transcription factor activity that activates or increases transcription of specific gene sets." "Any process that activates or increases the frequency, rate or extent of hemostasis." "The immediate defensive reaction (by vertebrate tissue) to infection or injury caused by chemical or physical agents. The process is characterized by local vasodilation, extravasation of plasma into intercellular spaces and accumulation of white blood cells and macrophages." "Wikipedia:Inflammation" "The primitive streak is a structure that forms during the early stages of avian, reptilian and mammalian embryonic development[WP]. the midline ridge of the embryonic epiblast that later develops into mesoderm and endoderm[MP]." "Wikipedia:Primitive_streak EMAPA:16072 UMLS:C0033153 VHOG:0001202 EHDAA2:0001525 FMA:293110 NCIT:C28402 EHDAA:185 SCTID:361438007" @@ -673,7 +674,7 @@ "The process in which neuroepithelial cells of the neural tube give rise to radial glial cells, specialized bipotential progenitors cells of the forebrain. Differentiation includes the processes involved in commitment of a cell to a specific fate." "Mesenchyme that develops_from a trunk neural crest." "ZFA:0000999 EMAPA:16182 TAO:0000999 EHDAA2:0002093" "The covalent alteration of one or more amino acids occurring in proteins, peptides and nascent polypeptides (co-translational, post-translational modifications). Includes the modification of charged tRNAs that are destined to occur in a protein (pre-translation modification)." - "One of the two jaw ridges either on the roof of the mouth between the upper teeth and the hard palate or on the bottom of the mouth behind the lower teeth[WP]. The alveolar ridges contain the sockets (alveoli) of the teeth[HP]." "SCTID:245790000 Wikipedia:Alveolar_ridge GAID:215 UMLS:C0447411 BTO:0001383 MA:0003119 EMAPA:35118 MESH:D000539 FMA:313923 NCIT:C89749" + "One of the two jaw ridges either on the roof of the mouth between the upper teeth and the hard palate or on the bottom of the mouth behind the lower teeth[WP]. The alveolar ridges contain the sockets (alveoli) of the teeth[HP]." "NCIT:C89749 SCTID:245790000 Wikipedia:Alveolar_ridge GAID:215 UMLS:C0447411 BTO:0001383 MA:0003119 EMAPA:35118 MESH:D000539 FMA:313923" "A transitional myocyte that is part of the posterior internodal tract." "FMA:263164" "A maturity quality inhering in a bearer by virtue of the bearer's indirect development, undergoing metamorphosis." "A vein that is part of a clitoris [Automatically generated definition]." "MA:0002252 SCTID:360819004 EMAPA:37201" @@ -693,8 +694,8 @@ "Any epithelial cell of viscerocranial mucosa that is part of a nasal cavity respiratory epithelium." "A dermal dendritic cell that is langerin-positive and CD103-positive." "An intestinal crypt that is located in the ileum." "FMA:269061 EMAPA:37839" - "A central nervous system macrophage found in the parenchyma of the central nervous system. Marker include CD11b-positive, F4/80-positive, and CD68-positive." "BTO:0000962 BTO:0000078 FMA:54539" - "An immature B cell of an intermediate stage between the pre-B cell stage and the mature naive stage with the phenotype surface IgM-positive and CD19-positive, and are subject to the process of B cell selection. A transitional B cell migrates from the bone marrow into the peripheral circulation, and then to the spleen." + "A central nervous system macrophage found in the parenchyma of the central nervous system. Marker include CD11b-positive, F4/80-positive, and CD68-positive." "ZFA:0009077 BTO:0000962 BTO:0000078 FMA:54539" + "An immature B cell of an intermediate stage between the pre-B cell stage and the mature naive stage with the phenotype surface IgM-positive and CD19-positive, and are subject to the process of B cell selection. A transitional B cell migrates from the bone marrow into the peripheral circulation, and then to the spleen." "ZFA:0009345" "An amicrine that has a wide dendritic field." "The series of events in which a pheromone stimulus is received by a cell and converted into a molecular signal." "KUPO:0001103" @@ -712,7 +713,7 @@ "A zone of skin that is part of a lower lip." "SCTID:281630002 FMA:24767" "An immature natural killer cell that is NK1.1-positive and DX-5 negative." "A microvillus layer that is striated and found in the intestine." "FMA:70978 NCIT:C33634" - "A non-terminally differentiated cell that originates from the neural crest and differentiates into an erythrophore." + "A non-terminally differentiated cell that originates from the neural crest and differentiates into an erythrophore." "ZFA:0005331" "Any developmental process that results in the creation of defined areas or spaces within the mesonephros to which cells respond and eventually are instructed to differentiate." "A C-C chemokine receptor type 1 that is encoded in the genome of human." "Reactome:R-HSA-373107 DTO:02100053 UniProtKB:P32246" "An axon tract that is part of a spinal cord." "UMLS:C1519456 NCIT:C12995 FMA:75683" @@ -730,7 +731,6 @@ "Any process that increases the frequency, rate or extent of insulin receptor signaling." "A bone that is part of a thorax [Automatically generated definition]." "MA:0000559 SCTID:426649006 EMAPA:37247" "A retinal ganglion cell that has dendrites stratified in two layers of the inner-plexiform layer." - "EFO:0003439 TAO:0000568 AAO:0000468 ZFA:0000568" "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an electrical stimulus." "A developmental process, independent of morphogenetic (shape) change, that is required for a hair follicle to attain its fully functional state." @@ -746,15 +746,13 @@ "A CD38-negative IgG memory B cell is a IgG-positive class switched memory B cell that has class switched and expresses IgG on the cell surface with the phenotype CD38-negative, IgD-negative, and IgG-positive." "Small bodies containing chromaffin cells occurring outside of the adrenal medulla, most commonly near the sympathetic ganglia and in organs such as the kidney, liver, heart and gonads." "NCIT:C94826 CALOHA:TS-2358 MESH:D010233 UMLS:C0030419" "Any process that activates or increases the frequency, rate or extent of T-helper 1 cell activation." - "A trophoblast giant cell derived from the mural trophectoderm." "EMAPA:16066" "Collections of neurons in the central nervous system that have been demonstrated by histochemical fluorescence to contain the neurotransmitter norepinephrine (noradrenalin)." "Binding to a sequence-specific DNA binding RNA polymerase II transcription factor, any of the factors that interact selectively and non-covalently with a specific DNA sequence in order to modulate transcription." - "MESH:D032386" "Any process that modulates the frequency, rate or extent of mesenchymal cell proliferation that contributes to the progression of the prostate gland over time. A mesenchymal cell is a cell that normally gives rise to other cells that are organized as three-dimensional masses, rather than sheets." "A group 3 innate lymphoid cell that express ROR gamma t and IL-7R alpha in the absence of lineage markers (e.g. CD3, CD19, B220, CD11c, Gr-1), with the functional ability to interact with mesenchymal cells through lymphotoxin and tumor necrosis factor. Lymphoid tissue-inducer cells are key to the development of lymph nodes and Peyer’s patches." - "A female germ cell that has entered meiosis." "FBbt:00004886 WBbt:0006797 MESH:D009865 FMA:18644 BTO:0000964 CALOHA:TS-0711" + "A female germ cell that has entered meiosis." "ZFA:0001109 FBbt:00004886 WBbt:0006797 MESH:D009865 FMA:18644 BTO:0000964 CALOHA:TS-0711" "KUPO:0001005" "Any process that activates or increases the frequency, rate or extent of corticosteroid hormone secretion." "OBSOLETE. A cell of an organism that does not pass on its genetic material to the organism's offspring (i.e. a non-germ line cell)." "FMA:72300 BTO:0001268 WBbt:0008378" @@ -763,7 +761,7 @@ "A small pre-B-II cell is a pre-B-II cell that is Rag1-positive, Rag2-positive, pre-BCR-negative, and BCR-negative, is not proliferating, and carries a DNA rearrangement of one or more immunoglobulin light chain genes." "An elastic tissue that is part of a circulatory system [Automatically generated definition]." "MA:0002857" "The process in which relatively unspecialized cells acquires specialized structural and functions of a neuroendocrine cell of the prostate gland acinus." - + "ZFA:0009157" "Any process that mediates the transfer of information from one cell to another and contributes to the progression of the kidney over time, from its formation to the mature organ." "Any process that modulates the frequency, rate or extent of glycoprotein metabolic process." "A F4/80-negative dendritic cell located in adipose tissue." @@ -779,7 +777,6 @@ "A depression or hollow in a bone[WP]." "AAO:0010439 VSAO:0005069 FMA:45791 ZFA:0005388 UMLS:C0836913 TAO:0001743 Wikipedia:Fossa#Anatomy" "Any process that stops, prevents, or reduces the frequency, rate or extent of eosinophil differentiation." "The process whose specific outcome is the progression of the midgut over time, from its formation to the mature structure. The midgut is the middle part of the alimentary canal from the stomach, or entrance of the bile duct, to, or including, the large intestine." - "A subdivision of the head that has as parts the layers deep to the surface of the anterior surface, including the mouth, eyes, and nose (when present). In vertebrates, this includes the facial skeleton and structures superficial to the facial skeleton (cheeks, mouth, eyeballs, skin of face, etc)." "MESH:D005145 UMLS:C0015450 EMAPA:32763 SCTID:302549007 NCIT:C13071 MA:0002473 HAO:0000316 CALOHA:TS-2216 Wikipedia:Face GAID:64 galen:Face BTO:0003369 FMA:24728" "A T cell receptor complex in which the TCR heterodimer comprises alpha and beta chains, associated with the CD3 complex; recognizes a complex consisting of an antigen-derived peptide bound to a class I or class II MHC protein." @@ -801,12 +798,12 @@ "Any process that modulates the frequency, rate or extent of extracellular vesicular exosome assembly." "The chemical reactions and pathways resulting in the formation of glycosaminoglycans, any of a group of polysaccharides that contain amino sugars." "Any process that modulates the frequency, rate or extent of compound eye photoreceptor cell differentiation." - "A muscle cell that can develop high tension rapidly. It is usually innervated by a single alpha neuron." + "A muscle cell that can develop high tension rapidly. It is usually innervated by a single alpha neuron." "ZFA:0009117" "Skeletal subdivision that undergoes direct development and includes elements that either develop in association with the basement membrane of the ectoderm or are homologous with such elements; includes dermatocranium, components of the appendicular skeleton, teeth and tooth-like elements of the oropharynx, and integumentary elements." "XAO:0004025 VSAO:0000035" "ZFA:0001053 TAO:0001053 EFO:0003612" "A long, thin cell projection that contains F-actin and tubulin, with microtubules centrally located and F-actin peripherally located." "Wikipedia:Membrane_nanotube" "The dorsal roots contain afferent sensory axons. The dorsal roots of each side continue outwards, along the way forming a dorsal root ganglion (also called a spinal ganglion)." "Wikipedia:Posterior_root_of_spinal_nerve NLXANAT:20090208 NCIT:C32477 TAO:0000652 SCTID:362436008 UMLS:C0205955 FMA:5980 ZFA:0000652 neuronames:1661 BTO:0000360 BAMS:drt" - "The invaginated serous membrane that surrounds the lungs (the visceral portion) and lines the walls of the pleural cavity (parietal portion)." "CALOHA:TS-2081 MESH:D010994 SCTID:181609007 FMA:9583 Wikipedia:Pleura UMLS:C0032225 VHOG:0000394 GAID:360 EFO:0001980 MA:0000433 NCIT:C12469 EV:0100044 BTO:0001791" + "The invaginated serous membrane that surrounds the lungs (the visceral portion) and lines the walls of the pleural cavity (parietal portion)." "BTO:0001791 CALOHA:TS-2081 MESH:D010994 SCTID:181609007 FMA:9583 Wikipedia:Pleura UMLS:C0032225 VHOG:0000394 GAID:360 EFO:0001980 MA:0000433 NCIT:C12469 EV:0100044" "The process whose specific outcome is the progression of an inner ear receptor cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a specific fate." "A type II vestibular sensory cell that is part of the epithelium of crista of ampulla of semicircular duct of membranous labyrinth." "FMA:263200" "A promyelocyte with a nucleus that is indented and contains more marginated heterochromatin compared to its precursor cell (myeloblast); cytoplasm is deeply basophilic and contains numerous mitochondria and meandering cysternae of endoplasmic reticulum; largest of the granulocyte lineages." "FMA:83533" @@ -865,6 +862,7 @@ "A CD4-positive, CD25-positive, alpha-beta regulatory T cell with the additional phenotype CCR4-positive." "A urothelial cell that is part of the regenerative layer(s) of cells directly superficial to basal cells in urothelium. The layer of intermediate cells in the urothelium ranges from one to several layers thick depending on the species with intermediate cells attached to adjacent cell layers and one another via desmosomes." "FMA:84155" "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a L-glutamate(1-) stimulus." + "Any secretory cell that is capable of some mucus secretion." "ZFA:0009159 BTO:0003689" "Any process that activates or increases the frequency, rate, or extent of B cell tolerance induction." "Any process that modulates the rate, frequency, or extent of the production of a cytokine that contributes to the immune response." "A skin of body that is part of an abdominal segment of trunk [Automatically generated definition]." "FMA:264898 MA:0000530 EMAPA:37063" @@ -874,7 +872,7 @@ "Any process that modulates the frequency, rate or extent of action potential creation, propagation or termination in a cardiac muscle cell. This typically occurs via modulation of the activity or expression of voltage-gated ion channels." "Any microtubule in the nucleus of a cell." "A protein with core architecture consisting of a Lysosome-associated membrane glycoprotein (Pfam:PF01299) domain. It is a single-pass type I membrane protein that shuttles between lysosomes, endosomes, and the plasma membrane." "PIRSF:PIRSF002462" - "A neuron that release noradrenaline (noriphinephrine) as a neurotransmitter." + "A neuron that release noradrenaline (noriphinephrine) as a neurotransmitter." "ZFA:0005873" "Single layer of a laminar structure, identified by different density, arrangement or size of cells and processes arranged in flattened layers or lamina[CUMBO]." "NLX:149357" "A principle subdivision of an organism that includes all structures along the primary axis, typically the anterior-posterior axis, from head to tail, including structures of the body proper where present (for example, ribs), but excluding appendages." "A furrow or an incomplete tube." "EHDAA2_RETIRED:0003161 AEO:0000161" @@ -911,15 +909,17 @@ "A layer of membrane around a tendon. It has 2 layers: synovial sheath + fibrous tendon sheath." "NCIT:C96299 Wikipedia:Tendon_sheath FMA:45087 UMLS:C0224856 BTO:0000051 SCTID:361885006 FMA:76715" "A capillary that is part of a small intestine." "A membranous sac in animals that serves as the receptacle of a liquid or contains gas." "BTO:0000123" + "Embryonic structure that develops into pancreatic bud." "FMA:79792 ZFA:0000254 EFO:0003434 EHDAA2:0001382 EHDAA:2163 EFO:0002579 TAO:0000254 EMAPA:17066 XAO:0001101" "Cranial neural crest that migrates into the hyoid arch." "XAO:0000025 TAO:0007065 ZFA:0007065" "Any process that stops, prevents, or reduces the frequency, rate or extent of striated muscle contraction." "A tube in the kidney that collect and transport urine." "TAO:0005289 ZFA:0005289" + "A blood that is part of a capillary." "NCIT:C32212 FMA:263901" "Regional part of fornix consisting of a thin layer of white matter on the surface of the hippocampal formation, bordering the wall of the lateral ventricle and composed of white, myelinated fibers. The alveus arises from cell bodies in the subiculum and hippocampus, and eventually merges with the fimbria of the hippocampus. The fimbria goes on to become the fornix (MM: 2006-10-26)." "neuronames:186 BAMS:Alv FMA:83867 BAMS:alv DHBA:10570 BIRNLEX:1510 HBA:9234 UMLS:C0228247 NCIT:C32058 SCTID:369094002 MBA:466" "Structure derived from foregut that becomes a lung[GO]." "BTO:0001643 NCIT:C34282 EHDAA2:0004089 UMLS:C1514420 SCTID:361427007 NCIT:C34260 UMLS:C1514897 Wikipedia:Respiratory_bud" - "A cardiac atrium that is in the left side of the heart. It receives oxygenated blood from the pulmonary veins, In mammals this is pumped into the left ventricle, via the Mitral valve." "VHOG:0000369 MA:0000074 XAO:0003191 Wikipedia:Left_atrium EMAPA:17315 EHDAA2:0000275 UMLS:C0225860 AAO:0010247 FMA:7097 BTO:0001702 galen:LeftAtrium NCIT:C12869 SCTID:244387002" + "A cardiac atrium that is in the left side of the heart. It receives oxygenated blood from the pulmonary veins, In mammals this is pumped into the left ventricle, via the Mitral valve." "VHOG:0000369 MA:0000074 XAO:0003191 EMAPA:17315 Wikipedia:Left_atrium EHDAA2:0000275 UMLS:C0225860 AAO:0010247 FMA:7097 BTO:0001702 galen:LeftAtrium NCIT:C12869 SCTID:244387002" "Any process that stops, prevents, or reduces the frequency, rate or extent of developmental growth." "An intestinal stem cell that is located in the large intestine crypt of Liberkuhn. These stem cells reside at the bottom of crypts in the large intestine and are highly proliferative. They either differentiate into transit amplifying cells or self-renew to form new stem cells." "The connective tissue bundles in the extracellular matrix of tendon tissue that are composed of collagen, and play a role in tissue strength and elasticity." @@ -930,12 +930,11 @@ "Any process that modulates the frequency, rate or extent of cell proliferation involved in outflow tract morphogenesis." "Any muscle that is part of the cervical (neck) region." "UMLS:C0027532 GAID:149 MA:0000587 MESH:D009334 NCIT:C33163 FMA:9617" "Smooth muscle tissue in all or part of a hepatic duct." "MA:0001640 EMAPA:37598" - "A blood vessel endothelial cell that is part of an arterial endothelium." "KUPO:0001095 BTO:0004758 FMA:67761" - "A neuron that releases serotonin as a neurotransmitter." "FBbt:00005133 WBbt:0006837 MESH:D059326" + "A neuron that releases serotonin as a neurotransmitter." "ZFA:0009361 FBbt:00005133 WBbt:0006837 MESH:D059326" "The process whose specific outcome is the progression of an open tracheal system over time, from its formation to the mature structure. An open tracheal system is a respiratory system, a branched network of epithelial tubes that supplies oxygen to target tissues via spiracles. An example of this is found in Drosophila melanogaster." "A phalanx located between proximal and distal phalanges." "Wikipedia:Intermediate_phalanges EMAPA:35572 MA:0002915 AAO:0010677 SCTID:299710007" - "Ghrelin secreting cells found in the endocrine pancreas." + "Ghrelin secreting cells found in the endocrine pancreas." "ZFA:0005598" "A white matter that is part of a medulla oblongata." "BAMS:mw BIRNLEX:1024 FMA:83944 BIRNLEX:1414 neuronames:778" "The process that gives rise to the locus ceruleus. This process pertains to the initial formation of a structure from unspecified parts. In mice, the locus ceruleus is a dense cluster of neurons within the dorsorostral pons. This nucleus is the major location of neurons that release norepinephrine throughout the brain, and is responsible for physiological responses to stress and panic." "Any process that modulates the frequency, rate or extent of plasma membrane organization." @@ -979,6 +978,7 @@ "A striated muscle tissue that is associated with soft internal organs (viscera)." "Any process that activates or increases the frequency, rate or extent of CD4-positive, alpha-beta T cell proliferation." "The regulated release of parathyroid hormone into the circulatory system." + "Any neuron that is capable of part of some visual perception." "An organism containing a developing embryo, fetus, or unborn offspring within the body." "BTO:0004733" "Any process that increases the rate, frequency or extent of extracellular matrix disassembly. Extracellular matrix disassembly is a process that results in the breakdown of the extracellular matrix." "The process in which anatomical structures of the oviduct are generated and organized. An oviduct is a tube through which an ova passes from the ovary to the uterus, or from the ovary to the outside of the organism." @@ -997,12 +997,12 @@ "Any process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." "Wikipedia:Cell_signaling" "Outer serosa layer of the uterus." "UMLS:C0227824 EMAPA:37792 MA:0001729 NCIT:C33298 FMA:17744 Wikipedia:Perimetrium SCTID:253705006" "A nucleus of brain that is part of a preoptic area." "EV:0100226 CALOHA:TS-0822" - "An eomesodermin that is encoded in the genome of human." "UniProtKB:O95936" + "An eomesodermin that is encoded in the genome of human." "UniProtKB:O95936 Reactome:R-HSA-452232" "A vein that is part of a vas deferens [Automatically generated definition]." "MA:0002100 EMAPA:37514" "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving carbohydrate." "The process in which anatomical structures are generated and organized. Morphogenesis pertains to the creation of form." "Wikipedia:Morphogenesis" - "A cell of the sclera of the eye." + "A cell of the sclera of the eye." "ZFA:0009174" "The cell cycle process in which genetic material, in the form of chromosomes, is organized and then physically separated and apportioned to two or more sets during the meiotic cell cycle in a female." "The process whose specific outcome is the progression of the parasympathetic nervous system over time, from its formation to the mature structure. The parasympathetic nervous system is one of the two divisions of the vertebrate autonomic nervous system. Parasympathetic nerves emerge cranially as pre ganglionic fibers from oculomotor, facial, glossopharyngeal and vagus and from the sacral region of the spinal cord. Most neurons are cholinergic and responses are mediated by muscarinic receptors. The parasympathetic system innervates, for example: salivary glands, thoracic and abdominal viscera, bladder and genitalia." "A proerythoblast that is CD34-negative and GlyA-negative." @@ -1024,7 +1024,7 @@ "A tube or collection of tubes in an animal from the ovaries to the outside of the body." "UMLS:C0029954 EFO:0000974 MESH:D010057 XAO:0003052 EMAPA:18984 BTO:0000980 ZFA:0000560 TAO:0000560 VHOG:0001136 Wikipedia:Oviduct MAT:0000126 MIAA:0000126 AAO:0010533 BSA:0000083 NCIT:C77957 GAID:366" "Cell motility due to the motion of one or more eukaryotic cilia. A eukaryotic cilium is a specialized organelle that consists of a filiform extrusion of the cell surface. Each cilium is bounded by an extrusion of the cytoplasmic (plasma) membrane, and contains a regular longitudinal array of microtubules, anchored basally in a centriole." "An amacrine cell with a wide dendritic field, dendrites in S1, and post-synaptic terminals in S1." - "Gonochoristic organism that can produce male gametes." "FMA:67811 CARO:0000027 TGMA:0001838 ZFA:0000242 HAO:0000027 BILA:0000027 XAO:0003006 TAO:0000242 AAO:0010033 SCTID:362609003 WBbt:0007850" + "Gonochoristic organism that can produce male gametes." "FMA:67811 CARO:0000027 TGMA:0001838 ZFA:0000242 HAO:0000027 BILA:0000027 XAO:0003006 TAO:0000242 FBbt:00007004 AAO:0010033 SCTID:362609003 WBbt:0007850" "Combining with a pathogen-associated molecular pattern (PAMP), a structure conserved among microbial species to initiate an innate immune response." "Wikipedia:Pattern_recognition_receptor" "An asexual spore formed by Oomycetes; formed upon fertilization of an oosphere." "FAO:0000039" "Any endocardium that is part of the right ventricle of the heart." "NCIT:C102343 EHDAA2:0002188 SCTID:8911002 VHOG:0001235 FMA:9536 EMAPA:17341" @@ -1034,6 +1034,7 @@ "Any process that decreases the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of an organelle." "A goblet cell that is part of the epithelium of pancreatic duct." "FMA:263058" "The developmental process pertaining to the initial formation of the labyrinthine layer of the placenta." + "Any radial glial cell that is part of some forebrain." "A corticothalamic-projecting neuron with a soma found in cortical layer 6." "A horizontal cell with a large cell body, thick dendrites, and a large dendritic arbor." @@ -1044,21 +1045,23 @@ "Any process that increases the frequency, rate, or extent of neutrophil chemotaxis. Neutrophil chemotaxis is the directed movement of a neutrophil cell, the most numerous polymorphonuclear leukocyte found in the blood, in response to an external stimulus, usually an infection or wounding." "A shape quality inhering in a bearer by virtue of the bearer's being curled or wound (especially in concentric rings or spirals)." "A taste bud that is located on the skin of the trunk." + "Any skin fibroblast that is part of some dermis." "Any process that activates or increases the frequency, rate or extent of production of oxytocin." "An epiphysis that is part of a proximal phalanx of pes." "SCTID:280047006" "EHDAA:9540 EMAPA:18017 EHDAA2:0000577 FMA:312589" "A presumptive structure that has the potential to develop into a ganglion." + "Any connective tissue cell that is part of some annulus fibrosus disci intervertebralis." "Collection of nerve cells in the medial forebrain lying generally in front of the anterior commissure (Maryann Martone)." "MESH:D012686 DHBA:10350 EHDAA2:0004709 neuronames:259 FMA:61845 EMAPA:35763 Wikipedia:Septal_nuclei BIRNLEX:1313 UMLS:C0036687 GAID:637 BAMS:SptN HBA:13002 MA:0002978" "A lymph node that is part of a hindlimb." "FMA:44310 SCTID:361109000" "A submucosa that is part of a duodenum [Automatically generated definition]." "EMAPA:27027 EMAPA:27097 MA:0003213 EMAPA:27239 SCTID:76519004 FMA:14943" "Any process that activates or increases the frequency, rate or extent of chromosome condensation." "Any intracellular signal transduction in which the signal is passed on within the cell via calcium ions." "Wikipedia:Calcium_signaling" "A protein that is a translation product of the human IL1RL1 gene or a 1:1 ortholog thereof." "IUPHARobj:1735" - + "ZFA:0009210" "Any process that stops, prevents, or reduces the frequency, rate or extent of lymphocyte death by apoptotic process." "Any process that modulates the frequency, rate or extent of the directed movement of calcium ions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." "A nerve that is part of a lower arm [Automatically generated definition]." "EMAPA:37338 MA:0000601" - "The renal system in an anatomical system that maintains fluid balance and contributes to electrolyte balance, acid/base balance, and disposal of nitrogenous waste products." "AAO:0010257 BTO:0001244 NCIT:C12413 VHOG:0000723 MA:0000325 EHDAA:5901 EFO:0000803 UMLS:C1508753 BTO:0003092 GAID:391 MAT:0000027 Wikipedia:Excretory_system FMA:7159 ZFA:0000163 EV:0100095 BILA:0000015 EHDAA2:0001601 EMAPA:17366 MIAA:0000027 TADS:0000162 MESH:D014551 CALOHA:TS-1323 XAO:0000143 WBbt:0005736 TAO:0000163 galen:UrinaryTract SCTID:362204003" + "The renal system in an anatomical system that maintains fluid balance and contributes to electrolyte balance, acid/base balance, and disposal of nitrogenous waste products." "AAO:0010257 BTO:0001244 NCIT:C12413 VHOG:0000723 MA:0000325 EHDAA:5901 EFO:0000803 UMLS:C1508753 BTO:0003092 GAID:391 MAT:0000027 Wikipedia:Excretory_system FMA:7159 ZFA:0000163 EV:0100095 BILA:0000015 EHDAA2:0001601 EMAPA:17366 FBbt:00005056 MIAA:0000027 TADS:0000162 MESH:D014551 CALOHA:TS-1323 XAO:0000143 WBbt:0005736 TAO:0000163 galen:UrinaryTract SCTID:362204003" "A gut-associated lymphoid tissue macrophage found in tonsils." "The reproductive developmental process whose specific outcome is the progression of the vagina over time, from its formation to the mature structure." "A quality inhering in a bearer by virtue of the bearer's having a horizontal surface without a slope, tilt, or curvature." @@ -1127,10 +1130,9 @@ "Any process that modulates the frequency, rate or extent of R8 differentiation." "A mucosa that is part of a nasopharynx [Automatically generated definition]." "SCTID:361938001 FMA:54971" "The process aimed at the progression of a mesenchymal cell over time, from initial commitment of the cell to its specific fate, to the fully functional differentiated cell." - "The expansion of a dendritic cell population by cell division. A dendritic cell is a cell of hematopoietic origin, typically resident in particular tissues, specialized in the uptake, processing, and transport of antigens to lymph nodes for the purpose of stimulating an immune response via T cell activation." "A sialic acid-binding Ig-like lectin 6 that is encoded in the genome of mouse." "UniProtKB:Q920G3" - "A mechanoreceptor cell of the auditory or vestibular system that is sensitive to auditory stimuli. The accessory sensory structures are arranged so that appropriate stimuli cause movement of the hair-like projections (stereocilia and kinocilia) which relay the information centrally in the nervous system." + "A mechanoreceptor cell of the auditory or vestibular system that is sensitive to auditory stimuli. The accessory sensory structures are arranged so that appropriate stimuli cause movement of the hair-like projections (stereocilia and kinocilia) which relay the information centrally in the nervous system." "ZFA:0009121" "A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm." "The chemical reactions and pathways involving primary amino compound." "Lower lateral part of the cerebral hemisphere. (MSH)." "BIRNLEX:1160 UMLS:C1268978 GAID:635 neuronames:125 BAMS:Temporal_lobe EV:0100169 MAT:0000508 HBA:4132 Wikipedia:Temporal_lobe BTO:0001355 EMAPA:18797 MESH:D013702 CALOHA:TS-1020 UMLS:C0039485 SCTID:180921000 FMA:61825 BAMS:TL DHBA:12139 EFO:0000917 NCIT:C12353" @@ -1146,9 +1148,9 @@ "Any process that activates or increases the frequency, rate or extent of small intestine smooth muscle contraction." "An MHC class II histocompatibility antigen alpha chain DRA that is encoded in the genome of mouse." "Any process that activates or increases the frequency, rate or extent of myeloid cell differentiation." - "A nucleated blood cell involved in coagulation, typically seen in birds and other non-mammalian vertebrates." + "A nucleated blood cell involved in coagulation, typically seen in birds and other non-mammalian vertebrates." "ZFA:0009323" "An endothelial cell located in a lymph node lymphatic vessel." - + "ZFA:0009212" "Any process that decreases the frequency, rate or extent of the developmental process that results in the deposition of coloring matter in an organism." "Any process, involved in skeletal muscle contraction, that modulates the establishment or extent of the excitatory postsynaptic potential (EPSP). Excitatory postsynaptic potential (EPSP) is a temporay increase in postsynaptic potential due to the flow of positively charged ions into the postsynaptic cell. The flow of ions that causes an EPSP is an excitatory postsynaptic current (EPSC) and makes it easier for the neuron to fire an action potential." @@ -1159,9 +1161,9 @@ "The sensory nerve subdivision of the trigeminal nerve that transmits sensory information from the palate, upper teeth and gingiva, the skin between the palpebral fissure and the mouth, and from the nasal cavity and maxillary sinuses." "EHDAA2:0002087 BTO:0001378 MA:0001103 MESH:D008442 EMAPA:17799 SCTID:280211001 VHOG:0001346 AAO:0010670 Wikipedia:Maxillary_nerve GAID:836 FMA:52724" "An apical ectodermal ridge that is part of a footplate." "EMAPA:17251 EHDAA2:0000547" "Any physiological process involved in changing the position of a multicellular organism or an anatomical part of a multicellular organism." - "FBbt:00004230" "Any process that stops or decreases the rate or extent of fat cell proliferation." "Any process that stops, prevents or reduces the frequency, rate or extent of chromosome organization." + "FBbt:00004230" "A bud-like thickening in the epidermis consisting of elongated keratinocytes, which at the distal end are in touch with numerous aggregated specialized dermal fibroblasts, the dermal condensate." "EMAPA:36479" "A protein that is a translation product of the human CR2 gene or a 1:1 ortholog thereof." "PIRSF:PIRSF002484" "An integrin alpha-4 that is encoded in the genome of human." "UniProtKB:P13612" @@ -1171,14 +1173,14 @@ "An occurrent [span:Occurrent] that exists in time by occurring or happening, has temporal parts and always involves and depends on some entity." "BFO:0000003" "Any process that modulates the frequency, rate or extent of blastocyst development." "The chemical reactions and pathways resulting in the breakdown of progesterone, a steroid hormone produced in the ovary which prepares and maintains the uterus for pregnancy. Also found in plants." - + "ZFA:0009162" "FMA:18303" "PMID:11062127 PMID:29367151 PMID:9342353 GC_ID:1" "The change in morphology and behavior of a T helper 2 cell resulting from exposure to a mitogen, cytokine, chemokine, cellular ligand, or an antigen for which it is specific." "Any process that stops, prevents or reduces the frequency, rate or extent of lipoprotein transport." "Mesenchyme that is part of a developing jaw [Automatically generated definition]." "EMAPA:35454 EMAPA:32907" "Any of the muscles that are responsible for moving the scapula. In humans these are the levator scapulae, the infraspinatus muscle, the teres major, the teres minor, and the supraspinatus muscle." - "A portion of the large intestine before it becomes the rectum. In mammals, the colon is the most part of the large intestine, excluding the vermiform appendix, the rectum and the anal canal." "XAO:0000243 MA:0000335 VHOG:0000648 AAO:0010400 BTO:0000269 CALOHA:TS-0158 FMA:14543 MAT:0000526 EFO:0000361 TAO:0000706 NCIT:C12382 MESH:D003106 MAP:0000001 EMAPA:18939 UMLS:C0009368 ZFA:0000706 GAID:309 galen:Colon EV:0100079 SCTID:302508007 Wikipedia:Colon_(anatomy)" + "A portion of the large intestine before it becomes the rectum. In mammals, the colon is the most part of the large intestine, excluding the vermiform appendix, the rectum and the anal canal." "XAO:0000243 MA:0000335 VHOG:0000648 AAO:0010400 BTO:0000269 CALOHA:TS-0158 FMA:14543 MAT:0000526 EFO:0000361 TAO:0000706 NCIT:C12382 MESH:D003106 MAP:0000001 EMAPA:18939 UMLS:C0009368 ZFA:0000706 GAID:309 galen:Colon Wikipedia:Colon_(anatomy) EV:0100079 SCTID:302508007" "A forelimb bone or its cartilage or pre-cartilage precursor." "Layer of neocortex lying deep to the internal granule cell layer (layer 4) defined cytoarchitecturally by the predominance of large pyramidal cell bodies." "EMAPA:35259 NLXANAT:090811 PBA:294021878 FMA:77812 neuronames:2450 NCIT:C32653 UMLS:C1517447 MA:0000901 ABA:CTX5" "A cardiac atrium that is in the right side of the heart. It receives deoxygenated blood. In mammals, this comes from the superior and inferior vena cava and the coronary sinus, and pumps it into the right ventricle through the tricuspid valve." "UMLS:C0225844 FMA:7096 Wikipedia:Right_atrium EHDAA2:0000290 VHOG:0000328 NCIT:C12868 SCTID:244383003 EMAPA:17321 galen:RightAtrium XAO:0003192 MA:0000075 AAO:0010248 BTO:0001703" @@ -1188,7 +1190,7 @@ "A male organ involved in reproduction." "WBbt:0008423 MA:0000545" "Any process that stops, prevents or reduces the rate or extent of progression through the cell cycle." - "An organ that is capable of transducing sensory stimulus to the nervous system." "AEO:0000094 UMLS:C0935626 BSA:0000121 EHDAA:500 VHOG:0001407 BTO:0000202 NCIT:C33224 EMAPA:35955 CALOHA:TS-2043 MESH:D012679 GAID:63 EHDAA2:0001824 WBbt:0006929 HAO:0000930 SCTID:244485009 MA:0000017" + "An organ that is capable of transducing sensory stimulus to the nervous system." "AEO:0000094 UMLS:C0935626 BSA:0000121 EHDAA:500 VHOG:0001407 BTO:0000202 NCIT:C33224 EMAPA:35955 CALOHA:TS-2043 MESH:D012679 GAID:63 EHDAA2:0001824 WBbt:0006929 FBbt:00005155 HAO:0000930 SCTID:244485009 MA:0000017" "Any process that modulates the frequency, rate or extent of cell migration." "Any process that modulates the frequency, rate or extent of endothelial cell apoptotic process." "EHDAA2:0001457 ZFA:0001104 EFO:0003626 EHDAA:962 TAO:0001104" @@ -1196,7 +1198,6 @@ "Obsolete. Use PO:0000084 from Plant Ontology instead. Male gamete, part of male germ unit." "The directed movement of a B cell guided by a specific chemical concentration gradient. Movement may be towards a higher concentration (positive chemotaxis) or towards a lower concentration (negative chemotaxis)." "Any process that activates or increases the frequency, rate or extent of glia cell differentiation." - "A material entity that minimally consists of a protein." "The stage in oogenesis when the antral spaces fuse to form a single antral space. The oocyte is suspended in the cumulus oophorous and the first polar body in the perivitelline space." "Enables the transmembrane transfer of a solute by a channel that opens in response to a specific ion stimulus." @@ -1226,7 +1227,7 @@ "A transitional myocyte that is part of the atrial part of atrioventricular bundle." "FMA:263174" "A vestibular afferent neuron that makes bouton synapses to type II hair cells." - "A cell that secretes glycosaminoglycans." + "A cell that secretes glycosaminoglycans." "ZFA:0009093" "The specification and formation of the apicobasal polarity of a neuroblast cell, a progenitor of the central nervous system." "Any collection of muscles that is part of a pelvic appendage." "TAO:0000258 ZFA:0000258" "Binding to a fMet-Leu-Phe receptor." @@ -1234,8 +1235,7 @@ "An integrin alpha with A domain that is a translation product of the human ITGAE gene or a 1:1 ortholog thereof." "IUPHARobj:2450" "The movement of an immune cell in response to an external stimulus contributing to an inflammatory response." - "A group of axons linking two or more neuropils and having a common origin, termination[FBbt]." "NLX:147822 FMA:83847 EV:0100304 BIRNLEX:1649" - + "A group of axons linking two or more neuropils and having a common origin, termination[FBbt]." "NLX:147822 FMA:83847 FBbt:00005100 EV:0100304 BIRNLEX:1649" "Any process that modulates the frequency, rate, or extent of T cell mediated immunity." "A portion of connective tissue that is part of a thorax [Automatically generated definition]." "MA:0000560 EMAPA:37253" "The region of the hepatic acinus that is closest to the arterial blood supply and has the highest oxygen concentration. Zone 1 is located in the periportal region of the liver lobule, closest to the portal triad. Hepatocytes in this region are primarily involved in oxidative energy metabolism." @@ -1249,12 +1249,13 @@ "A type of interneuron in the retinal inner nuclear layer which\ncarries information from the inner plexiform layer and the outer\nplexiform layer, using dopamine." "Any process that activates or increases the frequency, rate or extent of tongue muscle cell differentiation." "The process whose specific outcome is the progression of a type B pancreatic cell over time, from its formation to the mature structure. A type B pancreatic cell is a cell located towards center of the islets of Langerhans that secretes insulin." - + "FBbt:00005157" "Epithelial cell of the descending thin limb of the long loop (juxtamedullary) nephron that spans the outer medulla (inner stripe). It is known in some mammalian species that the long descending limb of the loop of Henle in the outer medulla selectively expresses the secreted activin-antagonist protein follistatin (Fst), the GPI-linked adhesion protein Cdh13, and the protein kinase Stk32a." "Any process that modulates the frequency, rate, or extent of interferon-gamma production. Interferon-gamma is also known as type II interferon." "Any process that activates or increases the frequency, rate or extent of optic nerve formation." "GC_ID:1" "A protein that is a translation product of the human EPX gene or a 1:1 ortholog thereof." + "Any renal intercalated cell that is part of some cortical collecting duct." "KUPO:0001131" "The corpus striatum (striated body) is a compound structure consisting of the caudate nucleus and the lentiform nucleus, which consists of the putamen and the globus pallidus[WP]." "MESH:D003342 SCTID:279318005 UMLS:C0010097 BTO:0001311 EHDAA2:0000596 Wikipedia:Corpus_striatum EV:0100184 BAMS:CSTR EMAPA:17549 neuronames:2339 GAID:667 VHOG:0001175 FMA:77616 EFO:0000381 CALOHA:TS-0183 NCIT:C12448" "The supporting bundles of muscular fibers lining the walls of the atrial myocardium." "EMAPA:37432 ZFA:0005810" "Any process that activates, maintains or increases the frequency, rate or extent of the directed movement of amino acids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." @@ -1289,7 +1290,7 @@ "Binding to ammonium ions (NH4+)." "The process whose specific outcome is the progression of the paramesonephric duct over time, from its formation to the mature structure. Mullerian ducts (or paramesonephric ducts) are paired ducts of the embryo that run down the lateral sides of the urogenital ridge and terminate at the mullerian eminence in the primitive urogenital sinus. In the female, they will develop to form the fallopian tubes, uterus, cervix, and the upper portion of the vagina; in the male, they are lost. These ducts are made of tissue of mesodermal origin." "The multi-layer basement membrane between the dermis and epidermis that serves to adhere the dermis and epidermis, provide mechanical support for the epidermis, and forms a barrier to cells and large molecules across the junction." "FMA:70963 NCIT:C62356 EMAPA:37866 SCTID:51025007" - "An olfactory receptor cell in which the apical ending of the dendrite is a knob that bears numerous microvilli." + "An olfactory receptor cell in which the apical ending of the dendrite is a knob that bears numerous microvilli." "ZFA:0009359" "A transparent, semigelatinous substance that fills the cavity behind the crystalline lens of the eye and in front of the retina." "ENVO:02000032 MA:0001286 ZFA:0005561 FMA:58822 NCIT:C13323 EV:0100344 VHOG:0000795 BTO:0001451 EMAPA:17837 UMLS:C0229096 Wikipedia:Vitreous_humour CALOHA:TS-0308" "Deepest layer of olfactory cortex." "NLX:152611" "Any process that contributes to cytokine production by a myeloid dendritic cell." @@ -1309,7 +1310,7 @@ "The group of neuron cell bodies associated with the ninth cranial nerve." "VHOG:0000702 ZFA:0001301 EHDAA:2838 EHDAA2:0000710 MA:0001077 SCTID:244451008 EMAPA:16795 FMA:53471 TAO:0001301" "The initial segment of a cranial nerve, leaving the central nervous system." "FMA:52609 TAO:0002190 SCTID:280161004 ZFA:0001663" "An anatomical cavity that surrounded_by a colon." "SCTID:362156004 EMAPA:18945 FMA:18374" - "A cell that is found in the perisinusoidal space of the liver that is capable of multiple roles including storage of retinol, presentation of antigen to T cells (including CD1d-restricted NKT cells), and upon activation, production of extracellular matrix components that can contribute to liver fibrosis. This activated state has a myofibroblast-like phenotype, though it's not clear in the literature if this is terminally differentiated. This cell type comprises approximately 8-15% of total cells in the liver." "CALOHA:TS-0452 FMA:67763 BTO:0002741" + "A cell that is found in the perisinusoidal space of the liver that is capable of multiple roles including storage of retinol, presentation of antigen to T cells (including CD1d-restricted NKT cells), and upon activation, production of extracellular matrix components that can contribute to liver fibrosis. This activated state has a myofibroblast-like phenotype, though it's not clear in the literature if this is terminally differentiated. This cell type comprises approximately 8-15% of total cells in the liver." "ZFA:0009279 CALOHA:TS-0452 FMA:67763 BTO:0002741" "The distinguishing cell types of the lung alveolar tissue, including pulmonary epithelial cells (pneumocytes), alveolar capillary endothelial cells, interstitial cells (fibroblasts) and alveolar macrophages." "EMAPA:37942" "Any process that modulates the frequency, rate or extent of vasculogenesis." "Enables the transfer of bicarbonate from one side of a membrane to the other. Bicarbonate is the hydrogencarbonate ion, HCO3-." "RHEA:28695 Reactome:R-HSA-2752067" @@ -1320,7 +1321,7 @@ "The chemical reactions and pathways resulting in the breakdown of organonitrogen compound." "The section of the lymph node cortex that faces the subcapsular sinus. In human, it's characterized by specific protein markers." "Any process that stops, prevents or reduces the frequency, rate or extent of cation transmembrane transport." - "The basic cellular unit of nervous tissue. Each neuron consists of a body, an axon, and dendrites. Their purpose is to receive, conduct, and transmit impulses in the nervous system." "FBbt:00005106 BTO:0000938 WBbt:0003679 VHOG:0001483 CALOHA:TS-0683 FMA:54527" + "The basic cellular unit of nervous tissue. Each neuron consists of a body, an axon, and dendrites. Their purpose is to receive, conduct, and transmit impulses in the nervous system." "ZFA:0009248 FBbt:00005106 BTO:0000938 WBbt:0003679 VHOG:0001483 CALOHA:TS-0683 FMA:54527" "The directed movement of a lipid from outside of a cell into a cell. This may occur via transport across the plasma membrane or via endocytosis." "A trophoblast giant cell that is derived from ectoplacental cone and, later in gestation, the spongiotrophoblast." "Fibrous joint in which the articulating bones or cartilages of the vertebral column and the limbs as well as articulating ossicles, are connected by skeletal ligaments or membranes. Examples: Intervertebral syndesmosis, inferior tibiofibular joint.[FMA]." "Wikipedia:Syndesmosis MA:0001500 EMAPA:37465 FMA:7494 SCTID:89358004" @@ -1332,7 +1333,6 @@ "The process whose specific outcome is the progression of the lateral line ganglion over time, from its formation to the mature structure. The lateral line ganglion develops from cranial ectodermal placodes situated between the eye and ear and behind the ear." "A mucosa that is part of a dorsum of tongue." "FMA:74871 SCTID:245835003" "PMID:11557979 PMID:10874751 GC_ID:1" - "A process in which a protein is transported to, or maintained in, a location within a microvillus." "The enlargement or overgrowth of all or part of the heart muscle due to an increase in size of cardiac muscle cells without cell division." "Any process involved in the carrying out of an immune response by a myeloid leukocyte." @@ -1344,10 +1344,11 @@ "A portion of organism substance that is secreted by a reproductive gland." "Maternally driven process whose specific outcome is the progression of the placenta over time, from its formation to the mature structure. The placenta is an organ of metabolic interchange between fetus and mother, partly of embryonic origin and partly of maternal origin." "A cortex that is part of a hair [Automatically generated definition]." "SCTID:318832008 MA:0000156 EMAPA:35387 FMA:70934" - "A steroid hormone secreting cell that secretes estradiol." + "A steroid hormone secreting cell that secretes estradiol." "ZFA:0009110" "A protein that is a translation product of the human NTNG1 gene or a 1:1 ortholog thereof." + "Any cell that is part of some lower urinary tract." "KUPO:0001115" "An interneuron with a soma found in the hippocampus." "FMA:84777" - "A nucleated precursor of an erythrocyte that lacks hematopoietic lineage markers." "FMA:83504 CALOHA:TS-0289 MESH:D004900 BTO:0001571" + "A nucleated precursor of an erythrocyte that lacks hematopoietic lineage markers." "ZFA:0005237 FMA:83504 CALOHA:TS-0289 MESH:D004900 BTO:0001571" "Any process that stops, prevents, or reduces the rate of natural killer cell degranulation." "The process in which the structure of a heart valve is generated and organized." "The layer located below the cerebral cortex that includes the forebrain, midbrain and hindbrain." "BTO:0002858 NCIT:C98712 UMLS:C0815008 FMA:242188" @@ -1357,26 +1358,25 @@ "Any process that activates or increases the frequency, rate or extent of myofibroblast differentiation." "Any process that stops, prevents, or reduces the frequency, rate or extent of exocytosis." "Any process that stops, prevents or reduces the rate or extent of mast cell proliferation." - "A nucleated, immature erythrocyte in which the nucleus occupies a relatively smaller part of the cell than in its precursor, the basophilic erythroblast. The cytoplasm is beginning to acquire hemoglobin and thus is no longer a purely basophilic, but takes on acidophilic aspects, which becomes progressively more marked as the cell matures. The chromatin of the nucleus is arranged in coarse, deeply staining clumps. This cell is CD71-positive and lacks hematopoeitic lineage markers." "FMA:83506" + "A nucleated, immature erythrocyte in which the nucleus occupies a relatively smaller part of the cell than in its precursor, the basophilic erythroblast. The cytoplasm is beginning to acquire hemoglobin and thus is no longer a purely basophilic, but takes on acidophilic aspects, which becomes progressively more marked as the cell matures. The chromatin of the nucleus is arranged in coarse, deeply staining clumps. This cell is CD71-positive and lacks hematopoeitic lineage markers." "ZFA:0005241 FMA:83506" "The successive addition of amino acid residues to a nascent polypeptide chain during protein biosynthesis in the cytoplasm." "The blood vessels that convey blood from the glomerulocapillary network to the capillary bed of the proximal convoluted tubule." "EMAPA:28275 ZFA:0005308 FMA:77043 SCTID:29926005 MA:0002585 Wikipedia:Efferent_arteriole EMAPA:28233 TAO:0002140" "A runt-related transcription factor 1 that is encoded in the genome of mouse." "UniProtKB:Q03347" "An interneuron that is derived from the caudal ganglionic eminence." "A lamp 5 GABAergic cortical interneuron with neurogliaform morphology with a soma found in L5,6. L5,6 NGC lamp5 have deep afterhyperpolarization (AHP) but narrow action potentials (APs). Unlike other deep neurogliaform cells (which are caudal ganglionic eminence (CGE) derived), L5,6 NGC lamp5 cells are medial ganglionic eminence (MGE)-derived" - "BTO:0003689" "Synovial sac which surrounds parts of one or more tendons. Examples: synovial tendon sheath of manual digit 2, radial bursa." "Wikipedia:Synovial_sheath FMA:40878 BTO:0001823" - "An olfactory receptor cell with short cilia growing in an invagination bordered by microvilli." + "An olfactory receptor cell with short cilia growing in an invagination bordered by microvilli." "ZFA:0009360" "A hollow, muscular organ, which, by contracting rhythmically, keeps up the circulation of the blood or analogs[GO,modified]." "http://www.sciencemag.org/content/313/5795/1922/F1.large.jpg TADS:0000147" "Tube that connects the pharynx to the stomach. In mammals, the oesophagus connects the buccal cavity with the stomach. The stratified squamous non-keratinised epithelium lining the buccal cavity is continued through the pharynx down into the oesophagus. The lowest part of the oesophagus (ca. 2 cm) is lined with gastric mucosa and covered by peritoneum. The main body of the oesophagus is lined with small, simple mucous glands. Each gland opens into the lumen by a long duct which pierces the muscularis mucosae (Wilson and Washington, 1989). A sphincter is situated at the point where the oesophagus enters the stomach to prevent gastro-oesophageal reflux, i.e. to prevent acidic gastric contents from reaching stratified epithelia of the oesophagus, where they can cause inflammation and irritation (Wilson and Washington, 1989; Brown et al., 1993)." "TAO:0000204 galen:Esophagus MIAA:0000048 AAO:0000145 MESH:D004947 ANISEED:1235301 Wikipedia:Esophagus EHDAA2:0001285 EV:0100069 EFO:0000835 MA:0000352 FMA:7131 ZFA:0000204 BTO:0000959 CALOHA:TS-0700 GAID:291 UMLS:C0014876 VHOG:0000450 NCIT:C12389 EMAPA:16833 EHDAA:2937 SCTID:181245004 XAO:0000127 MAT:0000048" "Any process that activates or increases the frequency, rate, or extent of interferon-gamma production. Interferon-gamma is also known as type II interferon." "A cell occurring in the peripheral part of the vitreous body of the eye that may be responsible for production of hyaluronic acid and collagen." "FMA:70620 BTO:0004271" - "A pharyngeal pouch that between pharyngeal arches 3 and 4." "NCIT:C34311 Wikipedia:Pharyngeal_pouch_(embryology)#Third_pouch FMA:295682 SCTID:345450001 TAO:0001131 UMLS:C0231070 AAO:0011116 XAO:0000251 RETIRED_EHDAA2:0000076 EMAPA:16586 ZFA:0001131 VHOG:0000966 EHDAA2:0000077 VHOG:0001030 EFO:0003634" + "A pharyngeal pouch that between pharyngeal arches 3 and 4." "NCIT:C34311 FMA:295682 Wikipedia:Pharyngeal_pouch_(embryology)#Third_pouch SCTID:345450001 TAO:0001131 UMLS:C0231070 AAO:0011116 XAO:0000251 RETIRED_EHDAA2:0000076 EMAPA:16586 ZFA:0001131 VHOG:0000966 EHDAA2:0000077 VHOG:0001030 EFO:0003634" "The process whose specific outcome is the progression of the pharyngeal system over time, from its formation to the mature structure. The pharyngeal system is a transient embryonic complex that is specific to vertebrates. It comprises the pharyngeal arches, bulges of tissues of mesoderm and neural crest derivation through which pass nerves and pharyngeal arch arteries. The arches are separated internally by pharyngeal pouches, evaginations of foregut endoderm, and externally by pharyngeal clefts, invaginations of surface ectoderm. The development of the system ends when the stucture it contributes to are forming: the thymus, thyroid, parathyroids, maxilla, mandible, aortic arch, cardiac outflow tract, external and middle ear." "Any process that stops, prevents or reduces the frequency, rate or extent of ATP metabolic process." "A central nervous system neuron that stratifies at one and only one location." "Any process that activates or increases the frequency, rate or extent of glycine secretion, neurotransmission." "A long bone that is part of a hindlimb [Automatically generated definition]." "EMAPA:35403 MA:0000300" - "A mesenchymal stem cell capable of developing into blood vessel endothelium." + "A mesenchymal stem cell capable of developing into blood vessel endothelium." "ZFA:0009258" "An interneuron that has double bouquet morphology." "A specialized extracellular matrix that surrounds the plasma membrane of the ovum of animals. The egg coat provides structural support and can play an essential role in oogenesis, fertilization and early development." "A muscle organ that consists of skeletal muscle tissue ensheathed in epimysium, that develops from myotome and that is innervated by some somatic motor neuron. Skeletal muscles are typically attached (via a tendon) to a bone but there are exceptions (e.g. intrinsic tongue muscles)." "EHDAA:5978 EHDAA:5035 EHDAA:5043 TAO:0005277 EV:0100377 VHOG:0000319 EFO:0000888 MESH:D018482 GAID:141 AAO:0011099 MIAA:0000302 EMAPA:35988 CALOHA:TS-0933 XAO:0000174 BTO:0001103 ZFA:0005277 MA:0003148 EHDAA:5984 MAT:0000302" @@ -1441,7 +1441,7 @@ "The process whose specific outcome is the progression of a salivary nucleus over time, from its formation to the mature structure." "A transit amplifying cell that is located in the anorectum." "A nipple that is in_the_right_side_of a body proper." "FMA:223693" - "Contractile cells resembling smooth muscle cells that are present in glands, notably the mammary gland, and aid in secretion. This cell has long weaving dendritic processes containing myofilament." "BTO:0002309 FMA:67799 CALOHA:TS-2379" + "Contractile cells resembling smooth muscle cells that are present in glands, notably the mammary gland, and aid in secretion. This cell has long weaving dendritic processes containing myofilament." "ZFA:0009113 BTO:0002309 FMA:67799 CALOHA:TS-2379" "An extracellular matrix consisting mainly of proteins (especially collagen) and glycosaminoglycans (mostly as proteoglycans) that provides not only essential physical scaffolding for the cellular constituents but can also initiate crucial biochemical and biomechanical cues required for tissue morphogenesis, differentiation and homeostasis. The components are secreted by cells in the vicinity and form a sheet underlying or overlying cells such as endothelial and epithelial cells." "Any process that increases the rate, frequency or extent of peptide hormone processing. Peptide hormone processing is the generation of a mature peptide hormone by posttranslational processing of a prohormone." "Any process that increases the rate, frequency or extent of branching involved in ureteric bud morphogenesis, the process in which the branching structure of the ureteric bud is generated and organized. The ureteric bud is an epithelial tube that grows out from the metanephric duct. The bud elongates and branches to give rise to the ureter and kidney collecting tubules." @@ -1466,7 +1466,7 @@ "The process whose specific outcome is the progression of the gonadal mesoderm over time, from its formation to the mature structure. The gonadal mesoderm is the middle layer of the three primary germ layers of the embryo which will go on to form the gonads of the organism." "The regulated release of norepinephrine by a cell, in which the norepinephrine acts as a neurotransmitter." "A protein that is a translation product of the human LAMP5 gene or a 1:1 ortholog thereof." - "An elongated, spindle-shaped, cell that is located between the basal lamina and the plasmalemma of a muscle fiber. These cells are mostly quiescent, but upon activation they divide to produce cells that generate new muscle fibers." + "An elongated, spindle-shaped, cell that is located between the basal lamina and the plasmalemma of a muscle fiber. These cells are mostly quiescent, but upon activation they divide to produce cells that generate new muscle fibers." "ZFA:0009272" "Any process that activates or increases the frequency, rate or extent of protein catabolic process in the vacuole." "Any process that activates or increases the frequency, rate or extent of isotype switching." "The pattern specification process that results in the subdivision of an axis or axes of the neural plate in space to define an area or volume in which specific patterns of cell differentiation will take place or in which cells interpret a specific environment." @@ -1475,6 +1475,7 @@ "The multiplication or reproduction of Schwann cells, resulting in the expansion of their population. Schwann cells are a type of glial cell in the peripheral nervous system." "White matter that lies deep to the granular cell layer of the cerebellar cortex. It contains afferents to the cerebellar cortex and axons that run between the cerebellar cortex and the deep cerebellar nuclei." "NLXANAT:20081249" "The transport of a protein driven by polymerization of a microtubule to which it is attached." + "Any kidney arterial blood vessel cell that is part of some renal cortex artery." "KUPO:0001077" "A gland that is part of a stomodeum." "VHOG:0000658" "Any process that modulates the frequency, rate, or extent of interleukin-10 production." "The regulated release of cerebrospinal fluid (CSF) from the choroid plexus of the lateral, third and fourth ventricles. The cerebrospinal fluid is a clear liquid that located within the ventricles, spinal canal, and subarachnoid spaces." @@ -1540,11 +1541,12 @@ "The minute canals that pass the prostatic secretions to the urethra." "SCTID:362276000 MA:0002785 Wikipedia:Prostatic_ducts UMLS:C0227965 NCIT:C13102 FMA:19580 EMAPA:36568" "NLXANAT:20090405" "The process in which a relatively unspecialized endothelial cell acquires specialized features of an arterial endothelial cell, a thin flattened cell that lines the inside surfaces of arteries." - "A T cell that expresses an alpha-beta T cell receptor complex." + "A T cell that expresses an alpha-beta T cell receptor complex." "ZFA:0009335" "A resting mature B cell that has the phenotype IgM-positive, IgD-positive, CD23-positive and CD21-positive, and found in the B cell follicles of the white pulp of the spleen or the corticol areas of the peripheral lymph nodes. This cell type is also described as being CD19-positive, B220-positive, AA4-negative, CD43-negative, and CD5-negative." "Primordial follicles are indiscernible to the naked eye and develop to primary, secondary, and finally mature vesicular follicles." "NCIT:C33400 EMAPA:30755 MA:0001710 UMLS:C1514441" - "A cell that has a filiform extrusion of the cell surface." "XAO:0000031 VHOG:0001532" + "A cell that has a filiform extrusion of the cell surface." "ZFA:0009032 XAO:0000031 VHOG:0001532" "A GABAergic interneuron located in the cerebral cortex that expresses Parvalbumin." "ILX:0770154" + "Any sensory receptor cell that is a(n) neuron and is capable of some detection of stimulus involved in sensory perception." "ZFA:0009001" "A somatostatin that is encoded in the genome of mouse." "UniProtKB:P60041" "The process in which a monoatomic cation is transported across a membrane. Monatomic cations (also called simple cations) are positively charged ions consisting of exactly one atom." "EMAPA:18646 MA:0002227" @@ -1557,8 +1559,9 @@ "Any process that modulates the frequency, rate or extent of isotype switching." "The trachea is the portion of the airway that attaches to the bronchi as it branches [GO:dph]." "Wikipedia:Vertebrate_trachea NCIT:C12428 MA:0000441 BTO:0001388 EHDAA2:0002066 XAO:0000118 EMAPA:16853 EHDAA:3078 MIAA:0000137 MAT:0000137 AAO:0010140 CALOHA:TS-1060 EV:0100040 MESH:D014132 SCTID:181213009 GAID:361 UMLS:C0040578 VHOG:0000371 FMA:7394 EFO:0000935" "A thymus lobe that is in the left side of a thymus." "FMA:71195 RETIRED_EHDAA2:0000964 SCTID:188079002" - "Any animal cell containing pigment granules." + "Any animal cell containing pigment granules." "ZFA:0009170" "Anatomical system that protects the body from foreign substances, cells, and tissues by producing the immune response and that includes especially the thymus, spleen, lymphoid tissue, lymphocytes including the B cells and T cells, and antibodies." "MESH:D007107 UMLS:C0020962 NCIT:C12735 FMA:9825 SCTID:362590003 AAO:0011003 VHOG:0001247 Wikipedia:Immune_system MA:0002711 BILA:0000104 ZFA:0001159 XAO:0003152 GAID:328 BTO:0005810 TAO:0001159" + "Any process that activates or increases the frequency, rate or extent of endothelial cell chemotaxis." "Translation that occurs at the presynapse, and that modulates chemical synaptic transmission." "The process in which relatively unspecialized cells acquire specialized structural and/or functional features that characterize the mesenchymal cells of the renal system as it progresses from its formation to the mature state." @@ -1574,9 +1577,10 @@ "An elicited macrophage characterized by low production of pro-inflammatory and Th1 polarizing cytokines and high expression of arginase-1, and associated with tissue remodelling." "The endothelial lining of the endocardium." "FMA:83596" "Any Golgi cell that is part of a cerebellum." + "Any tip cell that is part of some Malpighian tubule." "The single layer of epithelial cells that lines the early neural tube and develops into the nervous system and into the neural crest cells." "Any process that activates or increases the frequency, rate or extent of myeloid dendritic cell chemotaxis." - "An open tracheal system is a respiratory system, a branched network of epithelial tubes that supplies oxygen to target tissues via spiracles. An example of this is found in Drosophila melanogaster." "TADS:0000043 SPD:0000427 BTO:0003870" + "An open tracheal system is a respiratory system, a branched network of epithelial tubes that supplies oxygen to target tissues via spiracles. An example of this is found in Drosophila melanogaster." "TADS:0000043 SPD:0000427 FBbt:00005024 BTO:0003870" "Dermal, epidermal, glandular and pigment structures of the body integument." "The change in morphology and behavior of a myeloid dendritic cell resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." "The process in which anatomical structures of the mammary gland cord are generated and organized. Mammary gland cords form when the mammary gland bud invades the mammary fat." @@ -1585,6 +1589,7 @@ "A protein that is a translation product of the human CD59 gene, a 1:1 ortholog thereof, or pro-orthologs thereof." "PIRSF:PIRSF038782" "Subdivision of the skeletal system which consists of the axial skeleton plus associated joints." "FMA:7483" "A physical quality inhering in a bearer by virtue of the bearer's parts having the arrangement which exhibits characteristics of solids." + "Any smooth muscle cell that is part of some kidney pelvis smooth muscle." "KUPO:0001113" "Any process that stops, prevents, or reduces the frequency, rate or extent of megakaryocyte differentiation." "The process in which a relatively unspecialized precursor cell acquires the specialized features of a follicular dendritic cell." "A transparent homogeneous acellular layer, 6 to 9 um thick, lying between the basal lamina of the outer layer of stratified epithelium and the substantia propria of the cornea; it is considered to be a basement membrane." "UMLS:C0229127 TAO:0002155 NCIT:C32226 MA:0001240 Wikipedia:Bowman%27s_membrane ZFA:0001684 FMA:58273 SCTID:281075003" @@ -1593,7 +1598,6 @@ "The process leading to shortening and/or development of tension in the urinary bladder smooth muscle tissue involved in the expulsion urine from the body." "A cytotoxic T-lymphocyte protein 4 that is encoded in the genome of mouse." "UniProtKB:P09793" - "A depression or fissure in the surface of an organ." "Wikipedia:Sulcus_(anatomy)" "A synapse in which an action potential in the presynaptic cell increases the probability of an action potential occurring in the postsynaptic cell." "Wikipedia:Excitatory_synapse" "The paired arteries that carry blood to the yolk sac from the dorsal aorta." "EHDAA2:0002208 Wikipedia:Vitelline_arteries EMAPA:16207" @@ -1612,8 +1616,9 @@ "A dermal dendritic cell isolated from skin draining lymph nodes that is langerin-positive, MHC-II-positive, and CD4-negative and CD8a-negative." "Mesenchyme that is part of a pharyngeal arch 6." "FMA:318209 EMAPA:32765 EHDAA2:0004076" "The specialized, terminal region of a neuron projection such as an axon or a dendrite." + "Any secretory cell that is capable of some ecdysteroid secretion." "A process in which a protein is transported to, or maintained in, a location within a postsynaptic membrane." - "A primordial germ cell is a diploid germ cell precursors that transiently exist in the embryo before they enter into close association with the somatic cells of the gonad and become irreversibly committed as germ cells." "FMA:70567" + "A primordial germ cell is a diploid germ cell precursors that transiently exist in the embryo before they enter into close association with the somatic cells of the gonad and become irreversibly committed as germ cells." "ZFA:0009288 FMA:70567" "The morphogenetic process in which a bud forms from an epithelial sheet. A bud is a protrusion that forms form the sheet by localized folding." "Anatomical cluster that consists of all the skeletal elements (eg., bone, cartilage, and teeth) of the body." "MAT:0000032 EMAPA:17213 EHDAA:5047 MESH:D012863 XAO:0004053 MIAA:0000032 SCTID:361378004 VSAO:0000026 GAID:177 MA:0003006 galen:Skeleton AEO:0000168 FMA:23875 EHDAA2:0001843 Wikipedia:Skeleton" "The process in which a relatively unspecialized T cell acquires the specialized features of a T-helper 1 (Th1) cell. A Th1 cell is a CD4-positive, alpha-beta T cell that has the phenotype T-bet-positive and produces interferon-gamma." @@ -1641,7 +1646,7 @@ "The increase in heart capillaries that accompanies physiological hypertrophy of cardiac muscle." "A CD4-positive, alpha-beta T cell that has cytotoxic function." "Any process that stops, prevents or reduces the frequency, rate or extent of T-helper 1 cell cytokine production." - "The part of the retina that contains neurons and photoreceptor cells[GO]." "EMAPA:17171 EHDAA:4763 EHDAA2:0001253 AAO:0011095 MA:0000277 TAO:0000046 VHOG:0000535 FMA:58628 CALOHA:TS-0685 XAO:0003216 NCIT:C33166 EMAPA:18590 BTO:0000929 ZFA:0000046 UMLS:C1518263" + "The part of the retina that contains neurons and photoreceptor cells[GO]." "UMLS:C1518263 EMAPA:17171 EHDAA:4763 EHDAA2:0001253 AAO:0011095 MA:0000277 TAO:0000046 VHOG:0000535 FMA:58628 CALOHA:TS-0685 XAO:0003216 NCIT:C33166 EMAPA:18590 BTO:0000929 ZFA:0000046" "A cell at the front of a migrating epithelial sheet." "Replacement ossification wherein bone tissue replaces cartilage." "Wikipedia:Endochondral_ossification" "A lymphoid follicle containing naive B cells." "FMA:55223" @@ -1653,7 +1658,6 @@ "Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator." "Reactome:R-HSA-265682" "The process that modulates the force with which blood travels through the systemic arterial circulatory system. The process is controlled by a balance of processes that increase pressure and decrease pressure." "Any process that stops, prevents or reduces the frequency, rate or extent of outer hair cell apoptotic process." - "A strand of hair that is part of a pinna." "A portion of organism substance that is secreted by a male reproductive gland." "MA:0002521 EMAPA:36541" "A fibroblast that is part of the connective tissue of prostate." "FMA:261271" @@ -1670,7 +1674,7 @@ "One of sublaminar layers S1, S2, S3, or S4." "CP:0001046" "Combining with a neurotransmitter and transmitting the signal across the membrane by activating an associated G-protein; promotes the exchange of GDP for GTP on the alpha subunit of a heterotrimeric G-protein complex." "Segment of the alimentary canal extending from the stomach to the anus and, in humans and other mammals, consists of two segments, the small intestine and the large intestine." "ZFA:0001338 WBbt:0005772 EV:0100071 MA:0000328 CALOHA:TS-0490 BTO:0000648 ANISEED:1235303 AAO:0000246 MESH:D007422 EMAPA:32874 VHOG:0000056 SCTID:256876008 Wikipedia:Intestine TAO:0001338 NCIT:C12736 BSA:0000093 FMA:7199 MIAA:0000043 galen:Intestine XAO:0000129 MA:0001524 UMLS:C0021853 EFO:0000834 GAID:295" - "The gonad of a female organism which contains germ cells." "AAO:0000371 SCTID:181464007 EV:0100111 MESH:D010053 BSA:0000080 Wikipedia:Ovary ZFA:0000403 BTO:0000975 MA:0000384 GAID:367 VHOG:0000251 EFO:0000973 CALOHA:TS-0730 EHDAA2:0001360 MIAA:0000125 FMA:7209 NCIT:C12404 EMAPA:17962 TAO:0000403 XAO:0000258 BILA:0000125 EHDAA:8124 UMLS:C0029939" + "The gonad of a female organism which contains germ cells." "AAO:0000371 SCTID:181464007 EV:0100111 MESH:D010053 BSA:0000080 FBbt:00004865 Wikipedia:Ovary ZFA:0000403 BTO:0000975 MA:0000384 GAID:367 VHOG:0000251 EFO:0000973 CALOHA:TS-0730 EHDAA2:0001360 MIAA:0000125 FMA:7209 NCIT:C12404 EMAPA:17962 TAO:0000403 XAO:0000258 BILA:0000125 EHDAA:8124 UMLS:C0029939" "Any process that activates or increases the frequency, rate or extent of mesenchymal cell apoptotic process." "A specialized type of CD4 positive T cell, the follicular helper T cell (TFH cell), that upregulates CXCR5 expression to enable its follicular localization. These specialised T cells reside in the germinal center of the lymph node." "Any process that activates or increases the frequency, rate or extent of histamine secretion by mast cell." @@ -1692,8 +1696,6 @@ "Any process that activates or increases the frequency, rate or extent of microglial cell activation." "A mucosa that is part of a biliary tree [Automatically generated definition]." "FMA:14695" "A pluripotent cell in the yolk sac that can give rise to mesenchymal cells including erythrocytes and endothelial cells." "MESH:D055018" - - "The chemical reactions and pathways resulting in the breakdown of organic and inorganic nitrogenous compounds." "A protein that is a translation product of the human CD27 gene or a 1:1 ortholog thereof." "IUPHARobj:1876 PIRSF:PIRSF001966" "A mesentery that surrounds the heart." "VHOG:0000353 EHDAA:432 RETIRED_EHDAA2:0000739 EMAPA:16212" "Any process that stops, prevents, or reduces the frequency, rate or extent of the depolymerization of the specialized microtubules of the axoneme." @@ -1718,7 +1720,6 @@ "Ventral part of the midbrain, separated from the hindbrain by the isthmus[ISBN:0471888893]. Subdivision of the midbrain lying anterior to the tectum and posterior to the substantia nigra and cerebral peduncle[FMA] The part of the midbrain extending from the substantia nigra to the cerebral aqueduct in a horizontal section of the midbrain. It forms the floor of the midbrain that surrounds the cerebral aqueduct[WP]." "MAT:0000452 VHOG:0001367 MA:0000212 ZFA:0000160 EMAPA:18215 HBA:9002 BTO:0003388 BIRNLEX:1200 neuronames:491 TAO:0000160 SCTID:362392007 BAMS:MTg DHBA:12195 EFO:0000921 Wikipedia:Midbrain_tegmentum UMLS:C0039441 EHDAA2:0004475 FMA:62393 XAO:0004271" "The series of events involved in the perception of pain in which a chemical stimulus is received and converted into a molecular signal." "CALOHA:TS-1295 EMAPA:37447 VHOG:0000005 FMA:242787" - "Any muscle organ that is part of a thorax [Automatically generated definition]." "MA:0000561" "Any process that activates or increases the frequency, rate or extent of mesenchymal cell proliferation involved in ureter development." "A protein that is a translation product of the human PDCD1 gene or a 1:1 ortholog thereof." "PIRSF:PIRSF018380 IUPHARobj:2760" @@ -1728,6 +1729,8 @@ "Any process that stops, prevents, or reduces the rate of mast cell degranulation." "A cell that is part of an interstitial compartment of an inner renal medulla." "KUPO:0001093" + "An astrocyte type that presents radial protrusions across the layers of a cortex. The soma of this astrocyte is part of the first layer of a neocortex. This astrocyte extents its protrusions transversally to the deeper layers of a cortex and it creates contact with neurons, the pia matter and capillaries. This astrocyte is involved in facilitating the communication across neurons, astrocytes, capillaries, meninges and the cerebrospinal fluid." + "The biosynthetic process resulting in the formation of a nucleic acid." "Mesenchyme that develops_from a neural crest and is part of a 1st arch mandibular mesenchyme." "EHDAA2:0000037" "Presumptive structure of the blastula that will develop into mesoderm." "EFO:0003467 AAO:0000476 TAO:0001377 ZFA:0001377" "An endothelial cell that is part of a placenta." "EFO:0010708" @@ -1764,7 +1767,7 @@ "Any cellular process that modulates the frequency, rate or extent of the chemical reactions and pathways involving nucleobases, nucleosides, nucleotides and nucleic acids." "Any process resulting in the physical partitioning and separation of an epidermal cell, any of the cells making up the epidermis, into daughter cells." "The assembly of actin filament bundles; actin filaments are on the same axis but may be oriented with the same or opposite polarities and may be packed with different levels of tightness." - "A mesenchymal cell found in the developing heart and that develops into some part of the heart. These cells derive from intra- and extra-cardiac sources, including the endocardium, epicardium, neural crest, and second heart field." + "A mesenchymal cell found in the developing heart and that develops into some part of the heart. These cells derive from intra- and extra-cardiac sources, including the endocardium, epicardium, neural crest, and second heart field." "ZFA:0009259" "The middle colic vein drains the transverse colon. It is a tributary of the superior mesenteric vein, and follows the path of its corresponding artery, the middle colic artery. [WP,unvetted]." "SCTID:9018004 MA:0002181 EMAPA:37174 Wikipedia:Middle_colic_vein FMA:15406" "FAO:0000032 BTO:0002307" @@ -1772,7 +1775,7 @@ "Any process that decreases the frequency, rate or extent of astrocyte activation." "GC_ID:1" "The neurons that innervate the esophagus, stomach, small and large bowel." "EMAPA:37479 MA:0001145" - "Astrocyte-like radial glial cell that extends vertically throughout the retina, with the nucleus are usually in the middle of the inner nuclear layer." "BTO:0003064" + "Astrocyte-like radial glial cell that extends vertically throughout the retina, with the nucleus are usually in the middle of the inner nuclear layer." "ZFA:0009280 BTO:0003064" "A megakaryocyte cell with is CD9-positive and CD41-positive." "A cylindrical shape quality inhering in a bearer by virtue of the bearer's being imperfectly cylindrical or approximately cylindrical." "FMA:225251 SCTID:297287005" @@ -1792,6 +1795,7 @@ "Any process that modulates the frequency, rate or extent of a response to stress. Response to stress is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation)." "An alveolar duct that is part of a right lung [Automatically generated definition]." "MA:0001785 EMAPA:35819 UMLS:C1709958 NCIT:C49277" "A synovial cell that is macrophage-like, characterized by surface ruffles or lamellipodia, plasma membrane invaginations and associated micropinocytotic vesicles, Golgi apparatus and little granular endoplasmic reticulum." "FMA:66787" + "Any interneuron that has characteristic some stellate morphology." "ZFA:0009297" "A ring of smooth muscle cells whose contraction closes the opening of the ring." "EHDAA2:0003143 AEO:0000143 SCTID:362915001" "The fluid surrounding the ovum and granulosa cells in the ovarian follicle." "UMLS:C1709369 FMA:18665 NCIT:C52556 GAID:372 Wikipedia:Follicular_fluid CALOHA:TS-0728 BTO:0004383 MESH:D015571 MA:0002511" "A zone of skin that is part of a penis [Automatically generated definition]." "FMA:19638 SCTID:35900000 EMAPA:35675 MA:0002727" @@ -1807,7 +1811,6 @@ "Any process that modulates the frequency, rate or extent of male gonad development." "Any process that modulates the occurrence or rate of cell death by apoptotic process in neurons." "The process in which a relatively unspecialized cell acquires specialized features of an epithelial cell, any of the cells making up an epithelium." - "Any melanocyte that is part of a prepuce of penis." "An epithelial cell that is part of the lacrimal canaliculus." "FMA:70553" "OBSOLETE: A sporangiospore that is motile, having flagella." "FAO:0000039" "The multiplication or reproduction of endothelial cells, resulting in the expansion of a cell population. Endothelial cells are thin flattened cells which line the inside surfaces of body cavities, blood vessels, and lymph vessels, making up the endothelium." @@ -1820,7 +1823,7 @@ "Any process that stops, prevents, or reduces the frequency, rate, or extent of smooth muscle cell apoptotic process." "Any process that activates or increases the frequency, rate or extent of muscle tissue development." "Any process that activates or increases the frequency, rate or extent of epidermal cell differentiation." - "A cell that is part of a kidney." "KUPO:0001010" + "A cell that is part of a kidney." "ZFA:0009389 KUPO:0001010" "Any process that stops, prevents, or reduces the frequency, rate, or extent of leukocyte activation." "The assembly and organization of the sperm flagellar axoneme, the bundle of microtubules and associated proteins that forms the core of the eukaryotic sperm flagellum, and is responsible for movement." "The optic vesicle is the evagination of neurectoderm that precedes formation of the optic cup[GO]. Portion of tissue that is comprised of neuroepitheium which has pinched off from the anterior neural keel and will form the optic cup[ZFA]." "SCTID:362864008 NCIT:C34236 FMA:293357 TAO:0000050 UMLS:C0231106 EMAPA:16540 XAO:0000228 Wikipedia:Optic_vesicles ZFA:0000050 AAO:0011039 VHOG:0000165 EHDAA2:0001320" @@ -1846,12 +1849,11 @@ "Mature CD8_alpha-negative CD11b-negative dendritic cell is a CD8_alpha-negative CD11b-negative dendritic cell that is CD80-high, CD86-high, MHCII-high and is CD83-positive." "Any process that stops, prevents or reduces the frequency, rate or extent of synapse pruning." "The orderly movement of a mesenchymal cell from one site to another that will contribute to the formation of a limb bud." - "A multicellular anatomical structure that is associated with an embryo and derived from the zygote from which it develops, but which does not contribute to the embryo proper or to structures that are part of the same organism after embryogenesis." "HAO:0000042 BILA:0000042 AAO:0010020 TAO:0000020 ZFA:0000020 CARO:0000042 SCTID:314908006 CALOHA:TS-2119 NCIT:C34055 UMLS:C1282438 XAO:0004005 VHOG:0000292 FMA:85537 EHDAA:46 EHDAA2:0003042 TGMA:0001843 AEO:0000042" + "A multicellular anatomical structure that is associated with an embryo and derived from the zygote from which it develops, but which does not contribute to the embryo proper or to structures that are part of the same organism after embryogenesis." "HAO:0000042 BILA:0000042 AAO:0010020 TAO:0000020 ZFA:0000020 CARO:0000042 SCTID:314908006 CALOHA:TS-2119 NCIT:C34055 UMLS:C1282438 XAO:0004005 VHOG:0000292 FMA:85537 EHDAA:46 FBbt:00005835 EHDAA2:0003042 TGMA:0001843 AEO:0000042" "A transitional stage B cell that expresses surface IgM and IgD, and CD62L. This cell type appears to be an anergic B cell that does not proliferate upon BCR signaling, is found in the spleen and lymph nodes, and has the phenotype surface IgM-positive, surface IgD-positive, CD21-positive, CD23-positive, CD62L-positive, and CD93-positive. This cell type has also been described as IgM-low, CD19-positive, B220-positive, AA4-positive, and CD23-positive (i.e. this cell-type is distinguished from T2 cells by surface expression of IgM)." "A B-1 B cell that has the phenotype CD5-negative, but having other phenotypic attributes of a B-1 B cell." "Combining with prolactin and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity." "ZFA:0001073" - "An anatomical cavity that surrounded_by a hindgut." "FMA:54367 EMAPA:18396" "The deposition or aggregation of coloring matter in a cell." @@ -1881,6 +1883,7 @@ "A type EC enteroendocrine cell in the duodenum and jejunum that stores and secretes motilin and 5-hydroxytryptamine." "FMA:62941" "The regulated release of catecholamine by a cell in which the catecholamine acts as a neurotransmitter." "The progression of the sclerotome over time, from its initial formation to the mature structure. The sclerotome is the portion of the somite that will give rise to a vertebra." + "Any neuron that has its soma located in some retrotrapezoid nucleus." "The small neuron in the glomerular layer of the olfactory bulb whose dendrites arborize within a glomerulus, where it receives synaptic input from olfactory receptor cell axon terminals, and also engages in dendrodendritic interactions with mitral and tufted cell dendrites; uses both GABA and dopamine as a neurotransmitter." "NIFEXT:122 BTO:0003796" "A dorsal mesentery that is part of a midgut." "EMAPA:17040 RETIRED_EHDAA2:0001187 EMAPA:18671 EMAPA:16722 SCTID:361434009" "The phosphorylation of peptidyl-tyrosine to form peptidyl-O4'-phospho-L-tyrosine." "RESID:AA0039" @@ -1914,7 +1917,7 @@ "The process in which differentiating motor neurons in the neural tube acquire the specialized structural and/or functional features of lateral motor column neurons. Lateral motor column neurons are generated only on limb levels and send axons into the limb mesenchyme. Differentiation includes the processes involved in commitment of a cell to a specific fate." "A ridge on the cerebral cortex. It is generally surrounded by one or more sulci ." "BTO:0002495 FMA:83874 neuronames:1211 Wikipedia:Gyrus NCIT:C32290 SCTID:279165009 UMLS:C0458308" "Any process that stops, prevents or reduces the frequency, rate or extent of corticosteroid hormone secretion." - "A pigment cell that is capable of detecting light stimulus that is involved in visual perception." "FMA:63846" + "A pigment cell that is capable of detecting light stimulus that is involved in visual perception." "ZFA:0009171 FMA:63846" "Any process that increases the rate, frequency, or extent of the controlled release of molecules that form the extracellular matrix, including carbohydrates and glycoproteins by a cell or a group of cells." "Cytoplasm that exhibits affinity for both basic and acid stains under specific pH conditions." "Squamous cell of vaginal epithelium." "CALOHA:TS-1254" @@ -1931,6 +1934,7 @@ "A monostratified retinal ganglion cell with large soma and large dendritic field, with medium dendritic arbor, and has dendrites in layers 2 and 5." "Epithelial cell that is part of segment 3 (S3) of the proximal tubule epithelium." "A mucous secretion that is produced by glands in the epidermis." + "Any endothelial cell that is part of some renal interlobular vein." "KUPO:0001089" "A glial cell that myelinates or ensheathes axons in the peripheral nervous system." "BTO:0001220 CALOHA:TS-0898 MESH:D012583" "Any process that stops, prevents, or reduces the frequency, rate or extent of cell motility." "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of lipids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." @@ -1942,9 +1946,9 @@ "A caudal vertebra endochondral element that is composed primarily of a pre-cartilage condensation." "EMAPA:18045" "A cell that specializes in controlled release of one or more substances." "FMA:86916 BTO:0003659" - "The biological process in which new individuals are produced by one or two multicellular organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." "EMAPA:17749 EHDAA2:0000340 EHDAA:6002" "Any process that modulates the frequency, rate or extent of lactation." + "Any peritubular capillary endothelial cell that is part of some renal cortex peritubular capillary." "KUPO:0001067" "A gland that is part of a skin of body [Automatically generated definition]." "SCTID:110485007 EMAPA:35774 MA:0000146 FMA:71878" "The developmental process by which a midbrain is generated and organized." "Any process that activates or increases the frequency, rate or extent of natural killer cell death by apoptotic process." @@ -1965,7 +1969,7 @@ "A cell type that can give rise to basophil and mast cells. This cell is CD34-positive, CD117-positive, CD125-positive, FceRIa-negative, and T1/ST2-negative, and expresses Gata-1, Gata-2, C/EBPa" "One of the 5 distinct and partially overlapping functional domains of the premigratory neural crest. The vagal and sacral neural crest cells develop into the ganglia of the enteric nervous system, also known as the parasympathetic ganglia." "XAO:0004192" "Any process that activates or increases the frequency, rate or extent of Schwann cell migration." - "Any sense organ (UBERON:6005155) that is part of some larval head (UBERON:6001730)." + "Any sense organ (UBERON:6005155) that is part of some larval head (UBERON:6001730)." "FBbt:00007280" "Any process that activates or increases the frequency, rate or extent of progesterone secretion." "A protein that is a translation product of the human VPREB1 gene or a 1:1 ortholog thereof. The gene is recently and independently duplicated in mouse and rabbit, giving rise to very closely related VPREB2 genes in those species. The protein associates with the Ig-mu chain to form a molecular complex that is expressed only on the surface of pre-B-cells." "PIRSF:PIRSF038787" "Any process that stops, prevents or reduces the frequency, rate or extent of establishment of protein localization." @@ -1983,15 +1987,15 @@ "The double lipid bilayer enclosing the nucleus and separating its contents from the rest of the cytoplasm; includes the intermembrane space, a gap of width 20-40 nm (also called the perinuclear space)." "Wikipedia:Nuclear_envelope" "Trunk ganglion which is part of a bilaterally paired set of sympathetic ganglia located anterior and lateral to the spinal cord." "TAO:0001556 EHDAA:5635 EHDAA2:0001403 ZFA:0001556 Wikipedia:Paravertebral_ganglion SCTID:324478000 MA:0003100 FMA:5891" "Any process that activates or increases the frequency, rate or extent of lysosome organization." - "A cell that is within the developmental lineage of gametes and is able to pass along its genetic material to offspring." + "A cell that is within the developmental lineage of gametes and is able to pass along its genetic material to offspring." "ZFA:0009016" "A programmed cell death protein 1 that is encoded in the genome of human." "UniProtKB:Q15116" "Any process that activates or increases the frequency, rate or extent of cell proliferation in midbrain." "OBSOLETE: A cultured cell that has been passaged at least one time in culture." "Any process that increases the rate, frequency or extent of mast cell chemotaxis. Mast cell chemotaxis is the movement of a mast cell in response to an external stimulus." "A macromolecular complex containing separate protein and lipid molecules. Separate in this context means not covalently bound to each other." - "A cell whose primary function is to provide structural support, to provide strength and physical integrity to the organism." + "A cell whose primary function is to provide structural support, to provide strength and physical integrity to the organism." "ZFA:0005745" "The aggregation, arrangement and bonding together of a set of components to form a junction between cells." - "A T cell that expresses a gamma-delta T cell receptor complex." + "A T cell that expresses a gamma-delta T cell receptor complex." "ZFA:0009336" "The process whose specific outcome is the progression of the mesonephric connecting tubule over time, from its formation to the mature structure. The mesonephric connecting tubule is a tubular segment of the mesonephric nephron; it connects the distal tubule to the collecting duct in the mesonephros." "A process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a cellular component. Includes biosynthesis of constituent macromolecules, and those macromolecular modifications that are involved in synthesis or assembly of the cellular component." "OBSOLETE. Nucleus with two or more lobes connected by a thin filament that contains no internal chromatin. Examples include the nuclei of mature basophils, eosinophils and neutrophils in mice and humans." @@ -2006,7 +2010,7 @@ "Any segmental subdivision of a nervous system. Includes metameric developmental segments, such as vertebrates neuromeres." "Any process that activates or increases the frequency, rate or extent of animal organ morphogenesis." "The expansion of a gamma-delta T cell population by cell division." - "A cell of the inner of the three germ layers of the embryo." "FMA:72555" + "A cell of the inner of the three germ layers of the embryo." "ZFA:0009139 FMA:72555" "Any process that stops, prevents or reduces the frequency, rate or extent of mitotic chromosome condensation." "A process that is part of the meiotic cell cycle." "A protein that is a translation product of the human RORC gene or a 1:1 ortholog thereof." "IUPHARobj:600" @@ -2041,7 +2045,7 @@ "Any process that modulates the frequency, rate or extent of type B pancreatic cell apoptotic process." "The chemical reactions and pathways involving ADP, adenosine 5'-diphosphate." "Any process that stops, prevents or reduces the rate or extent of progression through the meiotic cell cycle." - "Enables the transfer of a protein from one side of a membrane to the other." "Reactome:R-HSA-184269 Reactome:R-HSA-9698930 Reactome:R-HSA-1299475 Reactome:R-HSA-5244404 Reactome:R-HSA-9636375 Reactome:R-HSA-5244428 Reactome:R-HSA-5336420 Reactome:R-HSA-5250616 Reactome:R-HSA-5246514 Reactome:R-HSA-5205661 Reactome:R-HSA-5250884 Reactome:R-HSA-5210943 Reactome:R-HSA-5250972 Reactome:R-HSA-5210947 Reactome:R-HSA-5229111 Reactome:R-HSA-3149434 Reactome:R-HSA-5228406 Reactome:R-HSA-5244506 Reactome:R-HSA-9698933 Reactome:R-HSA-1268022" + "Enables the transfer of a protein from one side of a membrane to the other." "Reactome:R-HSA-184269 Reactome:R-HSA-9698930 Reactome:R-HSA-1299475 Reactome:R-HSA-5244404 Reactome:R-HSA-9636375 Reactome:R-HSA-5244428 Reactome:R-HSA-5336420 Reactome:R-HSA-5250616 Reactome:R-HSA-5246514 Reactome:R-HSA-5205661 Reactome:R-HSA-5250884 Reactome:R-HSA-5250972 Reactome:R-HSA-5210943 Reactome:R-HSA-5210947 Reactome:R-HSA-5229111 Reactome:R-HSA-3149434 Reactome:R-HSA-5228406 Reactome:R-HSA-5244506 Reactome:R-HSA-9698933 Reactome:R-HSA-1268022" "The process in which a relatively unspecialized cell acquires specialized features of a metanephric glomerular epithelial cell. Metanephric glomerular epithelial cells are specialized epithelial cells that form part of the metanephric glomerulus; there are two types, metanephric glomerular parietal epithelial cells and metanephric glomerular visceral epithelial cells." "An immature microglial cell with a ramified morphology." "An intracellular signaling module that is part of larger signaling pathways that can be initiated either intracellularly or by cell surface receptors. Intracellular signaling cassettes are discrete signaling units that are often shared by multiple signaling pathways." @@ -2068,7 +2072,7 @@ "An epithelial cell of stratum spinosum of esophageal epithelium." "FMA:70732" "The process resulting in the physical partitioning and separation of a neuroblast into two daughter cells with different developmental potentials." "The process in which a relatively unspecialized cell acquires specialized features of a stem cell. A stem cell is a cell that retains the ability to divide and proliferate throughout life to provide progenitor cells that can differentiate into specialized cells." "Wikipedia:Stem_cell_differentiation" - + "ZFA:0009217" "A mitotic cell cycle process which results in the assembly, arrangement, or disassembly of the nuclear inner or outer membrane during mitosis." "A bilaterally paired branched artery that originates from the aortic arches and divides into and includes as parts the internal and external carotid arteries[cjm]." "VHOG:0000272 FMA:3939 MESH:D017536 Wikipedia:Common_carotid_artery GAID:479 MA:0001926 SCTID:362041005 NCIT:C32352 EHDAA2:0000217 UMLS:C0162859 EHDAA:7331 EMAPA:17855 CALOHA:TS-0116" "An interneuron whose axon stays entirely within the gray matter region where the cell body resides." "BAMS:1002" @@ -2124,8 +2128,8 @@ "The interstitial compartment of the kidney, comprising the extravascular intertubular spaces of the renal parenchyma, with their attendant cellular elements and extracellular substances, bounded on all sides by epithelial and vascular basement membranes." "FMA:70983 MA:0002616 SCTID:362210003 NCIT:C33459 EMAPA:28518" "A progenitor cell found in the larval epidermis of insects and that gives rise to the adult abdominal epidermis." "FBbt:00001789" - "The elbow is the region surrounding the elbow-joint-the ginglymus or hinge joint in the middle of the arm. Three bones form the elbow joint: the humerus of the upper arm, and the paired radius and ulna of the forearm. The bony prominence at the very tip of the elbow is the olecranon process of the ulna, and the inner aspect of the elbow is called the antecubital fossa. [WP,unvetted,human-specific]." "galen:Elbow SCTID:76248009 EHDAA2:0000429 EHDAA:6212 CALOHA:TS-2222 MESH:D004550 Wikipedia:Elbow VHOG:0000340 GAID:54 EFO:0003069 MA:0000036 EHDAA:4166 FMA:24901 EMAPA:17414" - "A progenitor cell committed to myeloid lineage, including the megakaryocyte and erythroid lineages." "BTO:0004730" + "The elbow is the region surrounding the elbow-joint-the ginglymus or hinge joint in the middle of the arm. Three bones form the elbow joint: the humerus of the upper arm, and the paired radius and ulna of the forearm. The bony prominence at the very tip of the elbow is the olecranon process of the ulna, and the inner aspect of the elbow is called the antecubital fossa. [WP,unvetted,human-specific]." "EMAPA:17414 galen:Elbow SCTID:76248009 EHDAA2:0000429 EHDAA:6212 CALOHA:TS-2222 MESH:D004550 Wikipedia:Elbow VHOG:0000340 GAID:54 EFO:0003069 MA:0000036 EHDAA:4166 FMA:24901" + "A progenitor cell committed to myeloid lineage, including the megakaryocyte and erythroid lineages." "ZFA:0009021 BTO:0004730" "A transcription factor SOX-2 that is encoded in the genome of human." "Reactome:R-HSA-452271 UniProtKB:P48431" "The process whose specific outcome is the progression of the bundle of His over time, from its formation to the mature structure. The bundle of His is part of the His-Purkinje system that transmits signals from the AV node to the cardiac Purkinje fibers." "Any process that activates or increases the frequency, rate or extent of glutamate secretion, where glutamate acts as a neurotransmitter." @@ -2139,19 +2143,19 @@ "Gray matter structure located on the midline of the forebrain consisting of the septum pellucidum (in some species) and the septal nuclei (Heimer, 1996)." "BAMS:SEP neuronames:255 BIRNLEX:963 BAMS:Spt MA:0000924 UMLS:C0752060 FMA:61842 BTO:0002705 BAMS:Sep EMAPA:32837 BAMS:SA BM:Tel-Spt" "A renal pelvis that is part of a left ureter." "FMA:15579 SCTID:243436005" "Any process that modulates the occurrence or rate of mesenchymal stem cell death by apoptotic process that contributes to the shaping of the nephron in the metanephros." + "Any kidney blood vessel cell that is part of some kidney capillary." "KUPO:0001030" "A quality inhering in a bearer by virtue of the bearer's having an empty space or cavity within." "A portion of a prostate that forms a lobe." "NCIT:C52726 MA:0001738 UMLS:C0227970 EMAPA:35712 FMA:19570 SCTID:279692004 BTO:0000548" "Any process that modulates the frequency, rate, or extent of the chemical reactions and pathways resulting in the breakdown of carbohydrates." "Any process that modulates the frequency, rate or extent of protein localization to chromatin." - "A mucosa that is part of a cecum [Automatically generated definition]." "BTO:0000213 FMA:14998" "The process that gives rise to the axial mesoderm. This process pertains to the initial formation of the structure from unspecified parts." "Any process that modulates the frequency, rate or extent of DNA biosynthetic process." "A hematopoietic stem cell with long term self renewal capability. This cell is Kit-positive, Sca1-positive, CD150-positive, CD90-low, CD34-negative and Flt3-negative." "The process in which the anatomical structure of the hypoglossal nerve is generated and organized. This motor nerve innervates all the intrinsic and all but one of the extrinsic muscles of the tongue." "A neural nucleus that is part of a medulla oblongata." "SCTID:304943004 FMA:258772" - "A columnar/cuboidal epithelial cell that secretes cerebrospinal fluid." + "A columnar/cuboidal epithelial cell that secretes cerebrospinal fluid." "ZFA:0009295" "An immunoglobulin gamma Fc receptor II/III/IV that is a translation product of the mouse Fcgr3 gene or a 1:1 ortholog thereof." "The process whose specific outcome is the progression of the metanephros over time, from its formation to the mature structure. In mammals, the metanephros is the excretory organ of the fetus, which develops into the mature kidney and is formed from the rear portion of the nephrogenic cord. The metanephros is an endocrine and metabolic organ that filters the blood and excretes the end products of body metabolism in the form of urine." "The directed movement of nitrogen-containing compounds into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." @@ -2175,13 +2179,14 @@ "A multi-tissue structure that has the potential to develop into a meninx of hindbrain." "EHDAA2:0000610" "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of a ketone, carried out by individual cells." "The process whose specific outcome is the progression of smooth muscle in the mesonephros over time, from its formation to the mature structure." + "Any epithelial cell of distal tubule that is part of some macula densa." "KUPO:0001057" "The chemical reactions and pathways involving small molecules, any low molecular weight, monomeric, non-encoded molecule." "Any process that decreases the rate, frequency, or extent of the multiplication or reproduction of osteoclasts, resulting in the expansion of an osteoclast cell population." "A macrophage that is part of the lung connective tissue (pulmonary interstitium). This cell performs tissue remodeling and contributes to barrier immunity through antigen presentation." "The mass of tissue composed of mesenchymal cells in the lobar bronchus.." "EMAPA:32698" "Any serous secreting cell that is part of the tracheobronchial epithelium." - "The middle germ layer of the embryo, between the endoderm and ectoderm." "GAID:522 BTO:0000839 EHDAA:124 FMA:69072 SCTID:362854004 AAO:0000304 EV:0100006 EHDAA:183 Wikipedia:Mesoderm MAT:0000174 EMAPA:16083 NCIT:C12750 ZFA:0000041 EFO:0001981 EHDAA2:0001128 XAO:0000050 VHOG:0000152 MIAA:0000174 EHDAA:160 CALOHA:TS-0623 TAO:0000041 MESH:D008648 UMLS:C0025485 BILA:0000037" + "The middle germ layer of the embryo, between the endoderm and ectoderm." "GAID:522 BTO:0000839 FBbt:00000126 EHDAA:124 FMA:69072 SCTID:362854004 AAO:0000304 EV:0100006 EHDAA:183 Wikipedia:Mesoderm MAT:0000174 EMAPA:16083 NCIT:C12750 ZFA:0000041 EFO:0001981 EHDAA2:0001128 XAO:0000050 VHOG:0000152 MIAA:0000174 EHDAA:160 CALOHA:TS-0623 TAO:0000041 MESH:D008648 UMLS:C0025485 BILA:0000037" "A morphological quality pertaining to the degree to which an object contains an opening, aperture, orifice or vent." "The movement of a dendritic cell within or between different tissues and organs of the body." "The appearance of interleukin-2 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." @@ -2195,18 +2200,17 @@ "The process in which a Peyer's patch is generated and organized. Peyer's patches are typically found as nodules associated with gut epithelium with distinct internal structures including B- and T-zones for the activation of lymphocytes." "Any process that stops, prevents, or reduces the frequency, rate or extent of the proliferation of neuroblasts." "An enterocyte that is located in the anorectum." - "An epidermal cell which synthesizes keratin and undergoes a characteristic change as it moves upward from the basal layers of the epidermis to the cornified (horny) layer of the skin. Successive stages of differentiation of the keratinocytes forming the epidermal layers are basal cell, spinous or prickle cell, and the granular cell." "CALOHA:TS-0500 BTO:0000667 FMA:62879" + "An epidermal cell which synthesizes keratin and undergoes a characteristic change as it moves upward from the basal layers of the epidermis to the cornified (horny) layer of the skin. Successive stages of differentiation of the keratinocytes forming the epidermal layers are basal cell, spinous or prickle cell, and the granular cell." "ZFA:0009158 CALOHA:TS-0500 BTO:0000667 FMA:62879" "A jaw muscle that arises from cranial mesenchyme and is innervated by cranial nerves." "Wikipedia:Branchiomeric_musculature XAO:0004325" "The directed movement of a Schwann cell guided by a specific chemical concentration gradient. Movement may be towards a higher concentration (positive chemotaxis) or towards a lower concentration (negative chemotaxis)." "The lamellated connective tissue of the cornea between the Bowman and Descemet membranes." "MESH:D003319 ZFA:0001685 GAID:893 TAO:0002189 NCIT:C12699 CALOHA:TS-1138 SCTID:362511000 MA:0001245 EFO:0002514 UMLS:C0010040 FMA:58306 Wikipedia:Corneal_stroma EMAPA:17602" "The mantle layer of the neural tube that lies dorsal to the sulcus limitans and contains primarily sensory neurons and interneurons involved in communication of sensory impulses." "Wikipedia:Alar_plate neuronames:1370" - "KUPO:0001111" "Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule." "Reactome:R-HSA-6788855 Reactome:R-HSA-6788867" "The developmental process pertaining to the initial formation of the optic vesicle from the lateral wall of the forebrain. This process begins with the specific processes that contribute to the appearance of the vesicle and ends when the vesicle has evaginated. The optic vesicle is the evagination of neurectoderm that precedes formation of the optic cup." "GC_ID:1" - + "ZFA:0009134" "The process in which the anatomical structures of the glomerulus are generated and organized. The glomerulus is a capillary tuft surrounded by Bowman's capsule in nephrons of the vertebrate kidney." "The aggregation, arrangement and bonding together of a set of components to form an excitatory synapse." "Blood vessel that is connected to the yolk sac." "EMAPA:36494" @@ -2224,9 +2228,9 @@ "Any process that decreases the rate, frequency, or extent of the orderly movement of an endothelial cell into the extracellular matrix to form an endothelium." "Any process that stops, prevents or reduces the frequency, rate or extent of transport across blood-brain barrier." "An endothelium that is part of a outflow tract [Automatically generated definition]." "VHOG:0001524 MA:0000490" - "An excitatory granule cell with a soma located in the granular layer of cerebellar cortex. A mature cerebellar granule cell has short dendrites with a characteristic claw-like appearance and a long axon that ascends to the molecular layer where it bifurcates (except in non-teleost fish, where it does not bifurcate) and extends mediolaterally to form parallel fibers." "BTO:0004278" + "An excitatory granule cell with a soma located in the granular layer of cerebellar cortex. A mature cerebellar granule cell has short dendrites with a characteristic claw-like appearance and a long axon that ascends to the molecular layer where it bifurcates (except in non-teleost fish, where it does not bifurcate) and extends mediolaterally to form parallel fibers." "ZFA:0001691 BTO:0004278" "A renal pelvis that is part of a metanephros." "VHOG:0000945" - "Lymphatic progenitor cells." + "Lymphatic progenitor cells." "ZFA:0009393" "An anatomical cavity that is part of a bronchus." "FMA:62646 SCTID:199401001" "A D cell located in the colon." "FMA:268744" @@ -2246,11 +2250,12 @@ "The process in which the anatomical structure of the cranial nerves are generated and organized. The cerebellar cortex is a thin mantle of gray matter that covers the surface of each cerebral hemisphere. It has a characteristic morphology with convolutions (gyri) and crevices (sulci) that have specific functions. Six layers of nerve cells and the nerve pathways that connect them comprise the cerebellar cortex. Together, these regions are responsible for the processes of conscious thought, perception, emotion and memory as well as advanced motor function." "A presumptive structure that has the potential to develop into a forebrain-midbrain boundary." "EFO:0003463 ZFA:0001368 TAO:0001368" "The neck of the rib is the flattened portion which extends lateralward from the head; it is about 2.5 cm. long, and is placed in front of the transverse process of the lower of the two vertebrC& with which the head articulates. Its anterior surface is flat and smooth, its posterior rough for the attachment of the ligament of the neck, and perforated by numerous foramina. Of its two borders the superior presents a rough crest (crista colli costE) for the attachment of the anterior costotransverse ligament; its inferior border is rounded. On the posterior surface at the junction of the neck and body, and nearer the lower than the upper border, is an eminencebthe tubercle; it consists of an articular and a non-articular portion. The articular portion, the lower and more medial of the two, presents a small, oval surface for articulation with the end of the transverse process of the lower of the two vertebrC& to which the head is connected. The non-articular portion is a rough elevation, and affords attachment to the ligament of the tubercle. The tubercle is much more prominent in the upper than in the lower ribs." "SCTID:263359009 Wikipedia:Neck_of_rib FMA:7576 EMAPA:37826" + "The process in which a relatively unspecialized cell acquires the specialized structural and/or functional features of a cardiac fibroblast. A cardiac fibroblast is a connective tissue cell in the heart which secretes an extracellular matrix rich in collagen and other macromolecules." "The subcutaneous mechanoreceptors that innervate tylotrich hair follicles." "The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells." "Wikipedia:Cell_division" "A specialized area of membrane facing the presynaptic membrane on the tip of the nerve ending and separated from it by a minute cleft (the synaptic cleft). Neurotransmitters cross the synaptic cleft and transmit the signal to the postsynaptic membrane." - "A type of lymphocyte whose defining characteristic is the expression of a T cell receptor complex." "CALOHA:TS-1001 VHOG:0001479 BTO:0000782 FMA:62870 MESH:D013601" + "A type of lymphocyte whose defining characteristic is the expression of a T cell receptor complex." "ZFA:0009046 CALOHA:TS-1001 VHOG:0001479 BTO:0000782 FMA:62870 MESH:D013601" "The process of introducing a phosphate group on to a protein." "A C-type lectin with multiple lectin domains that is a translation product of the mouse LY75 gene or a 1:1 ortholog thereof. It consists of 12 extracellular domains (an N-terminal cysteine-rich domain, a fibronectin type II domain and 10 C-type carbohydrate recognition domains), a transmembrane region and a small cytoplasmic C terminus containing a single Tyr residue, but no obvious kinase domain." "A part of the brain consisting of a three layered cortex located in the forebrain bordering the medial surface of the lateral ventricle. The term hippocampus is often used synonymously with hippocampal formation which consists of the hippocampus proper or Cornu Ammonis, the dentate gyrus and the subiculum." "BTO:0003705 MIAA:0000114 DMBA:16124 EV:0100180 UMLS:C0019564 neuronames:3157 SCTID:361561007 MESH:D006624 GAID:623 NCIT:C12444 EMAPA:32845 Wikipedia:Hippocampus DHBA:10296 BAMS:CA EFO:0000530 BM:Tel-CAM NCIT:C32374 BIRNLEX:721 MAT:0000114 VHOG:0001177 CALOHA:TS-0460 PBA:128012244 MA:0000191 http://scalablebrainatlas.incf.org/services/thumbnail.php?template=ABA07&size=L&dim=2d3d&format=png®ion=CA FMA:62493 MBA:375 EHDAA2:0004443" @@ -2264,12 +2269,12 @@ "A portion of smooth muscle tissue that is part of a saphenous vein." "Any process that activates or increases the frequency, rate or extent of neuron migration." "Any process that modulates the frequency, rate or extent of dendritic cell differentiation." - "The foramen rotundum is a circular hole in the sphenoid bone that connects the middle cranial fossa and the pterygopalatine fossa." "AAO:0000194 SCTID:369439002 EHDAA:10629 FMA:53154 VHOG:0001543 EHDAA2:0000552 Wikipedia:Foramen_rotundum EMAPA:18712" + "The foramen rotundum is a circular hole in the sphenoid bone that connects the middle cranial fossa and the pterygopalatine fossa." "AAO:0000194 SCTID:369439002 EHDAA:10629 FMA:53154 VHOG:0001543 EHDAA2:0000552 EMAPA:18712 Wikipedia:Foramen_rotundum" "A cranial motor neuron whose soma is located in the midbrain andor hindbrain and which innervates the skeletal muscles of the eye or tongue." "An OFF-bipolar neuron found in the retina and having connections with cone photoreceptors cells and neurons in the outer half of the inner plexiform layer. The dendritic tree is delicate and the dendritic tips appear small when compared with type 1 cells. The axon terminal is stratified and restricted to sublamina 2 of the inner plexiform layer." "A white matter that is part of the midbrain." "DHBA:10650 FMA:83936 HBA:265505382" - "An euploid male germ cell of an early stage of spermatogenesis." "FBbt:00004935 FBbt:00004934 FMA:72291 EMAPA:31482 CALOHA:TS-2193 BTO:0000958" + "An euploid male germ cell of an early stage of spermatogenesis." "ZFA:0009007 FBbt:00004935 FBbt:00004934 FMA:72291 EMAPA:31482 CALOHA:TS-2193 BTO:0000958" "Combining with a signal and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity by catalysis of the reaction: a protein + ATP = a phosphoprotein + ADP." "Reactome:R-HSA-8983063 Reactome:R-HSA-8983059" "The lipid bilayer surrounding a chitosome." "Any muscle organ that is part of a pelvic girdle [Automatically generated definition]." "MA:0000537 FMA:37367 EMAPA:18185 EHDAA:8326 RETIRED_EHDAA2:0001430" @@ -2292,6 +2297,7 @@ "Any process that modulates the frequency, rate or extent of the directed movement of a solute from one side of a membrane to the other." "The directed movement of a motile cell or organism, or the directed growth of a cell guided by a specific chemical concentration gradient. Movement may be towards a higher concentration (positive chemotaxis) or towards a lower concentration (negative chemotaxis)." "Wikipedia:Chemotaxis" "Any process that modulates the frequency, rate or extent of hair follicle maturation." + "Any respiratory epithelial cell that is part of some lower respiratory tract." "Any process that stops, prevents or reduces the frequency, rate or extent of skeletal muscle fiber differentiation." "A fibroblast of pulmonary artery." "FMA:40877" @@ -2300,6 +2306,7 @@ "Any process that activates or increases the frequency, rate or extent of cardiac muscle cell proliferation." "Any process that stops, prevents or reduces the frequency, rate or extent of iron ions import across plasma membrane." "A cell that lacks a nucleus." "FMA:68647" + "The synthesis of an RNA transcript from a DNA template." "Wikipedia:Transcription_(genetics)" "The process in which a hemopoietic stem cell acquires the specialized features of a B-1 B cell. B-1 B cells are a distinct subset of B cells characterized as being CD5 positive, found predominantly in the peritoneum, pleural cavities, and spleen, and enriched for self-reactivity." "The tiny blood vessels that receive blood from the efferent arterioles of the glomerulus, and interact with superficial cortical nephrons allowing reabsorption and secretion between blood and the inner lumen of the nephron; peritubular capillaries are situated around the tubule and are at low pressure." "Wikipedia:Peritubular_capillaries MA:0002588 EMAPA:36558" "Skeletal tissue that is part of the exoskeleton and derived from an odontogenic papilla." "ZFA:0005623 EMAPA:35872 UMLS:C1519551 VSAO:0000063 XAO:0004046 MA:0002540 NCIT:C33794 FMA:63001" @@ -2309,7 +2316,8 @@ "The regulation of blood pressure mediated by the signaling molecule vasopressin. Vasopressin is produced in the hypothalamus, and affects vasoconstriction, and renal water transport." "A portion of smooth muscle tissue that is part of a fallopian tube [Automatically generated definition]." "MA:0001721" - "Neuron with two neurites that are fused grossly when they protrude from the soma and bifurcate a short distance from the soma." "FMA:67305" + "Neuron with two neurites that are fused grossly when they protrude from the soma and bifurcate a short distance from the soma." "ZFA:0009057 FMA:67305" + "The process of regulating the proliferation and elimination of CD8-positive alpha-beta T cells such that the total number of CD8-positive alpha-beta T cells within a whole or part of an organism is stable over time in the absence of an outside stimulus." "Any of the lymph nodes that are part of a face." "FMA:61222 Wikipedia:Facial_lymph_nodes SCTID:279139005" "The process whose specific outcome is the progression of the cerebellar granule layer over time, from its formation to the mature structure. The granular layer is the innermost layer of the cerebellar cortex. This layer contains densely packed small neurons, mostly granule cells. Some Golgi cells are found at the outer border. Granule neurons send parallel fibers to the upper molecular layer, where they synapse with Purkinje cell dendrites. Mossy fibers from the pontine nuclei in the white matter synapse with granule cell axons, Golgi cell axons and unipolar brush interneuron axons at cerebellar glomeruli in the granule cell layer." "An undifferentiated columnar cell of the bronchus epithelium" @@ -2323,14 +2331,14 @@ "Any process that stops, prevents, or reduces the frequency, rate or extent of spermatid nuclear differentiation." "Binding to oxygen (O2)." - "Type of neuron that is a primary mechanosensory cell, with peripheral neurites innervating the skin with free nerve endings." "AAO:0010316 VHOG:0001484 ZFA:0009150 EFO:0003711" + "Type of neuron that is a primary mechanosensory cell, with peripheral neurites innervating the skin with free nerve endings." "ZFA:0009150 AAO:0010316 VHOG:0001484 EFO:0003711" "Cytoplasm that exhibits molecular interaction for basic dyes under specific pH conditions." "The outermost layer (or layers, depending on the species) of embryonic skin, essential for the development of the epidermis and establishment of the barrier functions. The periderm derives from the outer layer of the ectoderm." "VHOG:0001680 FMA:295662 EHDAA2:0001846 XAO:0000029 UMLS:C1518973 TAO:0001185 ZFA:0001185 NCIT:C34247 EHDAA:6538" "Any process that modulates the frequency or rate of multiplication or reproduction of Schwann cells, resulting in the expansion of their population. Schwann cells are a type of glial cell in the peripheral nervous system." "Any process that modulates the frequency, rate or extent of blood coagulation." - "A primary neuron (sensu Teleostei) that is neither a sensory neuron or a motor neuron." + "A primary neuron (sensu Teleostei) that is neither a sensory neuron or a motor neuron." "ZFA:0009245" "A portion of smooth muscle tissue that is part of a bronchus [Automatically generated definition]." "EMAPA:35195 MA:0001840 UMLS:C1707055 NCIT:C49213 BTO:0004401" - "Middle subdivision of a digestive tract[CJM]. In vertebrates: The middle part of the alimentary canal from the stomach, or entrance of the bile duct, to, or including, the large intestine[GO]." "EMAPA:16255 EHDAA2:0001185 NCIT:C34210 SCTID:361410004 TGMA:0001036 EHDAA:983 Wikipedia:Midgut XAO:0000103 MA:0001564 BILA:0000086 UMLS:C0231052 BTO:0000863 VHOG:0000290 EFO:0001950 FMA:45617" + "Middle subdivision of a digestive tract[CJM]. In vertebrates: The middle part of the alimentary canal from the stomach, or entrance of the bile duct, to, or including, the large intestine[GO]." "FBbt:00005383 EMAPA:16255 EHDAA2:0001185 NCIT:C34210 SCTID:361410004 TGMA:0001036 EHDAA:983 Wikipedia:Midgut XAO:0000103 MA:0001564 BILA:0000086 UMLS:C0231052 BTO:0000863 VHOG:0000290 EFO:0001950 FMA:45617" "The developmental process in which the heart is generated and organized. The heart is a hollow, muscular organ, which, by contracting rhythmically, keeps up the circulation of the blood." "A nail that is part of a pedal digit." "NCIT:C33790 UMLS:C0222007 SCTID:244198006 FMA:54328 XAO:0003103 EMAPA:36457" "The orderly movement of epithelial cells within a renal tubule that contributes to proximal tubule morphogenesis." @@ -2344,7 +2352,7 @@ "The series of events required for an organism to receive an orientational stimulus, convert it to a molecular signal, and recognize and characterize the signal. Equilibrioception refers to a combination of processes by which an organism can perceive its orientation with respect to gravity. In animals, stimuli come from labyrinth system of the inner ears, monitoring the direction of motion; visual stimuli, with information on orientation and motion; pressure receptors, which tell the organism which body surfaces are in contact with the ground; and proprioceptive cues, which report which parts of the body are in motion." "Wikipedia:Equilibrioception" "Any process that activates or increases the frequency, rate, or extent of plasmacytoid dendritic cell cytokine production." "EMAPA:17646 EHDAA2:0001147" - "Anatomical system that overlaps the nervous system and is responsible for receiving and processing sensory information." "MIAA:0000031 FMA:75259 BILA:0000099 AAO:0000555 EMAPA:16192 TAO:0000282 MAT:0000031 ZFA:0000282 EFO:0000805 VHOG:0001674 XAO:0003194 EHDAA2:0003094 Wikipedia:Sensory_system NLXANAT:090816 BAMS:SEN MA:0002442" + "Anatomical system that overlaps the nervous system and is responsible for receiving and processing sensory information." "MIAA:0000031 FMA:75259 BILA:0000099 AAO:0000555 EMAPA:16192 TAO:0000282 MAT:0000031 ZFA:0000282 EFO:0000805 VHOG:0001674 XAO:0003194 FBbt:00007692 Wikipedia:Sensory_system EHDAA2:0003094 NLXANAT:090816 BAMS:SEN MA:0002442" "Elastic tissue that is part of a lung [Automatically generated definition]." "MA:0002860" "The series of molecular signals mediated by the detection of a glucocorticoid hormone." "Any process that activates or increases the frequency, rate or extent of cell proliferation involved in heart morphogenesis." @@ -2352,13 +2360,12 @@ "A cell that constitutes the basal layer of epithelium in the prostatic duct." "FMA:74226" "Trunk part of spinal nerve, where dorsal and ventral roots meet to form the spinal nerve, before branching off to dorsal and ventral rami." "EHDAA2:0001900 FMA:5929" "An endoderm that is part of a foregut [Automatically generated definition]." "EHDAA2:0004568 EHDAA:524" - "The most primitive precursor in the granulocytic series, having fine, evenly distributed chromatin, several nucleoli, a high nuclear-to-cytoplasmic ration (5:1-7:1), and a nongranular basophilic cytoplasm. They reside in the bone marrow." "FMA:83524 BTO:0000187" + "The most primitive precursor in the granulocytic series, having fine, evenly distributed chromatin, several nucleoli, a high nuclear-to-cytoplasmic ration (5:1-7:1), and a nongranular basophilic cytoplasm. They reside in the bone marrow." "ZFA:0009353 FMA:83524 BTO:0000187" "A monostratified retinal ganglion cell that has a small dendrite field with a dense dendrite arbor with post synaptic terminals in sublaminer layer S4." - "BTO:0004185 FMA:67860 MESH:D018034 Wikipedia:Olfactory_receptor_neuron" "Any apoptotic process in a hepatoblast." "Portion of connective tissue composed of adipocytes enmeshed in areolar tissue." "FMA:20110 MAT:0000015 XAO:0003049 EHDAA2:0003120 MIAA:0000015 VHOG:0001284 TAO:0002134 AAO:0000001 NCIT:C12472 MA:0000009 ZFA:0005345 EV:0100381 GAID:920 SCTID:55603005 AEO:000020 EMAPA:35112 MESH:D000273 UMLS:C0001527 EFO:0000790 Wikipedia:Adipose_tissue CALOHA:TS-0013 BTO:0001487 galen:FattyTissue" - "The organs and associated structures associated with bearing offspring in a female animal." "EV:0100110 FMA:45663 GAID:364 HAO:0000324 BTO:0000083 EHDAA:8116 EFO:0000969 WikipediaCategory:Female_reproductive_system NCIT:C12402 SCTID:361386004 EMAPA:17959 VHOG:0000726 TGMA:0000635 CALOHA:TS-1303 Wikipedia:Female_genitalia UMLS:C0700038 MA:0000381 MIAA:0000028 EHDAA2:0000506 MESH:D005836 XAO:0000156" - "A progenitor cell of the thrombocyte, a nucleated blood cell involved in coagulation typically seen in birds and other non-mammalian vertebrates." + "The organs and associated structures associated with bearing offspring in a female animal." "FBbt:00004864 EV:0100110 FMA:45663 GAID:364 HAO:0000324 BTO:0000083 EHDAA:8116 EFO:0000969 WikipediaCategory:Female_reproductive_system NCIT:C12402 SCTID:361386004 EMAPA:17959 VHOG:0000726 TGMA:0000635 CALOHA:TS-1303 Wikipedia:Female_genitalia UMLS:C0700038 MA:0000381 MIAA:0000028 EHDAA2:0000506 MESH:D005836 XAO:0000156" + "A progenitor cell of the thrombocyte, a nucleated blood cell involved in coagulation typically seen in birds and other non-mammalian vertebrates." "ZFA:0009351" "Any muscle organ that is part of a pelvic appendage (hindlimb or pelvic fin)." "The assembly of a pseudopodium by rearrangement of the actin cytoskeleton and overlying membrane." "The orderly movement of a cell from one site to another that will contribute to the formation of an endocardial cushion. The endocardial cushion is a specialized region of mesenchymal cells that will give rise to the heart septa and valves." @@ -2382,7 +2389,8 @@ "An epithelium is a tissue that covers the internal or external surfaces of an anatomical structure[GO]." "A type EC enteroendocrine cell type that is numerous in the fundus of the stomach; stores 5-hydroxytryptamine and histamine." "FMA:63208" "A vascular endothelial cell found in colon blood vessels." "CALOHA:TS-2397" - "The subcommissural organ is a circumventricular organ consisting of ependymal and hypendymal cells which secrete SCO-spondin[WP,partially vetted]." "BTO:0001820 neuronames:483 HBA:9489 EMAPA:35828 DMBA:16514 CALOHA:TS-0986 MESH:D013351 GAID:794 Wikipedia:Subcommissural_organ UMLS:C0038533 ZFA:0000683 BAMS:SCO SCTID:369193006 MA:0002941 FMA:72414 DHBA:12101 TAO:0000683 BIRNLEX:1028" + "The subcommissural organ is a circumventricular organ consisting of ependymal and hypendymal cells which secrete SCO-spondin[WP,partially vetted]." "SCTID:369193006 neuronames:483 UMLS:C0038533 MA:0002941 BIRNLEX:1028 ZFA:0000683 FMA:72414 BAMS:SCO DMBA:16514 HBA:9489 TAO:0000683 GAID:794 EMAPA:35828 CALOHA:TS-0986 BTO:0001820 DHBA:12101 Wikipedia:Subcommissural_organ MESH:D013351" + "Any kidney medulla cell that is part of some outer medulla of kidney." "KUPO:0001025" "An anatomical space with at least one opening to another space or the exterior." "EHDAA2:0004616 AEO:0000221" "An arthroconidium that has only one nucleus." "FAO:0000031" "The distal elements of the developing limb of vertebrates that will give rise to the autopod (e.g. manus, pes, paw)." @@ -2412,7 +2420,7 @@ "The chemical reactions and pathways resulting in the breakdown of ketones, a class of organic compounds that contain the carbonyl group, CO, and in which the carbonyl group is bonded only to carbon atoms. The general formula for a ketone is RCOR, where R and R are alkyl or aryl groups." "Any process that activates or increases the frequency, rate or extent of T-helper 1 cell cytokine production." "A cone cell that detects short wavelength light. Exact peak of spectra detected differs between species. In humans, spectra peaks at 420-440 nm." - "A terminally differentiated, post-mitotic, antibody secreting cell of the B cell lineage with the phenotype CD138-positive, surface immunonoglobulin-negative, and MHC Class II-negative. Plasma cells are oval or round with extensive rough endoplasmic reticulum, a well-developed Golgi apparatus, and a round nucleus having a characteristic cartwheel heterochromatin pattern and are devoted to producing large amounts of immunoglobulin." "MESH:D010950 FMA:70574 BTO:0000392" + "A terminally differentiated, post-mitotic, antibody secreting cell of the B cell lineage with the phenotype CD138-positive, surface immunonoglobulin-negative, and MHC Class II-negative. Plasma cells are oval or round with extensive rough endoplasmic reticulum, a well-developed Golgi apparatus, and a round nucleus having a characteristic cartwheel heterochromatin pattern and are devoted to producing large amounts of immunoglobulin." "ZFA:0009332 MESH:D010950 FMA:70574 BTO:0000392" "The cellular avascular layer of the renal tubule luminar surfaces." "EMAPA:36524 BTO:0005239 UMLS:C1709902 NCIT:C49276 MA:0001681" "Dermal, epidermal, glandular and pigment structures of the external head integument." "The progression of the proepicardium from its formation to the mature structure. The proepicardium is an outpouching of the septum transversum." @@ -2459,7 +2467,9 @@ "The process in which a bronchiole is generated and organized. A bronchiole is the first airway branch that no longer contains cartilage; it is a branch of the bronchi." "A keratinized cell located in the hard palate or gingiva." "The cortical collecting duct is the portion of the collecting duct that resides in the renal cortex." "MA:0002600 BTO:0002643 EMAPA:28130" - "A cell that secretes ghrelin, the peptide hormone that stimulates hunger." + + "Enables the transfer of a lipid from one side of a membrane to the other." + "A cell that secretes ghrelin, the peptide hormone that stimulates hunger." "ZFA:0005599" "Any process that activates or increases the frequency, rate, or extent of T cell cytokine production." "Any process that activates or increases the frequency, rate or extent of chromosome segregation, the process in which genetic material, in the form of chromosomes, is organized and then physically separated and apportioned to two or more sets." "The process in which germinal centers form. A germinal center is a specialized microenvironment formed when activated B cells enter lymphoid follicles. Germinal centers are the foci for B cell proliferation and somatic hypermutation." @@ -2469,8 +2479,8 @@ "Any process that stops, prevents or reduces the frequency, rate or extent of ovarian follicle development." "A receptor-type tyrosine-protein phosphatase C that is a translation product of some mRNA whose exon structure and start site selection renders it capable of giving rise to a protein with the amino acid sequence represented by UniProtKB:P08575-4 or a 1:1 ortholog thereof." "In mammals, the pronephric duct is the predecessor of the Wolffian duct[WP]." "SCTID:361406002 TAO:0000150 NCIT:C34279 UMLS:C1283945 XAO:0000063 AAO:0011088 Wikipedia:Pronephric_duct ZFA:0000150" - "Any tagma (UBERON:6000002) that is part of some adult (UBERON:6003004)." - "A cell that is part of a cardiac valve." + "Any tagma (UBERON:6000002) that is part of some adult (UBERON:6003004)." "FBbt:00003005" + "A cell that is part of a cardiac valve." "ZFA:0009402" "The chemical reactions and pathways involving glycosphingolipids, any compound with residues of sphingoid and at least one monosaccharide." "A neuron projection quality that is a characteristic of neurons with both soma and projections entirely within the telencephalon." "ILX:0770100" "The regulated release of serotonin by a cell as part of an inflammatory response." @@ -2480,6 +2490,7 @@ "Any process that modulates the frequency, rate or extent of the directed movement of a neurotransmitter into a neuron or glial cell." "A zone of skin that is part of a digit [Automatically generated definition]." "EMAPA:32615 MA:0003011" "A rhodopsin-like G-protein coupled receptor that is a translation product of the human AVPR1A, AVPR1B, AVPR2, or OXTR genes, 1:1 orthologs thereof, or a semi-ortholog thereof. These receptors bind vasopressin or oxytocin or related nonapeptides." "PIRSF:PIRSF001841 IUPHARfam:66" + "The multiplication or reproduction of telencephalon oligodendrocyte cells, resulting in the expansion of a cell population." "The process in which the anatomical structures derived from the histoblast disc are generated and organized. This includes the transformation of histoblast cells into adult structures during pupal metamorphosis. Histoblast cells are cells founded in the embryo that are the progenitors to the adult abdomen." "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a lysosome. A lysosome is a cytoplasmic, membrane-bounded organelle that is found in most animal cells and that contains a variety of hydrolases." @@ -2488,10 +2499,12 @@ "A sulcus limitans of neural tube that is part of a future medulla oblongata." "EHDAA2:0001100 EMAPA:17561" "Multi-tissue structure that arises from the heart rudiment and will become the heart tube." "EHDAA2:0001512 FMA:321916 ZFA:0000149 EHDAA:424 Wikipedia:Primitive_heart_tube EMAPA:16215 TAO:0000149 SCTID:361522004 EHDAA:436" "An adventitia that is part of a seminal vesicle." "SCTID:252406002 FMA:19403 EMAPA:29775" + "Any glial cell that is part of some anterior lateral line nerve." "BTO:0002771" "A T-cell surface glycoprotein CD8 alpha chain isoform 1 that has had the signal peptide removed to yield the mature form." "Neuron found in the spiral ganglion." "Any process that activates or increases the frequency, rate or extent of blood coagulation." + "Any process that decreases the rate, frequency or extent of keratinocyte proliferation. Keratinocyte proliferation is the multiplication or reproduction of keratinocytes, resulting in the expansion of a cell population." "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a lipoprotein particle stimulus." "A CD2 molecule that is encoded in the genome of mouse." "UniProtKB:P08920" @@ -2522,28 +2535,27 @@ "A zone of skin that is part of a external ear [Automatically generated definition]." "FMA:24775 MA:0001233 SCTID:244073008 NCIT:C49481 EMAPA:35301 UMLS:C0222110" "Skeletogenic cell that has the potential to transform into an osteoblast, and develops from neural crest or mesodermal cells." "A region of the retina corresponding to a portion of two adjacent substratum layers." - "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])"@en "Any process that stops, prevents or reduces the frequency, rate or extent of protein depolymerization." "A lymphatic vessel that is part of a pectoral appendage." "ZFA:0005302 TAO:0005302" "The disaggregation of a protein-containing macromolecular complex into its constituent components." "A gingiva that is part of a lower jaw region." "EMAPA:18967 UMLS:C0227123 NCIT:C54204 FMA:59764 SCTID:304704007" "A mesonephric nephron tubule is an epithelial tube that is part of the mesonephric nephron, the functional part of the mesonephros[GO]." - "A tube extending from the mouth to the anus." "FMA:45615 BILA:0000083 VHOG:0000309 BTO:0000545 EMAPA:16247 ZFA:0000112 NCIT:C34082 UMLS:C0017189 AAO:0010023 BTO:0000511 TAO:0000112 EHDAA:518 galen:AlimentaryTract WBbt:0005743 EHDAA2:0000726 TGMA:0001819 MA:0000917" + "A tube extending from the mouth to the anus." "FMA:45615 BILA:0000083 VHOG:0000309 BTO:0000545 EMAPA:16247 ZFA:0000112 NCIT:C34082 FBbt:00003125 UMLS:C0017189 AAO:0010023 BTO:0000511 TAO:0000112 EHDAA:518 galen:AlimentaryTract WBbt:0005743 EHDAA2:0000726 TGMA:0001819 MA:0000917" "A biological tissue mass, most commonly a mass of nerve cell bodies." "MIAA:0000343 ZFA:0000190 FMA:5884 EHDAA:5621 AEO:0000135 EFO:0000899 EHDAA:918 EHDAA:2897 TGMA:0001016 MESH:D005724 MAT:0000207 WBbt:0005189 Wikipedia:Ganglion VHOG:0000156 EHDAA2:0003135 NCIT:C12719 EMAPA:32846 BTO:0000497 MIAA:0000207 UMLS:C0017067 NLXANAT:100302 XAO:0000209 BAMS:G EHDAA:4662 CALOHA:TS-0397 TAO:0000190 MA:0002406 AAO:0010426 MAT:0000343 EV:0100372" "Any process that modulates the frequency, rate or extent of glucose transport across a membrane. Glucose transport is the directed movement of the hexose monosaccharide glucose into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." "A smooth muscle cell that is located in the anorectum." - "Any head that is part of some larva." + "Any head that is part of some larva." "FBbt:00001730" "The mitral cell layer is composed of pyramidal neurons whose cell bodies are located between the granule cell layer and the plexiform layer." "NLXANAT:100201 MA:0000973 BTO:0001108 DHBA:11329 DMBA:15912 EMAPA:35611 BAMS:Mi" "Mesenchyme with little extracellular matrix." "EHDAA2:0003146 AEO:0000146" - "Transport systems of this type enable facilitated diffusion of water (by an energy-independent process) by passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism." "Reactome:R-HSA-507870 Reactome:R-HSA-432010 Reactome:R-HSA-432054 Reactome:R-HSA-507868 Reactome:R-HSA-445714 Reactome:R-HSA-432065 Reactome:R-HSA-432067 RHEA:29667" + "Transport systems of this type enable facilitated diffusion of water (by an energy-independent process) by passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism." "Reactome:R-HSA-507870 Reactome:R-HSA-432010 Reactome:R-HSA-507868 Reactome:R-HSA-432054 MetaCyc:TRANS-RXN-145 Reactome:R-HSA-445714 Reactome:R-HSA-432065 Reactome:R-HSA-432067 RHEA:29667" "Simple columnar epithelium made up of cells specialized to serve as sensory cells for the reception of external stimuli, as the sensory cells of the cochlea, vestibule, nasal mucosa, and tongue." "FMA:62410 SCTID:309045006 CALOHA:TS-0682" - "An anatomical group whose component structures share a common function." "AEO:0000093" + "An anatomical group whose component structures share a common function." "FBbt:00007278 AEO:0000093" "The process in which the anatomical structures of the skin are generated and organized. The skin is the external membranous integument of an animal. In vertebrates the skin generally consists of two layers, an outer nonsensitive and nonvascular epidermis (cuticle or skarfskin) composed of cells which are constantly growing and multiplying in the deeper, and being thrown off in the superficial layers, as well as an inner, sensitive and vascular dermis (cutis, corium or true skin) composed mostly of connective tissue." "The process in which the anatomical structures of the cardiogenic plate are generated and organized. The cardiogenic plate is the first recognizable structure derived from the heart field." "A thymic medullary epithelial cell that expresses muscle-specific biomarkers." "A resting mature B cell within the Peyer's patch that is CD19-positive, B220-positive, IgM-positive, AA4-negative, CD23-positive, CD43-negative, and CD5-negative." "A secretion that is part of a exocrine pancreas [Automatically generated definition]." "NCIT:C33256 MA:0002518 UMLS:C1518867" - "ncithesaurus:Blastemal_Cell" + "ZFA:0009178 ncithesaurus:Blastemal_Cell" "The process in which plasma is filtered through the glomerular membrane which consists of capillary endothelial cells, the basement membrane, and epithelial cells. The glomerular filtrate is the same as plasma except it has no significant amount of protein." "Nerve fibers which project from the central nervous system to autonomic ganglia. In the sympathetic division most preganglionic fibers originate with neurons in the intermediolateral column of the spinal cord, exit via ventral roots from upper thoracic through lower lumbar segments, and project to the paravertebral ganglia; there they either terminate in synapses or continue through the splanchnic nerves to the prevertebral ganglia. In the parasympathetic division the fibers originate in neurons of the brain stem and sacral spinal cord. In both divisions the principal transmitter is acetylcholine but peptide cotransmitters may also be released." "Wikipedia:Preganglionic_nerve_fibers NCIT:C12624 FMA:5923 MESH:D001339" "A type EC enteredocrine cell in the intestines that stores and secretes substance P and 5-hydroxytryptamine." "FMA:62940" @@ -2555,6 +2567,7 @@ "Any process that activates or increases the frequency, rate or extent of keratinocyte migration." "Any process that modulates the frequency, rate or extent of dense core granule transport." "Any process that modulates the frequency, rate or extent of muscle contraction." + "Any vasa recta cell that is part of some outer renal medulla vasa recta." "KUPO:0001070" "The evagination of the Golgi membrane, resulting in formation of a vesicle." "A developmental process, independent of morphogenetic (shape) change, that is required for a neuron to attain its fully functional state." "An axial muscle that originates in the cervical vertebraae inserts on the scapula." "Wikipedia:Levator_scapulae_muscle FMA:32519 AAO:0010689 EHDAA2:0000992 EHDAA:8309 SCTID:279236008" @@ -2562,6 +2575,7 @@ "A developmental process, independent of morphogenetic (shape) change, that is required for the cerebellar cortex to attain its fully functional state. The cerebellar cortex is a thin mantle of gray matter that covers the surface of each cerebral hemisphere. It has a characteristic morphology with convolutions (gyri) and crevices (sulci) that have specific functions. Six layers of nerve cells and the nerve pathways that connect them comprise the cerebellar cortex. Together, these regions are responsible for the processes of conscious thought, perception, emotion and memory as well as advanced motor function." "A tachykinin-3 that is encoded in the genome of mouse." "UniProtKB:P55099" "The functional tissue of the kidney, consisting of the nephrons." "BTO:0003604 SCTID:29704000 FMA:15574" + "Any urothelial cell that is part of some urothelium of ureter." "KUPO:0001117" "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an aldosterone stimulus." "The capsule surrounding the inner ear mechanism." "SCTID:361515007 AAO:0010143 VHOG:0000854 EMAPA:17596" "Any process that activates or increases the frequency, rate or extent of microglial cell mediated cytotoxicity." @@ -2582,14 +2596,15 @@ "A zone of skin that is part of a upper lip." "SCTID:281629007 FMA:24765" "The process aimed at the progression of an enucleate erythrocyte over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell." "A transitional myocyte that is part of the anterior division of left branch of atrioventricular bundle." "FMA:263166" - "A vertebrate phagocyte with a single nucleus." "BTO:0001433" + "A vertebrate phagocyte with a single nucleus." "ZFA:0009064 BTO:0001433" "Any process that modulates the frequency, rate or extent of translation of mRNAs that contribute to the specification of the anterior/posterior axis." "A submucosa that is part of a lobar bronchus [Automatically generated definition]." "FMA:62669" "A medium-wave-sensitive opsin that is encoded in the genome of human." - "A cell whose primary function is to prevent the transport of stuff across compartments." - "A cell that is part of kidney interstitium." "KUPO:0001013" + "A cell whose primary function is to prevent the transport of stuff across compartments." "ZFA:0009132" + "A cell that is part of kidney interstitium." "ZFA:0009390 KUPO:0001013" "A proximal metaphysis that is part of a femur." "FMA:32878" "Any process that modulates the frequency, rate or extent of addition of phosphate groups into an amino acid in a protein." + "Any cell that is capable of some oxygen transport." "ZFA:0009164" "Any process that stops, prevents, or reduces the frequency, rate or extent of natural killer cell differentiation as part of an immune response." "A process that leads to a temporary increase in postsynaptic potential due to the flow of positively charged ions into the postsynaptic cell. The flow of ions that causes an EPSP is an excitatory postsynaptic current (EPSC) and makes it easier for the neuron to fire an action potential." "The outermost layer of the aorta wall, containing connective tissue and collagen and elastic fibers." "FMA:14283 SCTID:24996002 EMAPA:35136 MA:0002902" @@ -2600,7 +2615,6 @@ "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a toxic stimulus." "Any process that activates or increases the frequency, rate, or extent of interleukin-4 production." "Any process that stops, prevents or reduces the frequency, rate or extent of microglial cell mediated cytotoxicity." - "A CD11b-positive dendritic cell that is CD11b-high, CD45-positive, MHC-II-positive and CD103-negative." "Glandular cell of oviduct epithelium. Example: peg cells, ciliated cells." "CALOHA:TS-1277" "A region of the serous membrane that forms the innermost layer of the pericardium and the outer surface of the heart." "TAO:0005057 ZFA:0005057 EHDAA2:0002202 UMLS:C0225968 NCIT:C13164 Wikipedia:Epicardium FMA:9461 VHOG:0000119 galen:Epicardium AAO:0010409 XAO:0000316" @@ -2630,7 +2644,7 @@ "Any process that activates or increases the frequency, rate or extent of neurogenesis, the generation of cells within the nervous system." "The progression of the glomerulus of the pronephric kidney over time from its initial formation until its mature state. The pronephric glomerulus is part of the pronephric nephron and is restricted to one body segment." "An anatomical space which is the lumen of some anatomical conduit and connects two or more spaces together[FMA,modified]." "FMA:9338" - "A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the inner plexiform layer." + "A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the inner plexiform layer." "ZFA:0009318" "An absorptive epithelial cell of the human intestine expressing bestrophin-4 (BEST4) calcium-activated ion channels." "Any process that activates or increases the frequency, rate or extent of bone mineralization involved in bone maturation." "The process in which the population of cells that make up a tissue undergo directed movement." @@ -2644,7 +2658,6 @@ "A transmembrane emp24 domain-containing protein 1 that is encoded in the genome of mouse." "UniProtKB:Q3V009" "A squamous epithelium that is part of a esophagus." "BTO:0003635 NCIT:C49222 MA:0001567 EMAPA:35324 CALOHA:TS-1250 UMLS:C1707950" "The process whose specific outcome is the progression of a striated muscle cell over time, from its formation to the mature structure. Striated muscle cells contain fibers that are divided by transverse bands into striations, and cardiac and skeletal muscle are types of striated muscle." - "A mesenchymal cell of the endocardial cushion. These cells develop via an epithelial to mesenchymal transition when endocardial cells break cell-to-cell contacts and migrate into the cardiac jelly. Cells from this population form the heart septa and valves." "A neprilysin that is encoded in the genome of mouse." "UniProtKB:Q61391" "An intestinal villus in the jejunum." "FMA:63301" @@ -2681,15 +2694,16 @@ "Any process that stops, prevents or reduces the frequency, rate or extent of myeloid progenitor cell differentiation." "The progression of a glandular acinus of the prostate gland over time, from its initial formation to the mature structure. The glandular acini are the saclike structures of the gland." "Any capillary endothelial cell that is part of a placenta." + "Any endothelial cell that is part of some heart." "Any process that activates or increases the frequency, rate or extent of protein depolymerization." "Any process that stops, prevents, or reduces the frequency, rate or extent of natural killer cell differentiation." "A process that directly activates any of the steps required for tolerance, a physiologic state in which the immune system does not react destructively against the components of an organism that harbors it or against antigens that are introduced to it." - + "ZFA:0009180" "The initial segment of an olfactory nerve, leaving the central nervous system." "BIRNLEX:1632" - "A progenitor cell restricted to the lymphoid lineage." "CALOHA:TS-2025 FMA:70338 BTO:0004731" + "A progenitor cell restricted to the lymphoid lineage." "ZFA:0009355 CALOHA:TS-2025 FMA:70338 BTO:0004731" "A fibroblastic reticular cell found in the lymph node subcapsular sinus." - "The brain is the center of the nervous system in all vertebrate, and most invertebrate, animals. Some primitive animals such as jellyfish and starfish have a decentralized nervous system without a brain, while sponges lack any nervous system at all. In vertebrates, the brain is located in the head, protected by the skull and close to the primary sensory apparatus of vision, hearing, balance, taste, and smell[WP]." "ZFA:0000008 GAID:571 BIRNLEX:796 MBA:8 EHDAA:2641 BAMS:Br EHDAA:6485 XAO:0000010 galen:Brain MIAA:0000098 EMAPA:16894 neuronames:21 FMA:50801 ABA:Brain UMLS:C1269537 BILA:0000135 EHDAA2:0000183 EFO:0000302 MAT:0000098 DHBA:10155 UMLS:C0006104 BAMS:Brain TAO:0000008 AAO:0010478 HBA:4005 EV:0100164 NCIT:C12439 MA:0000168 MESH:D001921 SCTID:258335003 Wikipedia:Brain BTO:0000142 PBA:3999 VHOG:0000157 MBA:997 CALOHA:TS-0095" + "The brain is the center of the nervous system in all vertebrate, and most invertebrate, animals. Some primitive animals such as jellyfish and starfish have a decentralized nervous system without a brain, while sponges lack any nervous system at all. In vertebrates, the brain is located in the head, protected by the skull and close to the primary sensory apparatus of vision, hearing, balance, taste, and smell[WP]." "ZFA:0000008 GAID:571 BIRNLEX:796 MBA:8 EHDAA:2641 BAMS:Br EHDAA:6485 XAO:0000010 galen:Brain MIAA:0000098 EMAPA:16894 neuronames:21 FMA:50801 ABA:Brain UMLS:C1269537 BILA:0000135 EHDAA2:0000183 EFO:0000302 MAT:0000098 DHBA:10155 UMLS:C0006104 BAMS:Brain TAO:0000008 AAO:0010478 HBA:4005 EV:0100164 NCIT:C12439 MA:0000168 FBbt:00005095 MESH:D001921 SCTID:258335003 Wikipedia:Brain BTO:0000142 PBA:3999 VHOG:0000157 MBA:997 CALOHA:TS-0095" "The sensory system for the sense of touch and pain." "NLXANAT:090818 EMAPA:37954 neuronames:2887 Wikipedia:Somatosensory_system" "A valve that is part of a vein." "FMA:68095" "An unilaminar epithelium that surrounds a pelvic appendage bud." "VHOG:0001048 EMAPA:16780 EHDAA2:0001034" @@ -2699,7 +2713,7 @@ "Any process involved in the maintenance of an internal steady state of calcium ions within the Golgi apparatus of a cell or between the Golgi and its surroundings." "An anatomical space that is enclosed by a conjunctiva." "SCTID:280957009 FMA:59083" "Any process that activates or increases the frequency, rate or extent of cardiac ventricle formation." - "The chemical reactions and pathways resulting in the breakdown of chondroitin sulfate, any member of a group of 10-60 kDa glycosaminoglycans, widely distributed in cartilage and other mammalian connective tissues, the repeat units of which consist of beta-(1,4)-linked D-glucuronyl beta-(1,3)-N-acetyl-D-galactosamine sulfate." + "The chemical reactions and pathways resulting in the breakdown of chondroitin sulfate, any member of a group of 10-60 kDa glycosaminoglycans, widely distributed in cartilage and other mammalian connective tissues, the repeat units of which consist of beta-(1,4)-linked D-glucuronyl beta-(1,3)-N-acetyl-D-galactosamine sulfate." "MetaCyc:PWY-6572 MetaCyc:PWY-6573" "Tolerance induction in the peripheral lymphoid tissues: blood, lymph nodes, spleen, and mucosal-associated lymphoid tissues." "Focal thickenings of the embryonic ectoderm that form immediately dorsal and caudal of the clefts between the pharyngeal arches and that produce the neuroblasts that migrate and condense to form the distal cranial ganglia." "FMA:293968 ZFA:0001294 XAO:0000284 TAO:0001294 EFO:0003455 VHOG:0000117 AAO:0011036" @@ -2713,18 +2727,18 @@ "A caudal vertebra endochondral element that is composed primarily of cartilage tissue." "EMAPA:18044 EHDAA2:0000260" "VHOG:0001384 XAO:0000307 TAO:0007038 ZFA:0007038 AAO:0011012" "A galectin-1 that is encoded in the genome of human." "UniProtKB:P09382" + "Any radial glial cell that is part of some spinal cord." "One of two compartments identified in the neostriatum, particularly the caudate nucleus, on the basis of differential staining for several biochemical markers such as acetylcholinesterase and calbindin. In individual sections, the striosomes appear as small patches of differentially high or low staining activity. In three dimensions, they form a 3D labyrinth extending throughout the caudate nucleus and in the putamen." "NLXANAT:20090506" "The docking of a cytosolic centriole/basal body to the plasma membrane via the ciliary transition fibers. In some species this may happen via an intermediate step, by first docking to the ciliary vesicle via the ciliary transition fibers. The basal body-ciliary vesicle then relocates to the plasma membrane, followed by the ciliary vesicle fusing with the plasma membrane, effectively attaching the basal body to the plasma membrane." "Reactome:R-HSA-5620912.1" "Any gene expression that is involved in extracellular matrix organization. Gene expression includes both transcription to produce an RNA transcript, and the translation of that mRNA into protein. Protein maturation is included in gene expression when required to form an active form of a product from an inactive precursor form." "Any process that stops, prevents or reduces the frequency, rate or extent of membrane invagination." "A bone that is part of a hindlimb digit. Typically phalanges but may include sesamoids." "EMAPA:37309 MA:0000646" "Binding to a major histocompatibility complex." - "A localization process that acts on a protein complex; the complex is transported to, or maintained in, a specific location." "The process pertaining to the initial formation of the mammary gland from unspecified parts. The process begins with formation of the mammary line and ends when the solid mammary bud invades the primary mammary mesenchyme." "A protein complex that in its canonical form is composed of two identical immunoglobulin heavy chains and two identical immunoglobulin light chains, held together by disulfide bonds and sometimes complexed with additional proteins. An immunoglobulin complex may be embedded in the plasma membrane or present in the extracellular space, in mucosal areas or other tissues, or circulating in the blood or lymph." "Any process carried out at the cellular level that reduces or removes the toxicity of a toxic substance. These may include transport of the toxic substance away from sensitive areas and to compartments or complexes whose purpose is sequestration of the toxic substance." - "An endocardium that is part of a interventricular septum [Automatically generated definition]." "EHDAA2:0000887 VHOG:0000615 EHDAA2:0000886 FMA:83584" + "An endocardium that is part of a interventricular septum [Automatically generated definition]." "EHDAA2:0000887 VHOG:0000615 FMA:83584 EHDAA2:0000886" "Any apoptotic process in a fibroblast, a connective tissue cell which secretes an extracellular matrix rich in collagen and other macromolecules." "The biological process whose specific outcome is the progression of a nephrogenic mesenchyme from an initial condition to its mature state. This process begins with the formation of nephrogenic mesenchyme and ends with the mature structure. Nephrogenic mesenchyme is the tissue made up of loosely connected mesenchymal cells in the nephron." "The nonstriated, involuntary muscle tissue located in the wall of the aorta." "NCIT:C49191 UMLS:C1706825 BTO:0001685 EFO:0002775 MA:0000702 EMAPA:35135 CALOHA:TS-0048" @@ -2757,7 +2771,7 @@ "The third segment of the limb, including either the wrist segment (carpus) or the ankle segment (tarsus)." "Wikipedia:Carpus_and_tarsus_of_land_vertebrates" "An endothelial cell of the vascular tree, which includes blood vessels and lymphatic vessels." "FMA:67755 CALOHA:TS-1106 BTO:0001854" "A Lamp5 GABAergic cortical interneuron that has extended axons in the surface of L1. Canopy Lamp5 cells resemble neurogliaform cells in having elongated horizontal axonal arbors largely confined to L1; but the dendritic arbors are wider and have fewer branches, while the axon is less tortuous and extends further from the soma" - "A cuboidal epithelial cell of the kidney which regulates sodium and potassium balance. The activity of sodium and potassium channels on the apical membrane of the cell is regulated by aldosterone and vasopressin. In mammals this cell type is located in the renal collecting duct system." + "A cuboidal epithelial cell of the kidney which regulates sodium and potassium balance. The activity of sodium and potassium channels on the apical membrane of the cell is regulated by aldosterone and vasopressin. In mammals this cell type is located in the renal collecting duct system." "ZFA:0005322" "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of ecdysteroids." "A nerve that is part of a foot [Automatically generated definition]." "MA:0000653 EMAPA:37347" "A mesenchyme-derived anatomical entity undergoing a transtion to become another structure." "AEO:0001016" @@ -2768,7 +2782,7 @@ "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an organic cyclic compound stimulus." "The process in which the anatomical structures of the mesonephric nephron are generated and organized. A mesonephric nephron is the functional unit of the mesonephros." "A mesodermal signaling center of the hair follicle consisting of closely packed specialized mesenchymal fibroblasts. Framed by the enlarged bulb matrix in anagen." "NCIT:C83189 NCIT:C32710 CALOHA:TS-0431 Wikipedia:Dermal_papillae SCTID:320101005 EMAPA:36484 FMA:70737 BTO:0001858 UMLS:C0221931" - "A cell of hematopoietic origin, typically resident in particular tissues, specialized in the uptake, processing, and transport of antigens to lymph nodes for the purpose of stimulating an immune response via T cell activation. These cells are lineage negative (CD3-negative, CD19-negative, CD34-negative, and CD56-negative)." "FMA:83036 BTO:0002042 MESH:D003713 CALOHA:TS-0194" + "A cell of hematopoietic origin, typically resident in particular tissues, specialized in the uptake, processing, and transport of antigens to lymph nodes for the purpose of stimulating an immune response via T cell activation. These cells are lineage negative (CD3-negative, CD19-negative, CD34-negative, and CD56-negative)." "ZFA:0009209 FMA:83036 MESH:D003713 BTO:0002042 CALOHA:TS-0194" "Any process that activates or increases the frequency, rate or extent of growth of an organism to reach its usual body size." "An interleukin-1 receptor-like 1 that is encoded in the genome of mouse." "UniProtKB:P14719" "The process in which a relatively unspecialized cell acquires specialized features of a satellite cell." @@ -2801,13 +2815,15 @@ "A paneth cell of the appendix." "A mature alpha-beta T cell of a distinct lineage that bears natural killer markers and a T cell receptor specific for a limited set of ligands. NK T cells have activation and regulatory roles particularly early in an immune response." "A cell that is part of the brain vasculature." + "Any epidermal cell that is part of some stratum granulosum of epidermis." "A quality inhering in a bearer by virtue of its constitution." "A capsule that surrounds a female gonad." "FMA:18662 MA:0001706 SCTID:258491008 UMLS:C0227877 NCIT:C49265 EMAPA:35626" "FMA:322074" "The process in which the anatomical structures of branches in the open tracheal system are generated and organized." "A type I vestibular sensory cell that is part of the stato-acoustic epithelium." "FMA:263186" + "Any cell that is part of some ureter." "KUPO:0001116" "A mucosa that is part of a jejunum [Automatically generated definition]." "MA:0003214 EMAPA:27109 FMA:14949 BTO:0001742 CALOHA:TS-0495 SCTID:362151009" - "A nucleated immature erythrocyte, having cytoplasm generally similar to that of the earlier proerythroblast but sometimes even more basophilic, and usually regular in outline. The nucleus is still relatively large, but the chromatin strands are thicker and more deeply staining, giving a coarser appearance; the nucleoli have disappeared. This cell is CD71-positive and lacks hematopoeitic lineage markers." "FMA:83505" + "A nucleated immature erythrocyte, having cytoplasm generally similar to that of the earlier proerythroblast but sometimes even more basophilic, and usually regular in outline. The nucleus is still relatively large, but the chromatin strands are thicker and more deeply staining, giving a coarser appearance; the nucleoli have disappeared. This cell is CD71-positive and lacks hematopoeitic lineage markers." "ZFA:0005236 FMA:83505" "A physical quality of a fluid inhering in a bearer by virtue of the bearer's disposition to internal resistance to flow." "A digital artery that is part of a forelimb [Automatically generated definition]." "EMAPA:37210 SCTID:265791006 MA:0001953" "SCTID:280667001 MA:0001318" @@ -2817,7 +2833,7 @@ "The process in which a relatively unspecialized cell acquires specialized features of an amacrine cell, an interneuron generated in the inner nuclear layer (INL) of the vertebrate retina. Amacrine cells integrate, modulate, and interpose a temporal domain in the visual message presented to the retinal ganglion cells, with which they synapse in the inner plexiform layer. Amacrine cells lack large axons." "An interleukin-3 receptor class 2 alpha chain that is encoded in the genome of human." "UniProtKB:P26951" "A vein arising from the splenic trabecular vein in the hilum of the spleen that drains into the portal vein." "Wikipedia:Splenic_vein EMAPA:37226 MA:0002164 SCTID:278029005 GAID:541 FMA:14331 UMLS:C0038001 galen:SplenicVein NCIT:C33608 MESH:D013162" - "The protruding lymphoid tissue located on the mucosa of the intestine that is composed of densely packed B cell follicles." "GAID:950 MA:0000137 EFO:0001381 EMAPA:19028 UMLS:C0031272 Wikipedia:Peyer's_patch BTO:0001784 NCIT:C12771 CALOHA:TS-0780 MESH:D010581" + "The protruding lymphoid tissue located on the mucosa of the intestine that is composed of densely packed B cell follicles." "MA:0000137 EFO:0001381 EMAPA:19028 UMLS:C0031272 Wikipedia:Peyer's_patch BTO:0001784 NCIT:C12771 CALOHA:TS-0780 MESH:D010581 GAID:950" "An anatomical wall that is part of a esophagus [Automatically generated definition]." "FMA:12611 EMAPA:35326 MA:0002691" "OBSOLETE An intratelencephalic-projecting glutamatergic neuron with a soma found in layer 5 of the marmoset primary motor cortex." "ILX:0770157" "The pharyngeal aponeurosis (or pharyngobasilar fascia, or fibrous coat), is situated between the mucous and muscular layers. It is thick above where the muscular fibers are wanting, and is firmly connected to the basilar portion of the occipital and the petrous portions of the temporal bones. As it descends it diminishes in thickness, and is gradually lost. It is strengthened posteriorly by a strong fibrous band, which is attached above to the pharyngeal spine on the under surface of the basilar portion of the occipital bone, and passes downward, forming a median raphe, which gives attachment to the Constrictores pharyngis." "FMA:55074 Wikipedia:Pharyngobasilar_fascia SCTID:16675008" @@ -2851,6 +2867,7 @@ "The directed movement of an endothelial cell guided by a specific chemical concentration gradient. Movement may be towards a higher concentration (positive chemotaxis) or towards a lower concentration (negative chemotaxis)." "A skeletal muscle cell that is part of the tongue." + "Any secretory cell that is capable of some somatostatin secretion." "ZFA:0009105" "Mesenchymal cells that are migrating." "EHDAA2:0003152 AEO:0000152" "A kidney that is part of a right side of organism [Automatically generated definition]." "NCIT:C34005 EMAPA:36590 SCTID:362208000 FMA:7204 UMLS:C0227613 MA:0001683" "Opening of uterine cervix into the vagina." "UMLS:C1512165 FMA:76836 Wikipedia:External_orifice_of_the_uterus NCIT:C32491 SCTID:362255005" @@ -2868,7 +2885,7 @@ "Mesenchyme that develops_from a neural crest and is part of a entire pharyngeal arch associated mesenchyme." "FMA:63628" "Any process that modulates the frequency, rate or extent of the directed movement of the neurotransmitter norepinephrine into a cell." - "A lymphoid progenitor cell that is committed to the natural killer cell lineage, expressing CD122 (IL-15) receptor, but lacking many of the phenotypic characteristics of later stages of natural killer cell development such as expression of NK activating and inhibitory molecules. In human this cell has the phenotype CD34-positive, CD45RA-positive, CD10-positive, CD117-negative, and CD161 negative." + "A lymphoid progenitor cell that is committed to the natural killer cell lineage, expressing CD122 (IL-15) receptor, but lacking many of the phenotypic characteristics of later stages of natural killer cell development such as expression of NK activating and inhibitory molecules. In human this cell has the phenotype CD34-positive, CD45RA-positive, CD10-positive, CD117-negative, and CD161 negative." "ZFA:0009348" "A ribosome contained within a subcellular membrane-bounded organelle." "Mesenchyme that is part of a foregut-midgut junction." "EHDAA2:0000570 EMAPA:16364" "A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence." "Wikipedia:Biological_process" @@ -2878,13 +2895,14 @@ "The edge of the cornea where it joins the sclera; the limbus is a common site for the occurrence of corneal epithelial neoplasm." "Wikipedia:Corneal_limbus FMA:58342 SCTID:63716004 GAID:896 MESH:D016850 EFO:0001403 ZFA:0005570 EMAPA:37835" "The disaggregation of a cell-cell junction into its constituent components." "Mesenteric artery that supplies the large intestine from the left colic (or splenic) flexure to the upper part of the rectum, which includes the descending colon, the sigmoid colon, and part of the rectum. Proximally, its territory of distribution overlaps (forms a watershed) with the middle colic artery, and therefore the superior mesenteric artery. The SMA and IMA anastomose via the marginal artery (artery of Drummond). The territory of distribution of the IMA is more or less equivalent to the embryonic hindgut. [WP,unvetted]." "VHOG:0001116 NCIT:C32780 MESH:D017537 EHDAA:4345 EMAPA:18618 BTO:0002302 MA:0002004 UMLS:C0162860 EHDAA2:0000817 GAID:501 Wikipedia:Inferior_mesenteric_artery galen:InferiorMesentericArtery FMA:14750 SCTID:181341006" - "A neuroglial cell of ectodermal origin, i.e., the astrocytes and oligodendrocytes considered together." "CALOHA:TS-2027 BTO:0000771 FMA:54538" + "A neuroglial cell of ectodermal origin, i.e., the astrocytes and oligodendrocytes considered together." "ZFA:0009074 CALOHA:TS-2027 BTO:0000771 FMA:54538" "A strand of hair that is part of a autopod region." "The process whose specific outcome is the progression of the metanephric nephron epithelium over time, from its formation to the mature structure. An epithelium is a tissue that covers the internal or external surfaces of an anatomical structure. The metanephric nephron epithelium is a tissue that covers the surface of a nephron in the metanephros." "The central cone shaped core of spongy bone about which turns the spiral canal." "NCIT:C33135 BTO:0001693 MA:0001182 FMA:61278 SCTID:361314007 UMLS:C0229503 EMAPA:35575 Wikipedia:Modiolus_(cochlea)" "A zone of skin that is part of a hindlimb [Automatically generated definition]." "FMA:23102 EMAPA:32620 UMLS:C0222268 MA:0000665 NCIT:C12297 SCTID:181528008" "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an environmental stimulus." "A protein that is a translation product of the human TH gene or a 1:1 ortholog thereof." "IUPHARobj:1243" + "A protein complex that possesses activity that prevents or downregulates transcription." "Bilateral groups of cells consisting of three rows: one row of endocardial precursors medially and two rows of myocardical precursors laterally. The two populations fuse at the midline to form the heart rudiment or cone." "ZFA:0000028 UMLS:C1514450 BTO:0001887 XAO:0000336 TAO:0000028 NCIT:C34276 AAO:0011044" "Any process that stops, prevents, or reduces the frequency, rate or extent of mononuclear cell proliferation." "An anatomical cavity that has the potential to develop into a coelemic cavity lumen." @@ -2910,9 +2928,10 @@ "The directional movement of tangentially migrating interneurons that are not guided by attaching to extracellular substrates." "The chemical reactions and pathways involving norepinephrine, a hormone secreted by the adrenal medulla, and a neurotransmitter in the sympathetic peripheral nervous system and in some tracts in the central nervous system. It is also the demethylated biosynthetic precursor of epinephrine." "The thin innermost layer of the extraembryonic membranes that contains the amniotic fluid; the membrane forms a closed sac in which the embryo and later, the fetus, is suspended and protected." "EHDAA2:0000116 EMAPA:16109 BTO:0000065 MESH:D000650 EV:0100122 Wikipedia:Amnion SCTID:181457005 VHOG:0000721 CALOHA:TS-0033 EHDAA:136 GAID:1298 NCIT:C12365 UMLS:C0002630 FMA:80223" + "Any endothelial cell of vascular tree that is part of some lung." "Of or pertaining to the period of time immediately following birth, or to the newborn." "NIF_Organism:birnlex_695 MmusDv:0000096 Wikipedia:Infant BTO:0001762 EV:0300037 HsapDv:0000082 OGES:000025 http://neurolex.org/wiki/Category:Newborn_organism http://neurolex.org/wiki/Category:Infant_organism" "A nerve root that extends_fibers_into a hypoglossal nerve." "UMLS:C0175555 BAMS:12nf neuronames:798 FMA:72632 DMBA:17750 DHBA:12886 BIRNLEX:1288 BAMS:12n BIRNLEX:1588" - "A lymphocyte is a leukocyte commonly found in the blood and lymph that has the characteristics of a large nucleus, a neutral staining cytoplasm, and prominent heterochromatin." "MESH:D008214 VHOG:0001535 CALOHA:TS-0583 FMA:62863 BTO:0000775" + "A lymphocyte is a leukocyte commonly found in the blood and lymph that has the characteristics of a large nucleus, a neutral staining cytoplasm, and prominent heterochromatin." "ZFA:0009250 MESH:D008214 VHOG:0001535 CALOHA:TS-0583 FMA:62863 BTO:0000775" "A dorsal mesentery that is part of a caecum." "RETIRED_EHDAA2:0000208" "A G protein-coupled receptor signaling pathway initiated by a ligand binding to an acetylcholine receptor on the surface of a target cell, and ends with regulation of a downstream cellular process, e.g. transcription." "Any process that activates or increases the frequency, rate, or extent of interleukin-1 production." @@ -2920,7 +2939,7 @@ "A high affinity immunoglobulin epsilon receptor subunit alpha that is encoded in the genome of mouse." "UniProtKB:P20489" "The migration of cells in the developing cerebral cortex in which cells move from the ventricular and/or subventricular zone toward the surface of the brain." "Any process that activates or increases the frequency, rate or extent of hyaluronan biosynthetic process." - "A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body." "FMA:86667" + "A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body." "ZFA:0007086 FMA:86667" "Any process that activates or increases the frequency, rate or extent of eosinophil chemotaxis." "Epithelium lining the exocrine pancreas." "CALOHA:TS-2108" "An artery that supplies an ovary." "Wikipedia:Ovarian_artery UMLS:C0226411 SCTID:244280002 EMAPA:18620 NCIT:C33242 FMA:14761 MA:0002012" @@ -2929,7 +2948,7 @@ "A supportive cell that has characteristics of glial cell. Processes of this cell envelope the junctions between glomus cells and nerve endings." "FMA:84188" "The Sphenofrontal suture is the cranial suture between the sphenoid bone and the frontal bone." "FMA:52938 SCTID:136349005 Wikipedia:Sphenofrontal_suture" "Any apoptotic process in a vascular associated smooth muscle cell." - "Branch or outpocketing of the digestive tract." + "Branch or outpocketing of the digestive tract." "FBbt:00100316" "A type of interneuron in the retinal inner nuclear layer which\ncarries information from the inner plexiform layer and the outer\nplexiform layer." "A double membrane structure enclosing an organelle, including two lipid bilayers and the region between them. In some cases, an organelle envelope may have more than two membranes." "Any process that stops, prevents, or reduces the frequency, rate, or extent of B cell apoptotic process." @@ -2942,7 +2961,6 @@ "Any process that stops, prevents or reduces the frequency, rate or extent of protein localization to cell periphery." "The layer within the retina where the photoreceptor cell bodies reside." "UMLS:C0229210 SCTID:280678009 BTO:0005600 TAO:0001464 XAO:0003219 MA:0001315 BAMS:Ronl NCIT:C33236 FMA:58684 VHOG:0001170 EMAPA:19157 ZFA:0001464 Wikipedia:Outer_nuclear_layer" "An endothelial cell that is part of the venous sinus of spleen. This endothelial cell has an elongated, spindle-shaped, flattened morphology that is parallel to long axis of sinus. This cell type rests on a basement membrane interrupted by numerous narrow slits." "FMA:72140" - "Binding to heterocyclic compound." "Fusion of the membrane of a transport vesicle with its target membrane." "Any process that modulates the frequency, rate, or extent of tolerance induction to nonself antigen." "An epithelium that is part of a left lung [Automatically generated definition]." "MA:0003131 EMAPA:17655" @@ -3009,7 +3027,7 @@ "A C-C chemokine receptor type 7 that is encoded in the genome of human." "DTO:02100059 UniProtKB:P32248" "An epithelial cell located in the late distal convoluted tubule." "A prostaglandin D2 receptor DP2 that is encoded in the genome of human." "UniProtKB:Q9Y5Y4 DTO:02100741 Reactome:R-HSA-416895" - "A motor neuron that is located in the cervical region of the spinal cord and selectively innervates the sternocleidmastoid or trapezius muscle. Unlike other motor neurons, they extend axons dorsally along lateral margins of the spinal cord." + "A motor neuron that is located in the cervical region of the spinal cord and selectively innervates the sternocleidmastoid or trapezius muscle. Unlike other motor neurons, they extend axons dorsally along lateral margins of the spinal cord." "ZFA:0009311" "A tyrosine 3-monooxygenase that is encoded in the genome of human." "UniProtKB:P07101" "A mucosa that is part of a right ureter [Automatically generated definition]." "FMA:17806" "A rough elevation at the middle of the lateral side of the shaft of the humerus to which the deltoid muscle attaches." "FMA:23418 Wikipedia:Deltoid_tuberosity MA:0002808 EMAPA:25052 AAO:0000736" @@ -3039,10 +3057,8 @@ "The formation of a tube from the flat layer of ectodermal cells known as the neural plate. This will give rise to the central nervous system." "Wikipedia:Neurulation" "Any process that activates or increases the frequency, rate or extent of natural killer cell differentiation." "Any endothelium that has the quality of being cylindrical [Automatically generated definition]." - "The chemical reactions and pathways involving aromatic compounds, any organic compound characterized by one or more planar rings, each of which contains conjugated double bonds and delocalized pi electrons, as carried out by individual cells." "Mast cell subtype that contains only the serine protease trypase in its granules. These cells are primarily found in mucosal tissue, such as intestinal mucosa and alveoli. They depend upon T-cells for development of phenotype." "A thin layer of loose connective tissue which lies beneath the epithelium and together with the epithelium constitutes the mucosa[WP]. The lamina propria contains capillaries and a central lacteal (lymph vessel) in the small intestine, as well as lymphoid tissue. Lamina propria also contains glands with the ducts opening on to the mucosal epithelium, that secrete mucus and serous secretions." "Wikipedia:Lamina_propria SCTID:298225002 UMLS:C1179187 FMA:62517 BTO:0002330 NCIT:C32918" - "A realizable entity the manifestation of which brings about some result or end that is not essential to a continuant in virtue of the kind of thing that it is but that can be served or participated in by that kind of continuant in some kinds of natural, social or institutional contexts."@en "A sphincter muscle surrounding the urethra." "SCTID:277857004 SCTID:277855007 MA:0002650 Wikipedia:Urethral_sphincter EMAPA:37789" "A portion of smooth muscle tissue that is part of a bronchiole [Automatically generated definition]." "FMA:261045" "Goblet cells reside throughout the length of the small and large intestine and are responsible for the production and maintenance of the protective mucus blanket by synthesizing and secreting high-molecular-weight glycoproteins known as mucins. Human intestinal goblet cells secrete the MUC2 mucin, as well as a number of typical mucus components: CLCA1, FCGBP, AGR2, ZG16, and TFF3." @@ -3081,8 +3097,8 @@ "EHDAA:1122 EHDAA2:0001315" "Tela chorioidea that lines the telencephalic ventricle." "neuronames:219 FMA:83712 ZFA:0005160 SCTID:362319004 BAMS:tclv TAO:0005160" "A smooth muscle cell that is part of any blood vessel." - "A cell found predominately in the blood." "MESH:D001773 FMA:62844" - "Skeletogenic cell that is typically non-terminally differentiated, secretes an avascular, GAG rich matrix; is not buried in cartilage tissue matrix, retains the ability to divide, located adjacent to cartilage tissue (including within the perichondrium), and develops from prechondroblast (and thus prechondrogenic) cell." "BTO:0003607 FMA:66783" + "A cell found predominately in the blood." "ZFA:0009044 MESH:D001773 FMA:62844" + "Skeletogenic cell that is typically non-terminally differentiated, secretes an avascular, GAG rich matrix; is not buried in cartilage tissue matrix, retains the ability to divide, located adjacent to cartilage tissue (including within the perichondrium), and develops from prechondroblast (and thus prechondrogenic) cell." "ZFA:0009027 BTO:0003607 FMA:66783" "A cell type found in the basal epithelial layer on the external side of the tympanic membrane. Cell type is flattened with intracellular spaces of variable dimensions." "The transparent anterior portion of the fibrous coat of the eye that serves as the chief refractory structure." "BTO:0000286 EHDAA:10199 MA:0000266 Wikipedia:Cornea AAO:0010344 CALOHA:TS-0171 VHOG:0000164 EFO:0000377 UMLS:C0010031 XAO:0000180 GAID:892 TAO:0000640 EV:0100341 ZFA:0000640 SCTID:181162001 EHDAA2:0000316 NCIT:C12342 MESH:D003315 EMAPA:17161 FMA:58238" "The process in which ammonium is transported across a membrane. Ammonium is the cation NH4+." @@ -3095,8 +3111,8 @@ "The process that mediates interactions between a bundle of His cell and its surroundings that contributes to the process of the bundle of His cell communicating with a Purkinje myocyte in cardiac conduction. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." "Any process that activates or increases the frequency, rate or extent of cardiac muscle cell myoblast differentiation." "Any process that stops, prevents, or reduces the frequency, rate or extent of cardioblast differentiation, the process in which a relatively unspecialized mesodermal cell acquires the specialized structural and/or functional features of a cardioblast. A cardioblast is a cardiac precursor cell. It is a cell that has been committed to a cardiac fate, but will undergo more cell division rather than terminally differentiating." - "A mature sexual reproductive cell having a single set of unpaired chromosomes." "FBbt:00005412 FMA:18649 CALOHA:TS-0395" "CD7-positive lymphoid progenitor cell is a lymphoid progenitor cell that is CD34-positive, CD7-positive and is CD45RA-negative." + "A mature sexual reproductive cell having a single set of unpaired chromosomes." "ZFA:0009156 FBbt:00005412 FMA:18649 CALOHA:TS-0395" "Any process that modulates the rate frequency or extent of cilium movement involved in ciliary motility." "The process in which a relatively unspecialized cell acquires the specialized features of a mesoderm cell." "A protein that is a translation product of the human PDYN gene or a 1:1 ortholog thereof." @@ -3139,7 +3155,7 @@ "A tubuloacinar seromucous gland that is located principally in the submucosa of the trachea. Excretory ducts from this gland pass through the lamina propria to the tracheal lumen." "SCTID:197423006 EMAPA:36574 FMA:7473 MA:0002937" "Any process that modulates the frequency, rate or extent of satellite cell activation. The satellite cell activation is the process that initiates satellite cell division by causing it to move from quiescence to the G1 stage of the cell cycle. The cell swells and there are a number of other small changes. The cells then start to divide. Following cell division the cells will differentiate." "Any process that modulates the rate, frequency, or extent of cell projection assembly." - + "ZFA:0009143" "Any process that modulates the frequency, rate or extent of Schwann cell migration." "Lymph is the fluid that is formed when interstitial fluid enters the conduits of the lymphatic system through lymph capillaries[WP]." "VHOG:0001590 CALOHA:TS-0580 galen:Lymph NCIT:C13252 MAT:0000055 BTO:0000855 FMA:9671 EFO:0000871 MA:0002520 GAID:1186 ZFA:0005658 MIAA:0000055 ENVO:02000041 MESH:D008196 EV:0100049 UMLS:C0024202 Wikipedia:Lymph" "Any process that stops, prevents or reduces the frequency, rate or extent of protein localization to ciliary membrane." @@ -3151,7 +3167,7 @@ "The process that mediates interactions between an SA node cardiomyocyte and its surroundings that contributes to the process of the SA node cardiomyocyte communicating with an atrial cardiomyocyte in cardiac conduction. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." "An organ that aids digestion and stores bile produced by the liver[WP]." "UMLS:C0016976 XAO:0000135 MIAA:0000072 EHDAA2:0000699 EMAPA:17202 AAO:0010114 MAT:0000072 ZFA:0000208 TAO:0000208 galen:Gallbladder EV:0100090 MA:0000356 BTO:0000493 SCTID:181269000 Wikipedia:Gallbladder CALOHA:TS-0394 EHDAA:8062 FMA:7202 EFO:0000853 NCIT:C12377 VHOG:0000221 MESH:D005704" "Any process that activates or increases the frequency, rate or extent of the directed movement of lipids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." - "MESH:D059331" + "ZFA:0009061 MESH:D059331" "Missing definition for term UBERON:0006376. Please replace it using linked reference." "EMAPA:29671 MA:0002628" "Any process that modulates the frequency, rate or extent of epidermis development." "The process in which the vasculature of the cerebellum is generated and organized." @@ -3167,7 +3183,7 @@ "A serous membrane that is part of a urinary bladder [Automatically generated definition]." "EMAPA:28661 MA:0001696 SCTID:5868002 FMA:15932" "The appearance of interleukin-10 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." - "Neuron that is part of the enteric nervous system." + "Neuron that is part of the enteric nervous system." "ZFA:0005775" "A major subdivision of an organism that is the entire part of the organism dorsal to a horizontal plane and bounded on one side by the same transverse plane. In vertebrares this includes the vertebral column.." "UMLS:C0004600 GAID:30 galen:Back NCIT:C13062 MESH:D001415 EFO:0001405 CALOHA:TS-2223 Wikipedia:Dorsum_(anatomy) SCTID:123961009 FMA:14181 BTO:0001713" "A portion of skeletal muscle tissue that is part of a lip [Automatically generated definition]." "MA:0001578 EMAPA:37642" "A portion of connective tissue that is part of a back [Automatically generated definition]." "EMAPA:37256 MA:0000495" @@ -3175,10 +3191,9 @@ "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving phosphates." "The lipid bilayer surrounding a vesicle associated with the Golgi apparatus." - "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving glycogen." - "A follicle cell that is part of the stalk connecting adjacent egg chambers." "FBbt:00004910" "A cell found within the dental pulp." "FMA:87170 CALOHA:TS-0195" + "A follicle cell that is part of the stalk connecting adjacent egg chambers." "FBbt:00004910" "The portion of the plasma membrane surrounding a muscle cell projection." "The non-specific expansion of B cell populations within a whole or part of an organism to reach to a total number of B cells which will then remain stable over time in the absence of an external stimulus." "A goblet cell that is part of the epithelium proper of duodenum." "FMA:263063" @@ -3188,17 +3203,17 @@ "A branch of the external carotid artery that supplies structures of the face. [WP,unvetted]." "UMLS:C0226109 MA:0001950 NCIT:C32578 FMA:49549 EMAPA:19213 SCTID:181328007 Wikipedia:Facial_artery" "The cell cycle process in which the second meiotic division occurs in the female germline." "The progression of the pituitary gland over time from its initial formation until its mature state. The pituitary gland is an endocrine gland that secretes hormones that regulate many other glands." - - + "ZFA:0009054" "Any muscle tissue that is part of the urethra." "EMAPA:37787 MA:0002649" "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus reflecting the presence, absence, or concentration of water." - "A male germ cell that develops from spermatogonia. The euploid primary spermatocytes undergo meiosis and give rise to the haploid secondary spermatocytes which in turn give rise to spermatids." "FBbt:00004936 CALOHA:TS-0951 BTO:0001275 EMAPA:31484 WBbt:0006799 FMA:84049" "Any process that modulates synaptic transmission by regulating translation occurring at the synapse." + "A male germ cell that develops from spermatogonia. The euploid primary spermatocytes undergo meiosis and give rise to the haploid secondary spermatocytes which in turn give rise to spermatids." "ZFA:0009005 FBbt:00004936 CALOHA:TS-0951 BTO:0001275 EMAPA:31484 WBbt:0006799 FMA:84049" "A low affinity immunoglobulin epsilon Fc receptor that has been processed by proteolytic cleavage." "A carpal bone that proximally_connected_to a forelimb zeugopod skeleton." "SCTID:306715004 MA:0002557 EMAPA:36164 FMA:33302" "Any process that increases the rate, frequency or extent of myofibril assembly by organization of muscle actomyosin into sarcomeres. The sarcomere is the repeating unit of a myofibril in a muscle cell, composed of an array of overlapping thick and thin filaments between two adjacent Z discs." "An adult angioblastic cell released from the bone marrow, or from the kidney in some teleost species, capable of blood circulation and participation in angiogenesis by differentiating into blood vessel endothelial cells." "A mesentery of duodenum that is part of a foregut." "EHDAA2:0000564" + "Any renal principal cell that is part of some collecting duct of renal tubule." "KUPO:0001128" "A submucosal gland located in a bronchus." "EHDAA2:0001762 EMAPA:17328 EMAPA:17010 MA:0001872" "A mesopodium that is part of a manus. Includes as parts the carpal skeleton and associated tissues[cjm]. The anatomical region surrounding the carpus including the distal parts of the bones of the forearm and the proximal parts of the metacarpus or five metacarpal bones and the series of joints between these bones, thus referred to as wrist joints. This region also includes the carpal tunnel, the anatomical snuff box, the flexor retinaculum, and the extensor retinaculum[WP,unvetted]." "EHDAA:5196 MA:0000039 GAID:59 Wikipedia:Wrist EMAPA:19122 FMA:24922 SCTID:361289009 EHDAA2:0000218 galen:Wrist MESH:D014953 EMAPA:32784 NCIT:C111033" @@ -3224,7 +3239,7 @@ "Cartilaginous joint in which the articulating bones or cartilages are connected by hyaline cartilage. Examples: spheno-occipital synchondrosis, first sternocostal joint.[FMA]." "FMA:7497 SCTID:42903008 MA:0001501 Wikipedia:Synchondrosis EMAPA:35846" "An outflow tract that is part of a cardiac atrium." "FMA:14141" "Any process that modulates the frequency, rate or extent of cytoplasmic translational elongation." - "A photoreceptor cell that detects ultraviolet light." + "A photoreceptor cell that detects ultraviolet light." "ZFA:0009221" "Any process that modulates the frequency, rate or extent of eosinophil differentiation." "Cell-cell signaling in either direction across the synaptic cleft." @@ -3241,9 +3256,9 @@ "A homeostatic process involved in the maintenance of a steady state level of iron ions within a cell." "The process in which the anatomical structures of the inner ear are generated and organized. The inner ear is the structure in vertebrates that contains the organs of balance and hearing. It consists of soft hollow sensory structures (the membranous labyrinth) containing fluid (endolymph) surrounded by fluid (perilymph) and encased in a bony cavity (the bony labyrinth). It consists of two chambers, the sacculus and utriculus, from which arise the cochlea and semicircular canals respectively." "Parietal lobe of the left hemisphere of the brain." "FMA:72974 BIRNLEX:1728 SCTID:314147009 UMLS:C1281960" - "A precursor cell destined to differentiate into cardiac muscle cell." "FMA:84797" - "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving nitrogen or nitrogenous compounds." + "A precursor cell destined to differentiate into cardiac muscle cell." "ZFA:0009234 FMA:84797" "A strand of hair that is part of a head." "FMA:54241" + "Binding to double-stranded DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA, e.g. promotor binding or rDNA binding." "Any process that stops, prevents or reduces the frequency, rate or extent of endothelial cell activation." "The collection of all skeletal elements in an autopodium region." "VSAO:0005019" "The pathway leading to secretion of a neurotransmitter from the presynapse as part of synaptic transmission." @@ -3264,13 +3279,12 @@ "The maternal uterine-derived portion of the placenta." "MAT:0000290 MESH:D003656 SCTID:362842004 UMLS:C0011106 NCIT:C32425 FMA:85538 Wikipedia:Decidua BTO:0001360 EMAPA:35269 CALOHA:TS-0193 GAID:378 MA:0001722 MIAA:0000290" "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of a nitric oxide synthase enzyme." "Any cell in the midgut (middle subdivision of a digestive tract) of an insect larva." "http://en.wikipedia.org/wiki/Insect#Midgut GOC:pr" - "An undifferentiated neural cell that originates from the neuroectoderm and has the capacity both to perpetually self-renew without differentiating and to generate multiple central nervous system neuronal and glial cell types." "CALOHA:TS-2360 BTO:0002881 FMA:86684" - "A cell that is part of a renal medulla." "KUPO:0001017" + "An undifferentiated neural cell that originates from the neuroectoderm and has the capacity both to perpetually self-renew without differentiating and to generate multiple central nervous system neuronal and glial cell types." "ZFA:0009019 CALOHA:TS-2360 BTO:0002881 FMA:86684" + "A cell that is part of a renal medulla." "ZFA:0009391 KUPO:0001017" "The directed movement of modified amino acids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." "Any process that stops, prevents, or reduces the frequency, rate or extent of cardiac muscle tissue development." "An inter-phalangeal joint that connects a distal phalanx to either a medial or proximal phalanx." "FMA:65024 NCIT:C101529" "Any process that stops, prevents or reduces the frequency, rate or extent of lung alveolus development." - "The regulated release of epinephrine by a cell in which the epinephrine acts as a neurotransmitter." "A cell involved in the formation of a monocyte (monopoiesis)." "FMA:83552" "OBSOLETE: Astrocyte-like radial glial cell that extends vertically throughout the retina, with the nucleus are usually in the middle of the inner nuclear layer." "The exocrine cell of the prostate, this epithelial cell secretes prostatic acid phosphotase and PSA, and is dependent on androgen hormones for survival." @@ -3278,8 +3292,10 @@ "Middle layer of olfactory cortex lying deep to layer 1 and superficial to layer 3, characterized by a compact layer of cell bodies. It can be divided into a superficial part and a deep part." "NLX:152610" "Any process that activates or increases the frequency, rate or extent of the directed movement of a protein into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." "Any process that activates or increases the frequency, rate or extent of the regulated release of ecdysteroid." - "Most generally any neuron which is not motor or sensory. Interneurons may also refer to neurons whose axons remain within a particular brain region as contrasted with projection neurons which have axons projecting to other brain regions." "FBbt:00005125 WBbt:0005113 FMA:67313 BTO:0003811" + "Most generally any neuron which is not motor or sensory. Interneurons may also refer to neurons whose axons remain within a particular brain region as contrasted with projection neurons which have axons projecting to other brain regions." "ZFA:0009051 FBbt:00005125 WBbt:0005113 FMA:67313 BTO:0003811" + "Any process that stops, prevents, or reduces the frequency, rate or extent of transcription mediated by RNA polymerase II." "Any process that activates or increases the frequency, rate or extent of vascular associated smooth muscle cell migration." + "Any secretory cell that is part of some lung." "Any capillary endothelial cell that is part of a lung." "Cytoplasm that exhibits a characteristic staining and color, red or pink, with Eosin stain." "Any process that modulates the frequency, rate or extent of T cell costimulation." @@ -3289,23 +3305,24 @@ "An MHC class II histocompatibility antigen alpha chain DRA that is encoded in the genome of human." "MRO:0000693 UniProtKB:P01903" "Any leukocyte that is part of a spleen." "Any process that stops, prevents or reduces the frequency, rate or extent of embryonic camera-type eye development." - "A motor neuron that innervates a skeletal muscle. These motor neurons are all excitatory and cholinergic." + "A motor neuron that innervates a skeletal muscle. These motor neurons are all excitatory and cholinergic." "ZFA:0005733" "A ciliated cell of the respiratory system. Ciliated cells are present in airway epithelium." "The corticospinal fibers that arise from the pyramidal cells within the cerebral cortex layer V of the precentral motor area, the premotor area and the postcentral gyrus, then descend into and through the medulla to form the lateral corticospinal tract and the anterior corticospinal tract." "SCTID:362325000 BIRNLEX:1464 FMA:72634 GAID:702 UMLS:C0034229 MESH:D011712 neuronames:1320 EMAPA:36600 neuronames:800 Wikipedia:Corticospinal_tract BM:CST DHBA:12776 DMBA:17756 MBA:190 BAMS:P MBA:784 BM:Me-PyT HBA:265505574" "An organelle lumen that is part of an intracellular organelle." "The directed movement of proteins into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." "Any process that activates or increases the frequency, rate or extent of dendritic cell dendrite assembly." - "A ciliated epithelial cell with many cilia." - "A pigment cell derived from the neural crest. Contains melanin-filled pigment granules, which gives a brown to black appearance." "MESH:D008544 VHOG:0001679 CALOHA:TS-0613 BTO:0000847 FMA:70545" + "A ciliated epithelial cell with many cilia." "ZFA:0005242" + "A pigment cell derived from the neural crest. Contains melanin-filled pigment granules, which gives a brown to black appearance." "ZFA:0009091 MESH:D008544 VHOG:0001679 CALOHA:TS-0613 BTO:0000847 FMA:70545" "A cell that can perform photosynthesis, in which carbohydrates are synthesized from carbon dioxide and water, using light as the energy source." + "Any kidney cortex vein cell that is part of some kidney arcuate vein." "KUPO:0001085" "Any process that modulates the frequency, rate or extent of postsynaptic membrane organization." "The process in which a relatively unspecialized cell of neural crest origin acquires the specialized features of an odontoblast, a cell on the outer surface of the dental pulp whose biological function is the creation of dentin." - "An epithelial cell of the integument (the outer layer of an organism)." "FMA:62411 MESH:D000078404 CALOHA:TS-0283 BTO:0001470" + "An epithelial cell of the integument (the outer layer of an organism)." "ZFA:0009183 FMA:62411 MESH:D000078404 CALOHA:TS-0283 BTO:0001470" "A scaffolding cell type found in C. elegans, this cell plays a supportive role to the muscle arms. May also have an endocrine role." "A tubular passage that extends from the primitive pit into the head process during the early stages of embryonic development in mammals. It perforates the splanchnopleure layer so that the yolk sac and the amnion are connected temporarily." "NCIT:C34230 UMLS:C1518428 FMA:293127" "Odontoblast that is terminally differentiated and derived from an odontogenic papilla and associated with dentine." "Any process that stops, prevents or reduces the frequency, rate or extent of fat cell apoptotic process." - "A specialized endothelial cell that senses extracellular signals and guides the directed growth of blood vessels." + "A specialized endothelial cell that senses extracellular signals and guides the directed growth of blood vessels." "ZFA:0009303" "A submucosa that is part of a large intestine [Automatically generated definition]." "EMAPA:37560 MA:0002690 BTO:0002111 NCIT:C32930 UMLS:C0734204 FMA:14970" "The right lobe is much larger than the left; the proportion between them being as six to one. It occupies the right hypochondrium, and is separated from the left lobe on its upper surface by the falciform ligament; on its under and posterior surfaces by the left sagittal fossa; and in front by the umbilical notch. It is of a somewhat quadrilateral form, its under and posterior surfaces being marked by three fossæ: the porta and the fossæ for the gall-bladder and inferior vena cava, which separate its left part into two smaller lobes; the quadrate and caudate lobes. [WP,unvetted]." "FMA:13362 Wikipedia:Right_lobe_of_liver EHDAA2:0001008 VHOG:0001424 MA:0000363 SCTID:362182008 UMLS:C0227481 TAO:0005173 EHDAA:4001 ZFA:0005173 NCIT:C33481 EMAPA:18311" "Combining with any modified low-density lipoprotein (LDL) or other polyanionic ligand and delivering the ligand into the cell via endocytosis. Ligands include acetylated and oxidized LDL, Gram-positive and Gram-negative bacteria, apoptotic cells, amyloid-beta fibrils, and advanced glycation end products (AGEs)." @@ -3314,9 +3331,10 @@ "SCTID:282511007 NCIT:C33596" "KUPO:0001107" "The growth of a chondrocyte, where growth contributes to the progression of the chondrocyte over time." + "Any process that modulates the frequency, rate or extent of epithelial cell proliferation involved in lung morphogenesis." "The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures." "Wikipedia:Cytoplasm" - "A neutrophil precursor in the granulocytic series, being a cell intermediate in development between a myelocyte and the band form neutrophil. The protein synthesis seen in earlier stages decreases or stops; the nucleus becomes indented where the indentation is smaller than half the distance to the farthest nuclear margin; chromatin becomes coarse and clumped; specific granules predominate while primary granules are rare; and the cytoplasm becomes amphophilic like that of a mature granulocyte. This cell type is integrin alpha-M-positive, CD13-negative, CD15-positive, CD16-positive, CD33-positive, CD24-positive, fMLP receptor-negative and has expression of C/EBP-a, C/EBP-e, PU.1 transcription factor, lactotransferrin, myeloperoxidase and neutrophil gelatinase associated lipocalin." "FMA:84197" + "A neutrophil precursor in the granulocytic series, being a cell intermediate in development between a myelocyte and the band form neutrophil. The protein synthesis seen in earlier stages decreases or stops; the nucleus becomes indented where the indentation is smaller than half the distance to the farthest nuclear margin; chromatin becomes coarse and clumped; specific granules predominate while primary granules are rare; and the cytoplasm becomes amphophilic like that of a mature granulocyte. This cell type is integrin alpha-M-positive, CD13-negative, CD15-positive, CD16-positive, CD33-positive, CD24-positive, fMLP receptor-negative and has expression of C/EBP-a, C/EBP-e, PU.1 transcription factor, lactotransferrin, myeloperoxidase and neutrophil gelatinase associated lipocalin." "ZFA:0009268 FMA:84197" "A duct joining the pancreas to the common bile duct to supply pancreatic juices which aid in digestion provided by the exocrine pancreas. The pancreatic duct joins the common bile duct just prior to the ampulla of Vater, after which both ducts perforate the medial side of the second portion of the duodenum at the major duodenal papilla." "MA:0000126 EMAPA:17510 EHDAA2:0001396 FMA:16003 SCTID:245385001 UMLS:C0030288 VHOG:0000256 MESH:D010183 NCIT:C12272 EHDAA:6905 Wikipedia:Pancreatic_duct GAID:337 RETIRED_EHDAA2:0002177 BTO:0002362" "The pattern specification process that results in the subdivision of the otic epithelium in space to define an area or volume in which cells will differentiate to give rise to the semicircular canals." "A macrophage mannose receptor 1 that is encoded in the genome of mouse." "UniProtKB:Q61830" @@ -3329,7 +3347,6 @@ "Cranial nerve fiber tract which is comprised of retinal ganglion cell axons running posterior medially towards the optic chiasm, at which some of the axons cross the midline and after which the structure is termed the optic tract. Transmits visual information from the retina to the brain[ZFA]." "TAO:0000435 EMAPA:17575 NCIT:C12761 FMA:50863 BAMS:2n CALOHA:TS-0713 BIRNLEX:1640 EFO:0004258 MBA:848 XAO:0000188 EHDAA2:0001313 ZFA:0000435 AAO:0010345 EHDAA:6788 DHBA:15544 neuronames:289 BAMS:IIn HBA:9307 GAID:831 Wikipedia:Optic_nerve MA:0001097 VHOG:0000543 SCTID:180938001 UMLS:C0029130 MESH:D009900 BAMS:nII" "The chemical reactions and pathways involving zeaxanthin." "The process in which the wraps of cell membrane that constitute myelin are laid down around an axon by an oligodendrocyte in the central nervous system." - "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])"@en "Cranial ganglion which develops from an epibranchial placode." "TAO:0001555 ZFA:0001555" "A nerve that is part of a manus [Automatically generated definition]." "EMAPA:37340 MA:0000629" "A presumptive structure that has the potential to develop into a rhombomere 1." "ZFA:0001207 TAO:0001207" @@ -3345,11 +3362,11 @@ "A process in which a protein or protein complex is maintained in a specific location in the cell cortex." "The cardiac Purkinje fiber is part of the cardiac conduction system that receives signals from the bundle of His and innervates the ventricular cardiac muscle." "MESH:D011690 BTO:0001735 NCIT:C33430 EMAPA:35718 MA:0000096 UMLS:C0034144 FMA:9492 GAID:560 Wikipedia:Purkinje_fiber" "A myeloperoxidase that has been processed by proteolytic cleavage." - + "ZFA:0009220" "Any process that increases the frequency, rate or extent of the regulated release of norepinephrine." "Any process that stops, prevents, or reduces the frequency, rate or extent of the assembly of pseudopodia." - "An epidermal cell that secretes chitinous cuticle from its apical side." "FBbt:00007325" "Any biological process involved in the maintenance of the steady-state number of epidermal stem cells within a population of cells." + "An epidermal cell that secretes chitinous cuticle from its apical side." "FBbt:00007325" "Any process that modulates the frequency, rate or extent of erythrophore differentiation." "A developmental process, independent of morphogenetic (shape) change, that is required for an erythrocyte to attain its fully functional state." "NCIT:C12990 FMA:45737 UMLS:C0921005" @@ -3363,6 +3380,7 @@ "The chemical reactions and pathways resulting in the breakdown of organic hydroxy compound." "A protein that is a translation product of the human DNTT gene or a 1:1 ortholog thereof." "RETIRED_EHDAA2:0001422 EMAPA:17748 EHDAA2:0001421" + "The series of molecular signals initiated by an extracellular ligand binding to a receptor located on the cell surface. The pathway ends with regulation of a downstream cellular process, e.g. transcription." "Any process that activates, maintains or increases the frequency, rate or extent of cholinergic synaptic transmission, the process of communication from a neuron to another neuron across a synapse using the neurotransmitter acetylcholine." "A tissue-resident macrophage of the renal glomerular mesangium involved in the disposal and degradation of filtration residues, presentation of antigen to T cells and in tissue remodeling." "A circular muscle layer of muscular coat that is part of a esophagus." "FMA:67605 MA:0001574 EMAPA:37523" @@ -3404,9 +3422,9 @@ "The the continuous basement membrane found within the membranous labyrinth of the cochlea, known to extend from the limbus, down to the inner sulcus, across the basilar membrane, up to the external sulcus to the spiral prominence and radiating into the spiral ligament ensheathing the root cell processes." "EMAPA:37830" "Any process that activates or increases the frequency, rate or extent of vesicle fusion with Golgi apparatus." "A protein complex composed of two identical immunoglobulin heavy chains of the IgA isotype and two identical immunoglobulin light chains, held together by disulfide bonds, and sometimes complexed with J chain or J chain and secretory component. An IgA immunoglobulin complex may be embedded in the plasma membrane or present in the extracellular space, in mucosal areas or other tissues, or circulating in the blood or lymph." - "A specialized phagocytic cell associated with the absorption and removal of the mineralized matrix of bone tissue, which typically differentiates from monocytes. This cell has the following markers: tartrate-resistant acid phosphatase type 5-positive, PU.1-positive, c-fos-positive, nuclear factor NF-kappa-B p100 subunit-positive, tumor necrosis factor receptor superfamily member 11A-positive and macrophage colony-stimulating factor 1 receptor-positive." "FMA:66781 BTO:0000968 MESH:D010010 CALOHA:TS-0721" + "A specialized phagocytic cell associated with the absorption and removal of the mineralized matrix of bone tissue, which typically differentiates from monocytes. This cell has the following markers: tartrate-resistant acid phosphatase type 5-positive, PU.1-positive, c-fos-positive, nuclear factor NF-kappa-B p100 subunit-positive, tumor necrosis factor receptor superfamily member 11A-positive and macrophage colony-stimulating factor 1 receptor-positive." "ZFA:0009047 FMA:66781 BTO:0000968 MESH:D010010 CALOHA:TS-0721" "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising intermediate filaments and their associated proteins." - "One of the main divisions of the whole organism of arthropods formed from groups of segments." + "One of the main divisions of the whole organism of arthropods formed from groups of segments." "FBbt:00000002" "Any process that stops, prevents or reduces the frequency, rate or extent of hematopoietic progenitor cell differentiation." "One of a set of deep furrows which divide the lobules of the cerebellum. Examples: postcentral, primary and secondary furrows." "SCTID:314163001 EMAPA:37818 DHBA:12828 FMA:321547 BAMS:CBf HBA:9406 neuronames:1213" "A lobar bronchus that is part of a left lung [Automatically generated definition]." "MA:0003133 EMAPA:17388 EMAPA:17656 SCTID:245510003" @@ -3427,6 +3445,7 @@ "The process in which the anatomical structures of a pharyngeal arch artery is generated and organized. The pharyngeal arch arteries are a series of six paired embryological vascular structures, the development of which give rise to several major arteries, such as the stapedial artery, the middle meningeal artery, the internal carotid artery and the pulmonary artery." "The process in which the anatomical structure of an endothelium is generated and organized. Endothelium refers to the layer of cells lining blood vessels, lymphatics, the heart, and serous cavities, and is derived from bone marrow or mesoderm. Corneal endothelium is a special case, derived from neural crest cells." "Any process that modulates the rate, frequency or extent of cell proliferation that contributes to the shaping of a heart valve." + "Any neuron that has its soma located in some amygdala and is capable of some glutamate secretion, neurotransmission." "The process whose specific outcome is the progression of a trigeminal ganglion over time, from its formation to the mature structure." "Any process that modulates the frequency, rate or extent of axonogenesis, the generation of an axon, the long process of a neuron." "The area of the (spleen) secondary B follicle that surrounds the germinal center and harbors the small recirculating B lymphocytes." "EMAPA:37962" @@ -3468,6 +3487,7 @@ "Any process that stops, prevents or reduces the frequency, rate or extent of lysosomal protein catabolic process." "A collagen trimer that forms networks." "A layer of microvilli, Thin cylindrical membrane-covered projections on the surface of an animal cell containing a core bundle of actin filaments[GO,modified]." "FMA:67296 UMLS:C0026049 MESH:D008871 Wikipedia:Microvillus NCIT:C33112" + "A transcriptomically distinct intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 3-4. This neuron type can have a pyramidal, star-pyramidal or spiny stellate morphology and projects its output to L2/3 and L5A/B. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', L4 IT." "A nerve that is part of a wrist [Automatically generated definition]." "MA:0000637 EMAPA:37339" "A life span which is relatively normal or average." @@ -3492,7 +3512,7 @@ "Any process that activates or increases the frequency, rate, or extent of a humoral immune response." "A trigeminal neuron that is responsible for sensation in the face." "A T-cell surface glycoprotein CD1 that is a translation product of the human CD1A gene or a 1:1 ortholog thereof." - "One of the parts of a holometabolous insect larva that will become a portion of the outside of the adult insect during the pupal transformation." "BTO:0004658 MAT:0000064 MIAA:0000064 Wikipedia:Imaginal_disc" + "One of the parts of a holometabolous insect larva that will become a portion of the outside of the adult insect during the pupal transformation." "FBbt:00001761 BTO:0004658 MAT:0000064 MIAA:0000064 Wikipedia:Imaginal_disc" "An intersegmental rod-shaped bone that forms in the peritoneal membrane and attach to the vertebral parapophyses." "AAO:0000545 UMLS:C0035561 galen:Rib NCIT:C12782 MA:0000315 MESH:D012272 SCTID:302523002 TAO:0000538 GAID:245 EFO:0003066 VHOG:0001154 FMA:7574 CALOHA:TS-2209 ZFA:0000538 EMAPA:18010 Wikipedia:Rib" "Any process that modulates the frequency, rate or extent of exosomal secretion." "VHOG:0000767 EMAPA:16054 EHDAA2:0000472" @@ -3513,13 +3533,14 @@ "The process of creating a trabecula in the spleen. A trabecula is a tissue element in the form of a small beam, strut or rod." "The process in which a relatively unspecialized cell acquires specialized features of a mesenchymal stem cell that contributes to the shaping of a nephron. A mesenchymal stem cell is a cell that retains the ability to divide and proliferate throughout life to provide progenitor cells that can differentiate into specialized mesenchymal cells." "An alpha-(1,3)-fucosyltransferase 4 that is encoded in the genome of mouse." "UniProtKB:Q11127" - "A precursor of mature crystal cells." "FBbt:00001689" "Any process that stops, prevents, or reduces the frequency, rate or extent of sister chromatid segregation." + "A precursor of mature crystal cells." "FBbt:00001689" "Any process that stops, prevents, or reduces the frequency, rate or extent of the inflammatory response to wounding." "Any process that stops, prevents or reduces the frequency, rate or extent of odontoblast differentiation." + "Any cell that has characteristic some binucleate." "Any gland, other than the gonad, associated with the genital tract, such as the ampulla of the ductus deferens and the bulbourethral, prostate and vesicular glands of the male." "BTO:0004798" - - + "ZFA:0009149" + "ZFA:0009185" "One of the veins draining a meninix." "SCTID:84842006 FMA:50839" "A temporal lobe that is part of a left cerebral hemisphere." "UMLS:C1281971 FMA:72972 BIRNLEX:1784 SCTID:314158000" "A T-cell surface glycoprotein CD8 beta chain that has had the signal peptide removed." @@ -3529,11 +3550,11 @@ "A shape quality inhering in a bearer by virtue of the bearer's being marked by narrow lines or grooves, usually parallel." "Any process that activates or increases the frequency, rate or extent of natural killer cell activation." "A promyelocyte that is considerably smaller, with more condensed chromatin, and nucleoli are no longer conspicuous." "FMA:83534" - "A non-terminally differentiated cell that differentiates into a xanthophore." + "A non-terminally differentiated cell that differentiates into a xanthophore." "ZFA:0005245" "The progression of an axon over time. Covers axonogenesis (de novo generation of an axon) and axon regeneration (regrowth), as well as processes pertaining to the progression of the axon over time (fasciculation and defasciculation)." - "A region of muscle in many organs in the vertebrate body, adjacent to the submucosa membrane. It is responsible for gut movement such as peristalsis." "SCTID:86915006 UMLS:C0225358 BTO:0004838 Wikipedia:Muscular_layer" + "A region of muscle in many organs in the vertebrate body, adjacent to the submucosa membrane. It is responsible for gut movement such as peristalsis." "SCTID:86915006 UMLS:C0225358 Wikipedia:Muscular_layer BTO:0004838" "The regulated release of dopamine from the somatodendritic compartment (cell body or dendrites) of a neuron." - "The chemical reactions and pathways resulting in the formation of glycogen, a polydisperse, highly branched glucan composed of chains of D-glucose residues." "MetaCyc:GLYCOGENSYNTH-PWY" + "The chemical reactions and pathways resulting in the formation of glycogen, a polydisperse, highly branched glucan composed of chains of D-glucose residues." "MetaCyc:PWY-5067 MetaCyc:PWY-7900 MetaCyc:GLYCOGENSYNTH-PWY" "The process whose specific outcome is the progression of a tissue over time, from its formation to the mature structure." "Wikipedia:Histogenesis" "Skeletogenic cell that has the potential to form an odontoblast, deposits predentine, and arises from a cranial neural crest cell." "An epithelial cell found in the basal part of the intestinal glands (crypts of Lieberkuhn) including the appendix. Paneth cells synthesize and secrete lysozyme and cryptdins. Numerous in the deeper parts of the intestinal crypts, particularly in the duodenum, rich in zinc, contain large acidophilic granules, with irregular apical microvilli and prominent membrane-bound vacuoles containing matrix." "FMA:62897 BTO:0000993" @@ -3541,9 +3562,9 @@ "The physiological response of the kidneys to a decrease in blood flow." "A sst GABAergic cortical interneuron found in L6 that expresses tyrosine hydroxylase. L6 Th+ SST cells have mostly local axonal arborization within L6." "The process whose specific outcome is the progression of the ectodermal digestive tract over time, from its formation to the mature structure. The ectodermal digestive tract includes those portions that are derived from ectoderm." - "A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the inner half of the inner plexiform layer. These cells depolarize in response to light stimulation of their corresponding photoreceptors." + "A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the inner half of the inner plexiform layer. These cells depolarize in response to light stimulation of their corresponding photoreceptors." "ZFA:0009319" "The process whose specific outcome is the progression of a neuromast hair cell over time, from its formation to the mature structure. A neuromast hair cell is a hair cell that acts as a sensory receptor of the neuromast; it is morphologically polarized as a result of the relative position of the single kinocilium and the clusters of stereocilia on its apical surface. Cell development does not include the steps involved in committing a cell to a specific fate." - "A columnar chondrocyte that differentiates in the late embryonic growth plate of bone. Columnar chondrocytes vigorously proliferate and form columns in the growth plate." + "A columnar chondrocyte that differentiates in the late embryonic growth plate of bone. Columnar chondrocytes vigorously proliferate and form columns in the growth plate." "ZFA:0009314" "An ecto-epithelial cell of the paranasal region of the viscerocranial mucosa." "FMA:70578" "A fully differentiated plasma cell that secretes IgA." @@ -3554,16 +3575,18 @@ "Any apoptotic process in an activated CD8-positive, alpha-beta T cell." "EHDAA2:0004512" "Any process that activates or increases the frequency, rate or extent of cell adhesion." + "Any epithelial cell that is part of some pronephric nephron tubule." "Any process that activates or increases the frequency, rate or extent of motile cilium assembly." "A fold of skin that covers and protects part of the eyeball. Examples: upper eyelid, lower eyelid, nictitating membrane." "VHOG:0000016 EHDAA2:0000487 Wikipedia:Eyelid EMAPA:17829 BTO:0002241 GAID:72 NCIT:C12713 MESH:D005143 FMA:54437 MA:0000268 EHDAA:9037 UMLS:C0015426 EV:0100338 SCTID:265782007" "The process whose specific outcome is the progression of the vasculature of the cerebellum over time, from its formation to the mature structure." "Any process that increases the rate, frequency or extent of a cellular process that is involved in the progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events." "A ventral horn of spinal cord that is part of a cervical spinal cord." "BIRNLEX:1680 SCTID:174363005 UMLS:C1278740 UMLS:C0228615" "Any process that modulates the frequency, rate or extent of cardiac muscle tissue development." + "Any cell that only exists in Eumycetozoa." "Any process that modulates the frequency, rate or extent of outer hair cell apoptotic process." "The process in which the anatomical structures of arterial blood vessels are generated and organized. Arteries are blood vessels that transport blood from the heart to the body and its organs." "An elastic tissue that is part of a bronchus [Automatically generated definition]." "NCIT:C49211 MA:0001838 UMLS:C1707053" - + "ZFA:0009144" "A portion of smooth muscle tissue that is part of a mammary gland [Automatically generated definition]." "MA:0000795 EMAPA:37669" "A mature B cell that has the phenotype CD1d-positive and expresses interleukin-10. This cell type has been associated with suppression of chronic inflammatory responses and T cell responses." "Any process that modulates the frequency, rate or extent of lymphocyte proliferation." @@ -3608,8 +3631,8 @@ "The outer, i.e. cytoplasm-facing in a cellular organelle, lipid bilayer of an organelle envelope." "Any process that modulates the frequency, rate or extent of amacrine cell differentiation." "BTO:0002051" - "The part of the forelimb between pectoral region and the elbow, corresponding to the humerus." "EHDAA:6234 galen:Arm EMAPA:17424 MESH:D001132 VHOG:0000343 UMLS:C0446516 NCIT:C32141 MA:0000035 EHDAA2:0002112 FMA:24890 SCTID:302538001 VSAO:0005057 EHDAA:4186 AAO:0000199" - "An immature erythrocyte that changes the protein composition of its plasma membrane by exosome formation and extrusion. The types of protein removed differ between species though removal of the transferrin receptor is apparent in mammals and birds." "MESH:D012156 CALOHA:TS-0864 BTO:0001173" + "The part of the forelimb between pectoral region and the elbow, corresponding to the humerus." "EHDAA:6234 galen:Arm EMAPA:17424 MESH:D001132 VHOG:0000343 UMLS:C0446516 NCIT:C32141 EHDAA2:0002112 MA:0000035 FMA:24890 SCTID:302538001 VSAO:0005057 EHDAA:4186 AAO:0000199" + "An immature erythrocyte that changes the protein composition of its plasma membrane by exosome formation and extrusion. The types of protein removed differ between species though removal of the transferrin receptor is apparent in mammals and birds." "ZFA:0009252 MESH:D012156 CALOHA:TS-0864 BTO:0001173" "FMA:24293 SCTID:281228008 Wikipedia:Atlas_(anatomy)#Vertebral_foramen" "Any process that activates or increases the frequency, rate or extent of cell proliferation involved in compound eye morphogenesis." "A conventional thymic dendritic cell that is CD8alpha-positive." @@ -3622,7 +3645,7 @@ "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." "Any process that modulates the frequency, rate, or extent of eosinophil degranulation." "Any process that stops, prevents or reduces the frequency, rate or extent of oocyte maturation." - + "ZFA:0009145" "A ciliated cell of the endometrial epithelium. The cilia of this cell type help move mucus from glandular tissue of the endometrium." "Skeletal subdivision consisting of the anterior appendicular limb skeleton, excluding the pectoral girdle." "VSAO:0005000" "The core of the crystalline lens, surrounded by the cortex." "MESH:D007907 BTO:0001633 FMA:58971 SCTID:280628007" @@ -3642,7 +3665,7 @@ "Each seminal vesicle consists of a single tube, coiled upon itself, and giving off several irregular cecal diverticula; the separate coils, as well as the diverticula, are connected together by fibrous tissue. When uncoiled, the tube is about the diameter of a quill, and varies in length from 10 to 15 cm.; it ends posteriorly in a cul-de-sac; its anterior extremity becomes constricted into a narrow straight duct called the excretory duct of seminal gland (or duct of the seminal vesicle), which joins with the corresponding ductus deferens to form the ejaculatory duct[WP]." "Wikipedia:Excretory_duct_of_seminal_gland SCTID:279675008 FMA:19473 EMAPA:29282" "EHDAA2:0004116" "A nephron that is part of a mesonephros." "AAO:0010387 XAO:0000292 ZFA:0005592" - "A cell that stores epinephrine secretory vesicles. During times of stress, the nervous system signals the vesicles to secrete their hormonal content. Their name derives from their ability to stain a brownish color with chromic salts. Characteristically, they are located in the adrenal medulla and paraganglia of the sympathetic nervous system." "FMA:69263 BTO:0000259" + "A cell that stores epinephrine secretory vesicles. During times of stress, the nervous system signals the vesicles to secrete their hormonal content. Their name derives from their ability to stain a brownish color with chromic salts. Characteristically, they are located in the adrenal medulla and paraganglia of the sympathetic nervous system." "ZFA:0009099 FMA:69263 BTO:0000259" "The commitment of cells to specific cell fates of the endoderm, ectoderm, or mesoderm as a part of gastrulation." "An organ or element that is in the thoracic cavity. Examples: lung, heart, longus colli." "MA:0000557 EMAPA:37273" "An artery that supplies oxygenated blood to the cystic duct." "FMA:14835" @@ -3664,7 +3687,7 @@ "The multiplication or reproduction of stem cells, resulting in the expansion of a stem cell population. A stem cell is a cell that retains the ability to divide and proliferate throughout life to provide progenitor cells that can differentiate into specialized cells." "Movement of a vesicle along an actin filament, mediated by motor proteins." "The intracellular signaling pathway that results in the cessation of cell movement involved in lamination of the cerebral cortex." - "A peptide hormone secreting cell that secretes endorphin." + "A peptide hormone secreting cell that secretes endorphin." "ZFA:0009232" "An epithelium that is composed primarily of secretory cells." "NCIT:C43370 UMLS:C0682578 UMLS:C1708242 BTO:0002991 NCIT:C45715" "An arginase-1 that is encoded in the genome of mouse." "UniProtKB:Q61176" "The directed movement of a protein along a microtubule, mediated by motor proteins." @@ -3706,6 +3729,7 @@ "Any process that activates or increases the frequency, rate or extent of epithelial cell differentiation involved in kidney development." "A Peyer's patch that is part of a large intestine." "MA:0001550 EMAPA:35468 FMA:15658" "Any process that modulates the rate, frequency, or extent of the directed movement of calcium ions into a cell or organelle." + "Any cell that is part of some His-Purkinje system." "A neuron that has its soma in the heart." "Increase in size of antral follicles due to cell proliferation and/or growth of the antral cavity." "A T-box transcription factor TBX21 that is encoded in the genome of mouse." "UniProtKB:Q9JKD8" @@ -3717,7 +3741,7 @@ "Subdivision of skeleton that includes all dermal bones in the cranial skeleton[ZFA,modified]." "Wikipedia:Skull_roof XAO:0003169 ZFA:0000863 TAO:0000863 AAO:0010154 VHOG:0001665" "A recently activated CD8-positive, alpha-beta T cell with the phenotype HLA-DRA-positive, CD38-positive, CD69-positive, CD62L-negative, CD127-negative, CCR7-negative, and CD25-positive." "A vesicle-mediated transport process in which cells take up external materials or membrane constituents by the invagination of a part of the plasma membrane to form a new membrane-bounded vesicle." "Wikipedia:Endocytosis" - "A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube." + "A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube." "ZFA:0009038" "A cellular quality inhering in a bearer by virtue of bearer's number of nuclei." "A protein that is a translation product of the human CD34 gene or a 1:1 ortholog thereof. It is a leukocyte membrane protein expressed specifically by lymphohematopoietic progenitor cells. It contains a single-pass transmembrane domain and that show distinct expression on early hematopoietic precursors and vascular-associated tissue. Acts as a scaffold that presents selectin carbohydrate ligands in a clustered, tissue specific manner to allow for higher avidity interactions between leukocytes and endothelial cells during the inflammatory process. In common with related sialomucins (endoglycan and podocalyxin), the extracellular region is dominated by an N-terminal mucin-like domain, which is densely substituted with sialylated O-linked carbohydrates. The mucin-like region is followed by a cysteine-containing and presumably globular domain. This domain may fold into an immunoglobulin-like structure as the positions of 2 of the cysteines are conserved in the C2 set of the immunoglobulin superfamily. The cytoplasmic domain is around 73-76 residues long and highly conserved." "PIRSF:PIRSF028749" "Any process in which a protein complex is maintained in a specific location within the cytoplasm and is prevented from moving elsewhere." @@ -3750,12 +3774,12 @@ "Any process that modulates the frequency, rate or extent of actin filament-based movement." "A developmental process, independent of morphogenetic (shape) change, that is required for the pons to attain its fully functional state. The pons lies above the medulla and next to the cerebellum. The pons conveys information about movement from the cerebral hemisphere to the cerebellum." "A C-C chemokine receptor type 3 that is encoded in the genome of human." "UniProtKB:P51677 DTO:02100055 Reactome:R-HSA-373106" - + "ZFA:0009067" "Any process that activates, maintains or increases the frequency, rate or extent of a signaling process." "The appearance of interferon-gamma due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels. Interferon-gamma is also known as type II interferon." "The process in which a precursor cell type acquires the specialized features of a CD4-positive, alpha-beta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways." "The process in which the branching structure of the ureteric bud is generated and organized. The ureteric bud is an epithelial tube that grows out from the metanephric duct. The bud elongates and branches to give rise to the ureter and kidney collecting tubules." - "A progenitor cell restricted to the myeloid lineage." "CALOHA:TS-2099 FMA:70339 BTO:0004730" + "A progenitor cell restricted to the myeloid lineage." "ZFA:0009356 CALOHA:TS-2099 FMA:70339 BTO:0004730" "The process whose specific outcome is the progression of a osteoclast from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a specific fate. An osteoclast is a specialized phagocytic cell associated with the absorption and removal of the mineralized matrix of bone tissue." "Any process that stops, prevents or reduces the frequency, rate or extent of erythrocyte apoptotic process." "The progression of the striatum over time from its initial formation until its mature state. The striatum is a region of the forebrain consisting of the caudate nucleus, putamen and fundus striati." @@ -3766,7 +3790,7 @@ "Any process that modulates the frequency, rate or extent of oligodendrocyte progenitor proliferation." "The process in which a gene's sequence is converted into a mature gene product (protein or RNA). This includes the production of an RNA transcript and its processing, as well as translation and maturation for protein-coding genes." "Wikipedia:Gene_expression" "A blood vessel that is part of a thoracic cavity [Automatically generated definition]." "MA:0000554 EMAPA:37240" - + "ZFA:0009151" "An epithelium that is part of a middle ear." "MA:0003169 EMAPA:35673" "The formation of nodular inflammatory lesions, usually small or granular, firm, persistent, well-structured, and containing compactly grouped T lymphocytes and modified phagocytes such as epithelioid cells, giant cells, and other macrophages. Granuloma formation represents a chronic inflammatory response initiated by various infectious and noninfectious agents. The center of a granuloma consists of fused macrophages, which can become necrotic." "A process which results in the assembly, arrangement of constituent parts, or disassembly of a postsynaptic membrane, the specialized area of membrane facing the presynaptic membrane on the tip of the nerve ending and separated from it by a minute cleft (the synaptic cleft)." @@ -3782,7 +3806,7 @@ "The irregular bones are bones which, from their peculiar form, cannot be grouped as long bone, short bone, flat bone or sesamoid bone. Irregular bones serve various purposes in the body, such as protection of nervous tissue, affording multiple anchor points for skeletal muscle attachment (as with the sacrum), and maintaining pharynx and trachea support, and tongue attachment (such as the hyoid bone). They consist of cancellous tissue enclosed within a thin layer of compact bone. The irregular bones are: the vertebrC&, sacrum, coccyx, temporal, sphenoid, ethmoid, zygomatic, maxilla, mandible, palatine, inferior nasal concha, and hyoid." "UMLS:C0502414 Wikipedia:Irregular_bone SCTID:421560006 NCIT:C32881 FMA:7477" "A protein that is a translation product of the human CD4 gene or a 1:1 ortholog thereof. CD4 is an accessory protein for MHC class-II antigen/T-cell receptor interaction. It is the primary receptor for HIV-1. CD4 has four immunoglobulin-like domains in its extracellular region that share the same structure, but can differ in sequence." "PIRSF:PIRSF001977" - "Prominent lobed neuropils found in annelids and all arthropods except crustaceans. They are thought to be involved in olfactory associative learning and memory[MESH] Mushroom body neuropils are divided into calyces, pedunculus, and its subsequent lobes. In Drosophila these are the alpha, beta, and gamma lobes." "GAID:1231 MESH:D024521 MIAA:0000336 MAT:0000336 Wikipedia:Mushroom_body BTO:0002675 EFO:0000925" + "Prominent lobed neuropils found in annelids and all arthropods except crustaceans. They are thought to be involved in olfactory associative learning and memory[MESH] Mushroom body neuropils are divided into calyces, pedunculus, and its subsequent lobes. In Drosophila these are the alpha, beta, and gamma lobes." "GAID:1231 MESH:D024521 MIAA:0000336 MAT:0000336 FBbt:00005801 Wikipedia:Mushroom_body BTO:0002675 EFO:0000925" "Any process that stops, prevents or reduces the frequency, rate or extent of meiotic cell cycle process involved in oocyte maturation." "A nerve root that extends_fibers_into a nerve connecting eye with brain." "BIRNLEX:1328 FMA:84573" "A channel protein that has water channel activity. A water channel enables facilitated diffusion of water (by an energy-independent process) by passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism." "IUPHARfam:119" @@ -3793,12 +3817,12 @@ "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a cell junction. A cell junction is a specialized region of connection between two cells or between a cell and the extracellular matrix." "A T cell located in the lymph node paracortex, where macrophages and dendritic cells present antigenic peptides to these naïve T cells, stimulating them to become activated helper T cells or cytotoxic T lymphocytes." "Any muscle organ that is part of a skin of body [Automatically generated definition]." "EMAPA:18187 MA:0002710 EMAPA:35776 MA:0003139" - "Any sensillum (UBERON:6007152) that is part of some larval head (UBERON:6001730)." + "Any sensillum (UBERON:6007152) that is part of some larval head (UBERON:6001730)." "FBbt:00007242" "A blood vessel that is part of a pectoral appendage." "TAO:0005301 ZFA:0005301" "A vein that is part of a craniocervical region." "EHDAA2:0004542 SCTID:32945007" "FMA:242780" "A renin that is encoded in the genome of human." "UniProtKB:P00797" - "Muscle cell which has as its direct parts myofilaments organized into sarcomeres." "FMA:86936 CALOHA:TS-2157 BTO:0002916" + "Muscle cell which has as its direct parts myofilaments organized into sarcomeres." "ZFA:0005784 FMA:86936 CALOHA:TS-2157 BTO:0002916" "A double-positive thymocyte that is CD69-positive and has begun positive selection." "Any process that stops, prevents or reduces the frequency, rate or extent of fibril organization." "A blood vessel that is part of a lower arm [Automatically generated definition]." "EMAPA:37295 MA:0000597" @@ -3808,7 +3832,7 @@ "Tolerance induction taking place in the gut-associated lymphoid tissue (GALT)." "Any process that modulates the frequency, rate or extent of alpha-beta T cell proliferation." "Any process that modulates the frequency, rate or extent of lipid transport across blood-brain barrier." - "A cell of the monocyte, granulocyte, or mast cell lineage." + "A cell of the monocyte, granulocyte, or mast cell lineage." "ZFA:0009326" "The developmental process that results in the creation of defined areas or spaces within the pronephros along the anterior/posterior axis to which cells respond and eventually are instructed to differentiate." "An eye that is part of a left side of organism [Automatically generated definition]." "FMA:12515 SCTID:362503005 EMAPA:37362 MA:0002949 NCIT:C119334" @@ -3829,7 +3853,6 @@ "A plasma cell that is located in the medullary sinus of the lymph node." "The process aimed at the progression of a microglial cell over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell." "The chemical reactions and pathways resulting in the formation of amino acids of the serine family, comprising cysteine, glycine, homoserine, selenocysteine and serine." - "A T-cell surface glycoprotein CD5 that is encoded in the genome of mouse." "UniProtKB:P13379" "The series of molecular signals initiated by the binding of a cytokine to a receptor on the surface of a cell, and ending with the regulation of a downstream cellular process, e.g. transcription." "FMA:19971" @@ -3867,7 +3890,7 @@ "An epithelial cell type that lacks the columnar shape typical for other respiratory epithelial cells. This cell type is able to differentiate into other respiratory epithelial cells in response to injury." "An epithelium that is part of a lobar bronchus of right lung." "MA:0003136 EMAPA:17666" "A lens fiber cell that develops from primary lens fiber; located towards the center of lens; cell organelles are normally degraded or in the process of being degraded." - "Muscle precursor cell that is adjacent to the notochord and part of the presomitic mesoderm." + "Muscle precursor cell that is adjacent to the notochord and part of the presomitic mesoderm." "ZFA:0000003" "The chemical reactions and pathways resulting in the breakdown of glycine, aminoethanoic acid." "The directed movement of substances in neuronal dense core vesicles along axonal microtubules towards the presynapse." @@ -3875,7 +3898,7 @@ "The part of the ventral body cavity that is within the abdominal segment of the trunk, which encompasses the abdomen proper plus pelvic cavity." "FMA:12267 Wikipedia:Abdominopelvic_cavity" "Binding to a keratin filament, an intermediate filament composed of acidic and basic keratins (types I and II), typically expressed in epithelial cells." "Any apoptotic process in a retinal cell." - "A class of large neuroglial (macroglial) cells in the central nervous system. Form the insulating myelin sheath of axons in the central nervous system." "BTO:0000962 CALOHA:TS-0709 FMA:54540" + "A class of large neuroglial (macroglial) cells in the central nervous system. Form the insulating myelin sheath of axons in the central nervous system." "ZFA:0009076 BTO:0000962 CALOHA:TS-0709 FMA:54540" "The process in which a relatively unspecialized cell acquires specialized structural and/or functional features of an enteroendocrine cell. Enteroendocrine cells are hormonally active epithelial cells in the gut that constitute the diffuse neuroendocrine system." "The chemical reactions and pathways resulting in the formation of any conjugated, water-soluble protein in which the covalently attached nonprotein group consists of a lipid or lipids." "Any cell participating in the inflammatory response to a foreign substance, e.g. neutrophil, macrophage." "http://en.wikipedia.org/wiki/Inflammatory_response GOC:pr" @@ -3889,6 +3912,7 @@ "A change in morphology and behavior of a basophil resulting from exposure to a cytokine, chemokine, soluble factor, or to (at least in mammals) an antigen which the basophil has specifically bound via IgE bound to Fc-epsilonRI receptors, leading to the initiation or perpetuation of an immune response." "The developmental process pertaining to the initial formation of the primitive streak from unspecified parts. The primitive streak is a ridge of cells running along the midline of the embryo where the mesoderm ingresses. It defines the anterior-posterior axis." "Any process that stops, prevents or reduces the frequency, rate or extent of collagen fibril organization." + "Any process that activates or increases the frequency, rate or extent of transcription regulatory region DNA binding." "Any process that activates or increases the rate or extent of development, the biological process whose specific outcome is the progression of an organism over time from an initial condition (e.g. a zygote, or a young adult) to a later condition (e.g. a multicellular animal or an aged adult)." "Any process that activates or increases the frequency, rate or extent of the directed movement of ions from one side of a membrane to the other." "A channel protein that has ion channel activity. An ion channel enables the facilitated diffusion of an ion (by an energy-independent process) by passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism." "IUPHARfam:689" @@ -3909,6 +3933,7 @@ "A protein that is a translation product of the human GATA3 gene or a 1:1 ortholog thereof." "A C-X-C chemokine receptor type 3 that is encoded in the genome of mouse." "UniProtKB:O88410" "Any microvascular endothelial cell that is part of a adipose tissue." + "Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription." "Any apoptotic process in a compound eye retinal cell." "The process in which the limits of an anatomical structure are generated. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome." "A T-cell surface glycoprotein CD8 beta chain that is a translation product of some mRNA whose exon structure and start site selection renders it capable of giving rise to a protein with the amino acid sequence represented by UniProtKB:P10966-1 or a 1:1 ortholog thereof." @@ -3936,8 +3961,8 @@ "Any process that activates or increases the rate or extent of epithelial cell proliferation, contributing to the restoration of integrity to a damaged tissue following an injury." "RETIRED_EHDAA2:0002089 EHDAA:924 EMAPA:16663" "Any process that stops, prevents, or reduces the frequency, rate or extent of immature T cell proliferation." - "Inward fold on the surface of the embryonic ectoderm that develops into an ectodermal terminal part of the digestive tract." "NCIT:C34278 EMAPA:25038 VHOG:0000139 TAO:0000066 AAO:0011087 EHDAA2:0000121 XAO:0001019 Wikipedia:Proctodeum ZFA:0000066 UMLS:C0231054" - "Any tagma (UBERON:6000002) that is part of some embryo (UBERON:6000052)." + "Inward fold on the surface of the embryonic ectoderm that develops into an ectodermal terminal part of the digestive tract." "NCIT:C34278 EMAPA:25038 VHOG:0000139 TAO:0000066 FBbt:00000123 AAO:0011087 EHDAA2:0000121 XAO:0001019 Wikipedia:Proctodeum ZFA:0000066 UMLS:C0231054" + "Any tagma (UBERON:6000002) that is part of some embryo (UBERON:6000052)." "FBbt:00000137" "Any process that modulates the frequency, rate or extent of formation of translation initiation ternary complex." "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances." "A nonkeratinized epithelial cell of the anal canal." "FMA:263146" @@ -3947,7 +3972,7 @@ "The formation of the notochord from the chordamesoderm. The notochord is composed of large cells packed within a firm connective tissue sheath and is found in all chordates at the ventral surface of the neural tube. In vertebrates, the notochord contributes to the vertebral column." "Any process that stops, prevents, or reduces the frequency, rate or extent of mesenchymal to epithelial transition involved in mesonephros morphogenesis." "The biological process whose specific outcome is the progression of a glomerulus vasculature from an initial condition to its mature state. This process begins with the formation of the glomerulus vasculature and ends with the mature structure. The glomerulus vasculature is composed of the tubule structures that carry blood or lymph in the glomerulus." - "Initial section of the oviduct through which the ova pass from the ovary to the uterus." "UMLS:C0015560 FMA:18245 SCTID:181463001 MA:0000385 EHDAA2:0000504 EMAPA:35660 MESH:D005187 CALOHA:TS-0732 Wikipedia:Fallopian_tube GAID:365 galen:FallopianTube NCIT:C12403 EV:0100112" + "Initial section of the oviduct through which the ova pass from the ovary to the uterus." "FMA:18245 UMLS:C0015560 SCTID:181463001 MA:0000385 EHDAA2:0000504 EMAPA:35660 MESH:D005187 CALOHA:TS-0732 Wikipedia:Fallopian_tube GAID:365 galen:FallopianTube NCIT:C12403 EV:0100112" "A flag amacrine cell with post-synaptic terminals in S3, S4, and S5. This cell type releases the neurotransmitter glycine." "A form of programmed cell death induced by external or internal signals that trigger the activity of proteolytic caspases, whose actions dismantle a striated muscle cell and result in its death. Striated muscle cells make up striated muscle fibers which are divided by transverse bands into striations." "A portion of gray matter that is part of a telencephalon." "FMA:83911 BIRNLEX:1067" @@ -3994,7 +4019,6 @@ "Any process that modulates the frequency, rate or extent of the innate immune response, the organism's first line of defense against infection." "Any process that modulates the frequency, rate, or extent of myeloid leukocyte differentiation." - "Electron-dense organelle with a granular internal matrix; contains proteins destined to be secreted." "NIF_Subcellular:sao772007592" "Any process that decreases the rate, frequency or extent of macrophage chemotaxis. Macrophage chemotaxis is the movement of a macrophage in response to an external stimulus." "Frontal lobe is the anterior-most of five lobes of the cerebral hemisphere. It is bounded by the central sulcus on its posterior border and by the longitudinal cerebral fissure on its medial border." "neuronames:56 BAMS:Frontal_lobe UMLS:C0016733 FMA:61824 EV:0100167 MESH:D005625 DHBA:12113 SCTID:180920004 NCIT:C12352 EFO:0000913 MAT:0000505 BIRNLEX:928 HBA:4009 BM:Tel-Cx-FR CALOHA:TS-0389 UMLS:C1268977" @@ -4017,6 +4041,7 @@ "The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite." "Wikipedia:Extracellular" "An artery that is part of a thoracic cavity[cjm]." "EMAPA:37241 MESH:D013895 MA:0001902" "A mature NK T cell that secretes interferon-gamma and enhances type 1 immune responses." + "A renal, cortical lobule, consisting of the ascending or descending limbs of the loop of Henle or of the collecting tubules; medullary rays are regions where parallel arrays of straight tubules travel perpendicular to the capsule and extend from the cortex to the medulla." "FMA:74299 Wikipedia:Bone_marrow_of_ovaryry_ray_(anatomy) BTO:0001155 EMAPA:37906" "Portion of tissue that is contiguous with the embryo and is comprised of portions of tissue or cells that will not contribute to the embryo." "MIAA:0000061 BTO:0003360 CALOHA:TS-2119 EFO:0001406 MAT:0000061" "The series of molecular signals initiated by a steroid binding to an intracellular steroid hormone receptor." @@ -4050,9 +4075,9 @@ "Anatomical cluster that is located in the posterior region of the cranium and forms the margin of the foramen magnum and occipital condyles." "BTO:0004675 FMA:49187 XAO:0003173 SCTID:362618001 ZFA:0001414 neuronames:2431 TAO:0001414 AAO:0010199" "The formation of bone or of a bony substance, or the conversion of fibrous tissue or of cartilage into bone or a bony substance, that does not require the replacement of preexisting tissues." "A receptor-type tyrosine-protein kinase FLT3 that is encoded in the genome of human." "UniProtKB:P36888 DTO:03100154" - "One of the two haploid cells into which a primary spermatocyte divides, and which in turn gives origin to spermatids." "FBbt:00004941 FMA:72293 CALOHA:TS-2195 BTO:0000709" "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a testosterone stimulus." "The thin bilaminar membrane derived from the prechordal plate that is devoid of mesoderm and formed by the apposition of the stomodeal ectoderm with the foregut endoderm; after the embryonic head fold has evolved it lies at the caudal limit of the stomodeum, forming a septum between the primitive mouth and pharynx; the membrane eventually disappears, and thus a communication is established between the mouth and the future pharynx." "SCTID:361412007 EHDAA2:0000189 FMA:313607 Wikipedia:Buccopharyngeal_membrane EHDAA:536 EMAPA:16259 VHOG:0000380" + "One of the two haploid cells into which a primary spermatocyte divides, and which in turn gives origin to spermatids." "FBbt:00004941 FMA:72293 CALOHA:TS-2195 BTO:0000709" "In mammals, the metanephros is the excretory organ of the fetus, which develops into the mature kidney and is formed from the rear portion of the nephrogenic cord. The metanephros is an endocrine and metabolic organ that filters the blood and excretes the end products of body metabolism in the form of urine[GO]." "BTO:0001543 UMLS:C0231049 EMAPA_RETIRED:17207 EHDAA:3089 EHDAA:5911 NCIT:C34209 EHDAA2:0001137 SCTID:308797000 Wikipedia:Metanephros#Metanephros EMAPA:17373 FMA:72172 VHOG:0000039" "Any signal release from a synapse." "A neuronal receptor that respond to mechanical pressure or distortion in the skin." @@ -4061,6 +4086,7 @@ "A zone of skin that is part of a elbow [Automatically generated definition]." "NCIT:C52755 UMLS:C0222213 SCTID:181534001 EMAPA:18051 FMA:38250 MA:0000610" "The process whose specific outcome is the progression of the spleen over time, from its formation to the mature structure. The spleen is a large vascular lymphatic organ composed of white and red pulp, involved both in hemopoietic and immune system functions." "A location, relative to cellular compartments and structures, occupied by a macromolecular machine. There are three types of cellular components described in the gene ontology: (1) the cellular anatomical entity where a gene product carries out a molecular function (e.g., plasma membrane, cytoskeleton) or membrane-enclosed compartments (e.g., mitochondrion); (2) virion components, where viral proteins act, and (3) the stable macromolecular complexes of which gene product are parts (e.g., the clathrin complex)." "NIF_Subcellular:sao1337158144" + "The directed movement of L-glutamate across a membrane by means of some agent such as a transporter or a pore." "A CD38-positive IgG memory B cell is a class switched memory B cell that expresses IgG on the cell surface with the phenotype CD38-positive and IgG-positive." "A smooth muscle tissue that is part of a clitoris." "BTO:0005000" "The process in which a relatively unspecialized cell acquires specialized features of a Malpighian tubule stellate cell. A Malpighian tubule stellate cell is a specialized epithelial secretory cell that moves chloride ions and water across the tubule epithelium." @@ -4075,7 +4101,7 @@ "Smooth muscle found within, and composing the majority of the wall of blood vessels." "ZFA:0005321 Wikipedia:Vascular_smooth_muscle BTO:0001431 MA:0000710 TAO:0005321 UMLS:C1519956 EMAPA:35177 CALOHA:TS-1107 NCIT:C33853 MESH:D009131" "Any process that modulates the frequency, rate or extent of lamellocyte differentiation. Lamellocytes differentiate massively in the lymph glands after parasitization and are large flat cells devoted to encapsulation of invaders too large to be phagocytosed by plasmatocytes." "A chemical homeostatic process involved in the maintenance of a steady state level of iron within extracellular body fluids, such as blood, xylem or phloem, of a multicellular organism. This is distinct from maintenance of cellular homeostasis, which occurs within a cell." - "A hematopoietic progenitor cell that is committed to the granulocyte and monocyte lineages. These cells are CD123-positive, and do not express Gata1 or Gata2 but do express C/EBPa, and Pu.1." + "A hematopoietic progenitor cell that is committed to the granulocyte and monocyte lineages. These cells are CD123-positive, and do not express Gata1 or Gata2 but do express C/EBPa, and Pu.1." "ZFA:0009251" "The directed movement of an organelle along a microtubule, mediated by motor proteins. This process begins with the attachment of an organelle to a microtubule, and ends when the organelle reaches its final destination." "The cleavage of DNA during apoptosis, which usually occurs in two stages: cleavage into fragments of about 50 kbp followed by cleavage between nucleosomes to yield 200 bp fragments." "A portion of connective tissue that is part of a digit." "MA:0003123 EMAPA:37290" @@ -4085,12 +4111,12 @@ "A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a complex containing RNA and proteins. Includes the biosynthesis of the constituent RNA and protein molecules, and those macromolecular modifications that are involved in synthesis or assembly of the ribonucleoprotein complex." "The progression of the mesonephric glomerulus over time from its initial formation until its mature state. The mesonephric glomerulus is a capillary tuft which forms a close network with the visceral epithelium (podocytes) and the mesangium to form the filtration barrier and is surrounded by Bowman's capsule in nephrons of the mature vertebrate kidney, or mesonephros." "A lymph vasculature that is part of a head." "FMA:224562 ZFA:0005298 TAO:0005298" - "A promyelocyte committed to the neutrophil lineage. This cell type is GATA-1-positive, C/EBPa-positive, AML-1-positive, MPO-positive, has low expression of PU.1 transcription factor and lacks lactotransferrin expression." "FMA:84196" + "A promyelocyte committed to the neutrophil lineage. This cell type is GATA-1-positive, C/EBPa-positive, AML-1-positive, MPO-positive, has low expression of PU.1 transcription factor and lacks lactotransferrin expression." "ZFA:0009257 FMA:84196" "A nerve that is part of an abdominal segment of trunk [Automatically generated definition]." "EMAPA:37061 MA:0000528" "The formation of the acrosome from the spermatid Golgi." "Any process that mediates the transfer of information from an SA node cardiomyocyte to an atrial cardiomyocyte." "The controlled breakdown of any cell membrane in the context of a normal process such as autophagy." - "A lymphocyte of B lineage that is capable of B cell mediated immunity." "MESH:D001402 VHOG:0001480 CALOHA:TS-0068 BTO:0000776 FMA:62869" + "A lymphocyte of B lineage that is capable of B cell mediated immunity." "ZFA:0009142 MESH:D001402 VHOG:0001480 CALOHA:TS-0068 BTO:0000776 FMA:62869" "Any process that stops, prevents or reduces the frequency, rate or extent of glucocorticoid secretion." "Any process that modulates the frequency, rate or extent of lymphocyte chemotaxis." "The process whose specific outcome is the progression of the primary male sexual characteristics over time, from their formation to the mature structures. The primary male sexual characteristics are the testes, and they develop in response to sex hormone secretion." @@ -4148,7 +4174,7 @@ "The series of events that contribute to the perception of pain in which an electrical stimulus is received and converted into a molecular signal." "The process in which the anatomical structures of the lens are generated and organized. The lens is a transparent structure in the eye through which light is focused onto the retina. An example of this process is found in Mus musculus." "Glandular cell of parathyroid epithelium. Example: Parathyroid chief cell and parathyroid oxyphil cells." "CALOHA:TS-1279" - "A cellular receptor which mediates the sense of temperature. Thermoreceptor cells in vertebrates are mostly located under the skin. In mammals there are separate types of thermoreceptors for cold and for warmth and pain receptor cells which detect cold or heat extreme enough to cause pain." + "A cellular receptor which mediates the sense of temperature. Thermoreceptor cells in vertebrates are mostly located under the skin. In mammals there are separate types of thermoreceptors for cold and for warmth and pain receptor cells which detect cold or heat extreme enough to cause pain." "ZFA:0009123" "Binding to a growth factor receptor." "Principal cell that is part of some outer medullary collecting duct. It is known in some mammalian species that this cell may express the epithelial sodium channel (ENaC)." "KUPO:0001132" "A fully differentiated eosinophil, a granular leukocyte with a nucleus that usually has two lobes connected by one or more slender threads, and cytoplasm containing coarse, round granules that are uniform in size and which can be stained by the dye eosin. Cells are also differentiated from other granulocytes by a small nuclear-to-cytoplasm ratio (1:3). This cell type is CD49d-positive." @@ -4157,11 +4183,12 @@ "The process that gives rise to the facial nerve. This process pertains to the initial formation of a structure from unspecified parts. This sensory and motor nerve supplies the muscles of facial expression and the expression and taste at the anterior two-thirds of the tongue. The principal branches are the superficial opthalmic, buccal, palatine and hyomandibular. The main trunk synapses within pterygopalatine ganglion in the parotid gland and this ganglion then gives of nerve branches which supply the lacrimal gland and the mucous secreting glands of the nasal and oral cavities." "An embryonic structure that will either develop into a post-anal tail or recede into a vestigial remnant of the tail." "FMA:85540 EMAPA:16748" "A nerve plexus that is part of a sympathetic nervous system." "EMAPA:37617 MA:0001160" - "Any of the immature forms of a neutrophil in which neutrophilic specific granules are present but other phenotypic features of the mature form may be lacking." + "Any of the immature forms of a neutrophil in which neutrophilic specific granules are present but other phenotypic features of the mature form may be lacking." "ZFA:0009328" + "Any epithelial cell of proximal tubule that is part of some proximal straight tubule." "KUPO:0001046" "Any process that stops, prevents or reduces the frequency, rate or extent of hematopoietic stem cell migration." "Squamous cell of tonsil epithelium." "CALOHA:TS-1253" "Combining with glucagon and transmitting the signal across the membrane by activating an associated G-protein; promotes the exchange of GDP for GTP on the alpha subunit of a heterotrimeric G-protein complex." - "An epithelial cell of the cornea." "FMA:70551 CALOHA:TS-0173 BTO:0004298" + "An epithelial cell of the cornea." "ZFA:0009264 FMA:70551 CALOHA:TS-0173 BTO:0004298" "A bone that is hollow or contains many air cells, such as the mastoid process of the temporal bone[TMD]." "galen:PneumaticBone SCTID:333008005 FMA:7478 Wikipedia:Skeletal_pneumaticity" "A retractable double-layered fold of skin and mucous membrane that covers the clitoral glans." "UMLS:C0227771 SCTID:362242009 NCIT:C32590 EMAPA:30699 FMA:20169 Wikipedia:Clitoral_hood" "A squamous epithelium that is part of a stomach." "EMAPA:35824 MA:0001611" @@ -4190,13 +4217,13 @@ "Enables the transfer of nucleobases, nucleosides, nucleotides and nucleic acids from one side of a membrane to the other." "Any process that activates or increases the frequency, rate or extent of protein localization to lysosome." "An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins." "Wikipedia:Ribosome NIF_Subcellular:sao1429207766" - "A joint connecting the forelimb zeugopod skeleton with the carpal skeleton." "GAID:274 SCTID:182178002 FMA:321842 NCIT:C33894 MESH:D014955 galen:WristJoint MA:0000460 UMLS:C1322271 Wikipedia:Wrist" + "A joint connecting the forelimb zeugopod skeleton with the carpal skeleton." "GAID:274 SCTID:182178002 NCIT:C33894 FMA:321842 MESH:D014955 galen:WristJoint MA:0000460 UMLS:C1322271 Wikipedia:Wrist" "A Purkinje myocyte that is part of the atrioventricular bundle." "FMA:83393" "A gland that is part of a foregut [Automatically generated definition]." "VHOG:0000650 EHDAA2:0000567 EMAPA:16557 EHDAA:950" "A ligand-gated ion channel protein that is a translation product of the human CHRNA1-7, CHRNA9-10, CHRNB1-4, CHRNG, CHRND, or CHRNE genes, 1:1 orthologs thereof, or a semi-ortholog thereof." "IUPHARfam:76" "A retinal ganglion cell C that has post-synaptic terminals in S2." "Any (proper) part of the cytosol of a single cell of sufficient size to still be considered cytosol." - "Anatomical entity that comprises the organism in the early stages of growth and differentiation that are characterized by cleavage, the laying down of fundamental tissues, and the formation of primitive organs and organ systems. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant." "BSA:0000039 CALOHA:TS-0229 FMA:69068 GAID:963 BILA:0000056 EHDAA2_RETIRED:0003236 OGEM:000001 AAO:0011035 VHOG:0001766 ZFA:0000103 MIAA:0000019 MESH:D004622 EMAPA:16039 UMLS:C0013935 BTO:0000379 Wikipedia:Embryo EHDAA2:0000002 AEO:0000169 NCIT:C28147 MAT:0000226 EHDAA:38 XAO:0000113 http://neurolex.org/wiki/Category:Embryonic_organism EFO:0001367 SCTID:57991002" + "Anatomical entity that comprises the organism in the early stages of growth and differentiation that are characterized by cleavage, the laying down of fundamental tissues, and the formation of primitive organs and organ systems. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant." "BSA:0000039 CALOHA:TS-0229 FMA:69068 GAID:963 BILA:0000056 EHDAA2_RETIRED:0003236 OGEM:000001 AAO:0011035 VHOG:0001766 ZFA:0000103 MIAA:0000019 MESH:D004622 EMAPA:16039 UMLS:C0013935 BTO:0000379 Wikipedia:Embryo FBbt:00000052 EHDAA2:0000002 AEO:0000169 NCIT:C28147 MAT:0000226 EHDAA:38 XAO:0000113 http://neurolex.org/wiki/Category:Embryonic_organism EFO:0001367 SCTID:57991002" "A mesentery that is part of a colon [Automatically generated definition]." "SCTID:245457004 FMA:14645 EMAPA:18942" "The directed movement of the nucleus along microtubules within the cell, mediated by motor proteins." "The creation of a single nucleus from multiple nuclei as a result of fusing the lipid bilayers that surround each nuclei." "Wikipedia:Karyogamy" @@ -4206,12 +4233,11 @@ "A vein that drains the pelvis and lower limbs into the inferior vena cava." "galen:CommonIliacVein EMAPA:17874 FMA:14333 MA:0002143 NCIT:C32359 SCTID:181398004 UMLS:C0226758 Wikipedia:Common_iliac_vein" "CD8_alpha-positive CD11b-negative dendritic cell is a conventional dendritic cell that is CD11b-negative, CD4-negative and is CD205-positive and CD8_alpha-positive." "A type of intrafusal muscle fiber that lies in the center of a muscle spindle. Nuclei are clustered centrally and give the equatorial region a swollen appearance. They are associated with associated with dynamic gamma motor neurons, and the stretching of the equatorial region of the nuclear bag fibers results in an increase in the firing rate of type Ia sensory fibers." - "An achromatic cell of the myeloid or lymphoid lineages capable of ameboid movement, found in blood or other tissue." "BTO:0000751 FMA:62852 MESH:D007962 NCIT:C12529 CALOHA:TS-0549" + "An achromatic cell of the myeloid or lymphoid lineages capable of ameboid movement, found in blood or other tissue." "ZFA:0009309 BTO:0000751 FMA:62852 MESH:D007962 NCIT:C12529 CALOHA:TS-0549" "The division of the spiral canal of the cochlea that contains the organ of Corti (the neuroepithelial receptor organ for hearing)." "EMAPA:35751 FMA:79789 Wikipedia:Scala_media MA:0002458" "An endothelial cell found in the glomerulus of the kidney. This cell is flattened, highly fenestrated, and plays a vital role in the formation of glomerular ultrafiltrate." "FMA:70970 BTO:0004632" "Any process that stops, prevents, or reduces the frequency, rate or extent of the movement of RNA from the cytoplasm into the nucleus." "A portion of smooth muscle tissue that is part of a urethra [Automatically generated definition]." "FMA:76909 MA:0001691 EMAPA:36630" - "The compaction of chromatin during apoptosis." "Wikipedia:Pyknosis" "Cartilaginous joint in which the articulating bones or cartilages are connected by fibrocartilage. Examples: pubic symphysis, intervertebral symphysis, manubriosternal joint.[FMA]." "EMAPA:37758 MA:0001504 Wikipedia:Symphysis FMA:7498 SCTID:1584001" "Any process that increases the rate, frequency, or extent of the progression of the sclerotome over time, from its initial formation to the mature structure. The sclerotome is the portion of the somite that will give rise to a vertebra." @@ -4230,7 +4256,7 @@ "Any of the smallest contractile units of a myofibril (striated muscle fiber)." "Any process that modulates the frequency, rate or extent of cyanophore differentiation." "Extracellular matrix that is mineralized." - "Nucleus located within the hindbrain." "TAO:0002177 ZFA:0001658" + "Nucleus located within the hindbrain." "ZFA:0001658 TAO:0002177" "The characteristic movement of a cell from the dorsal ridge of the neural tube towards the heart and that contributes to heart formation." "A stage at which the organism is a single cell produced by means of sexual reproduction." "VHOG:0000745 ZFS:0000001 XAO:1000001 FBdv:00005288 EHDAA:27 PdumDv:0000100 NCIT:C12601 BILS:0000106 Wikipedia:Zygote BilaDO:0000005 EFO:0001322" "The prostate gland stroma is made up of the mesenchymal or fibroblast cells of the prostate gland." "UMLS:C1521760 FMA:45719 EMAPA:35714 MA:0002912 NCIT:C13104" @@ -4243,12 +4269,12 @@ "The process whose specific outcome is the progression of the exocrine pancreas over time, from its formation to the mature structure. The exocrine pancreas produces and store zymogens of digestive enzymes, such as chymotrypsinogen and trypsinogen in the acinar cells." "Any process that modulates the frequency, rate or extent of phagocytosis, the process in which phagocytes engulf external particulate material." "The metanephric early distal convoluted tubule contains metanephric DCT cells and is vasopressin-insensitive[GO]." - "The chemical reactions and pathways involving organic or inorganic compounds that contain nitrogen." "A cellular transport process in which transported substances are moved in extracellular vesicles between cells; transported substances are enclosed in the vesicle lumen or located in the extracellular vesicle membrane." "A mesonephric tubule is an epithelial tube that is part of the mesonephros[GO]. Genital ridge that is next to the mesonephros[WP]." "Wikipedia:Mesonephric_tubules VHOG:0000500 EHDAA2:0001134 XAO:0000148 AAO:0010389 EMAPA:16747" "GC_ID:1" "A femur endochondral element that is composed primarily of cartilage tissue." "EMAPA:17742" "The process in which a relatively unspecialized cell acquires the specialized structural and/or functional features of an endocardial cell. An endocardial cell is a specialized endothelial cell that makes up the endocardium portion of the heart. The endocardium is the innermost layer of tissue of the heart, and lines the heart chambers." + "Any vasa recta ascending limb cell that is part of some outer medulla vasa recta ascending limb." "KUPO:0001076" "The conversion at fertilization of the inactive sperm nucleus into a male pronucleus with its chromosomes processed for the first zygotic division." "Choroid plexus of the fourth ventricle." "NCIT:C32308 VHOG:0001375 MA:0000983 ZFA:0001446 HBA:9710 BAMS:cp4v BAMS:chp4 EMAPA:32742 UMLS:C0152293 SCTID:42214001 FMA:78492 neuronames:638 DHBA:12808 TAO:0001446 NLX:27388" "An internal carotid artery that branching_part_of a right common carotid artery plus branches." "FMA:3949 EMAPA:16330 SCTID:161251001" @@ -4269,18 +4295,19 @@ "A pulmonary interstitial fibroblast that is part of the alveolus and contains lipid droplets." "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an external stimulus." "The process in which a mesenchymal cell, acquires specialized structural and/or functional features of a chondroblast. Differentiation includes the processes involved in commitment of a cell to a chondroblast fate. A chondroblast is a precursor cell to chondrocytes." - "A cell that initiates an electrical signal and passes that signal to another cell." + "A cell that initiates an electrical signal and passes that signal to another cell." "ZFA:0009193" "Any process that modulates the frequency, rate, or extent of interleukin-8 production." "A sheet of somatopleure that grows upward over the embryo and eventually meets in the midline enclosing the embryo, eventually giving rise to the amnion and chorion[Kardong]." "EMAPA:16076" "Any process that activates or increases the frequency, rate or extent of RNA binding." "A component of the cytoskeleton consisting of a homo or heteropolymeric fiber constructed from an indeterminate number of protein subunits." + "Any cell that is capable of some nitrogen fixation." "A tyrosine-protein phosphatase non-receptor type substrate 1 that is encoded in the genome of human." "UniProtKB:P78324" "The chemical reactions and pathways resulting in the formation of glutamate, the anion of 2-aminopentanedioic acid." "Any process that activates or increases the frequency, rate or extent of natural killer T cell proliferation." "Any process that modulates the frequency, rate or extent of microglial cell mediated cytotoxicity." "Any process that stops, prevents or reduces the frequency, rate or extent of epithelial cell differentiation involved in kidney development." "Any process that stops, prevents, or reduces the frequency, rate, or extent of B cell tolerance induction." - "A myoblast that differentiates into skeletal muscle fibers." "FMA:84799" + "A myoblast that differentiates into skeletal muscle fibers." "ZFA:0009236 FMA:84799" "Mesenchyme that is part of a developing ovary [Automatically generated definition]." "VHOG:0001441 EHDAA:8128 EHDAA2:0001362" "Any process that modulates the frequency, rate or extent of alpha-beta T cell activation." "Any process that stops, prevents, or reduces the frequency, rate or extent of cell differentiation." @@ -4291,6 +4318,7 @@ "An arrangement of nerve fibers, running from the spine where it proceeds through the neck then the axilla and into the arm where it innervates skin and muscle. [WP,modified]." "UMLS:C0006090 EHDAA:3782 FMA:5906 VHOG:0000372 NCIT:C12682 MA:0001180 GAID:842 EMAPA:16988 EHDAA2:0000180 MESH:D001917 SCTID:181002002 Wikipedia:Brachial_plexus" "Any process that stops, prevents or reduces the frequency, rate or extent of gamma-delta T cell activation involved in immune response." "A blood vessel that is part of the arterial system. Includes artery, arteriole and aorta." "EMAPA:35144 MA:0000061" + "An astrocyte with highly branched protrusions, found in neocortex layers 2-6. It is involved with the formation and elimination of synapses, glutamate clearance, modulation of synaptic functions and regulation of blood flow in response to synaptic activity." "A part of the His-Purkinje system that transmits signals from the AV node to the cardiac Purkinje fibers[GO]." "MA:0002576 galen:BundleOfHis UMLS:C0006382 MESH:D002036 SCTID:362022007 Wikipedia:Bundle_of_His FMA:9484 NCIT:C32160 GAID:559 EMAPA:35152" "A V(D)J recombination-activating protein 1 that is encoded in the genome of human." "UniProtKB:P15918 Reactome:R-HSA-5692681" "The epithelial layer of the vagina." "BTO:0000422 UMLS:C0920840 MA:0001730 EMAPA:30991 CALOHA:TS-1325 NCIT:C49313 FMA:19978" @@ -4378,6 +4406,7 @@ "Any process that modulates the rate, frequency or extent of T cell chemotaxis. T cell chemotaxis is the directed movement of a T cell in response to an external stimulus." "A vasculature that is part of a limb/fin." "ZFA:0005095 TAO:0005095" "Any process that mediates the transfer of information from a bundle of His cardiomyocyte to a Purkinje myocyte." + "Any neuron that has its soma located in some kidney." "KUPO:0001015" "Innermost layer of the hair shaft." "BTO:0004671 EMAPA:35389 Wikipedia:Bone_marrow_of_ovary_(hair) SCTID:318929009 MA:0000158" "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism." "A submucosa that is part of a descending colon [Automatically generated definition]." "FMA:15020" @@ -4393,10 +4422,9 @@ "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus by the chemical structure of the anion portion of a dissociated acid (rather than the acid acting as a proton donor). The acid chemical may be in gaseous, liquid or solid form." "A metapodium region that is part of a pes." "FMA:24997 MA:0000049 SCTID:280711000 SCTID:370639003 CALOHA:TS-2221" "An outflow tract of atrium that is part of a left atrium." "FMA:9551" - "Stromal cell that forms the internal covering of the vertebrate brain and produces ECM for this and the choroid plexus." + "Stromal cell that forms the internal covering of the vertebrate brain and produces ECM for this and the choroid plexus." "ZFA:0009305" "A vasculature that is part of a pectoral appendage." "ZFA:0005096 TAO:0005096" "Any process that activates or increases the frequency, rate or extent of intracellular signal transduction." - "Any process that reduces the occurrence or rate of mesenchymal stem cell death by apoptotic process that contributes to the shaping of the nephron in the mesonephros." "Any lymph vessel that is located in the dura mater of the brain." "An alveolar capillary endothelial cell that is located proximally to alveolar capillary type 1 endothelial cells and in close apposition to alveolar type 1 epithelial cells (also known as type I pneumocytes)." @@ -4405,12 +4433,10 @@ "The process in which a protein is transported across a membrane." "The union of male and female gametes to form a zygote." "The metanephric nephron epithelium is a tissue that covers the surface of a nephron in the metanephros[GO]." - "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 2/3." "The autonomic nervous system is composed of neurons that are not under conscious control, and is comprised of two antagonistic components, the sympathetic and parasympathetic nervous systems. The autonomic nervous system regulates key functions including the activity of the cardiac (heart) muscle, smooth muscles (e.g. of the gut), and glands[GO]." "EHDAA:3767 BTO:0002507 UMLS:C0004388 neuronames:2054 MESH:D001341 TAO:0001574 ZFA:0001574 FMA:65553 MA:0000219 CALOHA:TS-2001 VHOG:0000396 GAID:706 UMLS:C1305381 AAO:0000033 Wikipedia:Autonomic_nervous_system BIRNLEX:1123 NCIT:C12673 EHDA:10095 EHDAA2:0000158 SCTID:362481007 EMAPA:16984" "Any process that modulates the frequency, rate or extent of addition of phosphate groups into a molecule." "Anatomical structure that performs a specific function or group of functions [WP]." "WBbt:0003760 SCTID:272625005 MA:0003001 CARO:0020004 EFO:0000634 ENVO:01000162 EMAPA:35949 BIRNLEX:4 NCIT:C13018 Wikipedia:Organ_(anatomy) FMA:67498 UMLS:C0178784" "Any process that activates or increases the frequency, rate or extent of granulosa cell proliferation." - "Any process that modulates the frequency, rate or extent of synoviocyte proliferation." "A basket cell morphology that inheres in neurons that are large, and typically ascend to give rise to many long horizontally and vertically projecting axon collaterals that traverse neighboring columns and can extend through all cortical layers." "ilxtr:LargeBasketPhenotype" "Any vesicle-mediated transport that occurs in a synapse." @@ -4418,13 +4444,11 @@ "Any process that activates or increases the frequency, rate or extent of leukocyte mediated cytotoxicity." "Mesonephric mesenchyme is the tissue made up of loosely connected mesenchymal cells in the mesonephros[GO]." "AAO:0011062 EHDAA2:0001132 EMAPA:16745 XAO:0000291" "The metanephric loop of Henle is a metanephric nephron tubule that connects the proximal convoluted tubule to the distal convoluted tubule in the metanephros[GO]." - "An endothelial cell found in the mucosa associated with the facial skeleton." "FMA:70627" "A dorsal root of spinal cord that overlaps a cervical spinal cord." "BIRNLEX:964 SCTID:175023008 UMLS:C1278751" "Any process that modulates the frequency, rate or extent of response to calcium ion." "The directed movement of a melanosome to a specific location." - "BTO:0001141" "Any process that stops, prevents or reduces the frequency, rate or extent of neuronal action potential." "The specification of the anterior/posterior axis of the embryo by the products of genes expressed maternally and genes expressed in the zygote." "Smooth muscle cell of the carotid artery." @@ -4464,7 +4488,7 @@ "A sex cord that is part of a indifferent gonad." "EHDAA2:0004051" "The progression of the diaphragm over time from its initial formation to the mature structure. The diaphragm is a skeletal muscle that is responsible for contraction and expansion of the lungs." "The process in which the anatomical structures of the mesonephric glomerulus are generated and organized. The mesonephric glomerulus is a capillary tuft surrounded by Bowman's capsule in nephrons of the vertebrate mesonephros." - "A tubular structure that transports secreted or excreted substances." "NCIT:C12948 ZFA:0005171 XAO:0004000 AAO:0011123 galen:Duct Wikipedia:Duct_(anatomy) TAO:0005171 UMLS:C0687028 SCTID:91726008 FMA:30320" + "A tubular structure that transports secreted or excreted substances." "NCIT:C12948 ZFA:0005171 FBbt:00100314 XAO:0004000 AAO:0011123 galen:Duct Wikipedia:Duct_(anatomy) TAO:0005171 UMLS:C0687028 SCTID:91726008 FMA:30320" "Any process that stops, prevents or reduces the frequency, rate or extent of retrograde trans-synaptic signaling by neuropeptide." "A microtubule in the axoneme of a eukaryotic cilium or flagellum; an axoneme contains nine modified doublet microtubules, which may or may not surround a pair of single microtubules." "A portion of connective tissue that is part of an abdominal segment of trunk [Automatically generated definition]." "MA:0000526 EMAPA:37059" @@ -4490,7 +4514,7 @@ "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of collagen, any of a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals." "A muscular coat that is part of a cloaca." "A near-projecting glutamatergic neuron with a soma found in cortical layer 5/6." - "A non-terminally differentiated cell that originates from the neural crest and differentiates into a cyanophore." + "A non-terminally differentiated cell that originates from the neural crest and differentiates into a cyanophore." "ZFA:0005332" "Combining with a lipoprotein particle and delivering the lipoprotein particle into the cell via endocytosis. A lipoprotein particle, also known as a lipoprotein, is a clathrate complex consisting of a lipid enwrapped in a protein host without covalent binding in such a way that the complex has a hydrophilic outer surface consisting of all the protein and the polar ends of any phospholipids." "The process whose specific outcome is the progression of an uterine gland over time, from its formation to the mature structure." "A polymer consisting of an indefinite number of protein or protein complex subunits that have polymerised to form a fiber-shaped structure." @@ -4531,7 +4555,7 @@ "A nucleus of brain that is part of a telencephalon." "TAO:0002178 ZFA:0001660" "The process in which the anatomical structure of a renal artery is generated and organized. Renal arteries supply the kidneys with blood." "A gonad with both testicular and ovarian aspects[WP]." "WBbt:0005178 Wikipedia:Ovotestis BTO:0000981 MIAA:0000165 EFO:0000971 MAT:0000165" - "A progenitor cell of the neutrophil lineage." + "A progenitor cell of the neutrophil lineage." "ZFA:0009352" "An endothelium that is part of a capillary [Automatically generated definition]." "FMA:62114 EMAPA:36292 BTO:0004954 CALOHA:TS-0112 UMLS:C0006904 MA:0000711 NCIT:C49215" "The process in which the anatomical structures of the lateral mesoderm are generated and organized." @@ -4539,6 +4563,7 @@ "Any process that modulates the frequency, rate or extent of tongue muscle cell differentiation." "OBSOLETE (was not defined before being made obsolete)." "The process whose specific outcome is the progression of a juxtaglomerulus cell over time, from its formation to the mature structure." + "Any neuroendocrine cell that is part of some stomach." "The volume enclosed within the vacuolar membrane." "A multi-fate stem cell that is the source of cells for growth of the mammary gland during puberty and gestation. This cell type gives rise to both the luminal and myoepithelial cell types of the gland, and have been shown to have the ability to regenerate the entire organ in mice. This cell type also plays an important role in carcinogenesis of the breast. This cell type is Lin-, CD24-positive, CD29-hi." "Protein processing that takes place in the vacuole. Most protein processing in the vacuole represents proteolytic cleavage of precursors to form active enzymes." @@ -4573,9 +4598,10 @@ "A protein that is a translation product of the human LTF gene or a 1:1 ortholog thereof." "A lymphatic endothelial cell located in the subcapsular sinus ceiling of a lymph node. In human, it's characterized by a unique marker expression (NT5e+ and Caveolin-1+)." "Any process that stops, prevents, or reduces the frequency, rate or extent of cyanophore differentiation." - "Biological entity that is either an individual member of a biological species or constitutes the structural organization of an individual member of a biological species." "MA:0000001 TAO:0100000 AAO:0010841 HAO:0000000 ZFA:0100000 FMA:62955 WBbt:0000100 UMLS:C1515976 TGMA:0001822 BFO:0000004 BILA:0000000 AEO:0000000 NCIT:C12219 XAO:0000000 EHDAA2:0002229 CARO:0000000 BIRNLEX:6" + "Biological entity that is either an individual member of a biological species or constitutes the structural organization of an individual member of a biological species." "MA:0000001 TAO:0100000 AAO:0010841 HAO:0000000 ZFA:0100000 FMA:62955 WBbt:0000100 UMLS:C1515976 FBbt:10000000 TGMA:0001822 BFO:0000004 BILA:0000000 AEO:0000000 NCIT:C12219 XAO:0000000 EHDAA2:0002229 CARO:0000000 BIRNLEX:6" "The progression of the cardiac skeleton over time, from its formation to the mature structure. The cardiac skeleton is a specialized extracellular matrix that separates the atria from the ventricles and provides physical support for the heart." "The developmental process pertaining to the initial formation of a pronephric nephron tubule from unspecified parts. A pronephric nephron tubule is an epithelial tube that is part of a nephron in the pronephros." + "Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription." "Any of the veins that parallel the arcuate arteries, receive blood from the interlobular veins and straight venules, and terminate in the interlobar veins." "FMA:321527 FMA:272193 Wikipedia:Arcuate_vein EMAPA:28221 MA:0002593" "The progression of the trachea submucosa over time from its formation to the mature structure. The trachea submucosa is made up of the glands and elastic tissue that lie under the mucosa in the trachea." "A region of the fetal urogenital sinus epithelium destined to become the prostate[GO]." "EMAPA:36141" @@ -4602,7 +4628,7 @@ "Any endothelial cell of lymphatic vessel that is part of a dermis." "An epithelial cell that is part of the external acoustic meatus." "FMA:70555" "A macrophage scavenger receptor types I and II that is encoded in the genome of mouse." "UniProtKB:P30204" - "A stage defined by complex and coordinated series of cellular movements that occurs at the end of cleavage during embryonic development of most animals. The details of gastrulation vary from species to species, but usually result in the formation of the three primary germ layers, ectoderm, mesoderm and endoderm." "FBdv:00005317 BilaDO:0000008 XAO:1000005 EFO:0001296 HsapDv:0000010 BILS:0000109 WBls:0000010 OGES:000019 MmusDv:0000013 ZFS:0000047 OGES:000004" + "A stage defined by complex and coordinated series of cellular movements that occurs at the end of cleavage during embryonic development of most animals. The details of gastrulation vary from species to species, but usually result in the formation of the three primary germ layers, ectoderm, mesoderm and endoderm." "OGES:000004 FBdv:00005317 BilaDO:0000008 XAO:1000005 EFO:0001296 HsapDv:0000010 BILS:0000109 WBls:0000010 OGES:000019 MmusDv:0000013 ZFS:0000047" "The axillary nerve is a nerve of the human body, that comes off the posterior cord of the brachial plexus at the level of the axilla (armpit) and carries nerve fibers from C5 and C6. The axillary nerve travels through the quadrangular space with the posterior circumflex humeral artery and vein. [WP,unvetted]." "EMAPA:18802 MA:0001166 SCTID:181009006 FMA:37072 UMLS:C0228885 NCIT:C52817 Wikipedia:Axillary_nerve" "Any process that decreases the rate, frequency or extent of neuron projection development. Neuron projection development is the process whose specific outcome is the progression of a neuron projection over time, from its formation to the mature structure. A neuron projection is any process extending from a neural cell, such as axons or dendrites (collectively called neurites)." "A radiation reflective quality inhering in a bearer by virtue of the ratio of the energy of a wave reflected from its surface to the energy possessed by the wave striking the bearer's surface." @@ -4618,11 +4644,12 @@ "A megakaryocyte progenitor cell that is CD34-negative, CD41-positive and CD42-positive." "A dispersed and relatively uncompacted form of chromatin that is in a transcription-competent conformation." "Wikipedia:Euchromatin NIF_Subcellular:sao445485807" "Any process that modulates the frequency, rate or extent of hematopoietic stem cell differentiation." - "A macrophage resident in the peritoneum under non-inflammatory conditions. Markers include F4/80-high, CD11b-high, CD68-positive, SIGNR1-positive, CD115-high, MHC-II-negative, and Dectin-1-positive." "FMA:83025 BTO:0001034" + "A macrophage resident in the peritoneum under non-inflammatory conditions. Markers include F4/80-high, CD11b-high, CD68-positive, SIGNR1-positive, CD115-high, MHC-II-negative, and Dectin-1-positive." "ZFA:0009267 FMA:83025 BTO:0001034" "The chemical reactions and pathways involving organonitrogen compound." "The process in which neuroepithelial cells of the neural tube give rise to radial glial cells, specialized bipotential progenitors cells of the brain. Differentiation includes the processes involved in commitment of a cell to a specific fate." + "Primary lysosomal granule readily stainable with a Romanowsky stain." "Any process that stops, prevents, or reduces the frequency, rate or extent of blood vessel endothelial cell differentiation." - "A nerve cell where transmission is mediated by nitric oxide." "FMA:84792" + "A nerve cell where transmission is mediated by nitric oxide." "ZFA:0009240 FMA:84792" "Binding to a carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates." "The process whose specific outcome is the progression of the female genitalia over time, from formation to the mature structure." "An acinus that is part of a sebaceous gland." "FMA:59657" @@ -4631,7 +4658,8 @@ "A protein with core architecture consisting of asignal sequence, 5 Ig-like domains, followed by a transmembrane sequence, followed by a Protein tyrosine kinase domain (Pfam:PF07714). However, only 1-3 of the Ig domains are detected by the Pfam HMMs in most of the sequences. Pfam:PF00047 is most common, but other members of the Ig domain clan, Pfam:PF07679 and Pfam:PF07686 can be identified instead. The fourth Ig domain lacks the disulfide-bonded cysteines." "PIRSF:PIRSF000615" "An interleukin-2 receptor subunit alpha that is encoded in the genome of mouse." "UniProtKB:P01590" "Any process that modulates the frequency, rate or extent of smooth muscle cell migration." - "A flattened stroma cell forming a sheath or theca outside the basal lamina lining the mature ovarian follicle. Thecal interstitial or stromal cells are steroidogenic, and produce primarily androgens which serve as precusors of estrogens in the granulosa cells." "BTO:0002850" + "A flattened stroma cell forming a sheath or theca outside the basal lamina lining the mature ovarian follicle. Thecal interstitial or stromal cells are steroidogenic, and produce primarily androgens which serve as precusors of estrogens in the granulosa cells." "ZFA:0009229 BTO:0002850" + "OBSOLETE. Any melanocyte of skin that is part of a skin of prepuce of penis." "An ectoderm that is part of a medial nasal prominence [Automatically generated definition]." "EHDAA2:0001078 FMA:312675 EMAPA:16809 VHOG:0000803" "A Paneth cell that is part of the epithelium proper of small intestine." "FMA:263106" "Any process that activates or increases the frequency, rate or extent of apoptotic signaling pathway." @@ -4651,11 +4679,13 @@ "An OFF bipolar cell that is fovea-specific and expresses FEZF1, NXPH1 and NXPH2." "A splenic macrophage found in the white pulp of the spleen. Markers include F4/80-negative, CD68-positive, and macrosialin-positive." "The process whose specific outcome is the progression of a neuron whose cell body is located in the central nervous system, from initial commitment of the cell to a neuronal fate, to the fully functional differentiated neuron." + "Any kidney loop of Henle epithelial cell that is part of some descending limb of loop of Henle." "KUPO:0001053" "EMAPA:37767 NCIT:C33781 UMLS:C0229575 FMA:55513 SCTID:176859009 MA:0002675" "Binding to a CCR2 chemokine receptor." "A mechanoreceptor in the organ of Corti. In mammals the outer hair cells are arranged in three rows which are further from the modiolus than the single row of inner hair cells. The motile properties of the outer hair cells may contribute actively to tuning the sensitivity and frequency selectivity of the cochlea." "FMA:62366 BTO:0003666" "The chemical reactions and pathways resulting in the breakdown of a protein at a synapse." "Staged defined by the formation of a tube from the flat layer of ectodermal cells known as the neural plate. This will give rise to the central nervous system." "BILS:0000110 XAO:1000006 HsapDv:0000012 MmusDv:0000017 BilaDO:0000009" + "Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription." "A milk-producing glandular epithelial cell that is part of a mammary gland alveolus and differentiates from a luminal adaptive secretory precursor cell during secretory differentiation (also termed lactogenesis I). Following secretory activation (also termed lactogenesis II), a lactocyte is involved in the synthesis and/or transport of milk constituents including proteins, oligosaccharides, lactose, micronutrients, fat, hormones, immunoglobulins, and cytokines into the lumen of the lactating mammary gland." "FMA:79866 FMA:74506" "A fibroblast of skin." "CALOHA:TS-0935 BTO:0001255" "Any process that activates or increases the frequency, rate or extent of male gonad development." @@ -4668,7 +4698,7 @@ "The migration of individual cells within the blastocyst to help establish the multi-layered body plan of the organism (gastrulation). For example, the migration of cells from the surface to the interior of the embryo (ingression)." "The biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote or a young adult) to a later condition (e.g. a multicellular animal or an aged adult)." "Any process that modulates the frequency, rate or extent of androgen secretion." - "A neurectoderm derived cell that lines the neural lumen." "FMA:70550 BTO:0001724" + "A neurectoderm derived cell that lines the neural lumen." "ZFA:0009033 FMA:70550 BTO:0001724" "Endocardium that is part of the right atrium." "EHDAA2:0000274 NCIT:C102339 VHOG:0001228 SCTID:3194006 FMA:7281" "Any process that activates or increases the frequency, rate or extent of gluconeogenesis." "A mesodermal cell that is part of the splanchnic layer of lateral plate mesoderm." @@ -4678,6 +4708,7 @@ "Any process that activates or increases the frequency, rate or extent of oxygen metabolic process." "An endothelium that is part of an arteriole [Automatically generated definition]." "UMLS:C1179024 EMAPA:36286 MA:0000705 FMA:62115 NCIT:C49192" "A ploidy quality inhering in a bearer by virtue of the bearer's containing an integral multiple of the monoploid number, possibly excluding the sex-determining chromosomes." + "Any kidney epithelial cell that is part of some glomerular epithelium." "KUPO:0001023" "The expansion of a B cell population by cell division following B cell activation during an immune response." "The urethra is a renal system organ that carries urine from the bladder to outside the body. The epithelium is the tubular, planar layer of cells through which the urine passes.." "UMLS:C1710584 EMAPA:31518 MA:0001686 FMA:85275 NCIT:C49309" "The pectoralis major is a thick, fan-shaped muscle, situated at the upper front of the chest wall. It makes up the bulk of the chest muscles in the male and lies under the breast in the female. Underneath the pectoralis major is the pectoralis minor, a thin, triangular muscle. [WP,unvetted]." "NCIT:C33284 EMAPA:18179 SCTID:181624003 UMLS:C0585574 VHOG:0000895 EHDAA:8311 MA:0002354 EHDAA2:0001424 FMA:9627 Wikipedia:Pectoralis_major_muscle" @@ -4692,12 +4723,11 @@ "A holocrine gland that secretes sebum into the hair follicles, or in hairless areas into ducts.[MP]." "EV:0100161 NCIT:C33519 Wikipedia:Sebaceous_gland BTO:0001980 CALOHA:TS-2384 VHOG:0001468 UMLS:C0036505 MESH:D012627 MA:0002565 GAID:900 FMA:59160 EMAPA:35754 SCTID:361697005" "Binding to an intermediate filament, a distinct elongated structure, characteristically 10 nm in diameter, that occurs in the cytoplasm of higher eukaryotic cells. Intermediate filaments form a fibrous system, composed of chemically heterogeneous subunits and involved in mechanically integrating the various components of the cytoplasmic space." "A hillock cell that is located in respiratory epithelium. In some mammalian species, this cell type has been noted to express KRT13 and KRT4 and is postulated to play a role in squamous barrier function and immunomodulation." - "A sphincter muscle that is part of the gastrointestinal system." "NCIT:C32669 UMLS:C1517464" - "A neuroepithelial cells that occurs singly or in small groups, close to the outer follicular borders but within the follicular basement membrane of the thyroid. Expresses a form of the neural cell adhesion molecule (N-CAM) on their surface. Secretes calcitonin, 5-hydroxytryptamine and dopamine." "SCTID:176770005 FMA:68653" + "A neuroepithelial cells that occurs singly or in small groups, close to the outer follicular borders but within the follicular basement membrane of the thyroid. Expresses a form of the neural cell adhesion molecule (N-CAM) on their surface. Secretes calcitonin, 5-hydroxytryptamine and dopamine." "ZFA:0009260 SCTID:176770005 FMA:68653" "Any process that modulates the frequency, rate or extent of the directed movement of substances within cells." "The chemical reactions and pathways resulting in the formation of organic hydroxy compound." - "Gonochoristic organism that can produce female gametes." "TAO:0000303 CARO:0000028 AAO:0010030 BILA:0000028 XAO:0003005 TGMA:0001839 HAO:0000028 SCTID:362608006 FMA:67812 ZFA:0000303" + "Gonochoristic organism that can produce female gametes." "TAO:0000303 CARO:0000028 AAO:0010030 BILA:0000028 XAO:0003005 TGMA:0001839 SCTID:362608006 HAO:0000028 FBbt:00007011 FMA:67812 ZFA:0000303" "Simple columnar epithelium that constitutes the secretory part of a gland. Examples: epithelium of stomach, luminal epithelium of lactiferous duct.[FMA]." "NCIT:C13182 UMLS:C0225337 FMA:64800" "Any process that modulates the frequency, rate or extent of leukocyte differentiation." @@ -4755,7 +4785,6 @@ "A C-C chemokine receptor type 5 that is encoded in the genome of human." "UniProtKB:P51681 DTO:02100057 Reactome:R-HSA-171279" "Odontogenic tissue that is avascular non-mineralized matrix that is deposited by preameloblast and ameloblasts that are excluded from the matrix." "VSAO:0000066 XAO:0004202" "Any of the nuclei of the cochlear nuclear complex." "SCTID:362463009 MA:0001012 Wikipedia:Cochlear_nucleus FMA:54603 EMAPA:35248 ZFA:0001638 GAID:601 TAO:0002243 MESH:D017626 NCIT:C12837" - "KUPO:0001123" "Any neuromast mantle cell that is part of an anterior lateral line." "An OFF-bipolar neuron found in the retina and having connections with cone photoreceptors cells and neurons in the outer half of the inner plexiform layer. The cell body of these cells is in the middle of the inner plexiform layer. The dendritic tree is stout and the axon terminates in sublamina 1. The axonal terminal is wide and has only a few varicosities." "Any process that activates or increases the frequency, rate or extent of muscle hypertrophy." @@ -4771,7 +4800,7 @@ "Any process that activates or increases the frequency, rate or extent of apical ectodermal ridge formation." "A G4 retinal ganglion cell that has post sympatic terminals in sublaminar layers S2 and S3 and is depolarized by decreased illumination of their receptive field center" "Any process that decreases the rate, frequency or extent of a phase of elevated metabolic activity, during which oxygen consumption increases made as a defense response ; this leads to the production, by an NADH dependent system, of hydrogen peroxide (H2O2), superoxide anions and hydroxyl radicals." - "The biological process in which new individuals are produced by one or two single-celled organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." + "Any granulocytopoietic cell that has part some transcription factor PU.1 and has part some CCAAT/enhancer-binding protein alpha and has part some erythroid transcription factor and lacks plasma membrane part some CD19 molecule and lacks plasma membrane part some CD4 molecule and lacks plasma membrane part some integrin alpha-M and lacks plasma membrane part some CD3 epsilon and lacks plasma membrane part some neural cell adhesion molecule 1 and lacks plasma membrane part some CD2 molecule and lacks plasma membrane part some T-cell surface glycoprotein CD8 alpha chain and lacks plasma membrane part some membrane-spanning 4-domains subfamily A member 1 and lacks plasma membrane part some T-cell surface glycoprotein CD5 and lacks plasma membrane part some CD14 molecule and lacks plasma membrane part some lymphocyte antigen 6G and lacks plasma membrane part some lymphocyte antigen 76 (mouse) and has plasma membrane part some CD34 molecule and has plasma membrane part some ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 and has plasma membrane part some interleukin-3 receptor class 2 alpha chain and has plasma membrane part some interleukin-5 receptor subunit alpha and has plasma membrane part some mast/stem cell growth factor receptor and is capable of some eosinophil differentiation." "A protein that is a translation product of the human BCL6 gene or a 1:1 ortholog thereof." "IUPHARobj:2957" "Mature CD8_alpha-positive CD11b-negative dendritic cell is a CD8_alpha-positive CD11b-negative dendritic cell that is CD80-high, CD86-high, MHCII-high and is CD83-positive." "Scattered in duodenojejunal mucosa, this enteroendocrine cell secretes secretin and serotonin." "FMA:62936" @@ -4798,7 +4827,7 @@ "Any apoptotic process in a B cell that is mature, having left the bone marrow." "Any process that activates or increases the frequency, rate or extent of glomerular visceral epithelial cell apoptotic process." "The process in which a relatively unspecialized cell acquires the specialized features of a glial cell of the heart." - "KUPO:0001120" + "Binding to a specific sequence of DNA that is part of a regulatory region that controls the transcription of a gene or cistron by RNA polymerase II." "An eyelid connective tissue that is part of a hypodermis." "MA:0001252 EMAPA:37533 FMA:63975 UMLS:C1707991 NCIT:C49226" "The posterior lateral line system develops from cranial ectodermal placodes, situated behind the ear, that give rise to both the neuromasts and the posterior lateral line sensory nerves that innervate the neuromasts. The posterior lateral line system consists of small sensory patches (neuromasts) located superficially on the skin or just under the skin in fluid-filled canals on the head of all fishes and most amphibians. The neuromasts are innervated by several lateral line nerves, which project primarily to the hindbrain. The posterior mechanosensory lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance." "ZFA:0001471" "An epithelium that is part of a footplate." "EMAPA:32655 EHDAA:5145 EHDAA:6144 EHDAA2:0000548" @@ -4810,7 +4839,7 @@ "Any process that modulates the frequency, rate, or extent of antigen processing and presentation of peptide antigen via MHC class II." "At the macula densa, the thick ascending limb connects to the distal convoluted tubule[GO]." "A M cell that is part of the epithelium of intestinal villus." "FMA:263130" - "A potential space between the visceral and parietal layers of the pericardium." "FMA:11350 BSA:0000091 Wikipedia:Pericardial_cavity MA:0000053 EMAPA:16132 EHDAA2:0001434 SCTID:362027001 UMLS:C0225972 NCIT:C38662 EMAPA:16131 TAO:0002220 VHOG:0000556 ZFA:0001655 galen:PericardialSpace" + "A potential space between the visceral and parietal layers of the pericardium." "FMA:11350 BSA:0000091 Wikipedia:Pericardial_cavity SCTID:362027001 MA:0000053 EHDAA2:0001434 EMAPA:16132 UMLS:C0225972 NCIT:C38662 EMAPA:16131 TAO:0002220 VHOG:0000556 ZFA:0001655 galen:PericardialSpace" "A mucosa that is part of a female urethra [Automatically generated definition]." "FMA:239940" "The process in which a highly ordered sequence of patterning events generates the branched epithelial tubes of the lung, consisting of reiterated combinations of bud outgrowth, elongation, and dichotomous subdivision of terminal units." "A lineage-negative, Kit-positive, CD45-positive mast cell progenitor that is Fc-epsilon RIalpha-low." @@ -4824,9 +4853,7 @@ "A continuation of the pharynx that is involved in breathing, sound production, and protecting the trachea against food aspiration." "MAT:0000187 BTO:0001208 NCIT:C12420 FMA:55097 MESH:D007830 Wikipedia:Larynx SCTID:181212004 MA:0000414 CALOHA:TS-0532 UMLS:C0023078 EHDAA2:0004063 galen:Larynx AAO:0000268 XAO:0003081 EV:0100039 EMAPA:18333 VHOG:0001279 GAID:108 EFO:0000838 MIAA:0000187" "Any process that modulates the frequency, rate or extent of progesterone secretion." "The directed movement of L-glutamate from outside of a cell, across the plasma membrane and into the cytosol." - "A preadipocyte that is part of visceral tissue." - "GC_ID:1" "Subdivision of skull that consists of the facial bones." "EHDAA2:0002206 Wikipedia:Facial_skeleton FMA:53673 EHDAA:8361 EMAPA:18022 MA:0000318" "An endothelial cell found in the centrilobular region hepatic sinusoid, near the central vein. The fenestrae of these cells are smaller but more numerous compared with those of endothelial cells near the periportal region of the hepatic sinusoid." "EFO:0010706" @@ -4836,7 +4863,7 @@ "Any transmitter-gated ion channel activity that is involved in regulation of postsynaptic membrane potential." "A vein that is part of a vertebral column." "FMA:76735 SCTID:181376008 EMAPA:18255 MA:0002108 Wikipedia:Spinal_veins" "Any process that modulates the frequency, rate or extent of lipid binding." - "A stem cell from which all cells of the lymphoid and myeloid lineages develop, including blood cells and cells of the immune system. Hematopoietic stem cells lack cell markers of effector cells (lin-negative). Lin-negative is defined by lacking one or more of the following cell surface markers: CD2, CD3 epsilon, CD4, CD5 ,CD8 alpha chain, CD11b, CD14, CD19, CD20, CD56, ly6G, ter119." "CALOHA:TS-0448 VHOG:0001485 BTO:0000725 MESH:D006412 FMA:86475" + "A stem cell from which all cells of the lymphoid and myeloid lineages develop, including blood cells and cells of the immune system. Hematopoietic stem cells lack cell markers of effector cells (lin-negative). Lin-negative is defined by lacking one or more of the following cell surface markers: CD2, CD3 epsilon, CD4, CD5 ,CD8 alpha chain, CD11b, CD14, CD19, CD20, CD56, ly6G, ter119." "ZFA:0009014 CALOHA:TS-0448 VHOG:0001485 BTO:0000725 MESH:D006412 FMA:86475" "An amacrine cell with a wide dendritic field and post-synaptic terminals in S5. This cell type releases the neurotransmitters gamma-aminobutyric acid (GABA) and serotonin." "An opening in the skull through which cranial nerve II passes.[MP]." "Wikipedia:Optic_canal EHDAA2:0001312 ZFA:0005428 AAO:0000342 EHDAA:10646 SCTID:361732009 TAO:0002025 FMA:54774 EMAPA:18716 VHOG:0001408" "A CD7 molecule that is encoded in the genome of human." "UniProtKB:P09564" @@ -4844,7 +4871,7 @@ "Any process that activates or increases the frequency, rate or extent of skeletal muscle cell differentiation." "Any process that stops, prevents, or reduces the frequency, rate or extent of the formation of a myelin sheath around nerve axons." "Any process that activates or increases the frequency, rate or extent of myoblast differentiation. A myoblast is a mononucleate cell type that, by fusion with other myoblasts, gives rise to the myotubes that eventually develop into skeletal muscle fibers." - "A specialized pore forming cell of the follicle, located adjacent to the animal pole of the oocyte. The micropylar cell makes the single micropyle (pore) through the chorion through which the sperm fertilizes the egg." + "A specialized pore forming cell of the follicle, located adjacent to the animal pole of the oocyte. The micropylar cell makes the single micropyle (pore) through the chorion through which the sperm fertilizes the egg." "ZFA:0005239" "Any process that increases the frequency, rate or extent of the regulated release of growth hormone from a cell." "A bistratified amacrine cell with a medium dendritic field and post-synaptic terminals in S1-S2, and S4." "A protein that is a translation product of the human A4GALT gene or a 1:1 ortholog thereof." @@ -4899,13 +4926,13 @@ "A portion of connective tissue that is part of a bronchus [Automatically generated definition]." "UMLS:C1707052 NCIT:C49210 EMAPA:32690 MA:0001831 EMAPA:35193" "An epithelium that is part of a lateral lingual swelling." "FMA:313717 EMAPA:17190 EHDAA2:0000913" - "Embryonic ectoderm that gives rise to nervous tissue." "ZFA:0001120 FMA:87657 BILA:0000039 EHDAA:1498 NCIT:C34228 CALOHA:TS-1212 EHDAA:255 EMAPA:16073 TAO:0001120 XAO:0000042 AAO:0011074 UMLS:C1518271 MAT:0000176 MIAA:0000176 VHOG:0000150 EV:0100004 Wikipedia:Neuroectoderm EHDAA2:0001248" + "Embryonic ectoderm that gives rise to nervous tissue." "ZFA:0001120 FMA:87657 BILA:0000039 EHDAA:1498 NCIT:C34228 CALOHA:TS-1212 EHDAA:255 EMAPA:16073 TAO:0001120 XAO:0000042 AAO:0011074 UMLS:C1518271 FBbt:00001057 MAT:0000176 MIAA:0000176 VHOG:0000150 EV:0100004 Wikipedia:Neuroectoderm EHDAA2:0001248" "Any apoptotic process in a hepatocyte, the main structural component of the liver." "A cell that is part of some vasa recta descending limb." "KUPO:0001071" "A mesentery that is part of a caecum." "RETIRED_EHDAA2:0000210" "Binding to a transcription factor, a protein required to initiate or regulate transcription." "Any process that stops, prevents, or reduces the frequency, rate or extent of endothelial cell differentiation." - "A photoreceptor cell that detects visible light." + "A photoreceptor cell that detects visible light." "ZFA:0009219" "Any process that activates or increases the frequency, rate or extent of dopamine biosynthetic process." "The process in which the anatomical structures of a distal tubule are generated and organized. The distal tubule is a nephron tubule that begins at the macula densa and extends to the connecting tubule." "A cell-cell junction that seals cells together in an epithelium in a way that prevents even small molecules from leaking from one side of the sheet to the other." "Wikipedia:Tight_junction" @@ -4941,12 +4968,12 @@ "The process in which a relatively unspecialized cell acquires the specialized features of an astrocyte residing in the forebrain. An astrocyte is the most abundant type of glial cell. Astrocytes provide support for neurons and regulate the environment in which they function." "The chemical reactions and pathways resulting in the breakdown of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." "The internally coordinated responses (actions or inactions) of animals (individuals or groups) to internal or external stimuli, via a mechanism that involves nervous system activity." "Wikipedia:Behavior" - "A cell whose function is determined by its response to an electric signal." + "A cell whose function is determined by its response to an electric signal." "ZFA:0009190" "Binding to a microtubule, a filament composed of tubulin monomers." "Reactome:R-HSA-9614343" "Any process that modulates the frequency, rate or extent of organelle transport along microtubule." "Any process that activates or increases the frequency, rate or extent of endodermal cell differentiation." "The multiplication or reproduction of cells that contributes to the shaping of a heart valve." - "An epithelial cell of the esophagus." "FMA:63071" + "An epithelial cell of the esophagus." "ZFA:0009400 FMA:63071" "Reproductive organ that produces and releases eggs (ovary) or sperm (testis)." "GAID:368 BTO:0000534 ZFA:0000413 VHOG:0000397 XAO:0003146 BSA:0000079 HAO:0000379 MA:0002420 Wikipedia:Gonad BILA:0000123 TAO:0000413 FMA:18250 EMAPA:17383 NCIT:C12725 MESH:D006066 AAO:0000213 SCTID:304623008 UMLS:C0018067 WBbt:0005175" "The process that gives rise to the vagus nerve. This process pertains to the initial formation of a structure from unspecified parts. This nerve is primarily sensory but also has visceromotor components. It originates in the brain stem and controls many autonomic functions of the heart, lungs, stomach, pharynx, larynx, trachea, esophagus and other gastrointestinal tract components. It controls some motor functions such as speech. The sensory branches mediate sensation from the pharynx, larynx, thorax and abdomen; it also innervates taste buds in the epiglottis." "A layer of epithelial cells on the surface of the mucosa." "BTO:0003752" @@ -4968,12 +4995,12 @@ "A longitudinal groove in the neural tube wall that divides the neural tube into dorsal (alar) and ventral (basal) halves (dorsal receives input from sensory neurons, ventral effects motor functions); stretches from the mesencephalon caudad[TMD]." "BAMS:slim neuronames:629 BAMS:slm" "Any process that stops, prevents or reduces the frequency, rate or extent of histamine secretion by mast cell." "A homeostatic process involved in the maintenance of a steady state level of calcium ions within a cell." - "Any cell capable of ingesting particulate matter via phagocytosis." "BTO:0001044 MESH:D010586 FMA:83806" + "Any cell capable of ingesting particulate matter via phagocytosis." "ZFA:0009140 BTO:0001044 MESH:D010586 FMA:83806" "The orderly movement of a skeletal muscle satellite cell from one site to another. Migration of these cells is a key step in the process of growth and repair of skeletal muscle cells." "Any process that increases the rate or extent of the developmental process pertaining to the initial formation of the ureteric bud from the Wolffian duct." "Any process that activates or increases the frequency, rate or extent of monocyte differentiation." "An epithelium that is part of a anal canal." "EMAPA:18835 FMA:17511" - "Anatomical entity that has no mass." "EHDAA2:0003007 CARO:0000007 AEO:0000007 HAO:0000007 BILA:0000007 FMA:67112 VHOG:0001727 AAO:0010265 TAO:0001835 TGMA:0001827" + "Anatomical entity that has no mass." "EHDAA2:0003007 CARO:0000007 AEO:0000007 HAO:0000007 BILA:0000007 FMA:67112 VHOG:0001727 AAO:0010265 FBbt:00007015 TAO:0001835 TGMA:0001827" "Any collection of muscles that is part of a hindlimb zeugopod." "FMA:50211" "The metanephros develops from the most caudal part of the nephrogenic cord that is itself derived from the intermediate plate mesoderm." "Any process that activates, maintains or increases the rate of a response to an external stimulus." @@ -5001,6 +5028,7 @@ "Any process that modulates the frequency, rate or extent of neuroblast migration." "The differentiation of endothelial cells from progenitor cells that contributes to blood vessel development in the heart, and the de novo formation of blood vessels and tubes." "A thymic epithelial cell with moderate nuclear and cytoplasmic electron-density. Scattered in the cortex, this cell type is predominant in the mid and deep cortex." "FMA:72211" + "Any nephron tubule epithelial cell that is part of some loop of Henle." "KUPO:0001047" "A time quality inhering in a bearer by virtue of the bearer's expected maximum age." "Any process that modulates the frequency, rate or extent of acetylcholine biosynthetic process." "Nucleus with two or more lobes connected by a thin filament that contains no internal chromatin." @@ -5009,6 +5037,7 @@ "The chemical reactions and pathways involving dicarboxylic acids, any organic acid containing two carboxyl (COOH) groups or anions (COO-)." "The descending thin limb is a part of the loop of Henle situated just after the proximal straight tubule (S3). It extends to the tip of the loop of Henle[GO]." "EMAPA:35514 FMA:17719 MA:0002625 Wikipedia:Descending_limb_of_loop_of_Henle" + "Any kidney loop of Henle epithelial cell that is part of some ascending limb of loop of Henle." "KUPO:0001048" "The process whose specific outcome is the progression of the metanephric late distal convoluted tubule over time, from its formation to the mature structure. The metanephric late distal convoluted tubule contains metanephric DCT cells and intercalated (IC) alpha and beta cells and is vasopressin-sensitive." "A mucosa that is part of a rectum [Automatically generated definition]." "FMA:15033 CALOHA:TS-2107 EMAPA:27081 MA:0003218 SCTID:362167003" "A nuclear receptor ROR-gamma that is a translation product of some mRNA whose exon structure and start site selection renders it capable of giving rise to a protein with the amino acid sequence represented by UniProtKB:P51450-2 or a 1:1 ortholog thereof." @@ -5043,6 +5072,7 @@ "A dopamine receptor that is a product of the DRD2, DRD3, or DRD4 gene. The active form binds dopamine and its activity is mediated by G proteins that cause inhibition of adenylate cyclase." "PIRSF:PIRSF038553" "The region of the developing mammalian cortex that extends between the ventricular zone and the cortical plate (CP); normally, the IZ is a region of tangential migration of cells, and at midgestation, the lower part of the IZ develops into the subventricular zone." "EMAPA:17545 EMAPA:32712" "The secretory units of the exocrine pancreas, where fluid containing digestive enzymes is produced; consists of a group of secretory cells surrounding a luminal space that connects to the pancreatic duct." "NCIT:C49268 MA:0002417 EMAPA:35651 SCTID:247604006 UMLS:C0227578 FMA:16011" + "Any process that activates or increases the frequency, rate or extent of RNA polymerase II regulatory region sequence-specific DNA binding." "Any process that modulates the occurrence or rate of mesenchymal stem cell death by apoptotic process that contributes to the shaping of the nephron in the mesonephros." "A myoepithelial cell that is part of a mammary gland and is located in the basal layer. During lactation, a basal-myoepithelial cell of mammary gland contracts under the stimulation of oxytocin. In humans, a basal-myoepithelial cell of mammary gland can be identified by high levels of CD49f and low levels of EpCAM." "FMA:67800 CALOHA:TS-2378" "The process in which a trachea is generated and organized. The trachea is the portion of the airway that attaches to the bronchi as it branches." @@ -5059,7 +5089,6 @@ "A protein with core architecture consisting of an as yet unnamed domain in the amino-terminal half and a carboxyl-terminal Lectin C-type domain (Pfam:PF00059)." "PIRSF:PIRSF005558" "Any process that stops, prevents, or reduces the frequency, rate or extent of erythrophore differentiation." "An epiphysis that is part of a distal phalanx of manus." "FMA:321561 SCTID:280046002" - "An adipocyte that is part of the epicardial fat." "FMA:261293" "A limb joint that is part of a hindlimb [Automatically generated definition]." "SCTID:304573000 MA:0000662 EMAPA:32635" "A wavelike sequence of involuntary muscular contraction and relaxation that passes along the ureter, impelling the contents onwards. The ureter is one of a pair of thick-walled tubes that transports urine from the kidney pelvis to the urinary bladder." @@ -5095,6 +5124,7 @@ "A fibroblast growth factor 8 that is encoded in the genome of human." "UniProtKB:P55075" "A type I NK T cell that has been recently activated, secretes interferon-gamma and IL-4, and has the phenotype CD4-positive, CD69-positive, and downregulated NK markers." "The inferior petrosal sinus, within the human head, is an area beneath the brain, which allows blood veins to span the area, from the center of the head downward. It drains from the cavernous sinus (beneath the brain) to the sigmoid sinuses above the internal jugular vein." "FMA:50770 Wikipedia:Inferior_petrosal_sinus EMAPA:19234 SCTID:279263009" + "Any kidney medulla cell that is part of some inner medulla of kidney." "KUPO:0001026" "Any process that increases the rate, frequency, or extent of the multiplication or reproduction of osteoclasts, resulting in the expansion of an osteoclast cell population." "The chemical reactions and pathways involving C21-steroid hormones, steroid compounds containing 21 carbons which function as hormones." "Any process that activates or increases the frequency, rate, or extent of glial cell apoptotic process." @@ -5106,7 +5136,6 @@ "TAO:0007037 AAO:0011082 XAO:0000250 ZFA:0007037 VHOG:0001383" "A protein that is encoded in the genome of Homo sapiens." "Muscle tissue composed of cardiac muscle cells, forming the muscles of the heart[ZFA,modified]." "EHDAA2:0003142 EMAPA:32688 ZFA:0005280 FMA:14068 Wikipedia:Cardiac_muscle galen:CardiacMuscle CALOHA:TS-0440 TAO:0005280 BILA:0000134 ncithesaurus:Heart_Muscle BTO:0000199 galen:CardiacMuscleTissue AEO:0000142 AAO:0010245" - "An epithelial cell that is part of the prostatic urethra." "The regulation of blood pressure mediated by biochemical signaling: hormonal, autocrine or paracrine." "The paired channels leading from the lacrimal sacs to the inferior meatus of the nose, through which tears are conducted through the nasal cavity." "MA:0001299 AAO:0000643 VHOG:0000664 Wikipedia:Nasolacrimal_duct EHDAA:9094 EMAPA:17853 UMLS:C0027437 GAID:902 MESH:D009301 SCTID:280643009 NCIT:C33161 EHDAA2:0001237 FMA:9703 EHDAA:7849" @@ -5123,7 +5152,7 @@ "A large nucleated basophilic erythrocyte found in mammalian embryos. This cell type arises from the blood islands of yolk sacs and expresses different types of hemoglobins (beta-H1, gamma-1 and zeta) than adult erythrocytes. Considered a type of erythroblast as this cell type can enucleate in circulation." "The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon." "Mesenchyme that develops_from a somatopleure." "EHDAA2:0001120" - "Basket cells are inhibitory GABAergic interneurons of the brain. In general, dendrites of basket cells are free branching and contain smooth spines. Axons are highly branched. The branched axonal arborizations give rise to basket-like structures that surround the soma of the target cell. Basket cells form axo-somatic synapses, meaning their synapses target somas of other cells." + "Basket cells are inhibitory GABAergic interneurons of the brain. In general, dendrites of basket cells are free branching and contain smooth spines. Axons are highly branched. The branched axonal arborizations give rise to basket-like structures that surround the soma of the target cell. Basket cells form axo-somatic synapses, meaning their synapses target somas of other cells." "ZFA:0009068" "The motor neurons of vertebrates that directly innervate skeletal muscles. They receive input from upper motor neurons." "FMA:84632" "The process whose specific outcome is the progression of the mesonephric glomerular mesangium over time, from its formation to the mature structure. The mesonephric glomerular mesangium is the thin membrane connective tissue composed of mesangial cells in the mesonephros, which helps to support the capillary loops in a renal glomerulus." "A homeostatic process involved in the maintenance of a steady state level of a chemical within a cell." @@ -5144,9 +5173,9 @@ "An enterocyte that is part of the epithelium proper of large intestine." "FMA:263112 FMA:263090" "Any process that stops, prevents or reduces the frequency, rate or extent of hemopoiesis." "A continuation of the neuron projection bundle component of a nerve inside, crossing or immediately outside the central nervous system." "NLX:144250 NCIT:C54024 UMLS:C0228084 FMA:82524 SCTID:362295007 FMA:5981 Wikipedia:Nerve_root" - "A secretory cell found in pancreatic acini that secretes digestive enzymes and mucins. This cell is a typical zymogenic cell, have a basal nucleus and basophilic cytoplasm consisting of regular arrays of granular endoplasmic reticulum with mitochondria and dense secretory granules." "CALOHA:TS-0737 BTO:0000028 FMA:63032" + "A secretory cell found in pancreatic acini that secretes digestive enzymes and mucins. This cell is a typical zymogenic cell, have a basal nucleus and basophilic cytoplasm consisting of regular arrays of granular endoplasmic reticulum with mitochondria and dense secretory granules." "ZFA:0005739 CALOHA:TS-0737 BTO:0000028 FMA:63032" "The switching of activated B cells from IgM biosynthesis to IgE biosynthesis, accomplished through a recombination process involving an intrachromosomal deletion between switch regions that reside 5' of the IgM and IgE constant region gene segments in the immunoglobulin heavy chain locus." - + "A transcriptomically distinct intratelencepalic-projecting glutamatergic neuron that expresses Car3 with a soma found in L6 . The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_cluster', L6 IT Car3." "Cell-cell signaling from post to pre-synapse, across the synaptic cleft, mediated by a lipid." "The chemical reactions and pathways resulting in the formation of primary amino compound." "Any process that modulates the frequency, rate or extent of locomotion of a cell or organism." @@ -5171,7 +5200,7 @@ "A gamma-delta receptor that expresses Vgamma1.1 but does not express Vdelta6.3 chains in the T-cell receptor." "The directed movement of substances into, out of, or within the nucleus." "Wikipedia:Nuclear_transport" "The segment of the pes that is distal to the metatarsal region and consists of the pedal digits (toes)." "FMA:70664 SCTID:362835004" - "A cell of the embryo in the early stage following the blastula, characterized by morphogenetic cell movements, cell differentiation, and the formation of the three germ layers." + "A cell of the embryo in the early stage following the blastula, characterized by morphogenetic cell movements, cell differentiation, and the formation of the three germ layers." "ZFA:0009182" "A physical quality inhering in a bearer by virtue of the bearer's ability of being turned, bowed, or twisted without breaking." "The negative regulation of fertilization process that takes place as part of egg activation, ensuring that only a single sperm fertilizes the egg." "The process in which a myoblast migrates along an entire fiber to the site of injury. A myoblast is a mononucleate cell type that, by fusion with other myoblasts, gives rise to the myotubes that eventually develop into skeletal muscle fibers." @@ -5189,20 +5218,20 @@ "The process whose specific outcome is the progression of cardiac muscle of the atrium over time, from its formation to the mature structure." "A gastrulation process in which the initial invagination becomes the mouth and the anus forms second." "The developmental process pertaining to the initial formation of an epithelial tube." - "A pigment cell derived from the neural crest. Contains blue pigment of unknown chemical composition in fibrous organelles termed cyanosomes. This gives a blue appearance." + "A pigment cell derived from the neural crest. Contains blue pigment of unknown chemical composition in fibrous organelles termed cyanosomes. This gives a blue appearance." "ZFA:0009317" "The twelve spinal nerves on each side of the thorax. They include eleven INTERCOSTAL NERVES and one subcostal nerve. Both sensory and motor, they supply the muscles and skin of the thoracic and abdominal walls." "neuronames:1725 MESH:D013900 SCTID:360498003 GAID:857 Wikipedia:Thoracic_nerves FMA:5860" "Any process that modulates the frequency, rate or extent of microglial cell activation." "The process of regulating the proliferation and elimination of macrophage cells such that the total number of myeloid cells within a whole or part of an organism is stable over time in the absence of an outside stimulus." "The progression of the putamen over time from its initial formation until its mature state. The putamen is the lens-shaped basal ganglion involved with control of voluntary movement in the brain." "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an ATP (adenosine 5'-triphosphate) stimulus." - "A female gamete where meiosis has progressed to metaphase II and is able to participate in fertilization." "FBbt:00057012 BTO:0003801 CALOHA:TS-2191 FMA:67343 BTO:0000369 MESH:D010063" + "A female gamete where meiosis has progressed to metaphase II and is able to participate in fertilization." "ZFA:0001570 FBbt:00057012 BTO:0003801 CALOHA:TS-2191 FMA:67343 BTO:0000369 MESH:D010063" "The process in which the anatomical structures of branches are generated and organized. A branch is a division or offshoot from a main stem. Examples in animals would include blood vessels, nerves, lymphatics and other endothelial or epithelial tubes." "The process whose specific outcome is the progression of the posterior lateral line neuromast over time, from its formation to the mature structure. The neuromast is the sensory receptor of the anterior lateral line system and is composed of a population of sensory hair cells, and nonsensory supporting cells and mantle cells. Neuromast are located superficially on the epithelium or in lateral line canals." "A macrophage mannose receptor 1 that is encoded in the genome of human." "UniProtKB:P22897" "Any process that modulates the frequency, rate or extent of the regulated release of gamma-aminobutyric acid." - "The neurons that utilize glycine as a neurotransmitter." "FBbt:00048032" "The subdivision of the skeleton of either the pectoral or pelvic girdle." "AAO:0010686 VSAO:0000302" + "The neurons that utilize glycine as a neurotransmitter." "ZFA:0009396 FBbt:00048032" "A retinal neural layer that is immediately adjacent to the S1 and S3 layers and comprises 20 percent of the inner plexiform layer of retina." "CP:0000114" "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism." "One of two openings in the uterine cervix." "FMA:20422" @@ -5227,11 +5256,12 @@ "Any process that modulates the frequency, rate or extent of glycinergic synaptic transmission. Glycinergic synaptic transmission is the process of communication from a neuron to another neuron across a synapse using the neurotransmitter glycine." "The chemical reactions and pathways resulting in the formation of organonitrogen compound." "A CD4-positive, alpha-beta T cell that is found in the columnar epithelium of the gastrointestinal tract." - "A cell present in the developing CNS. Functions as both a precursor cell and as a scaffold to support neuronal migration." + "A cell present in the developing CNS. Functions as both a precursor cell and as a scaffold to support neuronal migration." "ZFA:0009292" "The part of the cytoskeleton (the internal framework of a cell) composed of actin and associated proteins. Includes actin cytoskeleton-associated complexes." "Any apoptotic process in an epithelial cell." "A blood vessel that is part of a brain [Automatically generated definition]." "EMAPA:35182 MA:0002769" "Mature CD8_alpha-negative CD11b-positive dendritic cell is a CD8_alpha-negative CD11b-positive dendritic cell that is CD80-high, CD86-high, MHCII-high and is CD83-positive." + "Any smooth muscle cell that is part of some renal afferent arteriole." "KUPO:0001040" "An estrogen receptor that is encoded in the genome of human." "UniProtKB:P03372 Reactome:R-HSA-446168 Reactome:R-HSA-9020968 DTO:00117511" "Any process that stops, prevents or reduces the frequency, rate or extent of testosterone secretion." "The process in which relatively unspecialized cells acquire specialized structural and functional features of a pancreatic polypeptide-producing cell. A pancreatic polypeptide-producing cell is a cell in the pancreas that produces pancreatic polypeptide." @@ -5245,7 +5275,7 @@ "Dorsal portion of the pons, containing cranial nervee nuclei, ascending and descending tracts and reticular nuclei. It is continuous with the reticular formation of the medulla (Carpenter, A Core Text of Neuroanatomy, 3rd ed, 1985, pg 133)." "FMA:71108 BAMS:PTg DHBA:12416 neuronames:557 BIRNLEX:923 Wikipedia:Pontine_tegmentum HBA:9135 SCTID:362401009 UMLS:C0228426" "Any process that stops, prevents, or reduces the frequency, rate or extent of immature T cell proliferation in the thymus." - "A mature gamma-delta T cell that is found in the columnar epithelium of the gastrointestinal tract. These cells participate in mucosal immune responses." + "A mature gamma-delta T cell that is found in the columnar epithelium of the gastrointestinal tract. These cells participate in mucosal immune responses." "ZFA:0009339" "Any process that activates or increases the frequency, rate or extent of protein complex assembly." "A dorsal root ganglion that is part of a thorax [Automatically generated definition]." "UMLS:C0457467 BIRNLEX:2600 SCTID:278326009 FMA:6006" "Any process that activates or increases the frequency, rate, or extent of mast cell activation as part of an immune response." @@ -5308,15 +5338,14 @@ "A portion of connective tissue that is part of an ankle [Automatically generated definition]." "EMAPA:37328 MA:0000639" "Hindbrain segment or neuromere 1." "EHDAA2:0001637 ZFA:0001031 DMBA:16915 EFO:0003608 FMA:295790 DHBA:12667 EMAPA:16290 TAO:0001031" "A germinal center that is part of the spleen. The spleen germinal center is located in a secondary B follicle in the white pulp of the spleen." "MA:0000764 EMAPA:35803 NCIT:C49760 UMLS:C1710156" - "An embryo that is at the late embryonic stage; this stage covers late steps of the embryogenesis with a fully formed embryo still developing before birth or egg hatching." "SCTID:83418008 NCIT:C13235 FMA:63919 CALOHA:TS-0360 UMLS:C0015965 BTO:0000449 MESH:D005333 GAID:552 EFO:0001323" + "An embryo that is at the late embryonic stage; this stage covers late steps of the embryogenesis with a fully formed embryo still developing before birth or egg hatching." "SCTID:83418008 FBbt:00005333 NCIT:C13235 FMA:63919 CALOHA:TS-0360 UMLS:C0015965 BTO:0000449 MESH:D005333 GAID:552 EFO:0001323" "Any process that activates or increases the frequency, rate or extent of cardiocyte differentiation." "The Peyer's patch area normally occupied by T lymphocytes." "EMAPA:37939" "A vascular network consisting of blood vessels." "TAO:0001079 ZFA:0001079" - "Organism at the gastrula stage." "NCIT:C34057 FMA:293108 Wikipedia:Trilaminar_blastocyst UMLS:C0017199 MIAA:0000179 UMLS:C1284022 MESH:D005775 NCIT:C34058 BILA:0000060 GAID:1302 BTO:0001403 Wikipedia:Gastrula" + "Organism at the gastrula stage." "NCIT:C34057 FMA:293108 FBbt:00005317 Wikipedia:Trilaminar_blastocyst UMLS:C0017199 MIAA:0000179 UMLS:C1284022 MESH:D005775 NCIT:C34058 BILA:0000060 GAID:1302 BTO:0001403 Wikipedia:Gastrula" "An epiphysis that is part of a phalanx [Automatically generated definition]." "SCTID:280033007" - "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving nitrogen or nitrogenous compounds." "The process whose specific outcome is the progression of the mesoderm over time, from its formation to the mature structure. The mesoderm is the middle germ layer that develops into muscle, bone, cartilage, blood and connective tissue." - "Catalysis of the phosphorylation of an amino acid residue in a protein, usually according to the reaction: a protein + ATP = a phosphoprotein + ADP." "Reactome:R-HSA-9673284 Reactome:R-HSA-975139 Reactome:R-HSA-937034 Reactome:R-HSA-9604606 Reactome:R-HSA-156832" + "Catalysis of the phosphorylation of an amino acid residue in a protein, usually according to the reaction: a protein + ATP = a phosphoprotein + ADP." "Reactome:R-HSA-9836435 Reactome:R-HSA-9673284 Reactome:R-HSA-9836515 Reactome:R-HSA-9836383 Reactome:R-HSA-975139 Reactome:R-HSA-9836322 Reactome:R-HSA-937034 Reactome:R-HSA-9604606 Reactome:R-HSA-9836159 Reactome:R-HSA-9836362 Reactome:R-HSA-9836617 Reactome:R-HSA-9835885 Reactome:R-HSA-9732753 Reactome:R-HSA-9833820 Reactome:R-HSA-9836404 Reactome:R-HSA-156832 Reactome:R-HSA-9836664 Reactome:R-HSA-9836449 Reactome:R-HSA-9836184" "Any process that activates or increases the frequency, rate or extent of the assembly of pseudopodia." "The chemical reactions and pathways involving a protein. Includes protein modification." "Wikipedia:Protein_metabolism" "Combining with an MHC class Ib protein complex and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity. Class Ib here refers to non-classical class I molecules, such as those of the CD1 or HLA-E gene families." @@ -5329,15 +5358,15 @@ "FMA:67521" "Any process that stops, prevents, or reduces the frequency, rate, or extent of neutrophil apoptotic process." "A region of the brain consisting of ventral and rostral subcortical regions of the telencephalon, including among others, the basal ganglia, septal nuclei, amygdala, ventral pallidum, substantia innominata, and basal nucleus of Meynert." "Wikipedia:Basal_forebrain BTO:0002444 EMAPA:35164 BM:Tel-BF BIRNLEX:1560 DHBA:10349 PBA:128012976 BAMS:Basal_forebrain HBA:4300 FMA:77700 neuronames:1997" - "A major division of the nervous system that contains nerves which connect the central nervous system (CNS) with sensory organs, other organs, muscles, blood vessels and glands." "MAT:0000338 FMA:9903 GAID:715 CALOHA:TS-0808 MA:0000218 BTO:0001028 BAMS:PNS SCTID:362292005 ZFA:0000142 EMAPA:16665 neuronames:3232 Wikipedia:Peripheral_nervous_system VHOG:0000399 EHDAA:2893 MIAA:0000338 MESH:D017933 XAO:0000178 BIRNLEX:1111 UMLS:C0206417 UMLS:C1305921 TAO:0000142 EHDAA2:0001445 EV:0100335 EFO:0000891 BILA:0000081 AAO:0000429 NCIT:C12465" + "A major division of the nervous system that contains nerves which connect the central nervous system (CNS) with sensory organs, other organs, muscles, blood vessels and glands." "MAT:0000338 FMA:9903 GAID:715 CALOHA:TS-0808 MA:0000218 BTO:0001028 BAMS:PNS SCTID:362292005 ZFA:0000142 EMAPA:16665 neuronames:3232 Wikipedia:Peripheral_nervous_system VHOG:0000399 EHDAA:2893 MIAA:0000338 MESH:D017933 XAO:0000178 BIRNLEX:1111 UMLS:C0206417 FBbt:00005098 UMLS:C1305921 TAO:0000142 EHDAA2:0001445 EV:0100335 EFO:0000891 BILA:0000081 AAO:0000429 NCIT:C12465" "Epithelium composed of a single layer of cells, appearing as layered because the column-shaped cells vary in height so the nuclei are at different levels. The basal portions of all the cells are in contact with the basement membrane. It lines the respiratory system and the male reproductive tract. The cilia in the respiratory tract are motile, while the stereocilia in the male reproductive tract are immobile." "NCIT:C13181 FMA:13146 UMLS:C0506992" - "A sulcus of brain that is part of a frontal cortex." "UMLS:C0459388 NCIT:C32639 HBA:9354" "Portion of tissue that gives rise to the immature gonad." "ZFA:0001262 EMAPA:17204 EFO:0003651 TAO:0001262 EHDAA:5927 WBbt:0008366 RETIRED_EHDAA2:0002148" "A prostate epithelial cell that is CD133-positive, CD44-positive, integrin A2beta3-high. This cell is a stem cell for the prostate epithelium." "The portion of a cell bearing surface projections such as axons, dendrites, cilia, or flagella that includes the nucleus, but excludes all cell projections." "FMA:67301 FBbt:00005107 Wikipedia:Cell_body" "The developmental process pertaining to the progression of the optic chiasm from its initial formation to the mature structure. The process begins when the pathfinding of the axons of the developing optic nerve cause some axons to cross at the midline of the brain and ends when the axons are mature." "Any process that modulates the frequency, rate or extent of cytoplasmic translation." + "Any kidney corpuscule cell that is part of some renal glomerulus." "KUPO:0001036" "The process in which the anatomical structures of a proximal tubule are generated and organized. The proximal tubule is a nephron tubule that connects Bowman's capsule to the descending thin limb of the loop of Henle. It has a brush border epithelial morphology." "A lymphatic vessel that is part of a pelvic appendage." "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of a solute from one side of a membrane to the other." @@ -5365,7 +5394,7 @@ "The central part of the thoracic cavity enclosed by the left and right pleurae." "MESH:D008482 CALOHA:TS-2338 UMLS:C0025066 EMAPA:36001 SCTID:181217005 Wikipedia:Mediastinum NCIT:C12748 MA:0003075 FMA:9826 EFO:0003057 GAID:94" "A segmented neutrophilic cell of the bone marrow reserve pool that expresses CD11b (integrin alpha-M) and high levels of CD16 (low affinity immunoglobulin gamma Fc region receptor III) on its cell surface." "A protein that is a translation product of the human LGALS1 gene or a 1:1 ortholog thereof." - "A stem cell that can give rise to cell types of the body other than those of the germ-line." "MESH:D053687 CALOHA:TS-2086" + "A stem cell that can give rise to cell types of the body other than those of the germ-line." "ZFA:0009307 MESH:D053687 CALOHA:TS-2086" "A strand of hair that is part of a dorsum." "FMA:54320" "Any process that reduces or removes the toxicity of iron ion. These include transport of iron away from sensitive areas and to compartments or complexes whose purpose is sequestration of iron ion." "A protein that is produced as the result of proteolytic processing of a longer protein." @@ -5420,7 +5449,7 @@ "A type I vestibular sensory cell that is part of the epithelium of macula of saccule of membranous labyrinth." "FMA:263190" "Any process that activates, maintains or increases the frequency, rate or extent of GABAergic synaptic transmission, the process of communication from a neuron to another neuron across a synapse using the neurotransmitter gamma-aminobutyric acid (GABA)." "A thymocyte that has the phenotype CD4-negative, CD8-negative, CD44-negative, and CD25-positive and expressing the T cell receptor beta-chain in complex with the pre-T cell receptor alpha chain." - "A tube-like opening in the epidermis where the hair shaft develops and into which the sebaceous glands open[GO]." "FMA:70660 UMLS:C0221971 EFO:0002464 EMAPA:29741 VHOG:0001268 CALOHA:TS-0432 Wikipedia:Hair_follicle NCIT:C13317 GAID:934 EMAPA:18771 SCTID:280830006 BTO:0000554 MA:0000154 EV:0100156 MESH:D018859" + "A tube-like opening in the epidermis where the hair shaft develops and into which the sebaceous glands open[GO]." "FMA:70660 UMLS:C0221971 EFO:0002464 EMAPA:29741 VHOG:0001268 CALOHA:TS-0432 Wikipedia:Hair_follicle NCIT:C13317 SCTID:280830006 GAID:934 EMAPA:18771 BTO:0000554 MA:0000154 EV:0100156 MESH:D018859" "The progression of the cerebral cortex over time from its initial formation until its mature state. The cerebral cortex is the outer layered region of the telencephalon." "Any process that modulates the frequency, rate or extent of transmission of a nerve impulse, the sequential electrochemical polarization and depolarization that travels across the membrane of a neuron in response to stimulation." "A lymph node macrophage found in the subcapsular sinus of lymph nodes that participates in sensing, clearance, and antigen presentation of lymph-borne particulate antigens. This macrophage is capable of activating invaraint NKT cells and is CD169-positive." @@ -5481,7 +5510,7 @@ "Great vessels is a term used to refer collectively to the large vessels that bring blood to and from the heart." "EMAPA:36460 SCTID:304066000 Wikipedia:Great_vessels" "a KNDy neuron that is located in the arcuate nucleus of the hypothalamus." "An epithelial tube or tree of tibes that transports blood away from the heart[modified from AEO definition]." "VHOG:0001251 GAID:468 UMLS:C0003842 EMAPA:35147 ZFA:0000005 galen:Artery MESH:D001158 EHDAA2:0003253 FMA:50720 CALOHA:TS-0054 XAO:0000114 NCIT:C12372 TAO:0000005 EFO:0000814 MIAA:0000034 AAO:0010211 Wikipedia:Artery MA:0000064 AEO:0000208 EV:0100026 SCTID:362877004 BTO:0000573 MAT:0000034" - "A protein with core architecture consisting of one Prominin (Pfam:PF05478) domain. The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology. Mouse and human prominin and prominin-like 1 are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain." "PIRSF:PIRSF017831 PANTHER:PTHR22730" + "A protein with core architecture consisting of one Prominin (Pfam:PF05478) domain. The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology. Mouse and human prominin and prominin-like 1 are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain." "PIRSF:PIRSF017831" "Any process that activates or increases the frequency, rate, or extent of germinal center formation." "The developmental process pertaining to the initial formation of a camera-type eye from unspecified neurectoderm. This process begins with the differentiation of cells that form the optic field and ends when the optic cup has attained its shape." "Any process that activates or increases the frequency, rate or extent of chondrocyte hypertrophy." @@ -5498,7 +5527,7 @@ "A protein that is a translation product of the human ACP5 gene or a 1:1 ortholog thereof." "PIRSF:PIRSF000898" "Any process that modulates the frequency, rate, or extent of natural killer cell mediated cytotoxicity." "Any process that activates or increases the frequency, rate or extent of apoptotic process involved in outflow tract morphogenesis." - "A cell type that secretes 5-Hydroxytryptamine (serotonin)." + "A cell type that secretes 5-Hydroxytryptamine (serotonin)." "ZFA:0009213" "Any process that activates or increases the frequency, rate, or extent of T cell anergy." "A myocardium that is part of a right ventricle of a heart." "FMA:9535 MA:0002984 SCTID:362020004" "Any process that activates or increases the frequency, rate or extent of the regulated release of glucagon." @@ -5511,7 +5540,7 @@ "A killer cell lectin-like receptor subfamily B member 1C that is encoded in the genome of mouse." "UniProtKB:P27814" "The process whose specific outcome is the progression of the corneocyte over time, from its formation to the mature structure. A corneocyte is the last stage of development of a keratinocyte where the keratinocyte flattens, loses its nucleus and eventually delaminates from the epidermis." "A zone of skin that is above the iliac crest in the pelvic girdle bone/zone." - "A myeloblast committed to the neutrophil lineage. This cell type is GATA-1 positive, C/EBPa-positive, AML-1-positive, c-myb-positive and has low expression of PU.1 transcription factor." + "A myeloblast committed to the neutrophil lineage. This cell type is GATA-1 positive, C/EBPa-positive, AML-1-positive, c-myb-positive and has low expression of PU.1 transcription factor." "ZFA:0009018" "Any process that stops or reduces the activity of a transporter." "A transcription factor PU.1 that is encoded in the genome of human." "UniProtKB:P17947 Reactome:R-HSA-8865503" "The mucous membrane lining the urinary bladder." "NCIT:C32205 EMAPA:35897 FMA:15928 UMLS:C0227691 EFO:0000293 SCTID:362224004 galen:MucousMembraneOfUrinaryBladder MA:0001692" @@ -5528,7 +5557,6 @@ "The nephron epithelium is a tissue that covers the surface of a nephron." "Any basket cell that is part of a Ammon's horn." "Any process that modulates the frequency, rate or extent of calcium ion transmembrane transporter activity." - "A rapidly proliferating population of cells that differentiate from stem cells of the intestinal crypt of the small intestine. Stem cells located in the crypts of Lieberkühn give rise to proliferating progenitor or transit amplifying cells that differentiate into the four major epithelial cell types. These include columnar absorptive cells or enterocytes, mucous secreting goblet cells, enteroendocrine cells and paneth cells." "A bronchiole that is part of a right lung [Automatically generated definition]." "EMAPA:35425 UMLS:C0225670 NCIT:C49279 MA:0001787 SCTID:200089000" "The orderly movement of an astrocyte cell through the telencephalon." @@ -5542,9 +5570,9 @@ "Any process that decreases the rate, frequency or extent of the chemical reactions and pathways involving acetylcholine, the acetic acid ester of the organic base choline. Acetylcholine is a major neurotransmitter and neuromodulator both in the central and peripheral nervous systems. It also acts as a paracrine signal in various non-neural tissues." "Distensible musculomembranous organ situated in the anterior part of the pelvic cavity in which urine collects before excretion[MP]." "EV:0100098 GAID:0000004 CALOHA:TS-1090 EHDAA2:0000174 MA:0000380 SCTID:302512001 EHDAA:9328 UMLS:C0005682 FMA:15900 Wikipedia:Urinary_bladder EMAPA:18321 NCIT:C12414 VHOG:0000740 galen:UrinaryBladder XAO:0000154 MIAA:0000122 EFO:0000290 MAT:0000122 MESH:D001743 AAO:0000623 BTO:0001418" "An interleukin-5 receptor subunit alpha that is encoded in the genome of mouse." "UniProtKB:P21183" - "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of epinephrine into a cell." - "A specialized epithelial cell involved in sensory perception. Restricted to special sense organs of the olfactory, gustatory, and vestibulocochlear receptor systems; contain sensory cells surrounded by supportive, non-receptive cells." "BTO:0004301" + "A specialized epithelial cell involved in sensory perception. Restricted to special sense organs of the olfactory, gustatory, and vestibulocochlear receptor systems; contain sensory cells surrounded by supportive, non-receptive cells." "ZFA:0009050 BTO:0004301" "Any process that stops, prevents, or reduces the frequency, rate or extent of protein complex assembly." + "Any secretory cell that is capable of some progesterone secretion." "ZFA:0009109" "Any process that stops, prevents, or reduces the frequency, rate or extent of osteoclast differentiation." "The vesicular release of gamma-aminobutyric acid (GABA). from a presynapse, across a chemical synapse, the subsequent activation of GABA receptors at the postsynapse of a target cell (neuron, muscle, or secretory cell) and the effects of this activation on the postsynaptic membrane potential and ionic composition of the postsynaptic cytosol. This process encompasses both spontaneous and evoked release of neurotransmitter and all parts of synaptic vesicle exocytosis. Evoked transmission starts with the arrival of an action potential at the presynapse." "Any process that modulates the frequency, rate or extent of the formation, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising microtubules and their associated proteins." @@ -5554,8 +5582,8 @@ "A CD8-positive, CD4-negative thymocyte that expresses high levels of the alpha-beta T cell receptor and is CD69-positive." "The series of molecular signals mediated by the detection of a hormone." "Development of a rod cell, one of the sensory cells in the eye that reacts to the presence of light. Rod cells contain the photopigment rhodopsin or porphyropsin and are responsible for vision in dim light." - "Any tagma (UBERON:6000002) that is part of some larva (UBERON:6001727)." - "The proximal portion of the digestive tract, containing the oral cavity and bounded by the oral opening. In vertebrates, this extends to the pharynx and includes gums, lips, tongue and parts of the palate. Typically also includes the teeth, except where these occur elsewhere (e.g. pharyngeal jaws) or protrude from the mouth (tusks)." "TADS:0000040 GAID:75 galen:Mouth BTO:0001090 TGMA:0000131 MA:0000341 MAT:0000038 TAO:0000590 SCTID:21082005 ZFA:0000590 MA:0002474 FMA:49184 BTO:0004698 AAO:0010355 VHOG:0000280 MIAA:0000038 EMAPA:16262 MESH:D009055 TAO:0000547 EFO:0000825 http://purl.obolibrary.org/obo/uberon/images/lamprey_sucker_rosava_3238889218.jpg CALOHA:TS-1315 EHDAA:542 VHOG:0000812 XAO:0003029 ZFA:0000547 Wikipedia:Mouth EHDAA2:0001326" + "Any tagma (UBERON:6000002) that is part of some larva (UBERON:6001727)." "FBbt:00001728" + "The proximal portion of the digestive tract, containing the oral cavity and bounded by the oral opening. In vertebrates, this extends to the pharynx and includes gums, lips, tongue and parts of the palate. Typically also includes the teeth, except where these occur elsewhere (e.g. pharyngeal jaws) or protrude from the mouth (tusks)." "TADS:0000040 GAID:75 galen:Mouth BTO:0001090 TGMA:0000131 MA:0000341 MAT:0000038 TAO:0000590 SCTID:21082005 ZFA:0000590 FBbt:00003126 MA:0002474 FMA:49184 BTO:0004698 AAO:0010355 VHOG:0000280 MIAA:0000038 EMAPA:16262 MESH:D009055 TAO:0000547 EFO:0000825 http://purl.obolibrary.org/obo/uberon/images/lamprey_sucker_rosava_3238889218.jpg CALOHA:TS-1315 EHDAA:542 VHOG:0000812 XAO:0003029 ZFA:0000547 Wikipedia:Mouth EHDAA2:0001326" "The regions of the spinal cord that are largely or entirely composed of myelinated nerve cell axons and contain few or no neural cell bodies or dendrites." "BAMS:SCwhite EMAPA:35795 FMA:83945 MA:0000910 SCTID:279436006 DHBA:146035088 NCIT:C33893 UMLS:C0458457" "The process whose specific outcome is the progression of a megakaryocyte cell over time, from its formation to the mature structure. Megakaryocyte development does not include the steps involved in committing a cell to a megakaryocyte fate. A megakaryocyte is a giant cell 50 to 100 micron in diameter, with a greatly lobulated nucleus, found in the bone marrow." "The process in which the metanephric comma-shaped body is generated and organized. The metanephric comma-shaped body is the precursor structure to the metanephric S-shaped body that contributes to the morphogenesis of a nephron in the metanephros." @@ -5620,7 +5648,7 @@ "A phagocytic cell formed by the fusion of macrophages, occurs in chronic inflammatory responses to persistent microorganism such as M.tuberculosis, component of granulomas. Sometimes used to refer to megakaryocytes." "FMA:83035 MESH:D015726 BTO:0003107" "The second pharyngeal arch will form the hyoid apparatus. The cranial neural crest cells that populate the second pharyngeal arch emerge primarily from rhombomere 4 and will form skeletal elements." "FMA:293017 TAO:0001596 EHDAA2:0000050 ZFA:0001611 NCIT:C34288 SCTID:308768003 EHDAA:611 EMAPA:16272 AAO:0010363 VHOG:0000297 XAO:0000098 Wikipedia:Second_pharyngeal_arch" "A lymphatic endothelial cell located in the subcapsular sinus floor of a lymph node. In human, it's characterized by a unique marker expression (TNFRSF9+)." - "A B cell that is mature, having left the bone marrow. Initially, these cells are IgM-positive and IgD-positive, and they can be activated by antigen." + "A B cell that is mature, having left the bone marrow. Initially, these cells are IgM-positive and IgD-positive, and they can be activated by antigen." "ZFA:0009331" "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of a nitric-oxide synthase enzyme." "Any process that activates or increases the frequency, rate or extent of cytotoxic T cell differentiation." "The directed movement of norepinephrine into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Norepinephrine (3,4-dihydroxyphenyl-2-aminoethanol) is a hormone secreted by the adrenal medulla and a neurotransmitter in the sympathetic peripheral nervous system and in some tracts of the CNS. It is also the biosynthetic precursor of epinephrine." @@ -5632,7 +5660,6 @@ "A mature CD8-positive, CD4-negative alpha-beta T cell found in the thymus that is CD24-low and has high expression of the T cell receptor." "Any process that decreases the rate, frequency or extent of mast cell chemotaxis. Mast cell chemotaxis is the movement of a mast cell in response to an external stimulus." - "The directed movement of epinephrine into a cell, typically presynaptic neurons or glial cells. Epinephrine is a hormone produced by the medulla of the adrenal glands that increases heart activity, improves the power and prolongs the action of muscles, and increases the rate and depth of breathing. It is synthesized by the methylation of norepinephrine." "A renal beta-intercalated cell that is part of the cortical collecting duct. The medullary collecting duct does not contain the renal beta-intercalated cell type." "A thymic medullary epithelial cell that expresses typical tuft cell markers instead of classical mTEC or cTEC markers. This population has a bulbous-like structure." "The hydrolysis of a peptide bond or bonds within a protein by lysosomal resident proteases contributing to antigen processing and presentation." @@ -5643,7 +5670,7 @@ "Any process that increases the rate, frequency or extent of macrophage chemotaxis. Macrophage chemotaxis is the movement of a macrophage in response to an external stimulus." "Any process that increases the rate, frequency or extent of macrophage cytokine production. Macrophage cytokine production is the appearance of a chemokine due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." - "A cell that moves by its own activities." + "A cell that moves by its own activities." "ZFA:0009136" "Any process that activates or increases the frequency, rate or extent of cation transmembrane transport." "The change in morphology and behavior of a microglial cell resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor." "The process whose specific outcome is the progression of the pharyngeal muscle over time, from its formation to the mature structure. A pharyngeal muscle is any muscle that forms part of the pharynx." @@ -5651,14 +5678,13 @@ "Any process that stops, prevents, or reduces the frequency, rate or extent of tooth mineralization, the deposition of calcium salts in tooth structures." "Any process that modulates the frequency, rate, or extent of mast cell apoptotic process." "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." - "http://en.wikipedia.org/wiki/Collecting_duct_system#Intercalated_cells KUPO:0001129" "Anatomical cavity at the start of the digestive tract that that is enclosed by the mouth. The boundaries and contents vary depending on the species. In vertebrates, the boundaries are the oral opening, the cheeks, the palate and (if present) the palatoglossal arch - if this is not present then the mouth and pharynx form the oropharyngeal cavity. The buccal cavity contains the teeth, tongue and palate (when present)." "TGMA:0000102 FMA:20292 BSA:0000107 WBbt:0005255 HAO:0000669 VHOG:0000188 TAO:0001027 SCTID:181220002 ZFA:0001027 AAO:0000960 EFO:0001975 XAO:0000126 NCIT:C12421 AAO:0000053 EV:0100057 EMAPA:18399 EHDAA:6970 EHDAA2:0001324 CALOHA:TS-1315 EMAPA:17411 UMLS:C0226896" "A CD38-negative naive B cell is a mature B cell that has the phenotype CD38-negative, surface IgD-positive, surface IgM-positive, and CD27-negative, that has not yet been activated by antigen in the periphery." "A neural progenitor cell that is the daughter of a neuroblast (sensu arthopoda). The progeny of ganglion mother cells develop into neurons, glia and (occasionally) epithelial cells." "FBbt:00005149" "The process whose specific outcome is the progression of the myoblast over time, from its formation to the mature structure. A myoblast is a mononucleate cell type that, by fusion with other myoblasts, gives rise to the myotubes that eventually develop into skeletal muscle fibers." "Any process that stops, prevents or reduces the frequency, rate or extent of extracellular matrix organization." "Diploid cell produced by the fusion of sperm cell nucleus and egg cell." "BTO:0000854 EHDAA2:0004546 FMA:72395" - "Endocrine glands are glands of the endocrine system that secrete their products directly into the circulatory system rather than through a duct.[WP, modified]." "EHDAA2:0003098 FMA:9602 NCIT:C12704 UMLS:C0014133 GAID:335 Wikipedia:Endocrine_gland MESH:D004702 CALOHA:TS-1300 BTO:0001488 AEO:0000098 SCTID:40818001 MA:0002563 EMAPA:35999" + "Endocrine glands are glands of the endocrine system that secrete their products directly into the circulatory system rather than through a duct.[WP, modified]." "EHDAA2:0003098 FMA:9602 NCIT:C12704 UMLS:C0014133 GAID:335 MESH:D004702 Wikipedia:Endocrine_gland CALOHA:TS-1300 BTO:0001488 AEO:0000098 SCTID:40818001 MA:0002563 EMAPA:35999" "FMA:83450" "A leukocyte immunoglobulin-like receptor subfamily member that is a translation product of the human LILRA4 gene or a 1:1 ortholog thereof. This gene is a member of a lineage-specific gene expansion in primates." "IUPHARobj:2896" "A thymic epithelial cell located within the subcapsular region of the thymus." @@ -5670,7 +5696,7 @@ "The small terminal dilation of the alveolar ducts around which the alveoli form pocket-like clusters." "FMA:7317 UMLS:C0225691 NCIT:C32057 EMAPA:35119 BTO:0000061 Wikipedia:Alveolar_sac SCTID:361964007 MA:0000418" "An endothelial cell that lines a surface of a cardiac valve leaflet. Along with valve interstitial cells, a valve endothelial cell maintains tissue homeostasis for the function of cardiac valves through secreting biochemical signals, matrix proteins and matrix remodeling enzymes." "A mitotic cell cycle process comprising the steps by which the nucleus of a eukaryotic cell divides; the process involves condensation of chromosomal DNA into a highly compacted form. Canonically, mitosis produces two daughter nuclei whose chromosome complement is identical to that of the mother cell." - "An endothelial cell comprises the outermost layer or lining of anatomical structures and can be squamous or cuboidal. In mammals, endothelial cell has vimentin filaments and is derived from the mesoderm." "FMA:66772 CALOHA:TS-0278 BTO:0001176" + "An endothelial cell comprises the outermost layer or lining of anatomical structures and can be squamous or cuboidal. In mammals, endothelial cell has vimentin filaments and is derived from the mesoderm." "ZFA:0009065 FMA:66772 CALOHA:TS-0278 BTO:0001176" "The process whose specific outcome is the progression of an epithelial cell over time, from its formation to the mature structure. An epithelial cell is a cell usually found in a two-dimensional sheet with a free surface." "A subdivision of the autopod that has as part a series of phalanges together with associated vasculature, musculature, integument and nerves. It is continuous with the metapodial subdivision of the autopod, but does not include the metapodials. In species such as humans, fully formed digits are distinct, whereas in other species the digits may be connected by interdigital webbing, or may be completely unseparated (for example, in cetaceans)." "UMLS:C0582802 XAO:0003032 AAO:0011126 MA:0000690 MIAA:0000285 NCIT:C40186 SCTID:361367007 VHOG:0000944 MAT:0000285 EFO:0000881 EMAPA:32725 Wikipedia:Digit_(anatomy) galen:Digit" "A lymphatic vessel that is part of an endometrium." @@ -5688,7 +5714,6 @@ "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a bile acid stimulus." "Any process that stops, prevents, or reduces the frequency, rate, or extent of antimicrobial peptide secretion." "A mesenchyme that is part of a pharyngeal arch 5." - "KUPO:0001124" "The chemical reactions and pathways resulting in the formation of keratan sulfate, a glycosaminoglycan with repeat units consisting of beta-1,4-linked D-galactopyranosyl-beta-(1,4)-N-acetyl-D-glucosamine 6-sulfate and with variable amounts of fucose, sialic acid and mannose units; keratan sulfate chains are covalently linked by a glycosidic attachment through the trisaccharide galactosyl-galactosyl-xylose to peptidyl-threonine or serine residues." "RESID:AA0247" "A CD48 molecule that has been processed by proteolytic cleavage." "Any process that stops, prevents, or reduces the frequency, rate, or extent of peripheral tolerance induction." @@ -5702,7 +5727,6 @@ "In human, ductal plate is a double-layered cylindrical structure of bile duct epithelium that surrounds the portal ramifications by the eighth gestational week. After approximately the 12th gestational week, remodelling of ductal plate begins, and maturity is attained by the end of gestation or early postnatal period." "An embryo at the neurula stage." "NCIT:C34229 BILA:0000061 UMLS:C1518306 BTO:0001766" "A lin-negative, MHC-II-negative, CD11c-positive, FLT3-positive cell with intermediate expression of SIRP-alpha." - "KUPO:0001128" "GC_ID:1" "A myotube that is part of some somatic muscle. Examples include arthropod somatic muscle cells." "An epithelium that is part of a breast." "BTO:0001428" @@ -5716,7 +5740,7 @@ "Enables the facilitated diffusion of a bicarbonate (by an energy-independent process) involving passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism." "Stromal matrix surrounding blood vessels within the choroid plexus." "EMAPA:36609 MA:0000825" "Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc." "Reactome:R-HSA-2029475 Reactome:R-HSA-8938314 Reactome:R-HSA-5694583 Reactome:R-HSA-1236938 EC:3.-.-.- Reactome:R-HSA-6786190 Reactome:R-HSA-8952137 Reactome:R-HSA-5695964 Reactome:R-HSA-6788295" - "A zone of skin that is part of a back [Automatically generated definition]." "MA:0000498 FMA:22985 SCTID:181492002 FMA:10462 EMAPA:36392" + "A zone of skin that is part of a back [Automatically generated definition]." "MA:0000498 SCTID:181492002 FMA:22985 FMA:10462 EMAPA:36392" "A B220-low CD38-positive IgG-negative memory B cell is a CD38-positive IgG-negative class switched memory B cell that lacks IgG on the cell surface with the phenotype B220-low, CD38-positive, and IgG-positive." "A fibroblast that is part of lung." "CALOHA:TS-0575 BTO:0000764" "The increase in size or mass of an entire organism, a part of an organism or a cell, where the increase in size or mass has the specific outcome of the progression of the organism over time from one condition to another." @@ -5818,7 +5842,7 @@ "The part of the circulatory system that lies deep beneath the subcutaneous tissue layers away from the surface of the skin." "An intestinal crypt that is located in the colon. The colonic crypts of Lieberkühn are straight and unbranched and lined largely with goblet cells." "SCTID:19447003" "Vagal neural crest is adjacent to the first seven somites gives rise to both ganglionic and ectomesenchymal derivatives[ZFA]." "EHDAA2:0002156 VHOG:0001208 XAO:0004191 ZFA:0000818 EHDAA:669 TAO:0000818" - "A large vein that connects the femoral vein to the common iliac vein. Their origin is at the inferior margin of the inguinal ligaments and they terminate when they join the internal iliac veins (to form the common iliac veins). Both external iliac veins are accompanied along their course by external iliac arteries. [WP,modified]." "NCIT:C32560 EHDAA2:0000464 Wikipedia:External_iliac_vein FMA:18883 galen:ExternalIliacVein UMLS:C0226761 SCTID:181400000 MA:0002144 EMAPA:37144" + "A large vein that connects the femoral vein to the common iliac vein. Their origin is at the inferior margin of the inguinal ligaments and they terminate when they join the internal iliac veins (to form the common iliac veins). Both external iliac veins are accompanied along their course by external iliac arteries. [WP,modified]." "EHDAA2:0000464 Wikipedia:External_iliac_vein FMA:18883 galen:ExternalIliacVein UMLS:C0226761 SCTID:181400000 MA:0002144 EMAPA:37144 NCIT:C32560" "A cell whose nucleus has two haploid genomes." "FMA:72300" "Any process that stops, prevents or decreases the rate of addition of phosphate groups to a molecule." "Any process that modulates the frequency, rate, or extent of an acute inflammatory response." @@ -5864,7 +5888,7 @@ "A thymic medullary epithelial cell considered to be a post-AIRE cell. This group of AIRE-mTECs is heterogeneous and also includes mTECs within Hassall's Corpuscles." "Any process that activates or increases the frequency, rate or extent of cardiac muscle cell contraction." "The vesicular release of acetylcholine from a presynapse, across a chemical synapse, the subsequent activation of dopamine receptors at the postsynapse of a target cell (neuron, muscle, or secretory cell) and the effects of this activation on the postsynaptic membrane potential and ionic composition of the postsynaptic cytosol. This process encompasses both spontaneous and evoked release of neurotransmitter and all parts of synaptic vesicle exocytosis. Evoked transmission starts with the arrival of an action potential at the presynapse." - "The caudalmost subdivision of a digestive tract." "FMA:45618 XAO:0000104 MA:0001527 VHOG:0000459 BILA:0000087 TGMA:0001020 EHDAA:975 BTO:0000510 UMLS:C0231053 AAO:0011052 Wikipedia:Hindgut SCTID:362856002 NCIT:C34188 EMAPA:16715 EHDAA2:0000779" + "The caudalmost subdivision of a digestive tract." "FMA:45618 XAO:0000104 MA:0001527 VHOG:0000459 BILA:0000087 TGMA:0001020 EHDAA:975 BTO:0000510 UMLS:C0231053 AAO:0011052 FBbt:00005384 Wikipedia:Hindgut SCTID:362856002 NCIT:C34188 EMAPA:16715 EHDAA2:0000779" "A bone element that is part of a jaw region." "EMAPA:35453 SCTID:369003004 MA:0003130" "Any process that activates or increases the frequency, rate or extent of multiplication or reproduction of fibroblast cells." "Any process that activates or increases the frequency, rate or extent of pro-T cell differentiation." @@ -5906,21 +5930,23 @@ "A gland that is part of a foregut-midgut junction." "EMAPA:17065 EHDAA2:0000574" "The layer of undifferentiated, proliferating cells that line the neural tube lumen that is the immediate transformation of the germinal neuroepithelium." "EMAPA_RETIRED:16783 MA:0003193 EMAPA:35362 EMAPA:17152" "Any process that modulates the frequency, rate, or extent of smooth muscle cell apoptotic process." - "Mural cells are pericytes and the vascular smooth muscle cells (vSMCs) of the microcirculation." + "Mural cells are pericytes and the vascular smooth muscle cells (vSMCs) of the microcirculation." "ZFA:0005944" "The developmental process pertaining to the initial formation of a metanephric nephron tubule from unspecified parts. A metanephric nephron tubule is an epithelial tube that is part of a nephron in the metanephros." "A primitive erythrocyte that has undergone enucleation. This cell type is 3-6 fold bigger than the fetal derived erythrocytes that they co-circulate with during fetal development. Expresses epsilon-gamma hemoglobin chains." "The orderly movement of a lateral motor column neuron from one site to another. A lateral motor column neuron is a motor neuron that is generated only on limb levels and send axons into the limb mesenchyme." "The process in which the anatomical structures of the liver are generated and organized." "A neural crest that has_potential_to_developmentally_contribute_to a spinal cord." "VHOG:0001006 EMAPA:16881 EHDAA:696 EMAPA:16163" - "A nerve that transmits from sensory receptors on the surface of the body to the central nervous system." "Wikipedia:Sensory_nerve EHDAA2:0003200 FMA:5868 AEO:0000201" - "A cell located in the synovial joint." "CALOHA:TS-0995" + "Any process that activates or increases the frequency, rate or extent of cellular amino acid biosynthetic process." + "A nerve that transmits from sensory receptors on the surface of the body to the central nervous system." "Wikipedia:Sensory_nerve EHDAA2:0003200 FMA:5868 AEO:0000201 FBbt:00005136" + "A cell located in the synovial joint." "ZFA:0009131 CALOHA:TS-0995" "A fused bone consisting of the ilium, ischium and pubis. Together with the sacrum and coccyx, it comprises the pelvis. [WP,modified]." "GAID:205 SCTID:361776002 Wikipedia:Hip_bone FMA:16585" + "Any glial cell that is part of some posterior lateral line nerve." "The support cell that makes the thecogen dendritic cap - a cuticle-like matrix around the tip of the eo-dendrite and which encloses the soma of the eo-neuron." "FBbt:00005173" "A B cell that is located in the anorectum." "A proximal epiphysis that is part of a tibia." "Wikipedia:Upper_extremity_of_tibia FMA:33113 UMLS:C0932431 NCIT:C32722 SCTID:302526005" "Mature CD11c-low plasmacytoid dendritic cell is a CD11c-low plasmacytoid dendritic cell that is CD83-high and is CD80-positive, CD86-positive, and MHCII-positive." "The chemical reactions and pathways resulting in the breakdown of aldosterone, a corticosteroid hormone that is produced by the zona glomerulosa of the adrenal cortex and regulates salt (sodium and potassium) and water balance." - "A Leydig cell is a testosterone-secreting cell in the interstitial area, between the seminiferous tubules, in the testis." "EMAPA:29655 CALOHA:TS-1150 BTO:0000755 FMA:72297 MESH:D007985" + "A Leydig cell is a testosterone-secreting cell in the interstitial area, between the seminiferous tubules, in the testis." "ZFA:0009108 EMAPA:29655 CALOHA:TS-1150 BTO:0000755 FMA:72297 MESH:D007985" "Any process that activates or increases the frequency, rate or extent of somatic stem cell division." "Any process that activates or increases the frequency, rate or extent of renin secretion into blood stream." "A nucleus of brain that is part of a brainstem." "EMAPA:32790 MA:0000821" @@ -5939,7 +5965,6 @@ "A bistratified amacrine cell with a small dendritic field that has post-synaptic terminals in S1 and the border of S1-S2, and termination of a second arbor within the border of S2-S3 and S3." "Any process that stops, prevents, or reduces the frequency, rate or extent of blood coagulation." "Any process that modulates the frequency, rate or extent of pancreatic stellate cell proliferation." - "The series of molecular signals initiated by corticosteroid binding to its receptor, and ending with the regulation of a downstream cellular process, e.g. transcription." "The metanephric connecting tubule is a tubular segment of the metanephric nephron; it connects the distal convoluted tubule to the collecting duct in the metanephros[GO]." "Any process that modulates the frequency, rate or extent of any cellular process that depends upon or alters the microtubule cytoskeleton." "A quality of a physical entity that exists through action of continuants at the physical level of organisation in relation to other entities." "Wikipedia:Physical_property" @@ -5963,9 +5988,9 @@ "The renal vesicle is the primordial structure of the metanephric nephron epithelium, and is formed by the condensation of mesenchymal cells[GO]." "EMAPA:27678 EHDAA2:0001245 EHDAA:9346" "An amniotic stem cell is a mesenchymalstem cell extracted from amniotic fluid. Amniotic stem cells are able to differentiate into various tissue type such as skin, cartilage, cardiac tissue, nerves, muscle, and bone" "A human dendritic cell that expresses the AXL and SIGLEC6 genes." - "A ciliated epithelial cell with a single cilium." + "A ciliated epithelial cell with a single cilium." "ZFA:0005243" "An acidophilic chromophil cell that of the anterior pituitary gland." "FMA:83093" - "A structure consisting of multiple cell components but which is not itself a cell and does not have (complete) cells as a part." "AAO:0011000 CARO:0001000 FMA:83115" + "A structure consisting of multiple cell components but which is not itself a cell and does not have (complete) cells as a part." "AAO:0011000 CARO:0001000 FMA:83115 FBbt:00007060" "An interleukin-5 receptor subunit alpha that is encoded in the genome of human." "UniProtKB:Q01344" "Catalytic activity that acts to modify DNA." "Any process that activates or increases the frequency, rate or extent of protein complex disassembly, the disaggregation of a protein complex into its constituent components." @@ -5989,8 +6014,9 @@ "A periosteum that is part of a epiphysis [Automatically generated definition]." "FMA:32687" "Any process that activates or increases the frequency, rate or extent of a neurophysiological process." "The formation of bone or of a bony substance, or the conversion of fibrous tissue or of cartilage into bone, involved in the progression of the skeleton from its formation to its mature state." - "Either of the two small almond-shaped masses of lymph tissue found on either side of the oropharynx." "FMA:9609 UMLS:C0836921 MA:0000143 GAID:341 UMLS:C1519548 neuronames:671 UMLS:C1519547 EFO:0001401 EMAPA:35871 VHOG:0001139 NCIT:C12802 CALOHA:TS-1053 EV:0100052 MESH:D014066 Wikipedia:Tonsil BTO:0001387" + "Either of the two small almond-shaped masses of lymph tissue found on either side of the oropharynx." "FMA:9609 UMLS:C0836921 UMLS:C1519548 MA:0000143 GAID:341 neuronames:671 UMLS:C1519547 EFO:0001401 EMAPA:35871 VHOG:0001139 NCIT:C12802 CALOHA:TS-1053 EV:0100052 MESH:D014066 Wikipedia:Tonsil BTO:0001387" "Any process that activates or increases the frequency, rate or extent of establishment of protein localization." + "The series of molecular signals initiated by glucocorticoid binding to its nuclear receptor inside the cell, and ending with the regulation of a downstream cellular process, e.g. transcription." "Any process that stops, prevents or reduces the frequency, rate or extent of neutrophil migration." "OBSOLETE A L2/3 pvalb-like sst GABAergic cortical interneuron (Mus musculus) that has basket morphology." "The process in which a carbohydrate is transported across a membrane." @@ -6011,7 +6037,7 @@ "Any process that modulates the frequency, rate or extent of sensory perception, the series of events required for an organism to receive a sensory stimulus, convert it to a molecular signal, and recognize and characterize the signal." "The increase in size or mass of an entire multicellular organism, as opposed to cell growth." "A skeletal muscle fiber found in an embryo. In mammalian embryos, skeletal muscle expresses myosin heavy chain-embryonic (MyHC-emb, encoded by the MYH3 gene), which regulates skeletal muscle development." - "A PP cell located in the islets of the pancreas." "MESH:D050418 BTO:0000805 FMA:70588" + "A PP cell located in the islets of the pancreas." "ZFA:0005742 MESH:D050418 BTO:0000805 FMA:70588" "Any cell proliferation that is involved in endocardial cushion morphogenesis." "Any process that stops, prevents, or reduces the rate of B-1 B cell differentiation." "Binding to a nuclear estrogen receptor." @@ -6050,7 +6076,7 @@ "A Thy-1 membrane glycoprotein that is encoded in the genome of human." "UniProtKB:P04216" "Creation of the central hole of a tube in an anatomical structure through which gases and/or liquids flow." "Obsolete. Use PO:0004010 from Plant Ontology instead. A cell synthesizing protoplasm and producing new cells by division and with only a primary cell wall." - "An endocrine cell that is located in the epithelium of the gastrointestinal tract or in the pancreas." "MESH:D019858 FMA:62930 BTO:0003865" + "An endocrine cell that is located in the epithelium of the gastrointestinal tract or in the pancreas." "ZFA:0009097 MESH:D019858 FMA:62930 BTO:0003865" "A limb segment that is part of a forelimb." "FMA:24876" "A portion of connective tissue that is part of a nasopharynx [Automatically generated definition]." "EMAPA:37682 MA:0001864" "EMAPA:32925 SCTID:371401008 FMA:63120 MA:0000724 VHOG:0001430" @@ -6067,7 +6093,7 @@ "Any process that stops, prevents, or reduces the frequency, rate or extent of cardiac muscle fiber development." "Any process that modulates the frequency, rate or extent of odontoblast differentiation." "An endothelium that is part of a umbilical artery." "BTO:0000857" - "Neuron with one neurite that extends from the cell body." "FMA:67278" + "Neuron with one neurite that extends from the cell body." "ZFA:0009058 FMA:67278" "A fibroblast that is part of the subepithelial connective tissue of prostatic gland." "FMA:261275" "The part of the forelimb extending from the shoulder to the autopod[cjm]." "Wikipedia:Arm EFO:0001410 MESH:D001132 EMAPA:17413 CALOHA:TS-2204 MA:0000033 EHDAA:8275 BTO:0001435 VHOG:0000339 GAID:52 EHDAA:6210 EHDAA2:0000140 EHDAA:4164" "Anterior-most region of dorsal hindbrain within rhombomere 1, adjacent the midbrain-hindbrain boundary." "EHDAA2:0000229 ZFA:0001442 DHBA:10665 TAO:0001442" @@ -6079,14 +6105,13 @@ "The multiplication or reproduction of fibroblasts, resulting in the expansion of a fibroblast population that contributes to the shaping of the heart." "Signaling at long or short range between cells that results in the commitment of a cell to a certain fate." "Any collection of muscles that is part of a limb [Automatically generated definition]." "EMAPA:32700 FMA:50188 EHDAA2:0000995" - "Vital aqueous secretion of the liver that is formed by hepatocytes and modified down stream by absorptive and secretory properties of the bile duct epithelium." "CALOHA:TS-1172 FMA:62971 BTO:0000121 ZFA:0005857 MA:0002513 MESH:D001646 UMLS:C0005388 NCIT:C13192 GAID:1157 ENVO:02000023 Wikipedia:Bile galen:Bile" + "Vital aqueous secretion of the liver that is formed by hepatocytes and modified down stream by absorptive and secretory properties of the bile duct epithelium." "CALOHA:TS-1172 ZFA:0005857 FMA:62971 BTO:0000121 MA:0002513 MESH:D001646 UMLS:C0005388 NCIT:C13192 GAID:1157 ENVO:02000023 Wikipedia:Bile galen:Bile" "Any process that modulates the frequency, rate or extent of excitatory synapse pruning." "Any muscle organ that is part of a finger [Automatically generated definition]." "MA:0000624 EMAPA:37331" "A bone that is part of a forelimb digit. Typically phalanges but may include sesamoids." "MA:0000622 EMAPA:37305" "Mesenchyme that is part of a developing lower leg [Automatically generated definition]." "VHOG:0000752 EMAPA:17498 EHDAA2:0001032" "The chemical reactions and pathways resulting in the breakdown of bile acids, any of a group of steroid carboxylic acids occurring in bile." "The multiplication or reproduction of vascular smooth muscle cells, resulting in the expansion of a cell population. A vascular smooth muscle cell is a non-striated, elongated, spindle-shaped cell found lining the blood vessels." - "The series of molecular signals in which a cell uses calcium ions imported from an extracellular source to convert a signal into a response." "Any process that activates or increases the frequency, rate or extent of motor neuron migration." "An elasticity which is relatively high." "An adipocyte of perirenal fat tissue." @@ -6111,7 +6136,7 @@ "An oncocyte located in the thyroid." "FMA:87169" "Any of the three veins including the common, external and internal iliac veins." "UMLS:C0020888 NCIT:C12734 EMAPA:37151 SCTID:281481002 EHDAA2:0000811 MESH:D007084 MA:0002142" "A synapse that uses GABA as a neurotransmitter. These synapses are typically inhibitory." - "A long-lived, antigen-experienced T cell that has acquired a memory phenotype including distinct surface markers and the ability to differentiate into an effector T cell upon antigen reexposure." "BTO:0003435" + "A long-lived, antigen-experienced T cell that has acquired a memory phenotype including distinct surface markers and the ability to differentiate into an effector T cell upon antigen reexposure." "ZFA:0009342 BTO:0003435" "The lateral border (or axillary border, or margin) is the thickest of the three borders of the scapula. It begins above at the lower margin of the glenoid cavity, and inclines obliquely downward and backward to the inferior angle. Immediately below the glenoid cavity is a rough impression, the infraglenoid tuberosity, about 2.5 cm. in length, which gives origin to the long head of the Triceps brachii; in front of this is a longitudinal groove, which extends as far as the lower third of this border, and affords origin to part of the Subscapularis. The inferior third is thin and sharp, and serves for the attachment of a few fibers of the Teres major behind, and of the Subscapularis in front." "FMA:23239 EMAPA:25126 Wikipedia:Lateral_border_of_the_scapula" "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a histamine stimulus. Histamine, the biogenic amine 2-(1H-imidazol-4-yl)ethanamine, is involved in local immune responses as well as regulating physiological function in the gut and acting as a neurotransmitter." "A proximal epiphysis that is part of a metacarpal bone [Automatically generated definition]." "SCTID:272695001 FMA:33795" @@ -6119,7 +6144,7 @@ "A blood island that is part of a mesoderm." "EHDAA:170 EHDAA2:0003241" "A small lytic vacuole that has cell cycle-independent morphology found in most animal cells and that contains a variety of hydrolases, most of which have their maximal activities in the pH range 5-6. The contained enzymes display latency if properly isolated. About 40 different lysosomal hydrolases are known and lysosomes have a great variety of morphologies and functions." "NIF_Subcellular:sao585356902 Wikipedia:Lysosome" "OBSOLETE. A cell that is part of the choroid plexus." - "The main structural component of the liver. They are specialized epithelial cells that are organized into interconnected plates called lobules. Majority of cell population of liver, polygonal in shape, arranged in plates or trabeculae between sinusoids; may have single nucleus or binucleated." "BTO:0000575 CALOHA:TS-0454 FMA:14515" + "The main structural component of the liver. They are specialized epithelial cells that are organized into interconnected plates called lobules. Majority of cell population of liver, polygonal in shape, arranged in plates or trabeculae between sinusoids; may have single nucleus or binucleated." "ZFA:0009111 BTO:0000575 CALOHA:TS-0454 FMA:14515" "The process in which a branch forms along the side of an epithelium." "Any process that increases the frequency, rate or extent of the chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." "The cell cycle process in which sister chromatids are organized and then physically separated and apportioned to two or more sets." @@ -6134,7 +6159,7 @@ "A SLAM family member 1 that is encoded in the genome of human." "UniProtKB:Q13291" "A mucosa that is part of a trigone of urinary bladder [Automatically generated definition]." "FMA:17847" "Any process that activates or increases the frequency, rate or extent of chondrocyte development." - "Pioneer neurons establish a pathway in the developing central nervous system and then undergo programmed cell death once the adult axons, which follow them, have made connections with the target site. Thus, they are a transient cell type involved in axon guidance." "FBbt:00005128" + "Pioneer neurons establish a pathway in the developing central nervous system and then undergo programmed cell death once the adult axons, which follow them, have made connections with the target site. Thus, they are a transient cell type involved in axon guidance." "ZFA:0009066 FBbt:00005128" "A ligament that is part of a knee joint." "SCTID:182440009 FMA:44580" "A thin layer of connective tissue that lines the surface of the bony tissue that forms the medullary cavity of long bones." "Wikipedia:Endosteum FMA:32692 SCTID:57487002 NCIT:C13183 UMLS:C0222658" "Transit-amplifying cells (TACs) are an undifferentiated population in transition between stem cells and differentiated cells." @@ -6147,7 +6172,7 @@ "An alpha-beta intraepithelial T cell with the phenotype CD8-alpha-alpha-positive located in the columnar epithelium of the gastrointestinal tract. These cells have a memory phenotype of CD2-negative and CD5-negative." "Any process that activates or increases the frequency, rate or extent of macrophage apoptotic process." "Transfer of an organized electrical impulse across the heart to coordinate the contraction of cardiac muscles. The process begins with generation of an action potential (in the sinoatrial node (SA) in humans) and ends with a change in the rate, frequency, or extent of the contraction of the heart muscles." - "The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the neural tube derivatives: the brain and spinal cord. In invertebrates it includes central ganglia plus nerve cord." "TAO:0000012 BIRNLEX:1099 EMAPA:16754 BAMS:CNS ZFA:0000012 Wikipedia:Central_nervous_system NCIT:C12438 EHDAA:828 GAID:570 XAO:0000215 BILA:0000080 EV:0100163 FMA:55675 MA:0000167 MESH:D002490 EFO:0000908 EHDAA2:0000225 UMLS:C0927232 SCTID:278199004 AAO:0000090 neuronames:854 EMAPA:16470 CALOHA:TS-0150 MAT:0000457 BTO:0000227 VHOG:0000293" + "The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the neural tube derivatives: the brain and spinal cord. In invertebrates it includes central ganglia plus nerve cord." "TAO:0000012 BIRNLEX:1099 EMAPA:16754 BAMS:CNS ZFA:0000012 Wikipedia:Central_nervous_system NCIT:C12438 EHDAA:828 GAID:570 XAO:0000215 BILA:0000080 EV:0100163 FMA:55675 MA:0000167 MESH:D002490 EFO:0000908 EHDAA2:0000225 FBbt:00005094 UMLS:C0927232 SCTID:278199004 AAO:0000090 neuronames:854 EMAPA:16470 CALOHA:TS-0150 MAT:0000457 BTO:0000227 VHOG:0000293" "An immunoglobulin gamma Fc receptor II/III/IV that is a translation product of the human FCER1A gene or a 1:1 ortholog thereof." "IUPHARobj:2933" "The chemical reactions and pathways resulting in the breakdown of any conjugated, water-soluble protein in which the covalently attached nonprotein group consists of a lipid or lipids." "A portion of skeletal muscle tissue that is part of an anal region [Automatically generated definition]." "EMAPA:37393 MA:0001530" @@ -6162,6 +6187,7 @@ "An OFF-bipolar neuron found in the retina and having connections with cone photoreceptors cells and neurons in the outer half of the inner plexiform layer. The dendritic tree is not well filled and the dendrites are more delicate than in type 1 cells. The axon terminal is bushier and exhibits a dense plexus of varicosities in the inner part of sublamina 1 (Ghosh et al., 2004). It can be differentiated from other retinal bipolar neurons by its expression of marker genes: Neto1, Lhx3 and Irx-6 (Shekhar, 2016)." "An G protein-coupled receptor signaling pathway which contributes to a circulatory system process carried out by the heart." "A paired dermal or endochondral bone that is part of the pectoral girdle. The clavicle may be in contact with the interclavicle or coracoid and forms an attachment site for pectoral musculature. [PHENOSCAPE:ad]." "SCTID:181910004 MESH:D002968 GAID:182 VHOG:0000849 FMA:13321 EMAPA:18721 AAO:0000761 MA:0001329 VSAO:0005031 galen:Clavicle MFMO:0000047 Wikipedia:Clavicle UMLS:C0008913 NCIT:C12695" + "A transcriptomically distinct intratelencephalic-projecting glutamatergic neuron with a soma found between cortical layer 2-4. This intratelencephalic-projecting glutamatergic neuron has thin-tufted apical dendrites and extends its axonal projection into L5 in the neocortex. This neuronal type has a hyperpolarised resting membrane potential. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', clusters L2/3 IT." "ILX:0770156" "Any process that stops, prevents or reduces the rate of addition of phosphate groups to amino acids within a protein." "Any process that modulates the frequency, rate or extent of sebum secreting cell proliferation." "A transient hepatic stem cell observed after liver injury with a high nuclear to cytoplasm ratio that can differentiate into mature hepatocytes and bile duct cells. Arises from more than one tissue." "FMA:86576 BTO:0004270" @@ -6191,7 +6217,6 @@ "An ON-bipolar neuron found in the retina and having connections with cone photoreceptors cells and neurons in the inner half of the inner plexiform layer. The axon terminal is narrowly stratified and are found just below a calretinin-expressing band in sublamina 4 of the inner plexiform layer." "Any process that modulates the frequency, rate or extent of the directed movement of proteins from the nucleus to the cytoplasm." "Subdivision of skeleton that corresponds to metapodium region, between acropodial skeleton and mesopdoial skeleton." "VSAO:0005025" - "The process, occurring above the cellular level, that is pertinent to the reproductive function of a multicellular organism. This includes the integrated processes at the level of tissues and organs." "A sympathetic nerve trunk that is part of a thorax [Automatically generated definition]." "NCIT:C52827 MA:0001165 EMAPA:37657 UMLS:C1710393 FMA:6262" "A protein that is a translation product of the human CD28 gene or a 1:1 ortholog thereof." "IUPHARobj:2863" @@ -6204,12 +6229,11 @@ "The process aimed at the progression of a neuroblast over time, from initial commitment of the cell to a specific state, to the mature neuroblast. It does not include processes where the neuroblast turns into a glial cell or a neuron." "Venule of villus of small intestine." "Catalytic activity that acts to modify a nucleic acid." - "KUPO:0001090" "A group 1 innate lymphoid cell that is non-cytotoxic." "Any process that stops, prevents, or reduces the frequency, rate or extent of metanephric comma-shaped body morphogenesis." "A threadlike extension of a nerve cell and consists of an axon and myelin sheath (if it is myelinated) in the nervous system. There are nerve fibers in the central nervous system and peripheral nervous system. A nerve fiber may be myelinated and/or unmyelinated. In the central nervous system (CNS), myelin by oligodendroglia cells is formed. Schwann cells form myelin in the peripheral nervous system (PNS). Schwann cells also make a thin covering in an axon without myelin (in the PNS). A peripheral nerve fiber contains an axon, myelin sheath, schwann cells and its endoneurium. There are no endoneurium and schwann cells in the central nervous system." "SCTID:88545005 FMA:5914 MESH:D009412 Wikipedia:Nervous_system_fiber BAMS:nfi" "A vasculature that is part of a cerebellum." "FMA:268519" - "Type of radial astrocyte in the cerebellar cortex that have their cell bodies in the Purkinje cell layer and processes that extend into the molecular layer, terminating with bulbous endfeet at the pial surface. Bergmann glia express high densities of glutamate transporters that limit diffusion of the neurotransmitter glutamate during its release from synaptic terminals. Besides their role in early development of the cerebellum, Bergmann glia are also required for the pruning or addition of synapses." "FMA:54559" + "Type of radial astrocyte in the cerebellar cortex that have their cell bodies in the Purkinje cell layer and processes that extend into the molecular layer, terminating with bulbous endfeet at the pial surface. Bergmann glia express high densities of glutamate transporters that limit diffusion of the neurotransmitter glutamate during its release from synaptic terminals. Besides their role in early development of the cerebellum, Bergmann glia are also required for the pruning or addition of synapses." "ZFA:0009282 FMA:54559" "The dense and irregular connective tissue capsule surrounding a parathyroid gland." "UMLS:C0927176 NCIT:C33265 EMAPA:35663 FMA:55566 MA:0002676" "Mesenchyme that is part of a developing vomeronasal organ [Automatically generated definition]." "EMAPA:18445 EHDAA2:0004103" "The region of the mantle layer of the neural tube that lies dorsal to the sulcus limitans and contains primarily sensory neurons and interneurons involved in communication of sensory impulses; the alar plate develops into the dorsal horn in the grey matter of the spinal cord." "VHOG:0000899 EMAPA:17149 EMAPA:17581" @@ -6253,7 +6277,6 @@ "GC_ID:1" "Any process that modulates the frequency, rate or extent of vesicle fusion." "A glutamate decarboxylase 1 that is encoded in the genome of human." "UniProtKB:Q99259" - "KUPO:0001089" "A vip GABAergic cortical interneuron with bipolar morphology, with a soma found in L2/3. L2/3 bipolar vip cells have extending axons across all layers (with preferences for layers II/III and Va) and a dendritic tree that is vertically more restricted than deeper layer vip cells and extend fewer dendrites into the layers outside their home layer (location of soma). L2/3 bipolar vip cells have great variability in firing patterns, though most are continuous adapting. L2/3 bipolar vip cells are more depolarized in their resting state, had less fast rectification, and had smaller after hyperpolarization than deeper vip cells." "The dermis, epidermis and hypodermis." "AAO:0000239 galen:Integument FMA:74657 ZFA:0000368 VSAO:0000029 EMAPA:37504 BTO:0000634 Wikipedia:Integument TAO:0000368" "Any process that stops, prevents or reduces the frequency, rate or extent of protein localization to membrane." @@ -6264,13 +6287,11 @@ "The process whose specific outcome is the progression of the ventral region of the spinal cord over time, from its formation to the mature structure. The neurons of the ventral region of the mature spinal cord participate in motor output." "Any muscle organ that is part of a pectoral girdle region." "FMA:37347" "A mesothelium that is part of a pericardium [Automatically generated definition]." "RETIRED_EHDAA2:0001436" - "A VIP peptides that has been processed by proteolytic cleavage." - "A modified epidermal cell located in the stratum basale. They are found mostly in areas where sensory perception is acute. Merkel cells are closely associated with an expanded terminal bulb of an afferent myelinated nerve fiber." "FMA:70548" + "A modified epidermal cell located in the stratum basale. They are found mostly in areas where sensory perception is acute. Merkel cells are closely associated with an expanded terminal bulb of an afferent myelinated nerve fiber." "ZFA:0009146 FMA:70548" "The process whose specific outcome is the progression of an endothelium over time, from its formation to the mature structure. Endothelium refers to the layer of cells lining blood vessels, lymphatics, the heart, and serous cavities, and is derived from bone marrow or mesoderm. Corneal endothelium is a special case, derived from neural crest cells." "The reproductive developmental process whose specific outcome is the progression of an oviduct over time, from its formation to the mature structure. An oviduct is a tube through which an ova passes from the ovary to the uterus, or from the ovary to the outside of the organism." "The process in which anatomical structures of the left lung are generated and organized." - "KUPO:0001086" "The biological process whose specific outcome is the progression of a face from an initial condition to its mature state. The face is the ventral division of the head." "The chemical reactions and pathways involving lipids, as carried out by individual cells." "The process in which the anatomical structures of the taste bud are generated and organized. The taste bud is a specialized area of the tongue that contains taste receptors." @@ -6280,7 +6301,6 @@ "Any process that stops, prevents or reduces the frequency, rate or extent of lateral motor column neuron migration." "The series of events involved in the perception of touch in which a mechanical stimulus is received and converted into a molecular signal." "The process in which an antigen-presenting cell expresses antigen (peptide or lipid) of exogenous origin on its cell surface in association with an MHC protein complex." - "KUPO:0001087" "Any process that stops, prevents or reduces the frequency, rate or extent of hepatocyte apoptotic process." "GC_ID:1" "An epithelium that is part of a pancreatic duct." "EFO:0002556 FMA:67681" @@ -6335,12 +6355,12 @@ "A portion of smooth muscle tissue that is part of a urinary bladder [Automatically generated definition]." "CALOHA:TS-1087 BTO:0001849 MA:0001697 EMAPA:37791" "Any process that modulates the rate, frequency, or extent of cilium movement, the directed, self-propelled movement of a cilium." "The process in which a B cell acquires the specialized features of a plasma cell. A plasma cell is a lymphocyte which develops from a B cell and produces high amounts of antibody." - "Hair cell is a mechanoreceptor cell that is sensitive to movement of the hair-like projections (stereocilia and kinocilia) which relay the information centrally in the nervous system." "BTO:0004744" + "Hair cell is a mechanoreceptor cell that is sensitive to movement of the hair-like projections (stereocilia and kinocilia) which relay the information centrally in the nervous system." "ZFA:0009366 BTO:0004744" "A nicotinic acetylcholine receptor protein that is a translation product of the human CHRNA7 gene or a 1:1 ortholog thereof." "IUPHARobj:468" "The process in which a relatively unspecialized cell acquires the specialized features of a multi-ciliated epithelial cell." "The initial developmental process that will lead to the formation of an eye." - "An hexagonal, flattened, mitochondria-rich endothelial cell that forms a monolayer on the posterior surface of the cornea (the corneal endothelium). Corneal endothelial cells are derived from the neural crest and are responsible for keeping the cornea transparent by maintaining the tissue in a semi-dry state through the action of their ionic pumps and tight junction barrier." "FMA:70614 CALOHA:TS-0172" - "The cavity within the body of all animals higher than the coelenterates and certain primitive worms, formed by the splitting of the embryonic mesoderm into two layers. In mammals it forms the peritoneal, pleural, and pericardial cavities." "RETIRED_EHDAA2:0003186 FMA:85006 UMLS:C0333343 SCTID:361348008 BTO:0001707 AEO:0000186 TAO:0001438 galen:BodyCavity ZFA:0001438 NCIT:C25444 EHDAA2:0000267" + "An hexagonal, flattened, mitochondria-rich endothelial cell that forms a monolayer on the posterior surface of the cornea (the corneal endothelium). Corneal endothelial cells are derived from the neural crest and are responsible for keeping the cornea transparent by maintaining the tissue in a semi-dry state through the action of their ionic pumps and tight junction barrier." "ZFA:0009079 FMA:70614 CALOHA:TS-0172" + "The cavity within the body of all animals higher than the coelenterates and certain primitive worms, formed by the splitting of the embryonic mesoderm into two layers. In mammals it forms the peritoneal, pleural, and pericardial cavities." "RETIRED_EHDAA2:0003186 FBbt:00005060 FMA:85006 UMLS:C0333343 SCTID:361348008 BTO:0001707 AEO:0000186 TAO:0001438 galen:BodyCavity ZFA:0001438 NCIT:C25444 EHDAA2:0000267" "A zone of skin that is part of a scalp." "FMA:24757" "The formation of ectoderm during gastrulation." "A lamina propria that is part of a urethra [Automatically generated definition]." "FMA:85276 MA:0001689 EMAPA:37785" @@ -6360,7 +6380,7 @@ "A developmental process, independent of morphogenetic (shape) change, that is required for the central nervous system to attain its fully functional state. The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the brain and spinal cord. In those invertebrates with a central nervous system it typically consists of a brain, cerebral ganglia and a nerve cord." "Any process that stops, prevents, or reduces the frequency, rate or extent of mechanoreceptor differentiation." "Any process that modulates the frequency, rate or extent of the migration of the endothelial cells of blood vessels." - "A progenitor cell committed to the erythroid lineage." "BTO:0004911" + "A progenitor cell committed to the erythroid lineage." "ZFA:0009015 BTO:0004911" "The process whose specific outcome is the progression of the midbrain-hindbrain boundary over time, from its formation to the mature structure. The midbrain-hindbrain domain of the embryonic brain is comprised of the mesencephalic vesicle and the first rhombencephalic vesicle at early somitogenesis stages." "Any process that activates or increases the frequency, rate or extent of natural killer T cell differentiation." @@ -6393,7 +6413,6 @@ "A hepatic artery that is part of a left lobe of liver." "EMAPA:37096 FMA:14779 MA:0003096" "A developmental process, independent of morphogenetic (shape) change, that is required for an enucleate erythrocyte to attain its fully functional state. An enucleate erythrocyte is an erythrocyte without a nucleus." "Any process that modulates the rate, frequency, or extent of branching morphogenesis, the process in which the anatomical structures of branches are generated and organized." - "KUPO:0001082" "A macrophage receptor MARCO that is encoded in the genome of mouse." "UniProtKB:Q60754" "A stratified squamous epithelial cell that is part of the anal canal." "A preadipocyte that is part of the breast." @@ -6408,8 +6427,7 @@ "FMA:54907 NCIT:C12243 SCTID:361936002 UMLS:C0225484" "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving amides." "Any process that stops, prevents or reduces the frequency, rate or extent of protein localization to microtubule." - "A gamma-delta T cell that has an immature phenotype." - "KUPO:0001083" + "A gamma-delta T cell that has an immature phenotype." "ZFA:0009337" "A giioblast cell that develops from a migratory neural crest cell. The SCP is embedded among neurons (axons) with minimal extracellular spaces separating them from nerve cell membranes and has no basal lamina. In rodents SCPs are the only cells in the Schwann cell linage that expresses Cdh19." "Any process that activates or increases the frequency, rate or extent of trophectodermal cell proliferation." "Any process that modulates the frequency, rate or extent of the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." @@ -6473,14 +6491,15 @@ "A shape quality inhering in a bearer by virtue of the bearer's being marked by narrow lines or grooves, usually parallel, that are oriented transversely relative to the long axis of the bearer." "The process in which a relatively unspecialized cell acquires the specialized structural and/or functional features of a cell of the atrioventricular bundle. These cells are specialized cardiomyocytes that transmit signals from the AV node to the cardiac Purkinje fibers." "Any process that activates or increases the frequency, rate, or extent of an immune system process." - "A non-terminally differentiated cell that originates from the neural crest and differentiates into a leucophore." + "Any kidney blood vessel cell that is part of some kidney arterial blood vessel." "KUPO:0001029" + "A non-terminally differentiated cell that originates from the neural crest and differentiates into a leucophore." "ZFA:0005329" "The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules that contributes to the shaping of the heart." "The process aimed at the progression of a Schwann cell over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell. Schwann cells are found in the peripheral nervous system, where they insulate neurons and axons, and regulate the environment in which neurons function." "The process that mediates interactions between an atrial cardiomyocyte and its surroundings that contributes to the process of the atrial cardiomyocyte communicating with an AV node cell in cardiac conduction. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." "A filamentous structure formed of a two-stranded helical polymer of the protein actin and associated proteins. Actin filaments are a major component of the contractile apparatus of skeletal muscle and the microfilaments of the cytoskeleton of eukaryotic cells. The filaments, comprising polymerized globular actin molecules, appear as flexible structures with a diameter of 5-9 nm. They are organized into a variety of linear bundles, two-dimensional networks, and three dimensional gels. In the cytoskeleton they are most highly concentrated in the cortex of the cell just beneath the plasma membrane." "NIF_Subcellular:sao1588493326 Wikipedia:Actin FMA:63850" "The part of the aorta that extends from the origin at the heart to the diaphragm, and from which arises numerous branches that supply oxygenated blood to the chest cage and the organs within the chest." "SCTID:302510009 MESH:D001013 NCIT:C33766 BTO:0000157 Wikipedia:Thoracic_aorta GAID:471 galen:ThoracicAorta FMA:3786 UMLS:C1522460 EMAPA:18603 EFO:0002525 MA:0002569" "A CD4-positive, CXCR5-positive, CCR7-negative alpha-beta T cell located in follicles of secondary lymph nodes that is BCL6-high, ICOS-high and PD1-high, and stimulates follicular B cells to undergo class-switching and antibody production." - "A secretory cell that is grouped together with other cells of the same type to form grape shaped clusters known as acini (singular acinus)." "MESH:D061354 FMA:83625" + "A secretory cell that is grouped together with other cells of the same type to form grape shaped clusters known as acini (singular acinus)." "ZFA:0009277 MESH:D061354 FMA:83625" "The narrow subcapsular outer zone of the adrenal cortex where aldosterone is produced." "SCTID:21476003 Wikipedia:Zona_glomerulosa MA:0001891 FMA:69225 CALOHA:TS-0017 GAID:449 BTO:0000048 MESH:D015384 EMAPA:35115" "GC_ID:1" "A thymic macrophage found in the thymic cortex." @@ -6488,7 +6507,7 @@ "Layer of simple cuboidal cells covering surface of ovary[WP]." "NCIT:C61518 EMAPA:17963 MA:0001711 FMA:18629 EHDAA:8126 SCTID:258308007 UMLS:C0227875 BTO:0004483 Wikipedia:Germinal_epithelium_(female) VHOG:0000630 RETIRED_EHDAA2:0001361" "SCTID:255782009 FMA:72173" "Mesenchyme that is part of a developing shoulder [Automatically generated definition]." "EMAPA:17423 VHOG:0001035 EHDAA2:0001837 EHDAA:4184 EHDAA:6232" - "Organ system subdivision that consists of the organs and ducts that are involved in the production and transportation of bile. In most species this is the gallbladder and the bile ducts (biliary tree)." "Wikipedia:Biliary_system SCTID:361354009 NCIT:C12678 GAID:279 FMA:79646 MESH:D001659 MA:0001273" + "Organ system subdivision that consists of the organs and ducts that are involved in the production and transportation of bile. In most species this is the gallbladder and the bile ducts (biliary tree)." "Wikipedia:Biliary_system SCTID:361354009 GAID:279 NCIT:C12678 FMA:79646 MESH:D001659 MA:0001273" "A mesentery that is part of a uterus [Automatically generated definition]." "FMA:19816 EMAPA:35562 Wikipedia:Mesometrium MA:0002931 SCTID:250172001" "A mammary gland duct that is part of a male organism. This structure typically regresses." "A hillock cell that is part of the urethra." @@ -6511,7 +6530,7 @@ "TAO:0001334 AAO:0000472 ZFA:0001334 EFO:0003462" "The directed movement of L-histidine into the vacuole across the vacuolar membrane." "The convex portion of the aorta between the ascending and descending parts of the aorta; branches from it include the brachiocephalic trunk, the left common carotid artery, and the left subclavian artery; the brachiocephalic trunk further splits to form the right subclavian artery and the right common carotid artery." "GAID:471 EHDAA2:0000132 MA:0000475 Wikipedia:Arch_of_aorta EFO:0002526 SCTID:181300001 FMA:3768 EMAPA:17613 BTO:0000157 VHOG:0001196" - "The tubular structure that conducts gall bladder contents from the gall bladder to the common bile duct." "EMAPA:16841 SCTID:245398005 UMLS:C0010672 MA:0000355 EHDAA2:0000333 TAO:0005166 NCIT:C32421 EHDAA:3045 Wikipedia:Cystic_duct MESH:D003549 GAID:290 VHOG:0000213 galen:CysticDuct ZFA:0005166 FMA:14539" + "The tubular structure that conducts gall bladder contents from the gall bladder to the common bile duct." "EMAPA:16841 SCTID:245398005 MA:0000355 EHDAA2:0000333 UMLS:C0010672 TAO:0005166 NCIT:C32421 EHDAA:3045 Wikipedia:Cystic_duct MESH:D003549 GAID:290 VHOG:0000213 galen:CysticDuct ZFA:0005166 FMA:14539" "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving RNA." "A collection of hairs that is part of a face." "FMA:70741" "An epithelial tube open at both ends that allows fluid flow." "RETIRED_EHDAA2:0003116 AEO_RETIRED:0000116" @@ -6529,18 +6548,20 @@ "Any process that activates or increases the frequency, rate or extent of programmed cell death that occurs in the compound eye retina." "An endoderm that is part of a thyroid primordium." "VHOG:0001089 EHDAA:956 EMAPA:25357 RETIRED_EHDAA2:0002035" "The process in which the anatomical structures of an aorta are generated and organized. An aorta is an artery that carries blood from the heart to other parts of the body." - "Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts." + "Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts." "FBbt:00005811" "A mucosa that is part of a large intestine [Automatically generated definition]." "CALOHA:TS-2106 FMA:14969 UMLS:C0734203 NCIT:C32926 MA:0002688 EMAPA:35467" "An epithelium that is part of a crista ampullaris." "MA:0002870 FMA:75636" + "Any cell that is part of some urethra." "KUPO:0001123" "Any mesenchymal stem cell of adipose tissue that is part of an abdomen." "An anatomical cavity that is part of a lens vesicle." "EMAPA:17164 EHDAA2:0000986 VHOG:0000531" + "Any vascular associated smooth muscle cell that is part of some microcirculatory vessel." "A sonic hedgehog protein that is encoded in the genome of human." "UniProtKB:Q15465" "A cellular protein localization process in which a protein is transported to, or maintained at, a location within the microtubule cytoskeleton." "The process in which the anatomical structure of the cranial nerves are generated and organized. The cranial nerves are composed of twelve pairs of nerves that emanate from the nervous tissue of the hindbrain. These nerves are sensory, motor, or mixed in nature, and provide the motor and general sensory innervation of the head, neck and viscera. They mediate vision, hearing, olfaction and taste and carry the parasympathetic innervation of the autonomic ganglia that control visceral functions." "The process whose specific outcome is the progression of an interneuron residing in the olfactory bulb, from its initial commitment, to the fully functional differentiated cell." "A denotator type indicates how a term should be interpreted from an ontological perspective."@en "Anatomical surface, which is the external surface of the whole body. Examples: There is only one body surface." "NCIT:C29667 UMLS:C0489451 SCTID:261060002 FMA:61695" - "An elongated fibrocyte that is part of a tendon. The cytoplasm is stretched between the collagen fibres of the tendon. They have a central cell nucleus with a prominent nucleolus. Tendon cells have a well-developed rough endoplasmic reticulum and they are responsible for synthesis and turnover of tendon fibres and ground substance." + "An elongated fibrocyte that is part of a tendon. The cytoplasm is stretched between the collagen fibres of the tendon. They have a central cell nucleus with a prominent nucleolus. Tendon cells have a well-developed rough endoplasmic reticulum and they are responsible for synthesis and turnover of tendon fibres and ground substance." "ZFA:0009189" "A organ system process carried out at the level of a muscle. Muscle tissue is composed of contractile cells or fibers." "The process pertaining to the initial formation of a trachea from unspecified parts. The process begins with the specific processes that contribute to the appearance of the discrete structure and ends when the trachea is recognizable. The trachea is the portion of the airway that attaches to the bronchi as it branches." "Any process that activates or increases the frequency, rate or extent of chorionic trophoblast cell proliferation." @@ -6560,7 +6581,7 @@ "A portion of skeletal muscle tissue that is part of a urethra [Automatically generated definition]." "MA:0001690 EMAPA:37788" "The capillary loops of the kidney that normally function as a filtration unit[MP]." "Wikipedia:Glomerulus EMAPA:28239" "An epithelium characterised by its most superficial layer consisting of squamous epithelial cells." "SCTID:40118003 BTO:0002072 Wikipedia:Squamous_epithelium UMLS:C0221909 NCIT:C12848" - "A cell found throughout the gastrointestinal tract and in the pancreas. They secrete somatostatin in both an endocrine and paracrine manner. Somatostatin inhibits gastrin, cholecystokinin, insulin, glucagon, pancreatic enzymes, and gastric hydrochloric acid. A variety of substances which inhibit gastric acid secretion (vasoactive intestinal peptide, calcitonin gene-related peptide, cholecystokinin, beta-adrenergic agonists, and gastric inhibitory peptide) are thought to act by releasing somatostatin." "FMA:62935" + "A cell found throughout the gastrointestinal tract and in the pancreas. They secrete somatostatin in both an endocrine and paracrine manner. Somatostatin inhibits gastrin, cholecystokinin, insulin, glucagon, pancreatic enzymes, and gastric hydrochloric acid. A variety of substances which inhibit gastric acid secretion (vasoactive intestinal peptide, calcitonin gene-related peptide, cholecystokinin, beta-adrenergic agonists, and gastric inhibitory peptide) are thought to act by releasing somatostatin." "ZFA:0009228 FMA:62935" "Any process that reduces or removes the toxicity of a toxic substance. These may include transport of the toxic substance away from sensitive areas and to compartments or complexes whose purpose is sequestration of the toxic substance." "The process in which the anatomical structures of the neural plate are generated and organized. The neural plate is a specialized region of columnar epithelial cells in the dorsal ectoderm that will give rise to nervous system tissue." "A basophil precursor in the granulocytic series, being a cell intermediate in development between a basophilic myelocyte and a band form basophil. The nucleus becomes indented where the indentation is smaller than half the distance to the farthest nuclear margin; chromatin becomes coarse and clumped; specific granules predominate while primary granules are rare. Markers are CD11b-positive, CD15-positive, CD16-positive, CD24-positive, CD33-positive, and CD13-positive." "FMA:84198" @@ -6584,6 +6605,7 @@ "The process in which a relatively unspecialized cell acquires specialized features of a neuron of the heart." "Transudate contained in the pleural cavity." "BTO:0003080 Wikipedia:Pleural_fluid MA:0002532 FMA:12273 MAT:0000500 ncithesaurus:Pleural_Fluid" "The chemical reactions and pathways involving glycoproteins, a protein that contains covalently bound glycose (i.e. monosaccharide) residues; the glycose occurs most commonly as oligosaccharide or fairly small polysaccharide but occasionally as monosaccharide." + "Any secretory cell that is capable of some peptide hormone secretion." "ZFA:0009100" "A CD8-positive, alpha-beta positive T cell that has the phenotype T-bet-positive, eomesodermin-positive, CXCR3-positive, CCR6-negative, and is capable of producing interferon-gamma." "BTO:0004793 FMA:84793 BTO:0004888" "An OFF calbindin-negative bipolar cell that has a large dendritic field and stratifies narrowly close to the middle of the inner plexiform layer. Its axon terminal is characterized by regularly branching and varicose processes resembling beads on a string. Most of DB3b contacts with cones are non-triad-associated." "A circumscribed mass of ectodermal cells which bud off from the dental lamina; it becomes cup-shaped and develops on its internal face the ameloblast layer of cells that produces the enamel cap of a developing tooth." "SCTID:362863002 MA:0001604 Wikipedia:Enamel_organ BTO:0001722 TAO:0005138 EMAPA:32888 MESH:D004658 FMA:312389 CALOHA:TS-0271 ZFA:0005138" @@ -6593,7 +6615,7 @@ "Any process that activates or increases the frequency, rate or extent of activated CD4-positive, alpha-beta T cell apoptotic process." "Unilaminar epithelium that consists of a single layer of cuboidal cells." "CARO:0000067 ZFA:0001497 NCIT:C33553 FMA:45566 EHDAA2:0003067 Wikipedia:Simple_cuboidal_epithelium AAO:0010064 XAO:0004009 TAO:0001497 BILA:0000067 UMLS:C0836134 HAO:0000067 AEO:0000067" "A type I pneumocyte is a flattened, branched pneumocyte that covers more than 98% of the alveolar surface. This large cell has thin (50-100 nm) cytoplasmic extensions to form the air-blood barrier essential for normal gas exchange." "FMA:62500 BTO:0000780" - "The anus and surrounding regions. Encompasses both internal and external regions, where present." "MIAA:0000042 SCTID:362680001 NCIT:C32069 MA:0000329 VHOG:0000395 UMLS:C0230120 EFO:0000847 EHDAA2:0000122 EMAPA:16831 MAT:0000042 EHDAA:2931 WBbt:0006919" + "The anus and surrounding regions. Encompasses both internal and external regions, where present." "MIAA:0000042 SCTID:362680001 NCIT:C32069 MA:0000329 VHOG:0000395 UMLS:C0230120 EFO:0000847 EMAPA:16831 EHDAA2:0000122 MAT:0000042 EHDAA:2931 WBbt:0006919" "Any process in which a protein is maintained in the nucleus and prevented from moving elsewhere. These include sequestration within the nucleus, protein stabilization to prevent transport elsewhere and the active retrieval of proteins that escape the nucleus." "A subdivision of the skeleton of the autopod consisting of the phalanges of a single digit plus the associated metapodial element." @@ -6615,7 +6637,7 @@ "A smooth muscle cell of the umbilical artery." "Any process that activates or increases the frequency, rate or extent of cell division." "A skeletal muscle fiber found at the fetal and neonatal stages. In mammalian fetuses and neonates, skeletal muscle expresses myosin heavy chain-neonatal (MyHC-neo, encoded by the MYH8 gene). This expression disappears shortly after birth and is replaced by expression of adult heavy chain myosins." - "The prostate gland is a partly muscular, partly glandular body that is situated near the base of the mammalian male urethra and secretes an alkaline viscid fluid which is a major constituent of the ejaculatory fluid." "galen:ProstateGland UMLS:C0033572 CALOHA:TS-0828 SCTID:181422007 MIAA:0000078 BTO:0001129 MA:0000404 FMA:9600 Wikipedia:Prostate NCIT:C12410 EFO:0000858 MESH:D011467 GAID:392 VHOG:0001261 MAT:0000078 EV:0100104 EMAPA:19287" + "The prostate gland is a partly muscular, partly glandular body that is situated near the base of the mammalian male urethra and secretes an alkaline viscid fluid which is a major constituent of the ejaculatory fluid." "galen:ProstateGland UMLS:C0033572 CALOHA:TS-0828 SCTID:181422007 MIAA:0000078 BTO:0001129 MA:0000404 FMA:9600 Wikipedia:Prostate NCIT:C12410 EFO:0000858 MESH:D011467 GAID:392 MAT:0000078 EV:0100104 VHOG:0001261 EMAPA:19287" "Any process that stops, prevents or reduces the rate or extent of T cell proliferation." "A quality of an object that has a value that is normal or average." "A bone that is part of the dorsal region of an animal." "EMAPA:37248 MA:0000494" @@ -6695,12 +6717,13 @@ "The controlled release of a substance by a cell or a tissue." "A multi cell part structure that is part of a central nervous system." "FMA:83143" "Any process that activates or increases the frequency, rate or extent of gamma-delta T cell proliferation." + "Any G protein-coupled acetylcholine receptor signaling pathway that is involved in positive regulation of acetylcholine secretion, neurotransmission." "A muscular coat that is part of a jejunum." "FMA:14951" "Any pericyte cell that is part of a placenta." "A trophoblast found at the junction of the placenta. This cell type makes a unique fibronectin-trophouteronectin junction that helps mediate attachment of the placenta to the uterus. This cell type is also found junction of the chorion layer of the external membranes and the decidua." "A M cell that is part of the epithelium proper of duodenum." "FMA:263134" - + "ZFA:0009286" "Organism at the blastula stage - an early stage of embryonic development in animals. It is produced by cleavage of a fertilized ovum and consists of a spherical layer of around 128 cells surrounding a central fluid-filled cavity called the blastocoel. The blastula follows the morula and precedes the gastrula in the developmental sequence." "MESH:D036703 OGEM:000006 BILA:0000059 GAID:1294 Wikipedia:Blastula BTO:0000128" "Any process that stops, prevents or reduces the frequency, rate or extent of cardiac ventricle formation." "Any process that stops, prevents, or reduces the frequency, rate or extent of the regulated release of serotonin." @@ -6709,7 +6732,7 @@ "A nerve that is part of a neck [Automatically generated definition]." "MA:0000588 EMAPA:37263" "A temporary protrusion or retractile process of a cell, associated with flowing movements of the protoplasm, and serving for locomotion and feeding." "Wikipedia:Pseudopod" "The process in which neuroblasts acquire specialized structural and/or functional features that characterize the mature cerebellar Purkinje cell. Differentiation includes the processes involved in commitment of a neuroblast to a Purkinje cell fate. A Purkinje cell is an inhibitory GABAergic neuron found in the cerebellar cortex that projects to the deep cerebellar nuclei and brain stem." - + "ZFA:0009243" "Any process that modulates the rate, frequency, or extent of prostatic bud formation, the morphogenetic process in which a region of the fetal urogenital sinus epithelium is specified to become the prostate, resulting in prostate bud outgrowth." "An out-pocket of thickened ventral foregut epithelium adjacent to the developing heart. Constitutes the first morphological sign of the embryonic liver. The anterior portion of the hepatic diverticulum gives rise to the liver and intrahepatic biliary tree, while the posterior portion forms the gall bladder and extrahepatic bile ducts." "Wikipedia:Hepatic_diverticulum XAO:0000101 EHDAA:1530 EHDAA2:0000740 UMLS:C1512407 AAO:0011057 NCIT:C34187" "Any process that activates or increases the frequency, rate or extent of presynapse assembly." @@ -6734,7 +6757,7 @@ "Any process that modulates the frequency, rate or extent of basophil differentiation." "Any process that stops, prevents or reduces the frequency, rate or extent of smooth muscle tissue development." "The multiplication or reproduction of cells, resulting in the expansion of the population in the metanephros." - "Kolmer-Agduhr neurons are ciliated GABAergic neurons that contact the central canal of the spinal cord and have ipsilateral ascending axons." + "Kolmer-Agduhr neurons are ciliated GABAergic neurons that contact the central canal of the spinal cord and have ipsilateral ascending axons." "ZFA:0005240" "Any process that stops, prevents, or reduces the frequency, rate or extent of a signaling process." "Keratinocyte from foreskin." "CALOHA:TS-0385" "The orderly movement of a mesenchymal cell from one site to another, often during the development of a multicellular organism." @@ -6752,13 +6775,14 @@ "Any process that modulates the frequency, rate or extent of hepatocyte apoptotic process." "Any process that stops, prevents or reduces the frequency, rate or extent of T-helper 2 cell cytokine production." + "A DNA-binding transcription factor activity that represses or decreases the transcription of specific gene sets transcribed by RNA polymerase II." "Mesenchyme that is part of a developing gonad [Automatically generated definition]." "EMAPA:17385 EMAPA:16858 EHDAA:5012 VHOG:0001090" "The expansion of a B cell population by cell division. Follows B cell activation." "The femur neck or neck of the femur is a flattened pyramidal process of bone, connecting the femoral head with the femoral shaft, and forming with the latter a wide angle opening medialward." "UMLS:C0015815 MESH:D005272 GAID:201 Wikipedia:Femur_neck NCIT:C61563 galen:NeckOfFemur FMA:42385 SCTID:361792007" "The directed movement of L-histidine out of the vacuole, across the vacuolar membrane." "The innermost layer of a blood vessel which is a lining of endothelial cells facing the lumen[Kardong]." "NCIT:C33820 MESH:D017539 EMAPA:36297 SCTID:8361002 UMLS:C0162864 Wikipedia:Tunica_intima BTO:0002012 FMA:55589 SCTID:87483006 MA:0002861 GAID:523" "A mucosa that is part of a male urethra [Automatically generated definition]." "FMA:239937" - "A late neutrophilic metamyelocyte in which the nucleus is indented to more than half the distance to the farthest nuclear margin but in no area being condensed to a single filament. The nucleus is in the form of a curved or coiled band, not having acquired the typical multilobar shape of the mature neutrophil. These cells are fMLP receptor-positive, CD11b-positive, CD35-negative, and CD49d-negative." + "A late neutrophilic metamyelocyte in which the nucleus is indented to more than half the distance to the farthest nuclear margin but in no area being condensed to a single filament. The nucleus is in the form of a curved or coiled band, not having acquired the typical multilobar shape of the mature neutrophil. These cells are fMLP receptor-positive, CD11b-positive, CD35-negative, and CD49d-negative." "ZFA:0009254" "A viscosity which is relatively normal or average" "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of bile acids." "A testicular artery that supplies a right testicle." "MA:0002042 UMLS:C0734076 EMAPA:37382 NCIT:C52738 FMA:14759" @@ -6779,7 +6803,6 @@ "The cell migration process in which a follicle cell migrates as part of an epithelial sheet between the nurse cells and the oocyte. At the end of migration, they cover the anterior of the oocyte." "A renal medulla interstitium that is part of a left kidney." "The process in which the anatomical structures of an epithelial sheet are generated and organized. An epithelial sheet is a flat surface consisting of closely packed epithelial cells." - "KUPO:0001043" "The chemical reactions and pathways resulting in the breakdown of dicarboxylic acids, any organic acid containing two carboxyl (-COOH) groups." "The series of events involved in equilibrioception in which a mechanical stimulus is received and converted into a molecular signal. During equilibrioception, mechanical stimuli may be in the form of input from pressure receptors or from the labyrinth system of the inner ears." "An arrangement of closely apposed microtubules running parallel to each other in the axon hillock and initial segment." "NIF_Subcellular:sao707332678" @@ -6793,6 +6816,7 @@ "A glutamate decarboxylase 1 that is encoded in the genome of mouse." "UniProtKB:P48318" "Any muscle organ that is part of a pes [Automatically generated definition]." "FMA:37369 SCTID:67240005 MA:0000652 BTO:0000477 EMAPA:36160" "Any process that stops, prevents or reduces the frequency, rate or extent of hematopoietic stem cell proliferation." + "Any epithelial cell of distal tubule that is part of some distal convoluted tubule." "KUPO:0001056" "System pertaining to blood vessels in the brain." "FMA:61935 BTO:0003840 SCTID:362029003 EFO:0003491 EMAPA:35186 FMA:242007 ZFA:0000099 TAO:0000099" "The process whose specific outcome is the progression of a pacemaker cell over time, from its formation to the mature state. Pacemaker cells are specialized cardiomyocytes that are responsible for regulating the timing of heart contractions." "A bone that is part of a lower leg [Automatically generated definition]." "MA:0000676 EMAPA:35519" @@ -6812,9 +6836,9 @@ "A strand of hair that is part of a tail." "EMAPA:37971" "A process in which a protein is transported to, or maintained in, a location within a secretory granule." "A transient embryonic complex that comprises the pharyngeal arches, bulges of tissues of mesoderm and neural crest derivation through which pass nerves and pharyngeal arch arteries. The arches are separated internally by pharyngeal pouches, evaginations of foregut endoderm, and externally by pharyngeal clefts, invaginations of surface ectoderm. The development of the system ends when the stucture it contributes to are forming, which may include (depending on species) the thymus, thyroid, parathyroids, maxilla, mandible, aortic arch, cardiac outflow tract, external and middle ear[GO,modified]." "NCIT:C34248 UMLS:C1519038 FMA:293041 EHDAA2:0000187" - "Saliva-secreting exocrine glands of the oral cavity[GO]." "EFO:0000859 CALOHA:TS-0892 NCIT:C12426 FMA:9597 EHDAA:7987 VHOG:0000376 Wikipedia:Salivary_gland SCTID:181236000 MAT:0000079 EHDAA2:0001775 galen:SalivaryGland BTO:0001203 EV:0100059 MIAA:0000079 EMAPA:17751 UMLS:C0036098 MESH:D012469 MA:0000346 GAID:937" + "Saliva-secreting exocrine glands of the oral cavity[GO]." "NCIT:C12426 GAID:937 EHDAA:7987 FMA:9597 BTO:0001203 MAT:0000079 galen:SalivaryGland MIAA:0000079 EFO:0000859 VHOG:0000376 MESH:D012469 EHDAA2:0001775 SCTID:181236000 Wikipedia:Salivary_gland FBbt:00005382 MA:0000346 CALOHA:TS-0892 UMLS:C0036098 EV:0100059 EMAPA:17751" "A promyelocyte committed to the basophil lineage." "FMA:84208" - + "ZFA:0009241" "Any process that activates or increases the frequency, rate or extent of coagulation." "A luminal layer of epithelium that is part of a endometrium epithelium." "EMAPA:35309 MA:0002733" "GC_ID:1" @@ -6824,10 +6848,10 @@ "Wikipedia:Glans" "Any process that modulates the frequency, rate or extent of protein maturation." "Any process in which a lipid is transported to, or maintained in, a specific location." - "A stem cell that self-renews as well as give rise to a single mature cell type." "FMA:70569" + "A stem cell that self-renews as well as give rise to a single mature cell type." "ZFA:0009013 FMA:70569" "A neuron with a soma found in the hippocampus." "Any process that activates or increases the frequency, rate or extent of hemopoiesis." - "Head of the adult organism." + "Head of the adult organism." "FBbt:00003007" "The process in which a hemocyte precursor cell acquires the characteristics of the phagocytic blood-cell type, the plasmatocyte. Plasmatocytes are a class of arthropod hemocytes important in the cellular defense response." "The regulated release of dopamine from an axon." "A nucleate quality inhering in a bearer by virtue of the bearer's having no nucleus." @@ -6840,7 +6864,7 @@ "An arachnoid mater that is part of a hindbrain [Automatically generated definition]." "VHOG:0000236 EMAPA:17784 MA:0000988" "The outgrowth of neuroectoderm located on the floor of the embryonic hypothalamus that gives rise to the neurohypophysis (posterior lobe) of the pituitary gland." "EHDAA2:0004434 EMAPA:16647" "The change in form that occurs when an epithelial cell progresses from it initial formation to its mature state, contributing to the process of gastrulation." - "An interneuron that has spider-like appearance with a small round soma, a large number (7-10) of short, smooth, or slightly beaded primary dendrites that give rise to only a few secondary branches, and a branched axon that establishes a dense axonal mesh with thin shafts." + "An interneuron that has spider-like appearance with a small round soma, a large number (7-10) of short, smooth, or slightly beaded primary dendrites that give rise to only a few secondary branches, and a branched axon that establishes a dense axonal mesh with thin shafts." "ZFA:0009299" "The space that surrounds an organism." "A medium-wave-sensitive opsin (human) that is a translation product of the OPN1MW gene in human." "Reactome:R-HSA-391835 UniProtKB:P04001 DTO:02100474" "The connective tissue bundles in the extracellular matrix of pulmonary tissue that are composed of collagen, and play a role in tissue strength and elasticity." @@ -6873,7 +6897,7 @@ "Any process that modulates the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of a microvillus on a follicle cell." "A type of glomus or chief cell, is sensitive to hypoxia and produce catecholamines." "A signal transducer CD24 that is encoded in the genome of human." "UniProtKB:P25063" - "Paired endochondral long bone that extends between the pectoral girdle and the skeletal parts of the forelimb. [PHENOSCAPE:mah]." "galen:Humerus SCTID:181923006 GAID:183 UMLS:C0020164 EFO:0001398 NCIT:C12731 FMA:13303 VHOG:0001158 Wikipedia:Humerus MA:0001356 MESH:D006811 AAO:0000679 CALOHA:TS-2202 EMAPA:19106 XAO:0003210" + "Paired endochondral long bone that extends between the pectoral girdle and the skeletal parts of the forelimb. [PHENOSCAPE:mah]." "galen:Humerus SCTID:181923006 GAID:183 EFO:0001398 NCIT:C12731 UMLS:C0020164 FMA:13303 VHOG:0001158 Wikipedia:Humerus MA:0001356 MESH:D006811 AAO:0000679 CALOHA:TS-2202 EMAPA:19106 XAO:0003210" "Any process that modulates the frequency, rate or extent of muscle tissue development." "A change in morphology and behavior of a lymphocyte resulting from exposure to a specific antigen, mitogen, cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." "Any process that increases the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase." @@ -6908,6 +6932,7 @@ "A submucosa that is part of a jejunum [Automatically generated definition]." "EMAPA:27111 FMA:14950 SCTID:70192009" "An epithelium that is part of a lacrimal gland [Automatically generated definition]." "EMAPA:36515 MA:0001297" "A protein that has a core domain composition consisting of an extracellular N-terminal domain that adopts an immunoglobulin fold, a transmembrane domain, and an intracellular C-terminal domain with a single copy of the Immunoreceptor tyrosine-based activation motif (Pfam:PF02189) (ITAM). It constitutes the invariant subunit of the T cell antigen receptor (TCR). TCR is a surface receptor on T cells responsible for recognizing MHC-restricted antigens and initiating the cellular immune response." "PIRSF:PIRSF001993" + "Any renal intercalated cell that is part of some inner medullary collecting duct." "KUPO:0001135" "Any process that activates or increases the frequency, rate, or extent of mast cell cytokine production." "The lipid bilayer surrounding a tertiary granule." "The progression of a metanephric nephron tubule over time, from its initial formation to the mature structure. A metanephric nephron tubule is an epithelial tube that is part of the metanephric nephron, the functional part of the metanephros." @@ -6924,6 +6949,7 @@ "The developmental process pertaining to the initial formation of a metanephric capsule from unspecified parts. The metanephric capsule is the tough fibrous layer surrounding the metanephros, covered in a thick layer of perinephric adipose tissue. It provides some protection from trauma and damage." "Any process that decreases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of steroid hormones,compounds with a 1, 2, cyclopentanoperhydrophenanthrene nucleus that act as hormones." "Immature CD8_alpha-negative CD11b-positive dendritic cell is a CD8_alpha-negative CD11b-positive dendritic cell that is CD80-low, CD86-low, and MHCII-low." + "Any process that stops, prevents or reduces the frequency, rate or extent of RNA polymerase II regulatory region sequence-specific DNA binding." "A cell with extensive dendritic processes found in the B cell areas (primary follicles and germinal centers) of lymphoid tissue. They are unrelated to the dendritic cell associated with T cells. Follicular dendritic cells have Fc receptors and C3b receptors, but unlike other dendritic cells, they do not process or present antigen in a way that allows recognition by T cells. Instead, they hold antigen in the form of immune complexes on their surfaces for long periods and can present antigen to B cells during an immune response." "MESH:D020566 FMA:83037 BTO:0004267" "A leukocyte granule-associated proteinase that is a translation product of the human GZMB gene or a 1:1 ortholog thereof." "IUPHARobj:2369" "Any process that modulates the frequency, rate or extent of oogenesis." @@ -6961,6 +6987,7 @@ "Mesenchyme that is part of a developing right lung." "EHDAA2:0001739 EMAPA:17662" "The constricted portion of the urinary bladder, formed by the meeting of its inferolateral surfaces proximal to the opening of the urethra[MP]." "EMAPA:36078 NCIT:C12336 Wikipedia:Neck_of_urinary_bladder UMLS:C0227716 galen:UrinaryBladderNeck SCTID:362227006 FMA:15912 MA:0002491" "A process in which a protein is transported to, or maintained in, a location within a presynapse." + "Any endothelial cell that is part of some kidney arcuate vein." "KUPO:0001086" "Any process that modulates the frequency, rate or extent of mitosis." "A tunica adventitia that is part of a artery." "EV:0100030 EMAPA:36295 FMA:14274 SCTID:113261001" "The process whose specific outcome is the progression of the dorsal cochlear nucleus over time, from its formation to the mature structure." @@ -6973,11 +7000,11 @@ "A medium spiny neuron that expresses dopamine type 2 receptors and projects to the external globus pallidus." "Any process that modulates the rate, frequency or extent of the transition where a mesenchymal cell establishes apical/basolateral polarity,forms intercellular adhesive junctions, synthesizes basement membrane components and becomes an epithelial cell that will contribute to the shaping of the metanephros." "Any process that stops, prevents, or reduces the frequency, rate or extent of leukocyte proliferation." - "A class of large neuroglial (macroglial) cells in the central nervous system - the largest and most numerous neuroglial cells in the brain and spinal cord. Astrocytes (from 'star' cells) are irregularly shaped with many long processes, including those with 'end feet' which form the glial (limiting) membrane and directly and indirectly contribute to the blood-brain barrier. They regulate the extracellular ionic and chemical environment, and 'reactive astrocytes' (along with microglia) respond to injury." "FMA:54537 CALOHA:TS-0060 BTO:0000099" + "A class of large neuroglial (macroglial) cells in the central nervous system - the largest and most numerous neuroglial cells in the brain and spinal cord. Astrocytes (from 'star' cells) are irregularly shaped with many long processes, including those with 'end feet' which form the glial (limiting) membrane and directly and indirectly contribute to the blood-brain barrier. They regulate the extracellular ionic and chemical environment, and 'reactive astrocytes' (along with microglia) respond to injury." "ZFA:0009075 FMA:54537 CALOHA:TS-0060 BTO:0000099" "A saclike structure of the prostate gland, comprised of at least three cell layers: an innermost layer of secretory columnar luminal epithelium, a middle layer of squamous basal epithelium that also contains neuroendocrine cells, transit amplifying cells, and stem cells, and an outer layer of smooth muscle intermixed with other stromal cells." "FMA:66808" - "A muscle cell that is involved in the mechanism of insect flight. This encompasses both, cells that power flight and cells that control flight." "FBbt:00003360" "The process in which the anatomical structures of the pronephric duct are generated and organized. The pronephric duct collects the filtrate from the pronephric tubules and opens to the exterior of the kidney." "The process in which a plasmacytoid dendritic cell expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex." + "A muscle cell that is involved in the mechanism of insect flight. This encompasses both, cells that power flight and cells that control flight." "FBbt:00003360" "Any process that modulates the frequency, rate or extent of cilium-dependent cell motility." "A transferrin receptor protein 1 that is encoded in the genome of mouse." "UniProtKB:Q62351" "The process in which a relatively unspecialized epithelial cell becomes a more specialized epithelial cell of the mammary gland." @@ -6991,7 +7018,7 @@ "The orderly movement of a podocyte from one site to another, often during the development of a multicellular organism or multicellular structure. A podocyte is a specialized kidney epithelial cell." "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving dopamine." "Any process that activates or increases the frequency, rate or extent of R7 cell differentiation." - "An epithelial cell derived from endoderm." "FMA:69075" + "An epithelial cell derived from endoderm." "ZFA:0009383 FMA:69075" "Subdivision of endoskeleton derived from pharyngeal arches." "AAO:0010157 VSAO:0000149 ZFA:0001216 XAO:0003176 VHOG:0000315 Wikipedia:Facial_skeleton TAO:0001216" "Connective tissue between the cellular elements of a structure." "FMA:86301 SCTID:85293002" "An epithelium that is part of the mouth and lines the oral cavity, typically stratified squamous, and may be para-, ortho- or non- keratinized. Primary barrier between oral environment and deeper tissues." "ZFA:0000816 AAO:0010357 EMAPA:16839 UMLS:C1709332 TAO:0000816 CALOHA:TS-0715 NCIT:C49595 EHDAA:2187 FMA:265152 XAO:0003201 MA:0000344 EMAPA:26942 VHOG:0000187 BTO:0001775 EHDAA2:0001325" @@ -7010,13 +7037,14 @@ "The metanephric proximal straight tubule is the part of the metanephric descending limb that extends from the metanephric proximal convoluted tubule to the metanephric descending thin tubule[GO]." "A cerebrospinal fluid-filled space that runs longitudinally through the length of the entire spinal cord. The central canal is contiguous with the ventricular system of the brain. The central canal represents the adult remainder of the neural tube." "Wikipedia:Central_canal FMA:242845 EMAPA:25042" "A cell morphology that inheres in neurons which are large and non-spiny, with dendrites radiating in a multipolar or bitufted pattern, often favouring the descending side, and axons that ascend directly from the superficial side of the soma, and travel upward without branching." "ilxtr:MartinottiPhenotype" - "A stem cell that is the precursor of male gametes." "FBbt:00004929" "An intracellular membrane-bounded particle found in fungi and containing chitin synthase; it synthesizes chitin microfibrils. Chitin synthase activity exists in chitosomes and they are proposed to act as a reservoir for regulated transport of chitin synthase enzymes to the division septum." "The chemical reactions and pathways resulting in the formation of an alpha-amino acid." + "A stem cell that is the precursor of male gametes." "FBbt:00004929" "A transition where a mesenchymal cell establishes apical/basolateral polarity,forms intercellular adhesive junctions, synthesizes basement membrane components and becomes an epithelial cell that will contribute to the shaping of the metanephric renal vesicle." "Any process that stops, prevents or reduces the frequency, rate or extent of lysosome organization." "Any process that modulates the frequency, rate or extent of multicellular organismal development." "The junction between the axon of a motor neuron and a muscle fiber. In response to the arrival of action potentials, the presynaptic button releases molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane of the muscle fiber, leading to a post-synaptic potential responsible for muscle contraction." + "The directed movement of hydrogen ions (protons) from inside a cell, across the plasma membrane and into the extracellular region." "Any microvascular endothelial cell that is part of a brain." "Any process that decreases the rate, frequency, or extent of a response to cytokine stimulus." "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 2." @@ -7032,7 +7060,7 @@ "A broadly stratifying amacrine cell with a small dendritic field, straight dendrites and post-synaptic terminals in S1, S2, and S3." "The process pertaining to the initial formation of an animal organ from unspecified parts. The process begins with the specific processes that contribute to the appearance of the discrete structure, such as inductive events, and ends when the structural rudiment of the organ is recognizable, such as a condensation of mesenchymal cells into the organ rudiment. Organs are a natural part or structure in an animal or a plant, capable of performing some special action (termed its function), which is essential to the life or well-being of the whole. The heart and lungs are organs of animals, and the petal and leaf are organs of plants. In animals the organs are generally made up of several tissues, one of which usually predominates, and determines the principal function of the organ." "A portal system that begins in capillaries in the wall of the digestive tract and and runs as the hepatic portal vein to the liver." "AAO:0010225" - "An undifferentiated germ cell that proliferates rapidly and gives rise to oocytes." "FMA:83673" + "An undifferentiated germ cell that proliferates rapidly and gives rise to oocytes." "ZFA:0005878 FMA:83673" "The process whose specific outcome is the progression of the superior salivary nucleus over time, from its formation to the mature structure." "The process in which immunoglobulin genes are formed through recombination of the germline genetic elements, as known as immunoglobulin gene segments, within a single locus." "OBSOLETE (was not defined before being made obsolete)." @@ -7048,13 +7076,14 @@ "A mature alpha-beta T cell that expresses an alpha-beta T cell receptor and the CD4 coreceptor." "Any process that modulates the frequency, rate or extent of memory T cell activation." "The process in which neuroblasts acquire specialized structural and/or functional features that characterize the mature eurydendroid cell. Differentiation includes the processes involved in commitment of a neuroblast to a eurydendroid cell fate. A eurydendroid cell is an efferent neuron found in the cerebellar cortex of teleosts." - "A fully differentiated neutrophil, a granular leukocyte having a nucleus with three to five lobes connected by slender threads, and cytoplasm containing fine inconspicuous granules and stainable by neutral dyes. They are produced in bone marrow at a rate of 5e10-10e10/day and have a half-life of 6-8 hours. Neutrophils are CD15-positive, CD16-positive, CD32-positive, CD43-positive, CD181-positive, and CD182-positive." "BTO:0003473" + "A fully differentiated neutrophil, a granular leukocyte having a nucleus with three to five lobes connected by slender threads, and cytoplasm containing fine inconspicuous granules and stainable by neutral dyes. They are produced in bone marrow at a rate of 5e10-10e10/day and have a half-life of 6-8 hours. Neutrophils are CD15-positive, CD16-positive, CD32-positive, CD43-positive, CD181-positive, and CD182-positive." "ZFA:0009049 BTO:0003473" "OBSOLETE (was not defined before being made obsolete)." "Lymph node germinal centers contain two microenvironments: the light zone and the dark zone. The dark zone is densely populated with B cell blasts and reticular cells." "One of the two epithelia which make up the tympanic membrane (along with the fibrous layer)." "MA:0001224 NCIT:C49308 UMLS:C1711401 SCTID:70839004 EMAPA:19064" "Any chamber of the left side of the heart." "SCTID:362008007 FMA:7166" "A vasculature that is part of a connecting stalk." "EHDAA2:0000313" "The external iliac artery is a large artery in the pelvic region that carries blood to the lower limb. The external iliac artery is a paired artery, meaning there is one on each side of the body: a right external iliac artery and left external iliac artery. The external iliac artery is accompanied by the external iliac vein, which is located posterior to the artery. [WP,unvetted]." "EMAPA:17614 galen:ExternalIliacArtery SCTID:181352000 EHDAA2:0000463 EHDAA:4337 NCIT:C32558 MA:0001973 Wikipedia:External_iliac_artery UMLS:C0226398 FMA:18805 BTO:0004666" + "Any renal cortical epithelial cell that is part of some renal corpuscle." "KUPO:0001021" "A cellular process that results in the breakdown of a Golgi apparatus that contributes to Golgi inheritance." "The directed movement of calcium ions from outside of a cell, across the plasma membrane and into the cytosol." @@ -7088,7 +7117,6 @@ "An otic fibrocyte that underlies the stria vascularis and is part of a mesenchymal gap junction network that regulates ionic homeostasis of the endolymph." "A neuroepithelium some of whose cells are undergoing terminal differentiation to become neuronal cells." "AEO:0001010" "The process whose specific outcome is the progression of the stomach over time, from its formation to the mature structure. The stomach is an expanded region of the vertebrate alimentary tract that serves as a food storage compartment and digestive organ." - "Binding specifically to a substance (cargo) to deliver it to a transport vesicle. Cargo receptors span a membrane (either the plasma membrane or a vesicle membrane), binding simultaneously to cargo molecules and coat adaptors, to efficiently recruit soluble proteins to nascent vesicles." "Reactome:R-HSA-9759202 Reactome:R-HSA-3000122 Reactome:R-HSA-3000137 Reactome:R-HSA-3000112 Reactome:R-HSA-9759209 Reactome:R-HSA-3000103 Reactome:R-HSA-350168" "The process in which a relatively unspecialized cell acquires specialized features of a glomerular visceral epithelial cell. A glomerular visceral epithelial cell is a specialized epithelial cell that contains 'feet' that interdigitate with the 'feet' of other glomerular epithelial cells." "Anatomical structure that is part of the respiratory system. In mammals consists of upper and lower tracts." "EHDAA:2219 VHOG:0000393 EHDAA:1568 EMAPA:16737 FMA:265130 SCTID:361110005 EHDAA2:0001606" "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA or circRNA." @@ -7118,7 +7146,6 @@ "Any process that modulates the frequency, rate or extent of basophil degranulation." "Any process that activates or increases the frequency, rate or extent of protein localization to plasma membrane." "A cell morphology that inheres in neurons with dendrites that are bidirectional, emerging from opposite ends of the soma, with the two arbors extending in radial or tangential directions." - "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 6." "Any process that modulates synaptic transmission by regulating protein degradation at the synapse." "Any process that modulates the frequency, rate or extent of bone tissue loss (resorption)." "A basket cell that is large, and typically ascends to give rise to many long horizontally and vertically projecting axon collaterals that traverse neighboring columns and can extend through all cortical layers." @@ -7159,7 +7186,7 @@ "The chemical reactions and pathways involving any of the compounds secreted by the thyroid gland, largely thyroxine and triiodothyronine." "Binding to catecholamine." "The regionalization process that regulates the coordinated growth that establishes the non-random spatial arrangement of the neural tube." - "One of a series of paired bulges that develop along the lateral walls of the foregut. The pharyngeal arches have developmental contributions from endoderm, mesoderm, and neural crest cells and are separated by anterior lateral endoderm out-pockets known as pharyngeal pouches." "EHDAA:571 UMLS:C0080322 FMA:293015 ZFA:0001306 SCTID:308766004 TAO:0001306 NCIT:C34249 MAT:0000242 BTO:0001785 EFO:0000959 GAID:1292 XAO:0000096 EMAPA:16117 Wikipedia:Pharyngeal_arch MESH:D001934 VHOG:0000155 MIAA:0000242 AAO:0010359" + "One of a series of paired bulges that develop along the lateral walls of the foregut. The pharyngeal arches have developmental contributions from endoderm, mesoderm, and neural crest cells and are separated by anterior lateral endoderm out-pockets known as pharyngeal pouches." "EHDAA:571 UMLS:C0080322 FMA:293015 ZFA:0001306 SCTID:308766004 TAO:0001306 NCIT:C34249 MAT:0000242 BTO:0001785 EFO:0000959 GAID:1292 XAO:0000096 EMAPA:16117 MESH:D001934 Wikipedia:Pharyngeal_arch VHOG:0000155 MIAA:0000242 AAO:0010359" "The embryonic connective tissue made up of loosely aggregated mesenchymal cells, supported by interlaminar jelly, that gives rise to the frontonasal region of the head." "FMA:295821 EHDAA2:0004109 EMAPA:16683" "Any exocrine gland whose cells bud their secretions off through the plasma membrane producing membrane-bound vesicles in the lumen; the apical portion of the secretory cell of the gland pinches off and enters the lumen; it loses part of its cytoplasm in their secretions; apocrine secretion is functional during hormonal stress or puberty; an example of true apocrine glands are mammary glands, responsible for secreting breast milk." "BTO:0001162 EMAPA:35141 Wikipedia:Apocrine SCTID:361698000 MA:0003040" "Any process that activates or increases the frequency, rate or extent of estradiol secretion." @@ -7170,7 +7197,7 @@ "The region of the cytosol consisting of all cytosol that is part of the presynapse." "Any of the immature forms of a basophil, in which basophilic specific granules are present but other phenotypic features of the mature form may be lacking." "A protein that is a translation product of the human FOXN1 gene or a 1:1 ortholog thereof." "IUPHARobj:2958" - "A cell of the outer of the three germ layers of the embryo." "FMA:72549" + "A cell of the outer of the three germ layers of the embryo." "ZFA:0009137 FMA:72549" "Any process that activates or increases the frequency, rate or extent of female gonad development." "The directed movement of ATP, adenosine triphosphate, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." @@ -7178,18 +7205,18 @@ "A serous membrane that lines the peritoneal cavity[VHOG,modified]." "AAO:0010814 XAO:0000139 NCIT:C12770 MA:0000449 ZFA:0005120 UMLS:C0031153 galen:Peritoneum GAID:18 EV:0100087 TAO:0005120 BTO:0001472 VHOG:0001257 FMA:9584 CALOHA:TS-2072 Wikipedia:Peritoneum MESH:D010537" "Any of the immature forms of an eosinophil, in which eosinophilic specific granules are present but other phenotypic features of the mature form may be lacking." "An Ly-6-like protein that is a translation product of the mouse Ly6a gene or a 1:1 ortholog thereof." - "A somatic stem cell that is part of the epidermis." "FMA:70541" + "A somatic stem cell that is part of the epidermis." "ZFA:0007122 FMA:70541" "A nuclear complex which in mammals consists of four parts, the hypothalamus, epithalamus, ventral thalamus, and dorsal thalamus[WP,modified]." "FMA:258745 EHDAA2:0004469" "A pericyte of the decidual vasculature." "An epithelial cell that is part of an endometrial gland." "EFO:0010710" - "Skeletogenic cell that secretes dentine matrix, is derived from odontogenic papilla. Embedded in dentine tissue, and is the transformation of a non-terminally differentiated odontoblast cell." + "Skeletogenic cell that secretes dentine matrix, is derived from odontogenic papilla. Embedded in dentine tissue, and is the transformation of a non-terminally differentiated odontoblast cell." "ZFA:0009086" "The process in which a relatively unspecialized cell acquires the specialized features of the R8 photoreceptor." "One of sublaminar layers S4 or S5." "CP:0000120" "Any fibroblast that is derived from the neural crest." "A disulfide-bonded, heterotetrameric receptor complex. The alpha chains are entirely extracellular, while each beta chain has one transmembrane domain. The ligand binds to the alpha subunit extracellular domain and the kinase is associated with the beta subunit intracellular domain." "A mature sexual reproductive cell of the female germline." - + "ZFA:0009195" "The directed movement of a vesicle along a microtubule, mediated by motor proteins. This process begins with the attachment of a vesicle to a microtubule, and ends when the vesicle reaches its final destination." "A pericardium that is part of a outflow tract [Automatically generated definition]." "EMAPA:37707 MA:0000491" "BTO:0001033" @@ -7227,10 +7254,10 @@ "Subdivision of skeletal system that consists of all ribs in an organism connected to the sternum and the vertebrae. Some vertebrates have abdominal ribs (gastrialia), not connected to the vertebrate - these are not considered part of the rib case." "galen:RibCage Wikipedia:Human_rib_cage SCTID:361741004 Wikipedia:Rib_cage FMA:7480" "Any blood vessel endothelial cell that is part of a microvascular endothelium." "Any process that modulates the frequency, rate or extent of midbrain dopaminergic neuron differentiation." - "A neuron whose cell body is within an autonomic ganglion." "FMA:80121" + "A neuron whose cell body is within an autonomic ganglion." "ZFA:0009059 FMA:80121" "FMA:83105" - "A skeletal muscle myoblast that differentiates into fast muscle fibers." + "A skeletal muscle myoblast that differentiates into fast muscle fibers." "ZFA:0009369" "Any process that activates or increases the frequency, rate or extent of apoptotic cell clearance." "The subdivision of the laminated olfactory cortex with only three main layers that receive monosynaptic input from the olfactory bulb via the lateral olfactory tract; it is located bilaterally in the ventrolateral forebrain and is commonly divided into anterior and posterior regions." "EMAPA:32767 BAMS:Pir UMLS:C0228280 Wikipedia:Piriform_cortex MA:0000978 MESH:D066195 EV:0100178 SCTID:369098004 neuronames:165 HBA:10142 DHBA:10311 BIRNLEX:1097 BAMS:PIR BTO:0002651" "The series of events required for an organism to receive a touch stimulus, convert it to a molecular signal, and recognize and characterize the signal. This is a neurological process. The perception of touch in animals is mediated by mechanoreceptors in the skin and mucous membranes and is the sense by which contact with objects gives evidence as to certain of their qualities. Different types of touch can be perceived (for example, light, coarse, pressure and tickling) and the stimulus may be external or internal (e.g. the feeling of a full stomach)." "Wikipedia:Touch" @@ -7266,7 +7293,6 @@ "Any process that activates or increases the frequency, rate or extent of isotype switching to IgE isotypes." "The process whose specific outcome is the progression of an atrioventricular (AV) node cell over time, from its formation to the mature state." "The process in which a relatively unspecialized cell acquires specialized features of a posterior lateral line neuromast mantle cell. (N.B. This may be development of neuromast mantle cell type or a set of cells of neuromast mantle cell type. This will involve the change of a cell or set of cells from one cell identity to another). Mantle cells are non-sensory cells that surround the sensory strip, separating the neuromast from the epidermis. Mantle cells secrete the cupula in which the ciliary bundles of all of the hair cells are embedded." - "A luminal epithelial cell of mammary gland located in acinus of structure." "FMA:74505" "Any process that stops, prevents or reduces the frequency, rate or extent of protein localization to cell leading edge." "Muscle tissue that consists primarily of skeletal muscle fibers." "NCIT:C13050 Wikipedia:Skeletal_striated_muscle MA:0002439 EMAPA:32716 SCTID:426215008 FMA:14069 UMLS:C0242692" @@ -7279,6 +7305,7 @@ "Any process in which a protein is maintained in a specific location within, or in the membrane of, a cell, and is prevented from moving elsewhere." "The progression of the mesonephric capsule over time, from its formation to the mature structure. The mesonephric capsule is the tough fibrous layer surrounding the mesonephros, covered in a thick layer of perinephric adipose tissue." "Granule cell with a soma found in the hippocampus." + "Binding to double-stranded DNA." "The process in which a relatively unspecialized cell acquires specialized features of a smooth muscle cell of the intestine." "Any process that activates or increases the frequency, rate or extent of receptor localization to synapse." "Any process that stops, prevents, or reduces the frequency, rate or extent of thymocyte death by apoptotic process." @@ -7309,7 +7336,8 @@ "A transitional myocyte that is part of the atrioventricular bundle." "FMA:83388" "Any process that modulates the frequency, rate or extent of cytoplasmic microtubule depolymerization." "An anatomical space that is enclosed by a cloaca." "ZFA:0000330 TAO:0000330" - + "Any epithelial cell that is part of some metanephric nephron tubule." + "ZFA:0009194" "A process in which a lipoprotein is transported to, or maintained in, a specific location in a membrane." "A taste bud that is located on the skin of the head." "Any process in which macromolecules aggregate, disaggregate, or are modified, resulting in the formation, disassembly, or alteration of a protein complex." @@ -7317,6 +7345,7 @@ "The process whose specific outcome is the progression of the superior olivary nucleus over time, from its formation to the mature structure. In mice, the superior olivary nucleus is a small cylindrical mass on the dorsal surface of the lateral part of the trapezoid body of the pons, and it is situated immediately above the inferior olivary nucleus. It receives projections from the cochlear nucleus and thus is involved in the perception of sound." "The process pertaining to the initial formation of a limb bud from unspecified parts. This process begins with the formation of a local condensation of mesenchyme cells within the prospective limb field, and ends when a limb bud is recognizable." "ZFA:0005227" + "The synthesis of RNA from a DNA template by RNA polymerase II (RNAP II), originating at an RNA polymerase II promoter. Includes transcription of messenger RNA (mRNA) and certain small nuclear RNAs (snRNAs)." "The process of gaseous exchange between an organism and its environment. In plants, microorganisms, and many small animals, air or water makes direct contact with the organism's cells or tissue fluids, and the processes of diffusion supply the organism with dioxygen (O2) and remove carbon dioxide (CO2). In larger animals the efficiency of gaseous exchange is improved by specialized respiratory organs, such as lungs and gills, which are ventilated by breathing mechanisms." "An immature B cell that is IgM-positive, CD45R-positive, CD43-low, CD25-negative, and CD127-negative. This cell type has also been described as being AA4-positive, IgM-positive, CD19-positive, CD43-low/negative, and HSA-positive." "Any process that stops, prevents or reduces the frequency, rate or extent of protein maturation." @@ -7326,8 +7355,9 @@ "The process in which a relatively unspecialized cell acquires the specialized features of a retinal cone cell." "A fetal liver derived enucleated erythrocyte. This erythrocyte resembles adult erythrocytes in that they are small (3- to 6- times smaller than primitive erythrocytes) and produce adult hemaglobins." - "A non-terminally differentiated cell that originates from the neural crest and differentiates into an iridophore." + "A non-terminally differentiated cell that originates from the neural crest and differentiates into an iridophore." "ZFA:0005328" "Any process that modulates the levels of hormone within an organism or a tissue. A hormone is any substance formed in very small amounts in one specialized organ or group of cells and carried (sometimes in the bloodstream) to another organ or group of cells in the same organism, upon which it has a specific regulatory action." + "The attachment of one cell to another cell via adhesion molecules as a result of an extracellular stimulus." "The operation of the mind by which an organism becomes aware of objects of thought or perception; it includes the mental activities associated with thinking, learning, and memory." "Wikipedia:Cognition" "Any process that activates or increases the frequency, rate or extent of a protein or other molecule binding to a receptor." "The progression of the reproductive system over time from its formation to the mature structure. The reproductive system consists of the organs that function in reproduction." @@ -7338,7 +7368,6 @@ "The lumen of the epididymis." "SCTID:367722009 FMA:18274" "The union of gametes of opposite sexes during the process of sexual reproduction to form a zygote. It involves the fusion of the gametic nuclei (karyogamy) and cytoplasm (plasmogamy)." "Wikipedia:Fertilisation" "The process in which the branching structure of the mammary gland duct is generated and organized. The mammary gland is a large compound sebaceous gland that in female mammals is modified to secrete milk." - "CALOHA:TS-0949 BTO:0001277" "The multiplication or reproduction of cells, resulting in the expansion of the dorsal spinal cord cell population." "A secondary oocyte is an oocyte that has not completed meiosis II." "FMA:18646 BTO:0003094" "Any process that stops, prevents, or reduces the rate of differentiation of regulatory T cells." @@ -7355,6 +7384,7 @@ "The regulated release of an androgen into the circulatory system. Androgens are steroid hormones that stimulate or control the development and maintenance of masculine characteristics in vertebrates." "The process in which precursor cell type acquires the specialized features of a hematopoietic progenitor cell, a class of cell types including myeloid progenitor cells and lymphoid progenitor cells." "A submucosa that is part of a pyloric antrum [Automatically generated definition]." "FMA:17060" + "Any kidney epithelial cell that is part of some kidney pelvis urothelium." "KUPO:0001114" "EHDAA2:0001721" "A Martinotti cell morphology that inheres in neurons which have axons that form a horizontal ramification, making it T-shaped." "The assembly or remodeling of chromatin composed of DNA complexed with histones, other associated proteins, and sometimes RNA." @@ -7368,9 +7398,11 @@ "Any process that modulates the frequency, rate or extent of attachment of a cell to another cell." "An anatomical cavity that is part of the olfactory apparatus. This includes the space bounded anteriorly by the nares and posteriorly by the choanae, when these structures are present." "BTO:0002096 VHOG:0000271 MESH:D009296 ZFA:0000130 Wikipedia:Nasal_cavity EMAPA:17604 GAID:350 FMA:54378 EHDAA2:0001226 NCIT:C12424 MA:0000284 AAO:0000314 SCTID:263481003 EHDAA:6801 TAO:0000130 UMLS:C0027423" "An epithelium that is part of a duodenum." "SCTID:66036002 CALOHA:TS-2087 EMAPA:19078 FMA:17231 MA:0003208" + "A transcriptomically distinct intratelencephalic-projecting glutamatergic neuron with a soma found in L6 of the primary motor cortex. These cells are short untufted pyramidal cells, which could be stellate or inverted. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', L6 IT." "ILX:0770158" "The process in which the cardiac ventricle is generated and organized. A cardiac ventricle receives blood from a cardiac atrium and pumps it out of the heart." "The process whose specific outcome is the progression of an epithelium over time, from its formation to the mature structure. An epithelium is a tissue that covers the internal or external surfaces of an anatomical structure." "An integrin alpha-E that is encoded in the genome of mouse." "UniProtKB:Q60677" + "Any epithelial cell that is part of some gingival epithelium." "Any process that activates or increases the frequency, rate, or extent of leukocyte migration." "A motor neuron that passes from the spinal cord toward or to a muscle and conducts an impulse that causes movement." @@ -7402,7 +7434,7 @@ "A T-cell surface glycoprotein CD8 beta chain that is encoded in the genome of mouse." "UniProtKB:P10300" "The process in which any suture between facial bones is generated and organized." "The mucous lining of the larynx, which is composed of squamous epithelium in the upper larynx and ciliated columnar epithelium in the lower larynx." "UMLS:C0023053 GAID:301 FMA:59662 MESH:D007820 MA:0001766 EMAPA:18334 SCTID:361940006 NCIT:C49246" - "A peptide hormone secreting cell that produces adrenocorticotropin, or corticotropin." + "A peptide hormone secreting cell that produces adrenocorticotropin, or corticotropin." "ZFA:0009216" "A tube running from the outer ear to the middle ear. The human ear canal extends from the pinna to the eardrum and is about 26 mm in length and 7 mm in diameter." "galen:ExternalAuditoryMeatus VHOG:0000977 MA:0000260 EV:0100356 Wikipedia:External_acoustic_meatus SCTID:181178004 GAID:864 FMA:61734 EMAPA:17588 EHDAA:8975 MESH:D004424 NCIT:C12498 UMLS:C0013444 EHDAA2:0000460" "Skeletal element that forms around the notochord and is part of the vertebral column." "VSAO:0000184 VHOG:0001143" @@ -7415,13 +7447,13 @@ "Any process that modulates the frequency, rate or extent of photoreceptor cell differentiation. An example of this process is found in Drosophila melanogaster." "The process in which a relatively unspecialized cell acquires the specialized features of a compound eye pigment cell, a cell of the retina containing screening pigments that functions to screen photoreceptors from light leaking from adjacent ommatidia." "Dorsal part of the midbrain, consisting of the superior and inferior colliculi and the pretectal nuclei (MM)." "DHBA:12291 BIRNLEX:1032 FMA:83902 BAMS:MTec UMLS:C0039433 TAO:0001353 Wikipedia:Midbrain_tectum SCTID:362394008 MA:0000211 MAT:0000451 neuronames:465 EMAPA:19051 VHOG:0001388 NCIT:C12460 BAMS:Tec EHDAA2:0004474 BM:MB-Tec EFO:0000920 HBA:9101 BTO:0001793" - "Enables the transfer of a substance, usually a specific substance or a group of related substances, from one side of a membrane to the other." "Reactome:R-HSA-5671707 Reactome:R-HSA-5638209 Reactome:R-HSA-6784436 Reactome:R-HSA-429036 Reactome:R-HSA-1236947 Reactome:R-HSA-6784434" + "Enables the transfer of a substance, usually a specific substance or a group of related substances, from one side of a membrane to the other." "Reactome:R-HSA-5671707 Reactome:R-HSA-5638209 Reactome:R-HSA-6784436 Reactome:R-HSA-429036 Reactome:R-HSA-1236947 Reactome:R-HSA-6784434 Reactome:R-HSA-434650" "A biological process whose specific outcome is the progression of an integrated living unit: an anatomical structure (which may be a subcellular structure, cell, tissue, or organ), or organism over time from an initial condition to a later condition." "A sex gland that is part of a female reproductive system." "BTO:0000254 MA:0000383" "Any process that activates or increases the frequency, rate or extent of the formation, arrangement of constituent parts, or disassembly of cytoskeletal structures." "A protein that is a translation product of the mouse Klra4 gene or a 1:1 ortholog thereof." "The successive addition of amino acid residues to a nascent polypeptide chain during protein biosynthesis." - "A specialized cell involved in gustatory sensory perception." "FMA:67910" + "A specialized cell involved in gustatory sensory perception." "ZFA:0009126 FMA:67910" "A proximal epiphysis that is part of a phalanx of manus [Automatically generated definition]." "FMA:226482 SCTID:272704004" "The region extending out from the boundary between sublaminar layers S3 and S4." "CP:0001039" "An endoderm derived structure that produces precursors of digestive enzymes and blood glucose regulating hormones[GO]." "SCTID:181277001 EHDAA2:0001367 EFO:0000855 MAT:0000075 ZFA:0000140 XAO:0000136 GAID:334 EMAPA:17503 VHOG:0000050 EHDAA:6893 MESH:D010179 BTO:0000988 CALOHA:TS-0736 FMA:7198 TAO:0000140 Wikipedia:Pancreas NCIT:C12393 EV:0100092 MA:0000120 AAO:0010112 MIAA:0000075 galen:Pancreas UMLS:C0030274" @@ -7429,7 +7461,7 @@ "A muscle layer that is part of a wall of esophagus." "FMA:62998" "An epithelium that is part of a extraembryonic structure." "A portion of the external acoustic meatus epithelium which makes up the outer (cuticular) layer of the tympanic membrane." "SCTID:39725007 FMA:56819" - "A horn-like keratin structure covering the dorsal aspect of the terminal phalanges of fingers and toes[WP]." "MIAA:0000158 MESH:D009262 EV:0100159 FMA:54326 EMAPA:35580 MA:0002703 galen:Nail VHOG:0001361 UMLS:C0027342 MAT:0000158 EFO:0000956 GAID:1320 CALOHA:TS-2034 Wikipedia:Nail_(anatomy) SCTID:72651009 BTO:0001719 NCIT:C33156" + "A horn-like keratin structure covering the dorsal aspect of the terminal phalanges of fingers and toes[WP]." "MIAA:0000158 EV:0100159 MESH:D009262 FMA:54326 EMAPA:35580 MA:0002703 galen:Nail VHOG:0001361 UMLS:C0027342 MAT:0000158 EFO:0000956 GAID:1320 CALOHA:TS-2034 Wikipedia:Nail_(anatomy) SCTID:72651009 BTO:0001719 NCIT:C33156" "A fibroblast growth factor 8 that is encoded in the genome of mouse." "UniProtKB:P37237" "GC_ID:1" "GC_ID:1" @@ -7462,7 +7494,7 @@ "The regulated release of proteins by a platelet or group of platelets." "Tolerance induction taking place in the nasopharyngeal-associated lymphoid tissue (NALT)." "A pre-cartilage condensation that has the potential to develop into a hindlimb bone." "EMAPA:32638" - "A pigment cell is a cell that contains pigment granules." "VHOG:0001678" + "A pigment cell is a cell that contains pigment granules." "ZFA:0009090 VHOG:0001678" "The process whose specific outcome is the progression of the R8 photoreceptor over time, from its formation to the mature structure. The R8 photoreceptor is the founding receptor of each ommatidium." "The conic expansion of the corpus spongiosum that forms the head of the penis." "GAID:0000012 EMAPA:18988 SCTID:263378009 EV:0100108 UMLS:C0227948 Wikipedia:Glans_penis FMA:18247 BTO:0003118 NCIT:C12324 MA:0002726 VHOG:0001475" "The process in which a relatively unspecialized endothelial cell acquires specialized features of a venous endothelial cell, a thin flattened cell that lines the inside surfaces of veins." @@ -7479,8 +7511,7 @@ "The process in which a branch forms along the side of a ureteric bud." "The developmental process pertaining to the initial formation of the ureteric bud from the Wolffian duct. This process begins when the bud protrudes from the duct and ends when it is a recognizable bud." "The process whose specific outcome is the progression of the fourth ventricle over time, from its formation to the mature structure. The fourth ventricle is an irregularly shaped cavity in the rhombencephalon, between the medulla oblongata, the pons, and the isthmus in front, and the cerebellum behind. It is continuous with the central canal of the cord below and with the cerebral aqueduct above, and through its lateral and median apertures it communicates with the subarachnoid space." - "The most posterior of the three principal regions of the brain. In mammals and birds the hindbrain is divided into a rostral metencephalon and a caudal myelencephalon. In zebrafish, with the exception of the cerebellum, the ventral remainder of the metencephalon can be separated only arbitrarily from the more caudal myelencephalic portion of the medulla oblongata (From: Neuroanatomy of the Zebrafish Brain)[ZFA]. Organ component of neuraxis that has as its parts the pons, cerebellum and medulla oblongata[FMA]." "EHDAA:3514 XAO:0000015 VHOG:0000070 BTO:0000672 MESH:D012249 BIRNLEX:942 FMA:67687 ZFA:0000029 UMLS:C1522180 CALOHA:TS-0457 Wikipedia:Rhombencephalon MBA:1065 MA:0000195 UMLS:C0035507 MIAA:0000107 EHDAA:6487 TAO:0000029 SCTID:303456008 EMAPA:16916 EFO:0000923 DMBA:16808 AAO:0010150 BAMS:HB NCIT:C40336 MAT:0000107 EHDAA2:0000746 neuronames:540 DHBA:10653" - "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 5." + "The most posterior of the three principal regions of the brain. In mammals and birds the hindbrain is divided into a rostral metencephalon and a caudal myelencephalon. In zebrafish, with the exception of the cerebellum, the ventral remainder of the metencephalon can be separated only arbitrarily from the more caudal myelencephalic portion of the medulla oblongata (From: Neuroanatomy of the Zebrafish Brain)[ZFA]. Organ component of neuraxis that has as its parts the pons, cerebellum and medulla oblongata[FMA]." "EHDAA:3514 XAO:0000015 VHOG:0000070 BTO:0000672 MESH:D012249 BIRNLEX:942 FMA:67687 UMLS:C1522180 Wikipedia:Rhombencephalon CALOHA:TS-0457 ZFA:0000029 MBA:1065 MA:0000195 UMLS:C0035507 MIAA:0000107 EHDAA:6487 TAO:0000029 SCTID:303456008 EMAPA:16916 EFO:0000923 DMBA:16808 AAO:0010150 BAMS:HB NCIT:C40336 MAT:0000107 EHDAA2:0000746 neuronames:540 DHBA:10653" "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of a ketone, carried out by individual cells." "Any process that activates or increases the frequency, rate or extent of the process involved in the formation, arrangement of constituent parts, or disassembly of cell projections." "An M7 retinal ganglion cells with synaptic terminals in S2 and is depolarized by decreased illumination of their receptive field center" @@ -7519,16 +7550,17 @@ "The layer of the developing cerebral cortex that is formed from the first cohort of neurons to migrate out of the cortical ventricular zone; split by the second wave into marginal zone and subplate." "EMAPA:35261" "Any process that stops, prevents, or reduces the frequency, rate, or extent of peptide secretion." "Any process that activates or increases the frequency, rate or extent of glutamatergic neuron differentiation." - "External genital organs of the female mammal[WP]." "EV:0100118 VHOG:0001458 EFO:0000978 GAID:383 Wikipedia:Vulva EMAPA:36631 SCTID:265796001 MAT:0000169 CALOHA:TS-1168 galen:Vulva FMA:20462 MIAA:0000169 BTO:0003101 MESH:D014844 MA:0000395 NCIT:C12408 UMLS:C0042993" + "External genital organs of the female mammal[WP]." "EV:0100118 VHOG:0001458 EFO:0000978 GAID:383 Wikipedia:Vulva EMAPA:36631 SCTID:265796001 MAT:0000169 CALOHA:TS-1168 galen:Vulva FMA:20462 MIAA:0000169 BTO:0003101 MA:0000395 MESH:D014844 NCIT:C12408 UMLS:C0042993" "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a cytokine stimulus." "Any process that modulates the frequency, rate or extent of the regulated release of growth hormone from a cell." "Deepest of 3 cytoarchitecturally defined layers of the piriform cortex characterized by a moderately high density of pyramidal cells and large numbers of basal dendrites descending from pyramidal cells in layer 2." "NLXANAT:091009" "Mesenchyme that is part of a pelvic appendage bud." "EMAPA:16781 TAO:0001386 ZFA:0001386 EHDAA2:0001035" "Any process that stops, prevents or reduces the frequency, rate or extent of apoptotic process involved in morphogenesis." + "Any neuron that has its soma located in some posterior lateral line ganglion." "Any process that stops, prevents or reduces the frequency, rate or extent of glycoprotein metabolic process." "The directed movement of melanosomes into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." "The left lobe is smaller and more flattened than the right. It is situated in the epigastric and left hypochondriac regions. Its upper surface is slightly convex and is moulded on to the diaphragm; its under surface presents the gastric impression and omental tuberosity. [WP,unvetted]." "FMA:13363 UMLS:C0227486 VHOG:0001423 SCTID:362183003 ZFA:0005172 NCIT:C32965 Wikipedia:Left_lobe_of_liver EHDAA2:0001000 EMAPA:18307 TAO:0005172 EHDAA:3995 MA:0000361" - "MIAA:0000019 CALOHA:TS-2122 FMA:292313 EHDAA2:0003125 AEO:0000125" + "MIAA:0000019 CALOHA:TS-2122 FMA:292313 EHDAA2:0003125 FBbt:00007006 AEO:0000125" "Anatomical structure embedded in or located in the integument that is part of the integumental system. Examples: hair, follicles, skin glands, claws, nails, feathers." "EMAPA:37883 Wikipedia:Skin_appendage" "The chemical reactions and pathways involving a phenol, any compound containing one or more hydroxyl groups directly attached to an aromatic carbon ring." "UM-BBD_pathwayID:phe" "The tiny hair-like projections that protrude from the inside of the small intestine that contain blood vessels that capture digested nutrients that are absorbed through the intestinal wall; the villi increase the absorptive surface area of the small intestine by approximately 30-fold." "TAO:0005125 Wikipedia:Intestinal_villus MA:0001563 BTO:0003121 UMLS:C1519988 NCIT:C33874 ZFA:0005125 SCTID:23230007 EMAPA:35784 FMA:15072" @@ -7547,9 +7579,8 @@ "A sonic hedgehog protein that has been processed by proteolytic cleavage." "A C-C chemokine receptor type 3 that is encoded in the genome of mouse." "UniProtKB:P51678" "The right lung lobar bronchus mesenchyme is a type of tissue made up of loosely-packed mesenchymal cells in the right lung lobar bronchus." "EMAPA:17665" - "A natural killer cell that is developmentally mature and expresses a variety of inhibitory and activating receptors that recognize MHC class I and other stress related molecules." + "A natural killer cell that is developmentally mature and expresses a variety of inhibitory and activating receptors that recognize MHC class I and other stress related molecules." "ZFA:0009347" - "A mucus secreting cell of a submucosal gland of the tracheobronchial tree." "A white matter of spinal cord that is part of a thoracic spinal cord." "SCTID:367881009 BIRNLEX:999 UMLS:C1288557 UMLS:C0228633" "A process carried out by the organs or tissues of the respiratory system. The respiratory system is an organ system responsible for respiratory gaseous exchange." @@ -7561,7 +7592,7 @@ "A unilaminar epithelium that develops_from a ectoderm and is part of a anal region." "EMAPA:25040 EHDAA2:0004019" "The binding by a cell-adhesion protein on the cell surface to an extracellular matrix component, to mediate adhesion of the cell to another cell." "A protein that is a translation product of the human PLAUR gene or a 1:1 ortholog thereof." "PIRSF:PIRSF002022" - "A subdivision of a the reproductive tract in a female organism that is the site of embryo development." "WBbt:0006760 TADS:0000421" + "A subdivision of a the reproductive tract in a female organism that is the site of embryo development." "WBbt:0006760 TADS:0000421 FBbt:00004924" "A physical quality inhering in a bearer by virtue of the bearer's disposition to recover its size and shape after deformation in any way." "The chamber in the eyeball enclosing the vitreous humor, bounded anteriorly by the lens and ciliary body and posteriorly by the posterior wall of the eyeball[BTO,modified]." "FMA:58848 Wikipedia:Vitreous_chamber MA:0002461 BTO:0002087 NCIT:C33885 UMLS:C0229095 EMAPA:37805" "A protein that is a translation product of the human TBX21 gene or a 1:1 ortholog thereof." @@ -7571,7 +7602,6 @@ "A composite substructure of the brainstem that consists of the midbrain reticular formation, the pontine reticular formation and the medullary reticular formation ( Carpenter-1983 )." "EMAPA:35188 neuronames:1223 FMA:77719 Wikipedia:Reticular_formation MESH:D012154 SCTID:361552007 MA:0003185 BAMS:RET NLX:143558" "Any process that stops, prevents or reduces the frequency, rate or extent of atrial cardiac muscle cell action potential." "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an amine stimulus. An amine is a compound formally derived from ammonia by replacing one, two or three hydrogen atoms by hydrocarbyl groups." - "Anatomical system that consists of all blood and lymph vessels." "NCIT:C33854 UMLS:C0489903 BTO:0001085 MA:0002718 CALOHA:TS-2053 EHDAA2:0004520 EMAPA:35905" "The process whose specific outcome is the progression of the hindgut over time, from its formation to the mature structure. The hindgut is part of the alimentary canal that lies posterior to the midgut." "The orderly movement of a Schwann cell from one site to another. A Schwann cell is a glial cell that ensheathes axons of neuron in the peripheral nervous system and is necessary for their maintainance and function." @@ -7582,6 +7612,7 @@ "Obsolete. Consult Plant Ontology instead. OBSOLETED, not defined prior to obsoletion." "An anatomical wall that is part of a large intestine [Automatically generated definition]." "EMAPA:35470 MA:0002695 FMA:14619" "The internal feminine genital organs, including the ovaries, uterine tubes, uterus, uterine cervix, and vagina." "SCTID:303518005 FMA:45654 BTO:0003099" + "Any kidney arterial blood vessel cell that is part of some renal afferent arteriole." "KUPO:0001038" "Any process that activates or increases the frequency, rate or extent of T-helper 2 cell differentiation." "MA:0001593 NCIT:C33258 EMAPA:32777 UMLS:C0226964 BIRNLEX:4102 UMLS:C1289183 FMA:54819 SCTID:368728006" "An interneuron that has Martinotti morphology. These interneurons are scattered throughout various layers of the cerebral cortex, sending their axons up to the cortical layer I where they form axonal arborization." "NIFEXT:55 ILX:0107375" @@ -7591,14 +7622,13 @@ "CD4-positive, alpha-beta memory T cell with the phenotype CCR7-positive, CD127-positive, CD45RA-negative, CD45RO-positive, and CD25-negative." "Any collection of muscles that is part of a pectoral complex. The pectoral complex comprises the pectoral girdle and the associated limb or fin." "EMAPA:37861 FMA:71296" "An immune response against microbes mediated through a body fluid. Examples of this process are seen in the antimicrobial humoral response of Drosophila melanogaster and Mus musculus." - "Anatomical structure that is an individual member of a species and consists of more than one cell." "EHDAA:1 BIRNLEX:18 EHDAA2:0003103 NCIT:C13041 CARO:0000012 TGMA:0001832 BILA:0000012 FMA:256135 EV:0100016 EFO:0002906 SCTID:243928005 WBbt:0007833 Wikipedia:Multi-cellular_organism EMAPA:25765 ZFA:0001094 BTO:0000042 VHOG:0000671 AAO:0010026 ncithesaurus:Whole_Organism TAO:0001094 galen:Organism BSA:0000038 XAO:0003004 TADS:0000001 HAO:0000012 EHDAA2:0003191 AEO:0000191" + "Anatomical structure that is an individual member of a species and consists of more than one cell." "EHDAA:1 BIRNLEX:18 EHDAA2:0003103 NCIT:C13041 CARO:0000012 TGMA:0001832 BILA:0000012 FMA:256135 EV:0100016 EFO:0002906 SCTID:243928005 WBbt:0007833 Wikipedia:Multi-cellular_organism EMAPA:25765 ZFA:0001094 BTO:0000042 VHOG:0000671 AAO:0010026 ncithesaurus:Whole_Organism TAO:0001094 galen:Organism FBbt:00000001 BSA:0000038 XAO:0003004 TADS:0000001 HAO:0000012 EHDAA2:0003191 AEO:0000191" "Zone of long bone that is between the epiphysis and diaphysis. Subdivision of diaphysis which forms the proximal or distal end of diaphysis next to the epiphysis; together with diaphysis proper, it constitutes the diaphysis. Examples: proximal metaphysis of humerus, distal metaphysis of femur.[FMA]." "UMLS:C0222671 NCIT:C52723 MA:0001363 EMAPA:35509 Wikipedia:Metaphysis FMA:24014 SCTID:304581004" "An epithelium that is part of a lens vesicle." "VHOG:0000532 EMAPA:17165 EHDAA2:0000987" - "A specifically dependent continuant that inheres in continuant entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances."@en "A bushy cell that receives a large number of medium-sized synapses, called modified endbulbs. Globular bushy cells extend to the superior olive on both sides of the brainstem where they give input to the bipolar neurons." "Immature dermal dendritic cell is a dermal dendritic cell that is CD80-low, CD86-low, and MHCII-low." "A CD48 molecule that is encoded in the genome of mouse." "UniProtKB:P18181" - "A non-striated, elongated, spindle-shaped cell found lining the digestive tract, uterus, and blood vessels. They develop from specialized myoblasts (smooth muscle myoblast)." "BTO:0004576 FMA:14072 CALOHA:TS-2159" + "A non-striated, elongated, spindle-shaped cell found lining the digestive tract, uterus, and blood vessels. They develop from specialized myoblasts (smooth muscle myoblast)." "ZFA:0009118 BTO:0004576 FMA:14072 CALOHA:TS-2159" "Any process that activates or increases the frequency, rate or extent of microtubule polymerization or depolymerization." "A gland that secretes products (excluding hormones and other chemical messengers) into ducts (duct glands) which lead directly into the external environment[WP]. Typical exocrine glands include sweat glands, salivary glands, mammary glands, stomach, liver, pancreas." "CALOHA:TS-2012 Wikipedia:Exocrine_gland MA:0002564 EMAPA:35327 NCIT:C12712 FMA:9596 MESH:D005088 UMLS:C0015282 EHDAA2:0003097 BTO:0000765 GAID:34 SCTID:115976003 AEO:0000097" "The portion of the yolk sac that is derived from mesoderm and consists of mesenchyme." "EMAPA:16087 EMAPA:16267 EHDAA:168 EHDAA:205 VHOG:0000617 VHOG:0000503 EHDAA2:0002216" @@ -7611,7 +7641,6 @@ "Generation of cells within the nervous system." "Wikipedia:Neurogenesis" "Any process that stops, prevents or reduces the frequency, rate or extent of a signaling receptor activity." "The outflow tract septum is a partition in the outflow tract." "XAO:0004141" - "Organ with organ cavity, which has as parts a serous membrane and a serous cavity . Examples: pleural sac, pericardial sac, tendon sheath, bursa.[FMA]." "SCTID:362890006 FMA:9689" "The process in which the anatomical structures of the mesonephric renal vesicle are generated and organized. The renal vesicle is the primordial structure of the mesonephric nephron epithelium, and is formed by the condensation of mesenchymal cells." "The vertical crest of the interior wall of the right atrium that lies to the right of the sinus of the vena cava and separates this from the remainder of the right atrium." "FMA:9236 Wikipedia:Crista_terminalis EMAPA:37837 SCTID:277693004" @@ -7624,9 +7653,9 @@ "A specialized, fibroblastic reticular cell of mesenchymal origin found in lymph nodes. In human, it expresses several markers common to myofibroblasts (desmin, vimentin, CD73, CD90, α-smooth muscle actin (αSMA)), and can be differentiated from endothelial cells by its lack of CD31 expression. These cells are critical for the overall organization and function of the lymph node. Lymph node fibroblastic reticular cells (FRCs) can be further classified based on their location, function, and unique marker expression." "Any process that stops, prevents, or reduces the frequency, rate or extent of cell activation." "A protein that is a stand alone version of the Glycosyltransferase family 10 (fucosyltransferase) (Pfam:PF00852) domain. Proteins in this class may catalyze alpha-1,3 glycosidic linkages." "PIRSF:PIRSF005726" + "Any process in which external signals modulate the frequency, rate or extent of cell growth, the irreversible increase in size of a cell over time." "A goblet cell that is part of the small intestine." "FMA:86929" "FMA:14652" - "Any process that stops, prevents or reduces the frequency, rate or extent of pro-B cell differentiation." "A nuclear receptor ROR-gamma isoform 2 that is encoded in the genome of mouse." "UniProtKB:P51450-2" @@ -7645,7 +7674,6 @@ "A lactosylceramide 4-alpha-galactosyltransferase that is encoded in the genome of mouse." "UniProtKB:Q67BJ4" "Any process that stops, prevents or reduces the frequency, rate or extent of macrophage migration." "Any process that modulates the rate, frequency, or extent of branching morphogenesis in the salivary gland epithelium." - "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a glucocorticoid stimulus. Glucocorticoids are hormonal C21 corticosteroids synthesized from cholesterol with the ability to bind with the cortisol receptor and trigger similar effects. Glucocorticoids act primarily on carbohydrate and protein metabolism, and have anti-inflammatory effects." "Any keratinocyte that is part of a hair follicle." "A serous sac that has the pleura and the pleural cavity as parts." "SCTID:361996004 FMA:9690 EHDAA2:0004737" @@ -7675,8 +7703,8 @@ "A testis that is in the right side of the genitalia [Automatically generated definition]." "NCIT:C49326 UMLS:C0227997 FMA:7211 EMAPA:37371 SCTID:367719007 MA:0001747" "A CD8-positive, alpha-beta T cell that has the phenotype CXCR3-negative, CCR6-negative." "Any process that modulates the frequency, rate or extent of hepatocyte differentiation." - "KUPO:0001080" "A receptor-type tyrosine-protein phosphatase C that is a translation product of a transcript that minimally includes the region encoded by the variable exon 4(A)." + "Any kidney cortex artery cell that is part of some kidney arcuate artery." "KUPO:0001078" "A concave quality inhering in a bearer by virtue of the bearer's curving inward on both sides or surfaces." "The process whose specific outcome is the progression of the urinary bladder over time, from its formation to the mature structure. The urinary bladder is an elastic, muscular sac situated in the anterior part of the pelvic cavity in which urine collects before excretion." @@ -7686,7 +7714,7 @@ "The process whose specific outcome is the progression of the bone marrow over time, from its formation to the mature structure." "The process whose specific outcome is the progression of the cloaca over time, from it's formation to the mature structure. The cloaca is the common chamber into which intestinal, genital and urinary canals open in vertebrates." "The juxtaglomerular apparatus lies adjacent to the glomerulus and regulates kidney function by maintaining the blood flow to the kidney and the filtration rate[GO]." - + "FBbt:00004213" "Any apoptotic process in a myofibroblast cell." "A tissue-resident macrophage found in the mucosa associated lymphoid tissue." "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving amines." @@ -7696,20 +7724,20 @@ "A (free) limb that is connected to a pectoral girdle. The extent of this structure includes autopod, stylopod and zeugopod regions when present, but excludes the pectoral girdle and its parts." "MA:0000025 galen:UpperExtremity EHDAA:6208 MIAA:0000394 Wikipedia:Forelimb CALOHA:TS-2214 BTO:0001729 EMAPA:17412 SCTID:182245002 EV:0100014 EHDAA2:0002133 UMLS:C1140618 GAID:51 MAT:0000394 VSAO:0000148 GAID:1215 VHOG:0000338 XAO:0003030 NCIT:C12671 AAO:0000205 FMA:24878 EFO:0000882 MESH:D005552" "Muscle tissue is a contractile tissue made up of actin and myosin fibers[GO]." "MA:0002437 AAO:0000306 NCIT:C12435 UMLS:C2328219 SCTID:91727004 EHDAA2:0003122 AEO:0000122 FMA:9641 Wikipedia:Muscle_tissue EMAPA:32715 galen:MuscleTissue CALOHA:TS-0642 MESH:D009132" "OBSOLETE. A cell that is found in a natural setting, which includes multicellular organism cells 'in vivo' (i.e. part of an organism), and unicellular organisms 'in environment' (i.e. part of a natural environment)." "CARO:0000013" + "Any urothelial cell that is part of some urethra urothelium." "KUPO:0001124" "A pia mater that is part of a spinal cord [Automatically generated definition]." "NCIT:C49800 EHDAA2:0001896 UMLS:C1710148 EMAPA:17807 VHOG:0000468 MA:0001133" "The locus ceruleus is a dense cluster of neurons within the dorsorostral pons. This nucleus is the major location of neurons that release norepinephrine throughout the brain, and is responsible for physiological responses to stress and panic[GO]. Bluish region in the superior angle of the fourth ventricle floor, corresponding to melanin-like pigmented nerve cells which lie lateral to the ponto-mesencephalic central gray (griseum centrale). It is also known as nucleus pigmentosus pontis[GAID]." "BTO:0001408 FMA:72478 BAMS:LC BIRNLEX:905 ZFA:0000539 MBA:147 UMLS:C0023951 MESH:D008125 NCIT:C97333 DMBA:16972 BM:Pons-LC EFO:0001963 EMAPA:35502 HBA:9148 GAID:577 DHBA:12819 MA:0001017 TAO:0000539 BAMS:CAE neuronames:583 Wikipedia:Locus_ceruleus SCTID:369016004" "An epithelium that is part of a pinna." "EHDAA:8983 VHOG:0000632 EHDAA2:0001470 EMAPA:17592" "The orderly movement of an endothelial cell into the extracellular matrix to form an endothelium." "A T cell found in the lymph node medullary sinus." - "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving nitrogen or nitrogenous compounds." "A GABAergic cortical interneuron that develops from the caudal ganglionic eminence and has migrated to the cerebral cortex." "The process in which the wraps of cell membrane that constitute myelin are laid down around an axon in the central or peripheral nervous system." - "A specialized osteoclast associated with the absorption and removal of cementum." "FMA:83027 BTO:0002516" + "A specialized osteoclast associated with the absorption and removal of cementum." "ZFA:0009270 FMA:83027 BTO:0002516" "A amacrine cell with a small dendritic field and post-synaptic terminals in S1, S2, S3, and S4. AB diffuse-1 amacrine cells have a tent-shaped dendritic arbor and undulate dendrites." - "A memory B cell is a mature B cell that is long-lived, readily activated upon re-encounter of its antigenic determinant, and has been selected for expression of higher affinity immunoglobulin. This cell type has the phenotype CD19-positive, CD20-positive, MHC Class II-positive, and CD138-negative." + "A memory B cell is a mature B cell that is long-lived, readily activated upon re-encounter of its antigenic determinant, and has been selected for expression of higher affinity immunoglobulin. This cell type has the phenotype CD19-positive, CD20-positive, MHC Class II-positive, and CD138-negative." "ZFA:0009333" "A neural arch that is part of a cervical vertebra." "FMA:23893 SCTID:165269004" "The His-Purkinje system receives signals from the AV node and is composed of the fibers that regulate cardiac muscle contraction in the ventricles." - "The basic functional unit of the kidney. its chief function is to regulate the concentration of water and soluble substances like sodium salts by filtering the blood, reabsorbing what is needed and excreting the rest as urine. A nephron eliminates wastes from the body, regulates blood volume and blood pressure, controls levels of electrolytes and metabolites, and regulates blood pH. Its functions are vital to life and are regulated by the endocrine system by hormones such as antidiuretic hormone, aldosterone, and parathyroid hormone.[WP]." "NCIT:C13048 MA:0000375 CALOHA:TS-1312 FMA:17640 EV:0100384 BTO:0000924 EMAPA:35592 Wikipedia:Nephron MESH:D009399 EMAPA:28491 SCTID:361337001 ZFA:0005282 UMLS:C0027713 GAID:428 TAO:0002153" + "The basic functional unit of the kidney. its chief function is to regulate the concentration of water and soluble substances like sodium salts by filtering the blood, reabsorbing what is needed and excreting the rest as urine. A nephron eliminates wastes from the body, regulates blood volume and blood pressure, controls levels of electrolytes and metabolites, and regulates blood pH. Its functions are vital to life and are regulated by the endocrine system by hormones such as antidiuretic hormone, aldosterone, and parathyroid hormone.[WP]." "MA:0000375 CALOHA:TS-1312 FMA:17640 EV:0100384 BTO:0000924 EMAPA:35592 Wikipedia:Nephron MESH:D009399 EMAPA:28491 SCTID:361337001 ZFA:0005282 UMLS:C0027713 GAID:428 TAO:0002153 NCIT:C13048" "The chemical reactions and pathways involving any organic compound that is weakly basic in character and contains an amino or a substituted amino group. Amines are called primary, secondary, or tertiary according to whether one, two, or three carbon atoms are attached to the nitrogen atom." "The expansion of a neuroblast population by cell division. A neuroblast is any cell that will divide and give rise to a neuron." @@ -7718,7 +7746,6 @@ "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of hormones." "A cell in the zona reticularis that produce sex hormones." "FMA:69564" "The process whose specific outcome is the progression of an epithelium in the mesonephros over time, from its formation to the mature structure. An epithelium is a tissue that covers the internal or external surfaces of an anatomical structure." - "KUPO:0001079" "The process in which the anatomical structures of a tissue are generated and organized." "The process in which a relatively unspecialized cell acquires specialized features of a columnar/cuboidal epithelial cell of the intestine." "The process in which spores form outside a specialized end cell known as a basidium. Basidia are characteristic of the basidiomycete fungi (phylum Basidiomycota), and give rise to spores that each contain a haploid nucleus that is the product of meiosis. The spores are usually attached to the basidium by short spikes called sterigmata (singular: sterigma). In most basidiomycetes there are four sterigmata (and four spores) to a basidium." @@ -7736,7 +7763,6 @@ "The directed killing of a target cell by a natural killer cell through the release of granules containing cytotoxic mediators or through the engagement of death receptors." "A mesothelial fibroblast of the arachnoid barrier layer. Arachnoid barrier cells make up the tight-junctioned layer in the leptomeninx that functions as the physiologic barrier between the cerebrospinal fluid in the subarachnoid space and the fenestrated capillaries in the dura." "A blastoconidium that has only one nucleus." "FAO:0000030" - "KUPO:0001076" "The portion of the yolk sac that is derived from endoderm and lines the yolk sac." "VHOG:0000626 EMAPA:16086 EHDAA2:0002215 EHDAA:166" "An organ cavity that is part of a urethra." "SCTID:279432008 FMA:19709" "A portion of cardiac muscle tissue that is part of a cardiac septum [Automatically generated definition]." "FMA:226279" @@ -7752,7 +7778,7 @@ "A functional anatomical construct containing the key estrogen-regulated inputs to gonadotropin-releasing hormone expressing (GnRH) neurons necessary for estrogen positive feedback. The rostral periventricular region of the third ventricle contains a population of neurons, scattered through the nuclei of the anteroventral periventricular (AVPV), periventricular preoptic (PVpo), and median preoptic (MEPO), that project directly to GnRH neurons and express ER-alpha." "Endoderm-lined chamber that develops as pouch-like dilation of the caudal end of the hindgut and receives the allantois ventrally and two mesonephric ducts laterally; caudally it ends blindly at the cloacal membrane formed by the union of proctodeal (anal pit) ectoderm and cloacal endoderm, with no intervening mesoderm[MP]." "EHDAA2:0000256 EMAPA:27573 Wikipedia:Cloaca_(embryology) EHDAA:4895" "A zone of skin that is part of a pelvis [Automatically generated definition]." "MA:0000546 EMAPA:37282 FMA:22984 SCTID:181517009" - "A peptide hormone secreting cell that secretes substance P." + "A peptide hormone secreting cell that secretes substance P." "ZFA:0009230" "A myoepithelial cell that is part of the intralobular part of terminal lactiferous duct." "FMA:62158" "A tall supporting cell that is arranged in rows adjacent to the last row of outer phalangeal cells. This cell type constitutes the outer border of the organ of Corti." "FMA:79799" "A subarachnoid space that is part of a diencephalon [Automatically generated definition]." "VHOG:0001302 EMAPA:19053" @@ -7766,10 +7792,9 @@ "A mucosa that is part of an anal canal [Automatically generated definition]." "EMAPA:27531 SCTID:362170004 NCIT:C60784 FMA:74654 UMLS:C0227414" "An exocrine gland which secretes bile and functions in metabolism of protein and carbohydrate and fat, synthesizes substances involved in the clotting of the blood, synthesizes vitamin A, detoxifies poisonous substances, stores glycogen, and breaks down worn-out erythrocytes[GO]." "GAID:288 ZFA:0000123 EFO:0000887 MAT:0000097 AAO:0010111 VHOG:0000257 MESH:D008099 EMAPA:16846 BTO:0000759 MIAA:0000097 UMLS:C0023884 XAO:0000133 EHDAA:2197 galen:Liver SCTID:181268008 EHDAA2:0000997 Wikipedia:Liver TAO:0000123 CALOHA:TS-0564 EV:0100089 FMA:7197 NCIT:C12392 MA:0000358" "Obsolete. Use PO:0000332 from Plant Ontology instead. An epidermal cell with a characteristic convoluted anticlinal cell wall that gives a jigsaw like appearance to the lamina." - "A cubodial epithelial cell that is continuous with the lining of intercalated ducts that drain the acinus. This cell type secretes a high pH solution to aid in activation of zymogens, and can differentiate into endocrine and exocrine pancreatic cell types." "FMA:62455" + "A cubodial epithelial cell that is continuous with the lining of intercalated ducts that drain the acinus. This cell type secretes a high pH solution to aid in activation of zymogens, and can differentiate into endocrine and exocrine pancreatic cell types." "ZFA:0005740 FMA:62455" "Any process that stops, prevents or reduces the rate or extent of epithelial cell proliferation." "The change in morphology and behavior of a natural killer cell in response to a cytokine, chemokine, cellular ligand, or soluble factor." - "A zone of skin that is part of the external genitalia." "Any process that modulates the occurrence or rate of thymocyte death by apoptotic process." @@ -7778,7 +7803,6 @@ "The chemical reactions and pathways resulting in the formation of carboxylic acids, any organic acid containing one or more carboxyl (-COOH) groups." "Any process that increases the rate, frequency or extent of granulocyte chemotaxis. Granulocyte chemotaxis is the movement of a granulocyte in response to an external stimulus." "A nucleus of brain that is part of a trigeminal nuclear complex." "GAID:604 MESH:D014278 NCIT:C12807 BM:V BTO:0001074 UMLS:C0040999 CALOHA:TS-2077 EMAPA:35883 http://uri.neuinfo.org/nif/nifstd/nifext_11 MA:0001028 EV:0100271 VHOG:0001353 SCTID:280164007 FMA:71247" - "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])"@en "GC_ID:1" "Any negative regulation of signal transduction that takes place in extracellular region." "A bistratfied retinal ganglion cell with a small dendritic field that has dendrites in the ON and OFF sublamina of the retinal inner plexiform layer and carries blue-ON/yellow-OFF signals. This cell receives bipolar and amacrine input to both the OFF and ON dendritic tree." @@ -7788,6 +7812,7 @@ "An anatomical space that is enclosed by a fundus of stomach." "EMAPA:18382 FMA:17077" "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a microvillus on a follicle cell. A microvillus is a thin cylindrical membrane-covered projection on the surface of an animal cell containing a core bundle of actin filaments." "Any process that modulates the frequency, rate or extent of attachment of a cell to another cell or to the extracellular matrix and contributes to the shaping of the growth plate cartilage of an endochondral bone." + "Any kidney blood vessel cell that is part of some renal vein." "KUPO:0001031" "Any process that stops, prevents, or reduces the frequency, rate or extent of differentiation of CD4-positive, CD25-positive, alpha-beta regulatory T cells as part of an immune response." "A fibroblast of the periodontium." "An epiphysis that is part of a middle phalanx of pes." "SCTID:280048001" @@ -7809,6 +7834,7 @@ "Matrix compartment located in the caudate nucleus." "NLXANAT:20090504" "Blood vessels supplying the stria vascularis in the cochlea of the inner ear." "The large glutaminergic nerve cells whose dendrites synapse with axons of the olfactory receptor neurons in the glomerular layer of the olfactory bulb, and whose axons pass centrally in the olfactory tract to the olfactory cortex." + "Any process that modulates the frequency, rate or extent of transcription regulatory region DNA binding." "FMA:79793 EHDAA2:0001384" "A fibroblast that is part of the skin of scalp." @@ -7824,6 +7850,7 @@ "A crystal cell that derives from the embryonic head mesoderm." "FBbt:00001690" "A G protein-coupled receptor activity occurring in the postsynaptic membrane that is part of a GPCR signaling pathway that positively regulates ion channel activity in the postsynaptic membrane." "FMA:79794 EHDAA2:0001387" + "Any ureteral cell that is part of some adventitia of ureter." "KUPO:0001119" "Hard bony, calcareous, or chitinous organ found in the mouth or pharynx of an animal and used in procuring or masticating food." "HAO:0001019" "The establishment of the sex of a female organism by physical differentiation." "A serous membrane that is part of a gallbladder [Automatically generated definition]." "SCTID:362197006 EMAPA:35372 FMA:14659 MA:0001634" @@ -7832,7 +7859,6 @@ "Nephric tubules (nephrons) form embryonically along the nephric ridge. The ridge comprises three regions; anterior, middle and posterior. The functional kidney uses nephrons from only one or two regions of the ridge. A pronephric kidney uses only the nephrons from the anterior region of the ridge. A mesonephric kidney uses only the middle region, a metanephric kidney uses only the posterior region and an opisthonephric kidney uses the middle and posterior regions." "VHOG:0001240 EMAPA:16368 EHDAA2:0001242 EHDAA:1015" "The process whose specific outcome is the progression of the cerebellar cortex over time, from its formation to the mature structure. The cerebellar cortex is a thin mantle of gray matter that covers the surface of each cerebral hemisphere. It has a characteristic morphology with convolutions (gyri) and crevices (sulci) that have specific functions. Six layers of nerve cells and the nerve pathways that connect them comprise the cerebellar cortex. Together, these regions are responsible for the processes of conscious thought, perception, emotion and memory as well as advanced motor function." "A muscle of back that is part of a dorsal thoracic segment of trunk." "EMAPA:37261 MA:0000508 SCTID:305071003" - "KUPO:0001075" "The process whose specific outcome is the progression of a pancreatic delta cell over time, from its formation to the mature structure. A delta cell is a cell of the pancreas that produces somatostatin." "One of the two small elevations on the mucosa of the duodenum, the major at the entrance of the conjoined pancreatic and common bile ducts and the minor at the entrance of the accessory pancreatic duct." "EMAPA:18662 MA:0003107 FMA:15953 NCIT:C119578 SCTID:245389007" "The whole of the physical, chemical, and biochemical processes carried out by multicellular organisms to break down ingested nutrients into components that may be easily absorbed and directed into metabolism." "Wikipedia:Digestion" @@ -7845,7 +7871,6 @@ "Binding to a glycan (polysaccharide) containing a substantial proportion of aminomonosaccharide residues." "An epithelium surrounding an ovary." "BTO:0003661" "Osteoblast that is terminally differentiated, located adjacent to acellular or cellular bone tissue within periosteum, and is capable of mineralizing the matrix." "VSAO:0000116" - "The chemical reactions and pathways resulting in the formation of aromatic compounds, any substance containing an aromatic carbon ring." "The liquid component of blood, in which erythrocytes are suspended." "GAID:1178 MIAA:0000052 Wikipedia:Blood_plasma MESH:D010949 EMAPA:35690 CALOHA:TS-0800 FMA:62970 MAT:0000052 NCIT:C13356 UMLS:C0032105 EFO:0001905 BTO:0000131 MA:0002501" "FMA:79837" "Any process that stops, prevents or reduces the frequency, rate or extent of glutamate secretion, neurotransmission." @@ -7883,6 +7908,7 @@ "The portion of the plasma membrane surrounding a neuron projection." "A transport vesicle that mediates transport from an intracellular compartment to the plasma membrane, and fuses with the plasma membrane to release various cargo molecules, such as proteins or hormones, by exocytosis." "A peptide hormone secreting cell that secretes growth hormone releasing hormone." + "Any nephron tubule epithelial cell that is part of some renal connecting tubule." "KUPO:0001058" "A protein that is a translation product of the human MERTK gene or a 1:1 ortholog thereof." "IUPHARobj:1837" "The process whose specific outcome is the progression of the accessory nerve over time, from its formation to the mature structure. In mice, the spinal branch of this motor nerve innervates the trapezius and the sternocleidomastoid muscles. The cranial branch joins the vagus nerve and innervates the same targets as the vagus nerve." "A bud is a protrusion that forms from an epithelial sheet by localized folding." "BTO:0001639" @@ -7915,8 +7941,8 @@ "Thickened areas of the saccule or utricle where the termination of the vestibular nerve occurs[MESH,modified]." "ZFA:0000386 GAID:777 MESH:D008267 TAO:0000386" "An intestinal crypt stem cell that is located in the colon." "A thymocyte that has the phenotype CD4-negative, CD8-positive, CD44-negative, CD25-negative, and pre-TCR-positive." - "Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells." - "A cuboidal epithelial cell of the kidney which secretes acid and reabsorbs base to regulate acid/base balance." + "Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells." "ZFA:0007084" + "A cuboidal epithelial cell of the kidney which secretes acid and reabsorbs base to regulate acid/base balance." "ZFA:0009376" "A tyrosine-protein phosphatase non-receptor type substrate 1 that is encoded in the genome of mouse." "UniProtKB:P97797" "Any process that increases the rate, frequency or extent of neuron projection development. Neuron projection development is the process whose specific outcome is the progression of a neuron projection over time, from its formation to the mature structure. A neuron projection is any process extending from a neural cell, such as axons or dendrites (collectively called neurites)." "The chemical reactions and pathways involving mineralocorticoids, hormonal C21 corticosteroids synthesized from cholesterol. Mineralocorticoids act primarily on water and electrolyte balance." @@ -7928,7 +7954,7 @@ "A GABAergic interneuron whose soma is located in the cerebral cortex." - "A light sensing organ composed of ommatidia." "HAO:0000217 TGMA:0000024 BTO:0001921 Wikipedia:Compound_eye" + "A light sensing organ composed of ommatidia." "HAO:0000217 TGMA:0000024 FBbt:00004508 BTO:0001921 Wikipedia:Compound_eye" "Any process that activates or increases the frequency, rate or extent of lymphocyte death by apoptotic process." "A muscle tissue that is part of a prostate gland." "SCTID:251498008 UMLS:C1183911 NCIT:C13100" @@ -7940,7 +7966,7 @@ "A bone element or fused bone that is part of pelvic girdle." "UMLS:C0030786 SCTID:426214007 MA:0000293 NCIT:C33287" "Any process that modulates the rate, frequency, or extent of a response to cytokine stimulus." "The directed movement of calcium (Ca) ions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." - "A peptide hormone cell that secretes prolactin." + "A peptide hormone cell that secretes prolactin." "ZFA:0009204" "A quality of a single cell inhering in the bearer by virtue of the bearer's size or shape or structure." "Medullary portion of thymus. The reticulum is coarser than in the cortex, the lymphoid cells are relatively fewer in number, and there are found peculiar nest-like bodies, the concentric corpuscles of Hassall. These concentric corpuscles are composed of a central mass, consisting of one or more granular cells, and of a capsule formed of epithelioid cells. They are the remains of the epithelial tubes, which grow out from the third branchial pouches of the embryo to form the thymus. Each follicle is surrounded by a vascular plexus, from which vessels pass into the interior, and radiate from the periphery toward the center, forming a second zone just within the margin of the medullary portion. In the center of the medullary portion there are very few vessels, and they are of minute size." "UMLS:C0229949 EFO:0001969 EMAPA:19305 FMA:72206 SCTID:188344009 NCIT:C33775 BTO:0004560 MA:0000771 Wikipedia:Thymus#Medulla" "The process in which the anatomical structures of the lung are generated and organized." @@ -7984,14 +8010,13 @@ "A mucosa that is part of a oral opening [Automatically generated definition]." "SCTID:362083000" "The process in which a cardiac muscle precursor cell acquires specialized features of a cardiac muscle cell. Cardiac muscle cells are striated muscle cells that are responsible for heart contraction." "Any process that modulates the frequency, rate or extent of amniotic stem cell differentiation." - "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 4." "Any muscle organ that is part of a forelimb zeugopod (lower arm)[Automatically generated definition]." "EMAPA:32622 FMA:37371 MA:0000600 SCTID:181631004" "The adrenal gland medulla that is in the left side of the abdomen." "FMA:69092" "The process in which a relatively unspecialized myeloid precursor cell acquires the specialized features of a monocyte." "Any process that alters the size or shape of a vestibular receptor cell." - "A stem cell that can give rise to multiple lineages of cells." "FMA:84789" + "A stem cell that can give rise to multiple lineages of cells." "ZFA:0009020 FMA:84789" "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus reflecting the presence, absence, or concentration of oxygen." - "Neuromast hair cell is a hair cell that acts as a sensory receptor of the neuromast; it is morphologically polarized as a result of the relative position of the single kinocilium and the clusters of stereocilia on its apical surface." + "Neuromast hair cell is a hair cell that acts as a sensory receptor of the neuromast; it is morphologically polarized as a result of the relative position of the single kinocilium and the clusters of stereocilia on its apical surface." "ZFA:0009367" "A CD9 molecule that is encoded in the genome of human." "UniProtKB:P21926" "The glenohumeral joint, commonly known as the shoulder joint, is a multiaxial synovial ball and socket joint and involves articulation between the glenoid fossa of the scapula (shoulder blade) and the head of the humerus (upper arm bone). [WP,unvetted]." "MESH:D012785 NCIT:C33548 Wikipedia:Glenohumeral_joint FMA:25912 EMAPA:19105 SCTID:182168000 UMLS:C0037009 galen:ShoulderJoint GAID:269 VHOG:0001002 MA:0000459" "Any process that reduces the extent to which blood vessels can be pervaded by fluid." @@ -8001,14 +8026,14 @@ "A glial fibrillary acidic protein that is encoded in the genome of mouse." "UniProtKB:P03995" "An adventitia that is part of a epididymis." "FMA:19136 EMAPA:30443" "Epithelium which consists of more than one layer of epithelial cells that may or may not be in contact with a basement membrane. Examples: keratinized stratified squamous epithelium, ciliated stratified columnar epithelium.[FMA]." "EHDAA2:0003069 SCTID:309044005 FMA:45562 Wikipedia:Stratified_epithelium BTO:0002074 BILA:0000069 HAO:0000069 AEO:0000069 ZFA:0001494 NCIT:C33622 XAO:0004006 TAO:0001494 UMLS:C0682575 CARO:0000069 AAO:0010059" - "Any process that activates or increases the frequency, rate or extent of the directed movement of epinephrine into a cell." "The process in which the anatomical structure of the central nervous system is generated and organized. The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the brain and spinal cord. In those invertebrates with a central nervous system it typically consists of a brain, cerebral ganglia and a nerve cord." "An immature alpha-beta T cell that is located in the thymus and is CD8-positive and CD4-negative." "A CD83 molecule that is encoded in the genome of human." "UniProtKB:Q01151" - "A granule cell that has a soma located in an olfactory bulb granule cell layer. An olfactory granule cell is an interneuron that lacks an axon, makes reciprocal dendro-dendritic synapses with mitral cells and tufted cells and is involved in the fine spatio-temporal tuning of the responses of these principal olfactory bulb neurons to odors." + "A granule cell that has a soma located in an olfactory bulb granule cell layer. An olfactory granule cell is an interneuron that lacks an axon, makes reciprocal dendro-dendritic synapses with mitral cells and tufted cells and is involved in the fine spatio-temporal tuning of the responses of these principal olfactory bulb neurons to odors." "ZFA:0001694" "The directed movement of a T cell in response to an external stimulus. A T cell is a type of lymphocyte whose defining characteristic is the expression of a T cell receptor complex." "Any process that activates or increases the frequency, rate, or extent of an adaptive immune response." "The cell adhesion process in which mammary mesenchyme cells adhere to one another in the initial stages of the formation of mammary fat development." + "The directed movement of a proton across a membrane." "The organism subdivision that includes the pelvic girdle skeleton and associated soft tissue. Note that this includes both the skeletal elements and associated tissues (integument, muscle, etc). Examples: There are only two instances in an organism, right and left pelvic girdle regions." "EMAPA:37862 NCIT:C33291 VSAO:0000304 UMLS:C0684083 FMA:16581 SCTID:360010001" "A somatic muscle cell that is oblquely striated. Examples include the somatic muscles of nematodes." "Any process that modulates the frequency, rate or extent of the directed movement of ions from one side of a membrane to the other." @@ -8019,6 +8044,7 @@ "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a maxillary process mesenchyme." "EHDAA2:0004602" "A material entity consisting of multiple components that are causally integrated." "The orderly movement of a hepatic stellate cell from one site to another." + "Any peritubular capillary endothelial cell that is part of some outer renal medulla peritubular capillary." "KUPO:0001066" "An endothelial cell that is part of a respiratory system lymphatic vessel." "EFO:0010667" "A size quality which is relatively high." "Any process that activates or increases the frequency, rate or extent of myofibroblast cell apoptotic process." @@ -8084,10 +8110,12 @@ "A process projection from a part of the vertebra such as centrum or arches. Examples: transverse process, diapophyses, parapophyses, and zygapophyses (both the cranial zygapophyses and the caudal zygapophyses)." "AAO:0000739 Wikipedia:Vertebral_column#Structure_of_individual_vertebrae FMA:24530" "Any biological process that results in permanent cessation of all vital functions of a cell. A cell should be considered dead when any one of the following molecular or morphological criteria is met: (1) the cell has lost the integrity of its plasma membrane; (2) the cell, including its nucleus, has undergone complete fragmentation into discrete bodies (frequently referred to as apoptotic bodies). The cell corpse (or its fragments) may be engulfed by an adjacent cell in vivo, but engulfment of whole cells should not be considered a strict criteria to define cell death as, under some circumstances, live engulfed cells can be released from phagosomes (see PMID:18045538)." + "Enables the transfer of histamine from one side of a membrane to the other." "A nerve fiber that is part of a trigeminal nerve." "UMLS:C0175452 BIRNLEX:974 neuronames:607 FMA:72501 BAMS:5nf" "Any process that modulates the rate or extent of heart growth. Heart growth is the increase in size or mass of the heart." "A system of fluid passages in the inner ear, including both the cochlea, which is part of the auditory system, and the vestibular system, which provides the sense of balance. The bony labyrinth, or osseous labyrinth, is the network of passages with bony walls lined with periosteum. The bony labyrinth is lined with the membranous labyrinth. There is a layer of perilymph between them. The three parts of the bony labyrinth are the vestibule of the ear, the semicircular canals, and the cochlea. The vestibular system is the region of the inner ear where the semicircular canals converge, close to the cochlea (the hearing organ). The vestibular system works with the visual system to keep objects in focus when the head is moving. Joint and muscle receptors also are important in maintaining balance. The brain receives, interprets, and processes the information from these systems that control our balance. [WP,unvetted]." "CALOHA:TS-2080 BTO:0004685 AAO:0011078 SCTID:279727008 VHOG:0001219 XAO:0000193 Wikipedia:Bony_labyrinth NCIT:C33227 EMAPA:36580 MA:0000238 EV:0100362 UMLS:C0458699 FMA:60179" + "Any process that stops, prevents, or reduces the frequency, rate or extent of the activity of a transcription factor, any factor involved in the initiation or regulation of transcription." "The regulated release of histamine by a basophil or group of basophils." "The pulmonary artery that supplies the right lung." "galen:RightPulmonaryArtery Wikipedia:Right_pulmonary_artery UMLS:C0923924 SCTID:244235003 NCIT:C33489 MA:0002500 EMAPA:37378 FMA:50872" "A subdivision of the head that corresponds to the jaw skeleton, containing both soft tissue, skeleton and teeth (when present). The jaw region is divided into upper and lower regions." "NCIT:C114916 EMAPA:32905" @@ -8106,7 +8134,7 @@ "An adventitia that is part of a vas deferens." "SCTID:299803005 FMA:19238 EMAPA:29767" "The process in which a mesodermal, bone marrow or neural crest cell acquires specialized features of an endothelial cell, a thin flattened cell. A layer of such cells lines the inside surfaces of body cavities, blood vessels, and lymph vessels, making up the endothelium." "FMA:256176" - "A connective tissue cell which secretes an extracellular matrix rich in collagen and other macromolecules. Flattened and irregular in outline with branching processes; appear fusiform or spindle-shaped." "BTO:0000452 VHOG:0001482 FMA:63877 CALOHA:TS-0362 NCIT:C12482" + "A connective tissue cell which secretes an extracellular matrix rich in collagen and other macromolecules. Flattened and irregular in outline with branching processes; appear fusiform or spindle-shaped." "ZFA:0009026 BTO:0000452 VHOG:0001482 FMA:63877 CALOHA:TS-0362 NCIT:C12482" "Any portion of tissue that surrounds a urethra." "SCTID:256880003 BTO:0005081" "Any process that stops, prevents or reduces the frequency, rate or extent of myoblast proliferation." "The process whose specific outcome is the progression of the thymus over time, from its formation to the mature structure. The thymus is a symmetric bi-lobed organ involved primarily in the differentiation of immature to mature T cells, with unique vascular, nervous, epithelial, and lymphoid cell components." @@ -8117,7 +8145,7 @@ "A serous secreting cell that is part of the epithelium of bronchiole." "FMA:263084" "The process whose specific outcome is the progression of a granulosa cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a granulosa cell fate." "Formation of the endocardium of the heart. The endocardium is an anatomical structure comprised of an endothelium and an extracellular matrix that forms the innermost layer of tissue of the heart, and lines the heart chambers." - "A cell whose function is determined by the generation or the reception of an electric signal." + "A cell whose function is determined by the generation or the reception of an electric signal." "ZFA:0009128" "A nitrogen compound metabolic process that contributes to the nitrogen cycle. The nitrogen cycle is a series of metabolic pathways by which nitrogen is converted between various forms and redox states; it encompasses pathways in which nitrogen is acted upon directly, such as nitrification, denitrification, nitrogen fixation, and mineralization." "Wikipedia:Nitrogen_cycle" "GC_ID:1" "A late basophilic metamyelocyte in which the nucleus is in the form of a curved or coiled band, not having acquired the typical multilobar shape of the mature basophil." @@ -8127,7 +8155,7 @@ "The process whose specific outcome is the progression of the renal vesicle over time, from its formation to the mature structure. An epithelium is a tissue that covers the internal or external surfaces of an anatomical structure. The renal vesicle is the primordial structure of the nephron epithelium, and is formed by the condensation of mesenchymal cells." "An urothelial cell that is part of the trigone of urinary bladder." "FMA:70598" "Pancreatic bud that gives rise to the major pancreatic duct." "TAO:0001369 EFO:0003464 EHDAA2:0001389 XAO:0001103 SCTID:361437002 AAO:0011111 EMAPA:17256 Wikipedia:Pancreatic_bud ZFA:0001369 VHOG:0001429" - "A neuron that has dendritic processes radiating from the cell body forming a star-like shape." "BTO:0002316" + "A neuron that has dendritic processes radiating from the cell body forming a star-like shape." "ZFA:0009072 BTO:0002316" "The directed movement of proteins in a cell, from one side of a membrane to another by means of some agent such as a transporter or pore." "A neuron of the dorsal cochlear nucleus with spiny dendrites that receive input from the axons of granule cells and with axons that release GABA and glycine onto cartwheel, pyramidal and giant cell targets." "ILX:0102311" "Any process that modulates the frequency, rate or extent of glucocorticoid mediated signaling pathway." @@ -8150,11 +8178,10 @@ "GC_ID:1" "The process in which calcium ions sequestered in the endoplasmic reticulum, Golgi apparatus or mitochondria are released into the presynaptic cytosol." "The process in which the anatomical structure of the medulla oblongata is generated and organized. The medulla oblongata lies directly above the spinal cord and controls vital autonomic functions such as digestion, breathing and the control of heart rate." - "The series of molecular signals initiated by glucocorticoid binding to its receptor." "A tissue-resident macrophage located in the bone marrow. This cell type is B220-negative, CD3e-negative, Ly-6C-negative, CD115-positive, F4/80-positive." "BTO:0004732" "The process in which a relatively unspecialized T cell acquires specialized features of a cytotoxic T cell." "An anatomical junctions that overlaps the foregut and midgut." "VHOG:0000291 EMAPA:16363 EHDAA2:0000569 EHDAA:526" - "A supporting cell projecting inward from the basement membrane of seminiferous tubules. They surround and nourish the developing male germ cells and secrete androgen binding protein. Their tight junctions with the spermatogonia and spermatocytes provide a blood-testis barrier." "BTO:0001238 FMA:72298 CALOHA:TS-0922 VHOG:0001348" + "A supporting cell projecting inward from the basement membrane of seminiferous tubules. They surround and nourish the developing male germ cells and secrete androgen binding protein. Their tight junctions with the spermatogonia and spermatocytes provide a blood-testis barrier." "ZFA:0009133 BTO:0001238 FMA:72298 CALOHA:TS-0922 VHOG:0001348" "Cartilage tissue intermediate between hyaline cartilage and dense connective tissue; contains of abundant collagen fibers; chondrocytes often arranged in columns." "Wikipedia:Fibrocartilage UMLS:C0684077 NCIT:C32599 galen:Fibrocartilage XAO:0004028 VSAO:0000103 FMA:64784 MA:0000108 SCTID:91685003" "The orderly movement of a cardiac progenitor cell to form the heart field. Cardiac progenitor cells are non-terminally differentiated, mesoderm-derived cells that are committed to differentiate into cells of the heart. A cardioblast is a cardiac precursor cell. It is a cell that has been committed to a cardiac fate, but will undergo more cell division rather than terminally differentiating." "The joining of the lipid bilayer membrane around a vesicle with the lipid bilayer membrane around the vacuole." @@ -8165,7 +8192,8 @@ "A transitional stage B cell that has the phenotype surface IgM-positive, surface IgD-postive, CD21-positive, CD23-positive, CD62L-negative, CD93-positive and is located in the splenic B follicles. This cell type has also been described as IgM-high, CD19-positive, B220-positive, AA4-positive, and CD23-positive." "The regrowth of a lost or destroyed body part, such as an organ or tissue. This process may occur via renewal, repair, and/or growth alone (i.e. increase in size or mass)." "Wikipedia:Regeneration_(biology)" "The progression of the trabecular meshwork over time, from its formation to the mature structure. The trabecular meshwork is a fenestrated endothelial-like tissue situated at the intersection of the cornea and the iris. The trabecular meshwork provides drainage for the aqueous humor." - "An endothelial cell that lines the vasculature." + "An endothelial cell that lines the vasculature." "ZFA:0009036" + "Any photoreceptor cell that is part of some camera-type eye." "Tolerance induction taking place in the mucosal tissues." "A layer of of the central nervous system that is part of gray matter." "FMA:83142" "Any process that stops, prevents, or reduces the frequency, rate or extent of neutrophil differentiation." @@ -8173,7 +8201,6 @@ "The process in which the anatomical structures of lymph vessels are generated and organized. The lymph vessel is the vasculature carrying lymph." "A portion of smooth muscle tissue that is part of a small intestine [Automatically generated definition]." "EMAPA:35783 MA:0001559" "A mesothelial fibroblast found in the leptomeninx." - "KUPO:0001047" "A portion of connective tissue that is part of a limb [Automatically generated definition]." "MA:0000689 EMAPA:37313" "Notochordal cell that is inner portion of the notochord and becomes vacuolated as development proceeds." "The progression of the mammillary body over time from its initial formation until its mature state. The mammillary body is a protrusion at the posterior end of the hypothalamus that contains hypothalamic nuclei." @@ -8181,7 +8208,6 @@ "GC_ID:1" "A tetraspanin that is a translation product of the human CD9 gene or a 1:1 ortholog thereof." "The process whose specific outcome is the progression of the locus ceruleus over time, from its formation to the mature structure. The locus ceruleus is a dense cluster of neurons within the dorsorostral pons. This nucleus is the major location of neurons that release norepinephrine throughout the brain, and is responsible for physiological responses to stress and panic." - "KUPO:0001041" "Any process that stops, prevents, or reduces the frequency, rate or extent of the regulated release of juvenile hormone." "Any process that stops, prevents or reduces the frequency, rate or extent of protein localization to cell-cell junction." "A macrophage located in the vermiform appendix." @@ -8204,9 +8230,8 @@ "An arterial endothelial cell that is part of the aorta endothelium." "CALOHA:TS-0047 BTO:0003245" "The metanephric late distal convoluted tubule contains metanephric DCT cells and intercalated (IC) alpha and beta cells and is vasopressin-sensitive[GO]." "The region of the liver lobule that is closest to the portal triad. The functionally-defined hepatic acinus zone 1 is generally found in this region." - "KUPO:0001038" "Any process that modulates the frequency, rate or extent of detection of mechanical stimulus involved in sensory perception of touch." - "Bone element that arises as a result of intramembranous ossification." "TAO:0001645 AEO:0000085 EHDAA2:0003085 ZFA:0001636 XAO:0004014 VSAO:0000023" + "Bone element that arises as a result of intramembranous ossification." "TAO:0001645 AEO:0000085 EHDAA2:0003085 XAO:0004014 ZFA:0001636 VSAO:0000023" "The process whose specific outcome is the progression of the hindbrain over time, from its formation to the mature structure. The hindbrain is the posterior of the three primary divisions of the developing chordate brain, or the corresponding part of the adult brain (in vertebrates, includes the cerebellum, pons, and medulla oblongata and controls the autonomic functions and equilibrium)." "Any process that stops, prevents, or reduces the frequency, rate, or extent of immunoglobulin production." "A pyramidal neuron which has an apical tree which is oriented towards the white matter." @@ -8229,7 +8254,7 @@ "The appearance of a cytokine due to biosynthesis or secretion following a cellular stimulus contributing to an immune response, resulting in an increase in its intracellular or extracellular levels." "Subdivision of skeletal system that consists of all the vertebra and associated skeletal elements and joints in the body[modified from VSAO]." "galen:SpinalColumn NCIT:C33588 EHDA:10119 TAO:0001559 XAO:0003074 EFO:0001369 UMLS:C1519455 AAO:0000734 BTO:0000818 MESH:D013131 VHOG:0001142 EMAPA:35919 ZFA:0001559 VSAO:0000185 SCTID:44300000 AAO:0000699 NIF_Subcellular:sao1145756102 UMLS:C0037949 MA:0002416 GAID:106 NCIT:C12998 FMA:13478 Wikipedia:Vertebral_column" "The process in which a relatively unspecialized cell acquire specialized structural and/or functional features of an epithelial cell of the salivary gland." - "A photoreceptor cell that is sensitive to green light." + "A photoreceptor cell that is sensitive to green light." "ZFA:0009223" "The process whose specific outcome is the progression of an oocyte over time, from initial commitment of the cell to its specific fate, to the fully functional differentiated cell." "A morphological quality inhering in a bearer by virtue of the bearer's affording unobstructed passage or view." "The process in which anatomical structures of the mammary ducts are generated and organized. Mammary ducts are epithelial tubes that transport milk." @@ -8250,14 +8275,12 @@ "A blood lymphocyte located in the flowing, circulating blood of the body." "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a peptide stimulus." "Any process that stops, prevents or reduces the frequency, rate or extent of axo-dendritic protein transport." - "The set of neurons that receives neural inputs via bipolar, horizontal and amacrine cells. The axons of these cells make up the optic nerve." "BTO:0001800 FMA:67765 MESH:D012165" + "The set of neurons that receives neural inputs via bipolar, horizontal and amacrine cells. The axons of these cells make up the optic nerve." "ZFA:0009310 BTO:0001800 FMA:67765 MESH:D012165" "A thrombomodulin that is encoded in the genome of human." "UniProtKB:P07204" "The pseudostratified ciliated epithelium that lines much of the conducting portion of the airway, including part of the nasal cavity and larynx, the trachea, and bronchi." "EMAPA:32827 BTO:0000419 SCTID:321764001 CALOHA:TS-0023 MA:0001480" "A process in which a calcium ion is transported from one side of a membrane to the other by means of some agent such as a transporter or pore." "Cell-cell signaling between presynapse and postsynapse mediated by a peptide ligand crossing the synaptic cleft." "The nasal vestibule is the most anterior part of the nasal cavity. It's enclosed by the cartilages of nose and lined by the same epithelium of the skin. The other part of the nasal cavity, which is lined by the respiratory epithelium, is called nasal cavity proper. [WP,unvetted]." "CALOHA:TS-0660 Wikipedia:Nasal_vestibule BTO:0001761 SCTID:278940000 FMA:59644" - "KUPO:0001037" - "KUPO:0001081" "An urethral gland that is part of a female urethra." "FMA:21444 SCTID:279476001 EMAPA:29653" "Any process that activates or increases the frequency, rate or extent of glucocorticoid secretion." "The creation of a single organelle from two or more organelles." @@ -8271,7 +8294,6 @@ "An erythroblast that is GlyA-positive and CD71-negative." "The interlobar veins are veins of the renal circulation which drain the renal lobes." "Wikipedia:Interlobar_veins FMA:71631" "Any process that increases the frequency, rate or extent of DNA binding. DNA binding is any process in which a gene product interacts selectively with DNA (deoxyribonucleic acid)." - "KUPO:0001078" "Increase in size of follicles surrounded by two or more layers of granulosa cells up to the onset of antrum formation." "The directed movement of a protein to a specific location in a vacuole." "The process in which the anatomical structure of the cerebellar Purkinje cell layer is generated and organized. The Purkinje cell layer lies just underneath the molecular layer of the cerebellar cortex. It contains the neuronal cell bodies of the Purkinje cells that are arranged side by side in a single layer. Candelabrum interneurons are vertically oriented between the Purkinje cells. Purkinje neurons are inhibitory and provide the output of the cerebellar cortex through axons that project into the white matter. Extensive dendritic trees from the Purkinje cells extend upward in a single plane into the molecular layer where they synapse with parallel fibers of granule cells." @@ -8298,6 +8320,7 @@ "Any muscle organ that is part of a cloaca." "Any process that modulates the frequency, rate or extent of small intestine smooth muscle contraction." "A portion of connective tissue that is part of a prostate gland." "FMA:74165" + "Any kidney cortex artery cell that is part of some interlobular artery." "KUPO:0001081" "Any process that stops, prevents, or reduces the frequency, rate or extent of GABAergic synaptic transmission, the process of communication from a neuron to another neuron across a synapse using the neurotransmitter gamma-aminobutyric acid (GABA)." "A compound organ that has the potential to develop into a tongue." "EHDAA2:0000696 EHDAA:2951" "A glomerular basement membrane that is part of a pronephros." "ZFA:0005313 TAO:0005313" @@ -8318,14 +8341,14 @@ "A muscle tissue that is associated with soft internal organs (viscera)." "The process in which a relatively unspecialized cell acquires specialized features of a hair cell." "Any process that modulates the frequency, rate or extent of nitrogen cycle metabolic process." - "A neuron that releases dopamine as a neurotransmitter." "FBbt:00005131 WBbt:0006746 MESH:D059290 FMA:84787 BTO:0004032" + "A neuron that releases dopamine as a neurotransmitter." "ZFA:0009301 FBbt:00005131 WBbt:0006746 MESH:D059290 FMA:84787 BTO:0004032" "A neuronal acetylcholine receptor subunit alpha-7 that is encoded in the genome of human." "UniProtKB:P36544 DTO:01100012" "An otic capsule endochondral element that is composed primarily of a pre-cartilage condensation." "EHDAA2:0000833" "A blood vessel that is part of a back [Automatically generated definition]." "MA:0000493 EMAPA:37243" "Epithelial cell that is part of segment 2 (S2) of the proximal tubule epithelium." - "Neuromast mantle cell is a non-sensory cell. Neuromast mantle cells surround the neuromast support cells and neuromast hair cells, separating the neuromast from the epidermis, and secrete cupula in which the ciliary bundles of all the hair cells are embedded." + "Neuromast mantle cell is a non-sensory cell. Neuromast mantle cells surround the neuromast support cells and neuromast hair cells, separating the neuromast from the epidermis, and secrete cupula in which the ciliary bundles of all the hair cells are embedded." "ZFA:0009362" "The organ of Corti (or spiral organ) is the organ in the inner ear of mammals that contains auditory sensory cells, or 'hair cells.' [WP,unvetted]." "BIRNLEX:2526 ncithesaurus:Spiral_Organ_of_Corti EMAPA:19061 EV:0100364 CALOHA:TS-0717 SCTID:279841009 MA:0001193 GAID:772 BTO:0001691 Wikipedia:Organ_of_Corti FMA:75715 UMLS:C0029207 EFO:0001364 NCIT:C33223" - "The part of the digestive system that contains the liver and the biliary system." "AAO:0011056 NCIT:C43612 CALOHA:TS-1308 VHOG:0000294 Wikipedia:Hepatobiliary_system MAT:0000024 XAO:0000132 UMLS:C1711359 EMAPA:16840 TAO:0000036 EHDAA:2189 EFO:0000800 ZFA:0000036 MIAA:0000024 EHDAA2:0000998 MA:0000324 EV:0100088" + "The part of the digestive system that contains the liver and the biliary system." "AAO:0011056 NCIT:C43612 CALOHA:TS-1308 VHOG:0000294 Wikipedia:Hepatobiliary_system MAT:0000024 XAO:0000132 UMLS:C1711359 TAO:0000036 EMAPA:16840 EHDAA:2189 EFO:0000800 ZFA:0000036 MIAA:0000024 EHDAA2:0000998 MA:0000324 EV:0100088" "OBSOLETE (was not defined before being made obsolete)." "A muscular coat that is part of a urinary bladder." "FMA:15930 UMLS:C1288327 NCIT:C32206" "The series of molecular signals initiated by serotonin binding to a seratonin receptor on the surface of the target cell, followed by the movement of ions through a channel in the receptor complex. Ends with regulation of a downstream cellular process, e.g. transcription." @@ -8375,6 +8398,7 @@ "A proximal mesopodial endochondral element that is composed primarily of cartilage tissue." "EMAPA:16206 VHOG:0000485 EHDAA:406 MA:0000479 EHDAA2:0001720 SCTID:361404004" "A signal transducer CD24 that is encoded in the genome of mouse." "UniProtKB:P24807" + "Any smooth muscle cell that is part of some kidney arcuate artery." "KUPO:0001080" "The progression of the olfactory placode over time from its initial formation until its mature state. The olfactory placode is a thickening of the neural ectoderm in the head region of the vertebrate embryo which develops into the olfactory region of the nasal cavity." "Anatomical cavity for the proximal articular surface of the proximal limb or fin element with the scapulocoracoid or equivalent structure." "AAO:0000749 UMLS:C1261046 NCIT:C32682 Wikipedia:Glenoid_cavity FMA:23275 EMAPA:25122 SCTID:181914008" "The formation of a thickening of the neural ectoderm in the head region of the vertebrate embryo which develops into the olfactory region of the nasal cavity." @@ -8410,7 +8434,7 @@ "An anatomical cavity that is part of a segmental bronchus." "FMA:62593" "Obsolete. Use PO:0020019 from Plant Ontology instead. A haploid (1n) spore developing into a female gametophyte in heterosporous plants." - "That portion of the spine comprising the cervical vertebrae. The neck area of the spine." "EHDAA2:0000238 EMAPA:17215 BTO:0004148 MA:0003154 EHDAA:5051 NCIT:C69313 AAO:0000092 SCTID:260488005 UMLS:C0728985 FMA:24138" + "That portion of the spine comprising the cervical vertebrae. The neck area of the spine." "FMA:24138 EHDAA2:0000238 EMAPA:17215 BTO:0004148 MA:0003154 EHDAA:5051 NCIT:C69313 AAO:0000092 SCTID:260488005 UMLS:C0728985" "Any process in which a dense core granule is transported to, and/or maintained in, a specific location within the cell." "The import of RNA from the cytoplasm to the nucleus." "The chemical reactions and pathways resulting in the formation of glucans, polysaccharides consisting only of glucose residues." @@ -8436,11 +8460,11 @@ "Lining of the head of the uterus (cervix); contains large branched glands; does not undergo sloughing." "BTO:0000411" "The progression of the dermatome over time, from its initial formation to the mature structure. The dermatome is the portion of a somite that will form skin." "The controlled breakdown of the nuclear membranes during the second division of meiosis." - "Skeletogenic cell that secretes dentine matrix, is derived from the odontogenic papilla, and develops from a preodontoblast cell." "FMA:62999 MESH:D009804 BTO:0001769 CALOHA:TS-0696" + "Skeletogenic cell that secretes dentine matrix, is derived from the odontogenic papilla, and develops from a preodontoblast cell." "ZFA:0009029 FMA:62999 MESH:D009804 BTO:0001769 CALOHA:TS-0696" "Any process that modulates the frequency, rate or extent of melanocyte differentiation." "Any nerve that innervates the penis." "EMAPA:35057" "A mucosa that is part of a small intestine [Automatically generated definition]." "MA:0002686 UMLS:C0227261 CALOHA:TS-0941 SCTID:362144000 NCIT:C33568 BTO:0001259 FMA:14933 EMAPA:35780" - + "ZFA:0009041" "The process in which a chondroblast acquires specialized structural and/or functional features of a chondrocyte. A chondrocyte is a polymorphic cell that forms cartilage." "A G11 retinal ganglion cell that has post synaptic terminals in sublaminar layer S2 and is depolarized by decreased illumination of their receptive field center" "https://orcid.org/0000-0001-7258-9596 https://orcid.org/0000-0002-5260-9315" "A synapse that uses dopamine as a neurotransmitter." @@ -8461,7 +8485,7 @@ "Any biological process involved in the maintenance of the steady-state number of hepatocytes within a population of cells. Hepatocytes are specialized epithelial cells of the liver that are organized into interconnected plates called lobules." "The chemical reactions and pathways resulting in the breakdown of acetylcholine, the acetic acid ester of the organic base choline." "EMAPA:32850 VHOG:0000953" - "Predominantly extrahepatic bile duct which is formed by the junction of the right and left hepatic ducts, which are predominantly intrahepatic, and, in turn, joins the cystic duct to form the common bile duct[GAID]. The common hepatic duct is the duct formed by the convergence of the right hepatic duct (which drains bile from the right functional lobe of the liver) and the left hepatic duct (which drains bile from the left functional lobe of the liver). The common hepatic duct then joins the cystic duct coming from the gallbladder to form the common bile duct[WP]." "FMA:14668 Wikipedia:Common_hepatic_duct GAID:286 MESH:D006500 MA:0002660 VHOG:0000220 NCIT:C32356 UMLS:C0019149 SCTID:245403006 EMAPA:19101" + "Predominantly extrahepatic bile duct which is formed by the junction of the right and left hepatic ducts, which are predominantly intrahepatic, and, in turn, joins the cystic duct to form the common bile duct[GAID]. The common hepatic duct is the duct formed by the convergence of the right hepatic duct (which drains bile from the right functional lobe of the liver) and the left hepatic duct (which drains bile from the left functional lobe of the liver). The common hepatic duct then joins the cystic duct coming from the gallbladder to form the common bile duct[WP]." "FMA:14668 Wikipedia:Common_hepatic_duct GAID:286 MESH:D006500 MA:0002660 VHOG:0000220 NCIT:C32356 UMLS:C0019149 EMAPA:19101 SCTID:245403006" "The covalent alteration of one or more monomeric units in a polypeptide, polynucleotide, polysaccharide, or other biological macromolecule, resulting in a change in its properties." "A mono-stratified retinal ganglion cell that has a large dendritic field and a medium dendritic arbor with post synaptic terminals in sublaminar layer S1 and S2." "A slender neuron projection bundle[FBbt]; A bundle of anatomical fibers, as of muscle or nerve (American Heritage Dictionary 4th ed)." "UMLS:C1185741 BIRNLEX:872 NCIT:C32586 Wikipedia:Nervous_system_fascicle BTO:0002191 FMA:12235 EMAPA:36605 TGMA:0000088" @@ -8484,7 +8508,7 @@ "An immunoglobulin gamma Fc receptor II/III/IV that is a translation product of the human FCGR2B gene or a 1:1 ortholog thereof." "A specialized accessory gland of the skin of mammals that secretes milk. The gland is typically only developed in females, and regresses in males." "MIAA:0000073 SCTID:361720005 EMAPA:17759 MESH:D008321 Wikipedia:Mammary_gland MAT:0000073 EFO:0000854 MA:0000145 VHOG:0000398 EV:0100125 FMA:286452 BTO:0000817 NCIT:C12367 UMLS:C0929301 CALOHA:TS-0595" "A protein that is a type I transmembrane receptor with an N-terminal cysteine-rich domain, a single Fibronectin type II (FNII) domain (Pfam:PF00040) and eight to ten copies of the Lectin C-type domain (Pfam:PF00059) (CTLDs). The presence of multiple copies of the CTLD domain is a hallmark of this class." "PIRSF:PIRSF002427" - + "ZFA:0009042" "A mesothelial cell capable of circulating in the blood by first losing its squamous character. This cell can incorporate into the regenerating mesothelium." "FMA:86712" "A goblet cell that is located in the colon." "Any process that stops, prevents or reduces the frequency, rate or extent of muscle tissue development." @@ -8500,7 +8524,7 @@ "The thick capsule of dense irregular connective tissue that surrounds each adrenal gland and contains scattered elastic fibers; the capsule contains a rich plexus of blood vessels (mainly small arteries) and numerous nerve fibers; some blood vessels and nerves enter the substance of the gland in the trabeculae that extend inward from the capsule and then leave the trabeculae to enter the cortex." "NCIT:C32050 MA:0000117 UMLS:C1181304 FMA:69087" "SCTID:280300006 FMA:14469 EMAPA:25350 MA:0001107" "Any process that mediates the transfer of information from one cell to another and contributes to the progression of the lung, from its initial state to the mature structure." - "A neutrophil precursor in the granulocytic series, being a cell intermediate in development between a promyelocyte and a metamyelocyte; in this stage, production of primary granules is complete and neutrophil-specific granules has started. No nucleolus is present. This cell type is CD13-positive, CD16-negative, integrin alpha-M-positive, CD15-positive, CD33-positive, CD24-positive, C/EBP-a-positive, C/EBPe-positive, PU.1-positive, lactotransferrin-positive, myeloperoxidase-positive and NGAL-positive." "BTO:0003455 FMA:83540" + "A neutrophil precursor in the granulocytic series, being a cell intermediate in development between a promyelocyte and a metamyelocyte; in this stage, production of primary granules is complete and neutrophil-specific granules has started. No nucleolus is present. This cell type is CD13-positive, CD16-negative, integrin alpha-M-positive, CD15-positive, CD33-positive, CD24-positive, C/EBP-a-positive, C/EBPe-positive, PU.1-positive, lactotransferrin-positive, myeloperoxidase-positive and NGAL-positive." "ZFA:0009266 BTO:0003455 FMA:83540" "Any skin fibroblast that is part of a skin of abdomen." "The process in which the anatomical structures of the mesonephric duct are generated and organized. A mesonephric duct is a tube drains the mesonephros." "A portion of tissue that will develop into vasculature." "TAO:0005076 ZFA:0005076 EFO:0003708" @@ -8510,6 +8534,7 @@ "GC_ID:1" "Cell-cell signaling to, from or within a synapse." "The process in which nerve cells are generated. This includes the production of neuroblasts and their differentiation into neurons." + "Any ciliated cell that is part of some lung." "Brush cell found in the epithelial layer of the colon." "FMA:263222" "A portion of connective tissue that is part of a hand [Automatically generated definition]." "EMAPA:35392 MA:0000620" "Any process that stops, prevents, or reduces the frequency, rate or extent of biomineral tissue development, the formation of hard tissues that consist mainly of inorganic compounds." @@ -8518,7 +8543,7 @@ "The process in which an activated T cell acquires specialized features of an exhausted T cell." "FMA:14468 MA:0001108 SCTID:280299003 EMAPA:17275" "Generation of the male gamete; specialised haploid cells produced by meiosis and along with a female gamete takes part in sexual reproduction." - "A natural killer cell that is developmentally immature and expresses natural killer cell receptors (NKR)." + "A natural killer cell that is developmentally immature and expresses natural killer cell receptors (NKR)." "ZFA:0009346" "A CD24-low, CD44-negative, NK1.1-negative NK T cell." "The increase in size or mass of the heart." @@ -8539,12 +8564,12 @@ "An asexual, nonmotile spore formed by higher fungi; conidia are usually made from the side or tip of specialized sporogenous cells and do not form by progressive cleavage of the cytoplasm." "FAO:0000024 BTO:0000283" "A morphology quality inhering in a bearer by virtue of the bearer's relative position, shape, arrangements and connectivity of an organism's various parts; the pattern underlying its form." "A cell whose primary function is to cause growth by stimulating cell division in its immediate cellular environment." - "Skeletogenic cell that is terminally differentiated, secretes an avascular, GAG-rich matrix, is embedded in cartilage tissue matrix, retains the ability to divide, and develops from a chondroblast cell." "BTO:0000249 FMA:66782 CALOHA:TS-0138" + "Skeletogenic cell that is terminally differentiated, secretes an avascular, GAG-rich matrix, is embedded in cartilage tissue matrix, retains the ability to divide, and develops from a chondroblast cell." "ZFA:0009084 BTO:0000249 FMA:66782 CALOHA:TS-0138" "The progression of the olfactory lobe over time from its initial formation until its mature state. The olfactory lobe is the area of the brain that process the neural inputs for the sense of smell." "Columnar glandular cell with irregular nucleus, copious granular endoplasmic reticulum and supranuclear granules. Secretes a watery fluid containing proteins known as serous fluid." "FMA:62511 BTO:0003687" "OBSOLETE: Subpopulation of CD4+ cells which induce CD8+ suppressor T cells to suppress antibody production by B cells. They also stimulate other cellular immune responses." "A CD8-positive alpha beta-positive T cell with the phenotype FoxP3-positive and having suppressor function." - "CALOHA:TS-1249" + "ZFA:0009039 CALOHA:TS-1249" "The process whose specific outcome is the progression of Peyer's patches over time, from their formation to the mature structure. Peyer's patches are typically found as nodules associated with gut epithelium with distinct internal structures including B- and T-zones for the activation of lymphocytes." "Cranial nerve that innervates the muscles of the tongue." "UMLS:C0020614 MA:0001094 NCIT:C12732 BTO:0003386 AAO:0010477 MESH:D007002 BIRNLEX:820 FMA:50871 Wikipedia:Hypoglossal_nerve BAMS:12n BAMS:XIIn EMAPA:17269 VHOG:0000693 EHDAA2:0000798 GAID:828 neuronames:704 SCTID:362471008 MBA:813 HBA:9343 XAO:0004215 BAMS:nXII EHDAA:2859" "Programmed cell death of an errant germ line cell that is outside the normal migratory path or ectopic to the gonad. This is an important mechanism of regulating germ cell survival within the embryo." @@ -8580,7 +8605,6 @@ "The space between the arachnoid and pia mater." "EMAPA:32666 GAID:689 BTO:0000230 Wikipedia:Subarachnoid_space MESH:D013346 FMA:83716 SCTID:362311001" "A resident stromal cell located in the synovial membrane and responsible for the production of immune-related cytokines and chemokines. This cell type secretes glycoproteins and hyaluronic acid, has abundant granular endoplasmic reticulum, but contains fewer vacuoles and vesicles." "BTO:0003652 FMA:66788" "An epidermal cell that is part of a cell cluster organ of the insect integument (such as a sensillum) and that secretes a cuticular specialization that forms a socket around the base of a cuticular specialization produced by a trichogen cell." "FBbt:00005171" - "KUPO:0001088" "An adipose dendritic cell that is SIRPa-positive." "A smooth muscle cell that is part of the ileum." "FMA:15066" "A cell located between the pinealocytes." "FMA:86575" @@ -8588,7 +8612,7 @@ "An anatomical cluster that composed_primarily_of a strand of hair." "FMA:70752" "Any process that modulates the rate or extent of striated muscle cell apoptotic process, a form of programmed cell death induced by external or internal signals that trigger the activity of proteolytic caspases whose actions dismantle a striated muscle cell and result in its death." "Any process that stops, prevents or reduces the frequency, rate or extent of leukocyte cell-cell adhesion." - "Pyramidal neurons have a pyramid-shaped soma with a single axon, a large apical dendrite and multiple basal dendrites. The apex and an apical dendrite typically point toward the pial surface and other dendrites and an axon emerging from the base. The axons may have local collaterals but also project outside their region. Pyramidal neurons are found in the cerebral cortex, the hippocampus, and the amygdala." "FMA:86775 NIFSTD:sao862606388 BTO:0003102 FMA:67310" + "Pyramidal neurons have a pyramid-shaped soma with a single axon, a large apical dendrite and multiple basal dendrites. The apex and an apical dendrite typically point toward the pial surface and other dendrites and an axon emerging from the base. The axons may have local collaterals but also project outside their region. Pyramidal neurons are found in the cerebral cortex, the hippocampus, and the amygdala." "ZFA:0009273 FMA:86775 NIFSTD:sao862606388 BTO:0003102 FMA:67310" "A protein with core architecture consisting of a signal sequence, followed by 7 Ig-like domains (Pfam:PF00047, Pfam:PF07679, or Pfam:PF07686), a transmembrane region, and a cytoplasmic Protein tyrosine kinase domain." "PIRSF:PIRSF038502" "A ribosome located in the cytosol." "The directed movement of lipids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Lipids are compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent." @@ -8669,7 +8693,6 @@ "The generation and maintenance of gametes in a multicellular organism. A gamete is a haploid reproductive cell." "Any process that modulates the frequency, rate or extent of trophectodermal cell proliferation." "An anatomical space that surrounded_by a digestive tract." "FMA:45677 BTO:0000349 EMAPA:32908" - "KUPO:0001085" "The process in which a relatively unspecialized cell acquires the specialized structural and/or functional features of a pericardial nephrocyte. A pericardial nephrocyte is an insect renal cell that filters hemolymph and is found with other pericardial nephrocytes in two rows flanking the dorsal vessel. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state." "A urethral meatus that is part of a female urethra[Automatically generated definition]." "Wikipedia:External_urethral_orifice_(female) FMA:85266 SCTID:279479008 EMAPA:36453 MA:0002639" "The directed movement of epinephrine into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." @@ -8689,11 +8712,11 @@ "A vacuole that is maintained at an acidic pH and which contains degradative enzymes, including a wide variety of acid hydrolases." "The adipose capsule of kidney (or perinephric fat or perirenal fat) is a structure between the renal fascia and renal capsule, and may be regarded as a part of the latter. A different structure, the pararenal fat, is the adipose tissue superficial to the renal fascia." "MA:0002975 SCTID:246901006 FMA:15876 Wikipedia:Adipose_capsule_of_kidney EMAPA:36495 FMA:20502" "A composition quality inhering in an bearer by virtue of the bearer's consisting of collagen." + "Any process that activates or increases the frequency, rate or extent of activity of a transcription factor, any factor involved in the initiation or regulation of transcription." "A neurosecretory neuron residing mainly in the hypothalamic supraoptic and paraventricular nuclei and in a number of smaller accessory cell groups between these two nuclei, that is capable of secreting the hormones oxytocin or vasopressin, and sometimes both, into the systemic circulation." "ILX:0107463" - "A vetebrate lens cell that is any of the elongated, tightly packed cells that make up the bulk of the mature lens in a camera-type eye." + "A vetebrate lens cell that is any of the elongated, tightly packed cells that make up the bulk of the mature lens in a camera-type eye." "ZFA:0009401" "The process whose specific outcome is the progression of the cardiac conduction system over time, from its formation to the mature structure. The cardiac conduction system consists of specialized cardiomyocytes that regulate the frequency of heart beat." "An enucleate erythrocyte that is GlyA-positive." - "The chemical reactions and pathways involving various organic and inorganic nitrogenous compounds, as carried out by individual cells." "A plasmablast that secretes IgA." "Enables the transfer of iron (Fe) ions from one side of a membrane to the other." "Reactome:R-HSA-5655733 Reactome:R-HSA-5623558 Reactome:R-HSA-904830 Reactome:R-HSA-917936 Reactome:R-HSA-435349" "A G protein-coupled receptor signaling pathway initiated by glutamate binding to its receptor on the surface of a target cell, and ending with the regulation of a downstream cellular process." @@ -8716,6 +8739,7 @@ "A developmental process, independent of morphogenetic (shape) change, that is required for the ureter to attain its fully functional state. The ureter is a muscular tube that transports urine from the kidney to the urinary bladder or from the Malpighian tubule to the hindgut." "A collection of Purkinje fibers that receives signals from the right and left bundle branches and innervates the ventricular cardiac muscle. The Purkinje fiber network creates synchronized contractions of the heart ventricles." "A cervical vertebra endochondral element that is composed primarily of cartilage tissue." "EHDAA2:0000240" + "Any photoreceptor cell that is part of some eye." "ZFA:0009154" "The process whose specific outcome is the progression of a somatotropin secreting cell over time, from its formation to the mature structure. A somatotropin secreting cell is an acidophilic cell of the anterior pituitary that produces growth hormone, somatotropin." "BIRNLEX:1069 HBA:265505486 FMA:83942" "A gastric gland in the cardiac region of the stomach; cardiac glands are fewer in number than in the fundus and body, and secrete mucin which coats the stomach and protects it[MP]." "SCTID:8894005 Wikipedia:Cardiac_glands EMAPA:37459 FMA:14920" @@ -8724,11 +8748,11 @@ "A urokinase plasminogen activator surface receptor that is encoded in the genome of mouse." "UniProtKB:P35456" "The chemical reactions and pathways involving an organic substance, any molecular entity containing carbon." "The metanephric ascending thin limb is a segment of a nephron tubule in the metanephros lying in the inner medulla that is permeable to ions but not to water and has a simple epithelium; active transepithelial solute transport is absent[GO]." - "A cell capable of producing epinephrine. Epiniphrine is synthesized from norepiniphrine by the actions of the phenylethanolamine N-methyltransferase enzyme, which is expressed in the adrenal glands, androgenic neurons, and in other cell types." + "A cell capable of producing epinephrine. Epiniphrine is synthesized from norepiniphrine by the actions of the phenylethanolamine N-methyltransferase enzyme, which is expressed in the adrenal glands, androgenic neurons, and in other cell types." "ZFA:0009211" "An embryonic anatomical entity that will turn into one or more other anatomical entities, perhaps with other anatomical entities, later in development." "AEO:0000132" "A smooth muscle cell of the myometrium that enlarges and stretches during pregnancy, and contracts in response to oxytocin." "BTO:0004519" "Intermediate segment of the autopod, between the mesopodial region and and acropodial region. Examples: metacarpal region, metatarsal region." "SCTID:370640001" - "A cell of the epithelial lining that produce and secrete mucins." "http://en.wikipedia.org/wiki/Goblet_cell FMA:13148 BTO:0001540" + "A cell of the epithelial lining that produce and secrete mucins." "ZFA:0009094 http://en.wikipedia.org/wiki/Goblet_cell FMA:13148 BTO:0001540" "The process whose specific outcome is the progression of the placenta over time, from its formation to the mature structure. The placenta is an organ of metabolic interchange between fetus and mother, partly of embryonic origin and partly of maternal origin." "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a mineralocorticoid stimulus. Mineralocorticoids are hormonal C21 corticosteroids synthesized from cholesterol and characterized by their similarity to aldosterone. Mineralocorticoids act primarily on water and electrolyte balance." "The vesicular release of glutamate from a presynapse, across a chemical synapse, the subsequent activation of glutamate receptors at the postsynapse of a target cell (neuron, muscle, or secretory cell) and the effects of this activation on the postsynaptic membrane potential and ionic composition of the postsynaptic cytosol. This process encompasses both spontaneous and evoked release of neurotransmitter and all parts of synaptic vesicle exocytosis. Evoked transmission starts with the arrival of an action potential at the presynapse." @@ -8751,13 +8775,13 @@ "A protein that is a translation product of the human IL17RB gene or a 1:1 ortholog thereof." "IUPHARobj:1739" "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving ecdysteroids." "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of glycogen." - "Mesenchymal derived lymphatic progenitor cells that give rise to the superficial lymphatics." + "Mesenchymal derived lymphatic progenitor cells that give rise to the superficial lymphatics." "ZFA:0009394" "A developmental process, independent of morphogenetic (shape) change, that is required for an anatomical structure to attain its fully functional state." "An section of a respiratory tract." "FMA:45660 MA:0000434" "Any process that stops, prevents or reduces the frequency, rate or extent of cerebellar neuron development." "Any process that modulates the frequency, rate or extent of dendrite development." "A cartilage tissue that is part of a pelvic appendage." "TAO:0001459 ZFA:0001459" - "The major preaxial endochondral bone in the posterior zeugopod[Phenoscape]." "MA:0001361 AAO:0000890 CALOHA:TS-1048 galen:Tibia SCTID:182061009 EFO:0003054 UMLS:C0040184 NCIT:C12800 EMAPA:19142 Wikipedia:Tibia FMA:24476 BTO:0001252 GAID:204 MESH:D013977" + "The major preaxial endochondral bone in the posterior zeugopod[Phenoscape]." "MA:0001361 AAO:0000890 CALOHA:TS-1048 SCTID:182061009 galen:Tibia EFO:0003054 UMLS:C0040184 NCIT:C12800 EMAPA:19142 Wikipedia:Tibia FMA:24476 BTO:0001252 GAID:204 MESH:D013977" "An epithelial cell that is part of a ureteric bud. A ureteric bud cell has the potential to induce metanephric mesenchymal cells to proliferate and convert to epithelia that form renal tubules via: (1) the secretion of multiple diffusible growth factors that rescue renal progenitors from apoptosis and stimulate them to proliferate and (2) contact-dependent mechanisms that induce mesenchymal-epithelial conversion." "One of the gastric glands that secretes the hydrochloric acid of the gastric juice[Stedman's]." "FMA:14923 FMA:14921" "A mesenchymal stem cell that is part of Wharton's jelly." @@ -8785,16 +8809,16 @@ "Generation and organization of a platelet, a non-nucleated disk-shaped cell formed by extrusion from megakaryocytes, found in the blood of all mammals, and mainly involved in blood coagulation." "Any process that modulates the frequency, rate or extent of hepatic stellate cell migration." "A bone that is part of a pectoral complex. Examples: scapula, manus phalanx, any carpal bone, any bone of the pectoral fin." "MA:0000612 EMAPA:35933" - "KUPO:0001048" "The secretory neurons of the paraventricular nucleus that synthesize and secrete vasopressin, corticotropin-releasing factor (CRF) and thyrotropin-releasing hormone (TRH) into blood vessels in the hypothalamo-pituitary portal system." "The accumulation of pigment in an organism, tissue or cell, either by increased deposition or by increased number of cells." "A cartilage tissue that is part of a paired limb or fin." "ZFA:0001543 TAO:0001543" "The process that gives rise to the apical ectodermal ridge. This process pertains to the initial formation of a structure from unspecified parts." - "The thick fibrous membrane that closely invests the entire surface of a bone except the articular cartilage at synovial joints." "UMLS:C0031110 EMAPA:35681 FMA:24041 MA:0002838 MESH:D010521 BTO:0001022 galen:PeriOsteum Wikipedia:Periosteum SCTID:33840008 NCIT:C13184 GAID:925" + "The thick fibrous membrane that closely invests the entire surface of a bone except the articular cartilage at synovial joints." "UMLS:C0031110 EMAPA:35681 FMA:24041 MA:0002838 BTO:0001022 MESH:D010521 galen:PeriOsteum Wikipedia:Periosteum SCTID:33840008 NCIT:C13184 GAID:925" "The process in which the anatomical structures of the hypophysis are generated and organized. The hypophysis is an endocrine gland that secretes hormones that regulate many other glands." "The cytoplasm of a muscle cell; includes the sarcoplasmic reticulum." "Wikipedia:Sarcoplasm" "A subarachnoid space that is part of a midbrain [Automatically generated definition]." "VHOG:0001304 EMAPA:19055" "A presumptive structure that has the potential to develop into a endocardium." "TAO:0002233 ZFA:0001724" + "Any kidney cell that is part of some juxtamedullary cortex." "KUPO:0001111" "A population of lymphatic endothelial cell precursors that will form the lymph vessels." "UMLS:C1514424 NCIT:C34262" "Any process that modulates the frequency, rate or extent of vasculature development." "A neural tube lateral wall that is part of a rhombomere." "EMAPA:32819 EMAPA:35364" @@ -8823,6 +8847,7 @@ "A skeletal muscle satellite cell that undergoes symmetric division to produce two adult skeleltal muscle myoblasts." "An automatic response to a stimulus beginning with a nerve impulse from a receptor and ending with the action of an effector such as a gland or a muscle. Signaling never reaches a level of consciousness." "Wikipedia:Reflex" "Any process that stops, prevents, or reduces the frequency, rate or extent of natural killer T cell differentiation." + "Any secretory cell that is capable of some protein secretion." "A shape quality inhering in a bearer by virtue of the bearer's being cylindrical, in which the height is less than the diameter." "The process in which a relatively unspecialized immature germ cell acquires the specialized features of a mature female gamete." "An enterocyte that possesses a large supranuclear vacuolar system that preferentially internalizes dietary protein via receptor-mediated and fluid-phase endocytosis for intracellular digestion and trans-cellular transport. In zebrafish these cells are located in the posterior region of the mid intestine throughout life. In mammals they are found in the ileum pre-weaning and later are replaced by mature enterocytes." @@ -8838,6 +8863,7 @@ "A protein that is a translation product of the human SIGLEC5 gene or a 1:1 ortholog thereof." "Any process that modulates the occurrence or rate of mesenchymal stem cell death by apoptotic process that contributes to the shaping of the nephron." "A mucosa that is part of a lobar bronchus [Automatically generated definition]." "FMA:62668" + "Any smooth muscle cell that is part of some renal efferent arteriole." "KUPO:0001043" "FMA:83940" "Any process evolved to enable an interaction with an organism of a different species." "The orderly movement of a hematopoietic stem cell from one site to another. A hematopoietic stem cell is a cell from which all cells of the lymphoid and myeloid lineages develop, including blood cells and cells of the immune system." @@ -8906,6 +8932,7 @@ "A CD8alpha alpha positive gamma-delta intraepithelial T cell that expresses a TCR encoded in part by the Vgamma5 gene segment." "Any process that modulates the frequency, rate or extent of endothelial tube morphogenesis." "A tissue-resident macrophage that is part of the uterus." + "Any endothelial cell that is part of some interlobular artery." "KUPO:0001082" "Epithelium lining the distalmost portion of the digestive tract." "BTO:0005445 WBbt:0005800" "Any process that modulates the rate, frequency or extent of metanephros development. Metanephros development is the process whose specific outcome is the progression of the metanephros over time, from its formation to the mature structure. The metanephros is an endocrine and metabolic organ that filters the blood and excretes the end products of body metabolism in the form of urine." "Nucleus that receives projections from or contains neurons that send projections through one of the cranial nerves." "FMA:54501 SCTID:280160003 NLX:28532 EMAPA:37066 Wikipedia:Cranial_nerve_nucleus" @@ -8970,9 +8997,10 @@ "A thin layer of cartilage, usually hyaline, on the articular surface of bones in synovial joints." "SCTID:305026006 GAID:101 FMA:12264 MESH:D002358 EFO:0001902 AEO:0000179 UMLS:C0007303 CALOHA:TS-0055 NCIT:C32144 MA:0000487 galen:ArticularCartilage EMAPA:35149 BTO:0001572" "A process in which RNA is transported to and maintained in a part of a chromosome that is organized into chromatin." "The change in morphology and behavior of a mast cell resulting from exposure to a cytokine, chemokine, soluble factor, or to (at least in mammals) an antigen which the mast cell has specifically bound via IgE bound to Fc-epsilonRI receptors." - "Any of the ducts that form the biliary tree, carrying bile from the liver to the small intestine." "MA:0000354 NCIT:C12376 MESH:D001652 GAID:280 XAO:0000134 Wikipedia:Bile_duct SCTID:276157007 BTO:0000122 ZFA:0001100 EMAPA:35171 CALOHA:TS-0075 AAO:0011019 VHOG:0000212 EV:0100091 TAO:0001100 UMLS:C0005400 FMA:9706" + "Any of the ducts that form the biliary tree, carrying bile from the liver to the small intestine." "MA:0000354 NCIT:C12376 MESH:D001652 GAID:280 XAO:0000134 Wikipedia:Bile_duct BTO:0000122 SCTID:276157007 ZFA:0001100 EMAPA:35171 CALOHA:TS-0075 AAO:0011019 VHOG:0000212 EV:0100091 TAO:0001100 UMLS:C0005400 FMA:9706" "Subdivision of head that consists of the lower jaw skeletal elements plus associated soft tissue (skin, lips, muscle)[cjm]." "SCTID:362637005 EHDAA:7995 FMA:59398 MESH:D008334 Wikipedia:Lower_jaw EFO:0003660 VHOG:0000453 EMAPA:17906 EHDAA2:0001018 ncithesaurus:Lower_Jaw AAO:0000272" "The synthesis, deposition, and organization of the materials in a cell of an ovary; where the cell can then undergo meiosis and form an ovum. An example of this is found in Drosophila melanogaster." + "Any cell that only exists in Fungi." "The cellular DNA metabolic process resulting in the breakdown of DNA, deoxyribonucleic acid, one of the two main types of nucleic acid, consisting of a long unbranched macromolecule formed from one or two strands of linked deoxyribonucleotides, the 3'-phosphate group of each constituent deoxyribonucleotide being joined in 3',5'-phosphodiester linkage to the 5'-hydroxyl group of the deoxyribose moiety of the next one." "The various hormone- or neurotransmitter-secreting cells present throughout the mucosa of the intestinal tract." "A mucosa that is part of a common bile duct [Automatically generated definition]." "FMA:14688" @@ -8988,15 +9016,15 @@ "Any process that increases the rate, frequency or extent of macrophage derived foam cell differentiation. Macrophage derived foam cell differentiation is the process in which a macrophage acquires the specialized features of a foam cell. A foam cell is a type of cell containing lipids in small vacuoles and typically seen in atherosclerotic lesions, as well as other conditions." "A specific region of the foregut into the area in which the lung will develop." "SCTID:34922002" "Any mesenchymal cell apoptotic process that is involved in nephron morphogenesis." - "A nerve that is part of a tympanic cavity [Automatically generated definition]." "MA:0001222 EMAPA:37777" "A stage at which the ectoderm, endoderm, and mesoderm develop into the internal organs of the organism." "BilaDO:0000010 Wikipedia:Organogenesis OGES:000032 BILS:0000111 OGES:000005 MmusDv:0000018 HsapDv:0000015" "Any process that modulates the frequency, rate or extent of renal water transport." "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a cell-cell junction. A cell-cell junction is a specialized region of connection between two cells." + "Any smooth muscle cell that is part of some kidney arcuate vein." "KUPO:0001087" "Any process that stops, prevents, or reduces the frequency, rate or extent of lamellocyte differentiation. Lamellocytes differentiate massively in the lymph glands after parasitization and are large flat cells devoted to encapsulation of invaders too large to be phagocytosed by plasmatocytes." "A process in which force is generated within smooth muscle tissue, resulting in a change in muscle geometry in the intestine between the stomach and the large intestine." - "A non-neuronal cell of the nervous system. They not only provide physical support, but also respond to injury, regulate the ionic and chemical composition of the extracellular milieu. Guide neuronal migration during development, and exchange metabolites with neurons." "FBbt:00005144 FMA:54536 BTO:0002606 CALOHA:TS-0415" + "A non-neuronal cell of the nervous system. They not only provide physical support, but also respond to injury, regulate the ionic and chemical composition of the extracellular milieu. Guide neuronal migration during development, and exchange metabolites with neurons." "ZFA:0009073 FBbt:00005144 FMA:54536 BTO:0002606 CALOHA:TS-0415" "The chemical reactions and pathways resulting in the formation of organic acids, any acidic compound containing carbon in covalent linkage." "The joining of 2 or more lipid bilayer membranes that surround the nucleus." "Glial cell of cerebral cortex." "CALOHA:TS-1256" @@ -9035,7 +9063,7 @@ "Presumptive structure of the blastula that will develop into endoderm." "AAO:0000471 ZFA:0000416 EFO:0003437 TAO:0000416" "The endocardium is an anatomical structure comprised of an endothelium and an extracellular matrix that forms the innermost layer of tissue of the heart, and lines the heart chambers[GO]." "FMA:7280 AAO:0010408 TAO:0001320 EMAPA:17868 CALOHA:TS-2075 XAO:0000066 SCTID:362013006 galen:Endocardium Wikipedia:Endocardium EHDAA2:0004153 EFO:0000821 EV:0100021 MESH:D004699 MA:0000076 MAT:0000455 BTO:0000387 NCIT:C13004 ZFA:0001320 EMAPA:32686 UMLS:C0014124 VHOG:0000084 GAID:550" "Any process that stops, prevents or reduces the frequency, rate or extent of satellite cell differentiation." - "An anatomical structure that has more than one cell as a part." "CARO:0010000" + "An anatomical structure that has more than one cell as a part." "CARO:0010000 FBbt:00100313" "The process whose specific outcome is the progression of the instar larva or pupa over time, from its formation to the mature structure. An example of this process is found in Drosophila melanogaster." "Any process that modulates the frequency, rate or extent of chorionic trophoblast cell proliferation." "The regionalization process that divides an organism or part of an organism into a series of semi-repetitive parts, or segments, often arranged along a longitudinal axis." "Wikipedia:Segmentation_(biology)" @@ -9057,7 +9085,6 @@ "Any epithelium that lines one of the bile ducts." "BTO:0000417 NCIT:C43616 MA:0001629 UMLS:C1711208" "A melanocyte that is part of the skin of body." "FMA:72144 CALOHA:TS-2374" "Any process that activates or increases the frequency, rate, or extent of myeloid leukocyte differentiation." - "The chemical reactions and pathways involving heterocyclic compounds, those with a cyclic molecular structure and at least two different atoms in the ring (or rings)." "The process whose specific outcome is the progression of the mesonephric distal tubule over time, from its formation to the mature structure. The mesonephric distal tubule is a mesonephric nephron tubule that begins at the terminal segment of the proximal tubule and ends at the mesonephric connecting tubule." "The directed movement of iron ions from inside of a cell, across the plasma membrane and into the extracellular region." "OBSOLETE: A goblet cell that is part of the epithelium proper of large intestine." "FMA:263071" @@ -9069,7 +9096,7 @@ "A(n) endothelial cell that is part of a(n) venule of lymph node." "A spatially aggregated collection of nerve cell bodies in the PNS, consisting of one or more subpopulations that share cell type, chemical phenotype, and connections. (CUMBO)." "EMAPA:32814 BIRNLEX:2548 MA:0001161 BTO:0001123" "The process whose specific outcome is the progression of the anterior lateral line over time, from its formation to the mature structure. The anterior lateral line consists of small sensory patches (neuromasts) located superficially on the skin or just under the skin in fluid-filled canals on the head of all fishes and most amphibians. The anterior lateral line develops from cranial ectodermal placodes situated between the eye and ear." - "A smooth muscle cell associated with the vasculature." + "A smooth muscle cell associated with the vasculature." "ZFA:0009181" "A cell morphology that inheres in neurons with bitufted dendritic morphology but with the special feature of a tight fascicular axonal cylinder that resembles a 'horse tail'." "A CD4-positive, alpha beta memory T cell with the phenotype CD45RA-positive, CD45RO-negative, and CCR7-negative." @@ -9085,7 +9112,7 @@ "An immature CD16-positive myeloid dendritic cell is CD80-low, CD86-low, and MHCII-low." "A spinal cord segment that adjacent_to a caudal region." "FMA:256635 neuronames:1656 MA:0003084 SCTID:278753006" "The Atlanto-axial joint is of a complicated nature, comprising no fewer than four distinct joints. There is a pivot articulation between the odontoid process of the axis and the ring formed by the anterior arch and the transverse ligament of the atlas." "Wikipedia:Atlanto-axial_joint NCIT:C32157 MESH:D001268 FMA:25524 UMLS:C0004168 GAID:250 SCTID:361832004" - "A cell of the intermediate pituitary that produces melanocyte stimulating hormone." "BTO:0002277" + "A cell of the intermediate pituitary that produces melanocyte stimulating hormone." "ZFA:0009205 BTO:0002277" "Binding to monomeric or multimeric forms of tubulin, including microtubules." "Nonsynovial joint in which the articulating bones or cartilages are connected by cartilage. Examples: Spheno-occipital synchondrosis, first sternocostal joint, pubic symphysis.[FMA]." "EMAPA:36581 Wikipedia:Cartilaginous_joint FMA:7496 TAO:0005155 SCTID:58442004 ZFA:0005155 MA:0000320" "Any positive regulation of calcium-mediated signaling that is involved in cellular response to calcium ion." @@ -9109,23 +9136,23 @@ "Any striated muscle cell that is part of a skeletal muscle tissue of pectoralis major." "The directed movement of substances into the nucleus." "The latissimus dorsi is the larger, flat, dorso-lateral muscle on the trunk, posterior to the arm, and partly covered by the trapezius on its median dorsal region. [WP,unvetted]." "UMLS:C0224362 VHOG:0000930 EFO:0003067 SCTID:181747008 FMA:13357 NCIT:C33150 EHDAA:8307 EHDAA2:0000932 EMAPA:18178 Wikipedia:Latissimus_dorsi_muscle MA:0002331" - "A paracrine cell is a secretory cell that secretes an agonist into intercellular spaces in which it diffuses to a target cell other than that which produced it." + "A paracrine cell is a secretory cell that secretes an agonist into intercellular spaces in which it diffuses to a target cell other than that which produced it." "ZFA:0009233" "Innermost layer of neocortex lying deep to the internal pyramidal cell layer defined cytoarchitecturally by cells of varying size." "neuronames:2451 NLXANAT:090812 PBA:294021896 MA:0000902 ABA:CTX6 FMA:77805 EMAPA:35260" "A presumptive structure that has the potential to develop into a presomitic mesoderm." "EFO:0003421 ZFA:0000053 TAO:0000053" + "Any male germ cell that has characteristic some haploid and is capable of some fertilization." "CALOHA:TS-0949 BTO:0001277" "Enables the transfer of ATP, adenosine triphosphate, from one side of a membrane to the other." "Reactome:R-HSA-9717392" "A blood brain barrier that is composed of endothelial cells." "NIF_Subcellular:nlx_subcell_100205" "An artery that supplies blood to an eyelid." "SCTID:148571007" "The aggregate of the coelemic cavity lumen plus the membranes that line the lumen." "EHDAA2:0004731 Wikipedia:Coelom" - "Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells." "Reactome:R-HSA-168313 Reactome:R-HSA-178215" + "Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells." "A lymph node that is part of a hypodermis." "MA:0003028" - "A pigment cell derived from the neural crest. Contains pteridine and/or carotenoid pigments in structures called pterinosomes or erythrosomes. This gives an orange to red appearance." + "A pigment cell derived from the neural crest. Contains pteridine and/or carotenoid pigments in structures called pterinosomes or erythrosomes. This gives an orange to red appearance." "ZFA:0009263" "A humerus endochondral element that is composed primarily of cartilage tissue." "VHOG:0001120 EMAPA:17713 EHDAA2:0000787 EHDAA:6240" "A sebum secreting cell of the skin that secretes sebum into the hair follicles." "BTO:0004613 FMA:70953" "A cell that is usually basal in position, cuboidal with round nucleus, short microvilli, secretes pepsinogen." "FMA:62902" "A dense syncitial-like mesenchymal thickening in the dorsal mesogastrium[ISBN]. the embryonic connective tissue made up of loosely aggregated mesenchymal cells, supported by interlaminar jelly, that gives rise to the developing spleen[MP]." "XAO:0000326 EHDAA:3003 EHDAA2:0001904 EMAPA:18535" "The orderly movement of epithelial cells within a renal tubule that contributes to mesonephric distal tubule morphogenesis." "The single bud-like invagination of the conjunctival fornix epithelium at the temporal aspect of the eye that signals lacrimal gland formation (Int Rev Cytol. 1996;168:1-80. Cell biology of the harderian gland)." "EMAPA:35464" - "The process of regulating the proliferation and elimination of neutrophils such that the total number of neutrophils within a whole or part of an organism is stable over time in the absence of an outside stimulus." "Combining with glutamate and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity." "The wall of the digestive tract. This encompasses all parts of the digestive tract with the exception of the lumen (cavity)." "FMA:45653 BTO:0000547" @@ -9176,7 +9203,7 @@ "Any process that modulates the frequency, rate or extent of cardioblast differentiation, the process in which a relatively unspecialized mesodermal cell acquires the specialized structural and/or functional features of a cardioblast. A cardioblast is a cardiac precursor cell. It is a cell that has been committed to a cardiac fate, but will undergo more cell division rather than terminally differentiating." "The morphogenetic process in which a region of the fetal urogenital sinus epithelium is specified to become the prostate, resulting in prostate bud outgrowth." "A cuboidal cell which along with Boettcher's cells form the floor of the external spiral sulcus, external to the organ of Corti." "FMA:79802" - "A neuron of teleosts that develops later than a primary neuron, typically during the larval stages." + "A neuron of teleosts that develops later than a primary neuron, typically during the larval stages." "ZFA:0009246" "A progenitor cell committed to myeloid lineage, including the megakaryocyte and erythroid lineages. These cells are CD34-positive, and express Gata1, Gata2, C/EBPa, and Pu.1." "A CD69 molecule that is encoded in the genome of human." "UniProtKB:Q07108" "Any process that activates or increases the frequency, rate or extent of epidermis development." @@ -9188,7 +9215,7 @@ "The directed movement of proteins in a cell, including the movement of proteins between specific compartments or structures within a cell, such as organelles of a eukaryotic cell." "Any process that stops, prevents, or reduces the frequency, rate or extent of protein localization to chromatin." "The process whose specific outcome is the progression of lung cartilage over time, from its formation to the mature structure. Cartilage is a connective tissue dominated by extracellular matrix containing collagen type II and large amounts of proteoglycan, particularly chondroitin sulfate." - "A segment of the hindlimb that corresponds to the joint connecting a hindlimb stylopod and zeugopod." "GAID:48 SCTID:361291001 MESH:D007717 galen:Knee VHOG:0000347 EHDAA:5159 EHDAA:6184 FMA:24974 BTO:0003595 EHDAA2:0000895 MA:0000046 CALOHA:TS-2220 EMAPA:17493" + "A segment of the hindlimb that corresponds to the joint connecting a hindlimb stylopod and zeugopod." "GAID:48 SCTID:361291001 MESH:D007717 galen:Knee VHOG:0000347 EHDAA:5159 EHDAA:6184 BTO:0003595 FMA:24974 EHDAA2:0000895 MA:0000046 CALOHA:TS-2220 EMAPA:17493" "The usually crescent-shaped opening of the urinary bladder into the urethra, placed at the anteroinferior angle (apex) of the urinary bladder trigone." "Wikipedia:Internal_urethral_orifice SCTID:362228001 FMA:85263" "The inner layer of the glomerulus, within the basement membrane surrounding the glomerular capillaries." "NCIT:C33101 UMLS:C0017655 BTO:0002494 EMAPA:36561 Wikipedia:Mesangium FMA:84139 MA:0002617" "A cell, usually of bacteria or yeast, which has partially lost its cell wall." @@ -9201,7 +9228,6 @@ "An organelle found in cnidoblast (nematoblast) cells. When matured, these stinging organelles store toxins and can deliver them when the cnidocil (a short extension of the cnidocyst) is stimulated by a prey or another stimulus." "Wikipedia:Cnidocyte" "Any (proper) part of the cytoplasm of a single cell of sufficient size to still be considered cytoplasm." "A pyramidal neuron which has a distinctive tuft formation, distal from the soma." - "The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms." "Wikipedia:Reproduction" "The chemical reactions and pathways resulting in the breakdown of compounds derived from amino acids, organic acids containing one or more amino substituents." "The movement of a glial cell along the axons in a lateral line nerve." "An epithelium that is part of a vermiform appendix." "CALOHA:TS-2062 FMA:63581 EHDAA2:0004561" @@ -9230,7 +9256,7 @@ "A lymphatic endothelial cell located in a lymph node trabecula." "The outermost layer of the mesenchymal capsule that surrounds the developing brain, of mixed paraxial mesoderm and neural crest origin. The ectomeninx forms the dura mater (both inner layer and outer chondrogenic layer)." "EHDAA2:0004317" "Any process that stops, prevents or reduces the frequency, rate or extent of basophil degranulation." - "A neuroglial cell of the peripheral nervous system inside the basal lamina of the neuromuscular junction providing chemical and physical support to the synapse." + "A neuroglial cell of the peripheral nervous system inside the basal lamina of the neuromuscular junction providing chemical and physical support to the synapse." "ZFA:0009298" "The multiplication or reproduction of osteoblasts, resulting in the expansion of an osteoblast cell population. An osteoblast is a bone-forming cell which secretes an extracellular matrix. Hydroxyapatite crystals are then deposited into the matrix to form bone." "Any process that contributes to cytokine production by a B cell." "A compound molecular function in which an effector function is controlled by one or more regulatory components." @@ -9243,7 +9269,6 @@ "The process that gives rise to the olfactory nerve. This process pertains to the initial formation of a structure from unspecified parts. The olfactory nerve is a collection of sensory nerve rootlets that extend down from the olfactory bulb to the olfactory mucosa of the upper parts of the nasal cavity. This nerve conducts odor information to the brainstem." "One of: the common carotid artery, or its branches, the external and internal carotid arteries." "FMA:70504 ZFA:0000097 SCTID:362040006 CALOHA:TS-0116 MAT:0000501 VHOG:0000266 EMAPA:18609 TAO:0000097 UMLS:C0007272 NCIT:C12687 AAO:0010217 BTO:0000168 EV:0100379 EHDAA:6385 MESH:D002339 EFO:0000818 galen:CarotidArtery MA:0001925 SCTID:69105007 GAID:478 Wikipedia:Carotid_artery" "Any process that stops, prevents, or reduces the rate of neutrophil degranulation." - "A protein that is a translation product of the human RUNX1 gene or a 1:1 ortholog thereof." "A monostratified retinal ganglion cell that has a small soma, an assymetric dendritic field with post synaptic terminals in sublaminar layer S3." "Any neural crest cell migration that is involved in autonomic nervous system development." @@ -9316,7 +9341,7 @@ "Any process that stops, prevents or reduces the frequency, rate or extent of thyroid hormone generation." "The process whose specific outcome is the progression of the thick ascending limb over time, from its formation to the mature structure. The thick ascending limb is the last part of the loop of Henle. Its thick, mitochondria-rich epithelium characterizes the outer medulla, and is responsible for very avid active salt transport. At the macula densa, the thick ascending limb connects to the distal convoluted tubule." "The process in which a B cell acquires the specialized features of a memory B cell. Memory B cells are cells that can respond rapidly to antigen re-exposure by production of high-affinity antibody." - "A multicellular organism that existence_ends_with a post-juvenile adult stage and existence_starts_with a post-juvenile adult stage." "galen:Adult HAO:0000087 BILA:0000078 UMLS:C0001675 NCIT:C17600 TAO:0002046 http://neurolex.org/wiki/Category:Adult_organism" + "A multicellular organism that existence_ends_with a post-juvenile adult stage and existence_starts_with a post-juvenile adult stage." "FBbt:00003004 galen:Adult HAO:0000087 BILA:0000078 UMLS:C0001675 NCIT:C17600 TAO:0002046 http://neurolex.org/wiki/Category:Adult_organism" "The process in which protein polymers, compounds composed of a large number of component monomers, are broken down. Depolymerization occurs by the successive removal of monomers from an existing poly- or oligomeric protein." "Any process that modulates the frequency, rate or extent of natural killer cell activation." "The Pectoralis minor is a thin, triangular muscle, situated at the upper part of the chest, beneath the Pectoralis major. [WP,unvetted]." "EHDAA2:0001425 MA:0002355 UMLS:C0224347 FMA:13109 Wikipedia:Pectoralis_minor_muscle EMAPA:18180 VHOG:0000902 SCTID:181625002 EHDAA:8313 NCIT:C33285" @@ -9345,6 +9370,7 @@ "A DRD1-expressing medium spiny neuron that is part of a nucleus accumbens shell or olfactory tubercle." "Any process that activates or increases the frequency, rate or extent of vacuolar transport." "The progression of the taste bud over time, from its formation to the mature state. The taste bud is a specialized area of the tongue that contains taste receptors." + "Any kidney tubule cell that is part of some renal cortex tubule." "KUPO:0001024" "A segment of the autopod consisting of both acropodial region and metapodial region, but excluding the mesopodial/basopodial region." "The directed movement of bile acid and bile salts into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." "A prolongation or process extending from a cell and that is bounded by plasma membrane, e.g. a cilium, lamellipodium, or axon." @@ -9356,7 +9382,7 @@ "Lymphatic vessel that exits the lymph node. The efferent lymphatic vessel commences from the lymph sinuses of the medullary portion of the lymph nodes and leave the lymph nodes either to veins or greater nodes. Efferent lymphatic vessels are also found in the thymus and spleen. This is in contrast to afferent lymphatic vessels, which are found only in lymph nodes." "Wikipedia:Efferent_lymph_vessel MA:0000749" "A pro-T cell that is lin-negative, CD25-negative, CD127-negative, CD44-positive and kit-positive." - "A connective tissue cell that normally gives rise to other cells that are organized as three-dimensional masses. In humans, this cell type is CD73-positive, CD90-positive, CD105-positive, CD45-negative, CD34-negative, and MHCII-negative. They may further differentiate into osteoblasts, adipocytes, myocytes, neurons, or chondroblasts in vitro. Originally described as residing in the bone marrow, this cell type is now known to reside in many, if not all, adult organs." "FMA:70546 BTO:0003298 BTO:0002625" + "A connective tissue cell that normally gives rise to other cells that are organized as three-dimensional masses. In humans, this cell type is CD73-positive, CD90-positive, CD105-positive, CD45-negative, CD34-negative, and MHCII-negative. They may further differentiate into osteoblasts, adipocytes, myocytes, neurons, or chondroblasts in vitro. Originally described as residing in the bone marrow, this cell type is now known to reside in many, if not all, adult organs." "ZFA:0009081 FMA:70546 BTO:0003298 BTO:0002625" "Any process that stops, prevents, or reduces the frequency, rate or extent of the release into the cytosolic compartment of calcium ions sequestered in the endoplasmic reticulum or mitochondria." "The upper tract of the renal system. The renal pelvis is the large cavity in the middle of each kidney. Urine drains from each kidney through a long tube called the ureter, into the bladder, where it is stored until it is passed from the body through the urethra." "NCIT:C54419" "A taste bud that is located on the tongue, situated on a gustatory papilla." @@ -9380,9 +9406,9 @@ "Any collection of muscles that is part of a pelvic girdle [Automatically generated definition]." "AAO:0000427 FMA:50248 EHDAA2:0001429 EMAPA:18184 FMA:50205" "PMID:25450099 GC_ID:1 PMID:22839753" "A portion of cardiac muscle tissue that is part of a right atrium [Automatically generated definition]." "VHOG:0001227 SCTID:362018002 FMA:7282 EHDAA2:0004155 EMAPA:17326" - "A relatively undifferentiated cell that retains the ability to divide and proliferate throughout life to provide progenitor cells that can differentiate into specialized cells." "FMA:63368 CALOHA:TS-2086" + "A relatively undifferentiated cell that retains the ability to divide and proliferate throughout life to provide progenitor cells that can differentiate into specialized cells." "ZFA:0005957 FMA:63368 CALOHA:TS-2086" "The outflow tract is the portion of the heart through which blood flows into the arteries." "XAO:0004139 VHOG:0000670 EHDAA2:0001351 EHDAA:464 EMAPA:16346 MA:0000100 EHDAA:798" - "A gamma-delta T cell that has a mature phenotype. These cells can be found in tissues and circulation where they express unique TCR repertoire depending on their location." + "A gamma-delta T cell that has a mature phenotype. These cells can be found in tissues and circulation where they express unique TCR repertoire depending on their location." "ZFA:0009338" "Any process that activates or increases the frequency, rate or extent of cardiac muscle cell differentiation." "A muscle organ that is part of an abdominal segment of trunk [Automatically generated definition]." "EMAPA:37060 MA:0000527" @@ -9406,11 +9432,11 @@ "A glial cell that is part of the perineurium. This cell type has thin long bipolar cytoplasmic processes, pinocytotic vesicles, fragments of external lamina and/or external lamina-like material, attachment plaques, and desmosome-like junctions. Perineurial cells historically have been referred to as fibroblasts because of shape; however, unlike fibroblasts, a perineurial cell: does not have a compact nucleus and large endoplasmic reticulum; does have a double basement membrane opposed to a single basal lamina; is carefully joined to other perineurial cells by tight junctions into a single sheet as opposed to arranged in a large mass; and finally, can surround a small axon bundle at a nerve terminal whereas a fibroblast cannot." "Any apoptotic process in a Sertoli cell." "A zone of skin that is part of a forelimb stylopod [Automatically generated definition]." "SCTID:181531009 FMA:37721 EMAPA:18062 MA:0000608" - "A columnar epithelial cell that is part of an insect imaginal disc." "FBbt:00007108" "PMID:15371245 PMID:15019624 GC_ID:1" "Any process that activates or increases the frequency, rate or extent of sensory perception of pain." + "A columnar epithelial cell that is part of an insect imaginal disc." "FBbt:00007108" "The area where the jejunum ends and the ileum part of the intestine begins. Although there is no clear distinct section, the ileum is narrower and has smaller villi than the jejunum." - "A spherical embryonic mass of blastomeres formed before the blastula and resulting from cleavage of the fertilized ovum." "GAID:1295 MESH:D009028 EHDAA2:0000005 SCTID:361474003 FMA:292334 UMLS:C0026573 NCIT:C34212 BTO:0001508 Wikipedia:Morula" + "A spherical embryonic mass of blastomeres formed before the blastula and resulting from cleavage of the fertilized ovum." "GAID:1295 MESH:D009028 EHDAA2:0000005 SCTID:361474003 FMA:292334 UMLS:C0026573 NCIT:C34212 Wikipedia:Morula BTO:0001508" "A tissue-resident macrophage that is part of some kidney." "KUPO:0001109" "A paneth cell that is located in the anorectum." "The aggregation, arrangement and bonding together of a set of components to form a tight junction, an occluding cell-cell junction that is composed of a branching network of sealing strands that completely encircles the apical end of each cell in an epithelial sheet." @@ -9472,7 +9498,7 @@ "Arteries that supply the spinal cord." "NCIT:C33587 MA:0002043 UMLS:C0447043 ZFA:0000682 SCTID:244228006 EHDAA2:0001890 Wikipedia:Spinal_artery EMAPA:18241 TAO:0000682 EHDAA:4355" "The process whose specific outcome is the progression of a glomerular visceral epithelial cell over time, from its formation to the mature structure. A glomerular visceral epithelial cell is a specialized epithelial cell that contains 'feet' that interdigitate with the 'feet' of other glomerular epithelial cells." "Any process that mediates the transfer of information from one cell to another." - "Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut." "XAO:0000090 EMAPA:16062 UMLS:C0014144 CALOHA:TS-0273 GAID:1305 EHDAA2:0000436 Wikipedia:Endoderm MESH:D004707 EV:0100005 MAT:0000175 VHOG:0000154 BILA:0000038 ZFA:0000017 BTO:0000800 MIAA:0000175 TAO:0000017 FMA:69071 SCTID:362855003 AAO:0000139 EFO:0002545 NCIT:C12706" + "Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut." "XAO:0000090 EMAPA:16062 UMLS:C0014144 CALOHA:TS-0273 GAID:1305 EHDAA2:0000436 Wikipedia:Endoderm MESH:D004707 EV:0100005 FBbt:00000125 MAT:0000175 VHOG:0000154 BILA:0000038 ZFA:0000017 BTO:0000800 MIAA:0000175 TAO:0000017 FMA:69071 SCTID:362855003 AAO:0000139 EFO:0002545 NCIT:C12706" "A basophilic erythroblast that is Lyg 76-high and is Kit-negative." "A nonstratified squamous cell located in the ectocervix." "FMA:86483" "A eosinophil precursor in the granulocytic series, being a cell intermediate in development between a myelocyte and a band form cell. The nucleus becomes indented where the indentation is smaller than half the distance to the farthest nuclear margin; chromatin becomes coarse and clumped; specific granules predominate while primary granules are rare." "FMA:83541" @@ -9491,7 +9517,7 @@ "Any process that modulates the frequency, rate or extent of progesterone biosynthetic process." "The process whose specific outcome is the progression of the endocrine pancreas over time, from its formation to the mature structure. The endocrine pancreas is made up of islet cells that produce insulin, glucagon and somatostatin." "The biological process whose specific outcome is the progression of a chorion from an initial condition to its mature state. This process begins with the formation of the structure and ends with the mature structure. The chorion is an extraembryonic membrane." - "Anatomical system that consists of the glands and parts of glands that produce endocrine secretions and help to integrate and control bodily metabolic activity." "MA:0000012 GAID:439 EFO:0002969 TAO:0001158 FMA:9668 Wikipedia:Endocrine_system UMLS:C0014136 NCIT:C12705 AAO:0010279 VHOG:0000098 XAO:0000158 MESH:D004703 EMAPA:35306 SCTID:278876000 ZFA:0001158 CALOHA:TS-1301 EHDAA2:0002224 EV:0100128" + "Anatomical system that consists of the glands and parts of glands that produce endocrine secretions and help to integrate and control bodily metabolic activity." "MA:0000012 GAID:439 EFO:0002969 TAO:0001158 FMA:9668 Wikipedia:Endocrine_system UMLS:C0014136 FBbt:00005068 NCIT:C12705 AAO:0010279 VHOG:0000098 XAO:0000158 MESH:D004703 EMAPA:35306 SCTID:278876000 ZFA:0001158 CALOHA:TS-1301 EHDAA2:0002224 EV:0100128" "A shape quality inhering in a bearer by virtue of the bearer's having parallel chains in undulate fashion on the border." "AAO:0010367 XAO:0000451 ZFA:0001608 SCTID:308771006 VHOG:0001204 TAO:0001600 FMA:293045" @@ -9542,7 +9568,7 @@ "A pre-cartilage condensation that has the potential to develop into a patella." "EMAPA:18510" "Binding to a bile acid, a steroid carboxylic acids occurring in bile." - "A oligopotent progenitor cell committed to the lymphoid lineage." + "A oligopotent progenitor cell committed to the lymphoid lineage." "ZFA:0009023" "Any collection of muscles that is part of a thorax [Automatically generated definition]." "BTO:0000508 EMAPA:37260 FMA:71293" "Binding to a peptide, an organic compound comprising two or more amino acids linked by peptide bonds." "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of aldosterone." @@ -9561,7 +9587,7 @@ "Neuron that secretes the neurotransmitter galanin." "OBSOLETE A neuron that is part of nerve found outside the central nervous system." "FMA:84664" "The directed movement of proteins into an intracellular organelle, across a membrane." - "Any sense organ that functions in (some) detection of chemical stimulus involved in sensory perception of taste (GO:0050912)." "FMA:77853" + "Any sense organ that functions in (some) detection of chemical stimulus involved in sensory perception of taste (GO:0050912)." "FMA:77853 FBbt:00005159" "The process in which a precursor cell type acquires the specialized features of a Langerhans cell." "A muscle cell that is part of the posterior internodal tract." "FMA:223280" "GC_ID:1 PMID:8581300 PMID:8603894 PMID:17600185" @@ -9584,6 +9610,7 @@ "Muscle structures are contractile cells, tissues or organs that are found in multicellular organisms[GO]." "FMA:30316" "Any process that modulates the frequency, rate, or extent of production of any member of the interleukin-17 family of cytokines." "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving amides." + "Any endothelial cell that is part of some renal afferent arteriole." "KUPO:0001039" "Any process that stops, prevents, or reduces the frequency, rate or extent of the immune response, the immunological reaction of an organism to an immunogenic stimulus." "An epithelial cell part of respiratory tract epithelium that is a precursor of a multi-ciliated cell. This cell actively amplifies centrioles, a required step for multiciliogenesis." "Simple squamous epithelium of mesodermal origin which lines serous membranes. Examples: mesothelium of pleura, mesothelium of peritoneum[FMA]. Wikipedia: The mesothelium is a membrane that forms the lining of several body cavities: the pleura (thoracal cavity), peritoneum (abdominal cavity including the mesentery) and pericardium (heart sac). Mesothelial tissue also surrounds the male internal reproductive organs (the tunica vaginalis testis) and covers the internal reproductive organs of women (the tunica serosa uteri)." "EHDAA:2331 EHDAA:2349 MA:0000565 AEO:0000111 CALOHA:TS-1183 EMAPA:32856 EHDAA:646 SCTID:361918002 EHDAA:640 FMA:14074 EHDAA:295 NCIT:C33105 UMLS:C0086610 Wikipedia:Mesothelium EHDAA:6073 EHDAA2_RETIRED:0003111 BTO:0002422" @@ -9609,7 +9636,7 @@ "Any process that stops, prevents or reduces the frequency, rate or extent of cell proliferation in midbrain." "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a supramolecular fiber, a polymer consisting of an indefinite number of protein or protein complex subunits that have polymerised to form a fiber-shaped structure." - "A sac-like expansion of the ventral wall of the intestine, narrowed into a yolk stalk near the body[Hyman's]. Membranous sac attached to an embryo, providing early nourishment in the form of yolk in bony fishes, sharks, reptiles, birds, and primitive mammals. It functions as the developmental circulatory system of the human embryo, before internal circulation begins. In the mouse, the yolk sac is the first site of blood formation, generating primitive macrophages and erythrocytes[WP]." "EHDAA2:0002212 Wikipedia:Yolk_sac NCIT:C14128 EMAPA:16085 GAID:1301 VHOG:0000830 SCTID:362845002 UMLS:C0043425 CALOHA:TS-1130 EHDAA:164 FMA:87180 EFO:0003078 MESH:D015017 BTO:0001471" + "A sac-like expansion of the ventral wall of the intestine, narrowed into a yolk stalk near the body[Hyman's]. Membranous sac attached to an embryo, providing early nourishment in the form of yolk in bony fishes, sharks, reptiles, birds, and primitive mammals. It functions as the developmental circulatory system of the human embryo, before internal circulation begins. In the mouse, the yolk sac is the first site of blood formation, generating primitive macrophages and erythrocytes[WP]." "EHDAA2:0002212 Wikipedia:Yolk_sac NCIT:C14128 EMAPA:16085 GAID:1301 VHOG:0000830 SCTID:362845002 CALOHA:TS-1130 UMLS:C0043425 EHDAA:164 FMA:87180 EFO:0003078 MESH:D015017 BTO:0001471" "A hair cell of the ear that contains the organs of balance and hearing." "Any process that modulates the frequency, rate or extent of development, the biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote, or a young adult) to a later condition (e.g. a multicellular animal or an aged adult)." "Any process that modulates the frequency, rate or extent of pancreatic B cell development." @@ -9619,6 +9646,7 @@ "A process in which a protein is transported to, or maintained in, a location within a cell junction." "A longitudinal muscle layer of muscular coat that is part of a vermiform appendix smooth muscle." "Any process that stops, prevents or reduces the frequency, rate or extent of endothelial cell apoptotic process." + "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layers L2/3-6." "A neuron that is part of a peripheral nervous system." "FMA:84664" "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a chemical stimulus." "The process by which an organism or tissue maintains a population of stem cells of a single type. This can be achieved by a number of mechanisms: stem cell asymmetric division maintains stem cell numbers; stem cell symmetric division increases them; maintenance of a stem cell niche maintains the conditions for commitment to the stem cell fate for some types of stem cell; stem cells may arise de novo from other cell types." @@ -9667,16 +9695,15 @@ "A splenic macrophage found in the marginal zone of the spleen, involved in recognition and clearance of particulate material from the splenic circulation. Markers include F4/80-negative, MARCO-positive, SR-A-positive, SIGN-R1-positive, and Dectin2-positive." "Any process that modulates synaptic transmission by regulating translation occurring at the presynapse." "The chemical reactions and pathways involving keratan sulfate, a glycosaminoglycan with repeat units consisting of beta-1,4-linked D-galactopyranosyl-beta-(1,4)-N-acetyl-D-glucosamine 6-sulfate and with variable amounts of fucose, sialic acid and mannose units; keratan sulfate chains are covalently linked by a glycosidic attachment through the trisaccharide galactosyl-galactosyl-xylose to peptidyl-threonine or serine residues." - "A cell found in the embryo before the formation of all the gem layers is complete." + "A cell found in the embryo before the formation of all the gem layers is complete." "ZFA:0009002" "An epithelial cell of the cortical portion of the thymus. Epithelial cells in this region are required for positive selection of CD8-positive T cells." "BTO:0004562" "Any apoptotic process in an outer hair cell." - "Functional part of an organ in the body. This is in contrast to the stroma, which refers to the structural tissue of organs, being exactly, connective tissues." "EHDAA:9196 NCIT:C74601 Wikipedia:Parenchyma EHDAA:9202 EHDAA:3905 EHDAA:4005 EHDAA:9182 EHDAA:8086 EHDAA:6899 EHDAA:9190 UMLS:C0933845 EHDAA:3999 FMA:45732 EHDAA:3015 EHDAA:6994 EHDAA:6903" + "Functional part of an organ in the body. This is in contrast to the stroma, which refers to the structural tissue of organs, being exactly, connective tissues." "EHDAA:9196 NCIT:C74601 Wikipedia:Parenchyma EHDAA:9202 EHDAA:3905 EHDAA:4005 EHDAA:9182 EHDAA:8086 EHDAA:9190 EHDAA:6899 UMLS:C0933845 EHDAA:3999 FMA:45732 EHDAA:3015 EHDAA:6994 EHDAA:6903" "The zone between the red and white pulp of the spleen containing numerous macrophages and lymphocytes, and a rich plexus of sinusoids supplied by white pulp arterioles carrying blood-borne antigens." "EMAPA:36650 MA:0000755 UMLS:C1711368 Wikipedia:Marginal_zone CALOHA:TS-2395 NCIT:C49767 FMA:15852" "Any process that modulates the frequency, rate or extent of brown fat cell proliferation." "Binding to fibrinogen, a highly soluble hexameric glycoprotein complex that is found in blood plasma and is converted to fibrin by thrombin in the coagulation cascade." "The chemical reactions and pathways resulting in the breakdown of a glycoprotein, a protein that contains covalently bound glycose (i.e. monosaccharide) residues; the glycose occurs most commonly as oligosaccharide or fairly small polysaccharide but occasionally as monosaccharide." - "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an epinephrine stimulus. Epinephrine is a catecholamine that has the formula C9H13NO3; it is secreted by the adrenal medulla to act as a hormone, and released by certain neurons to act as a neurotransmitter active in the central nervous system." "A disseminated nephrocyte is a nephrocyte that filters hemolymph and is found at scattered locations in the fat body or other tissues." "An indentation of the olfactory placode which ends when the pits hollows out to form the nasopharynx[GO]." "XAO:0004073 EHDAA2:0001295 FMA:295840 EMAPA:16800 EHDAA:4772 AAO:0011068 SCTID:361485001 Wikipedia:Nasal_pit XAO:0000275 EFO:0003496" "A duct that is part of a sebaceous gland." "FMA:70947 NCIT:C33520" @@ -9688,7 +9715,6 @@ "The orderly movement of epithelial cells within a renal tubule that contributes to metanephric nephron tubule morphogenesis." "Formation of dendrites, branched cellular projections (or cytoplasmic extension) that are extended from the surface of a dendritic immune cell, and which enable the cell to sample luminal pathogens and increase the surface area for antigen presentation to T cells." "The process in which the anatomical structure of a trigeminal ganglion is generated and organized." - "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 6 that expresses Car3." "A developmental process, independent of morphogenetic (shape) change, that is required for bone to attain its fully functional state." "An intermediate monocyte that is CD14-positive and with low amounts of CD16." "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating lowered oxygen tension. Hypoxia, defined as a decline in O2 levels below normoxic levels of 20.8 - 20.95%, results in metabolic adaptation at both the cellular and organismal level." @@ -9702,8 +9728,8 @@ "The morphogenetic process in which a bud forms from the mammary placode. A mammary bud is bulb of epithelial cells that is distinct from the surrounding epidermis." "Any process that modulates the frequency, rate or extent of macrophage differentiation." "The process by which an organelle membrane interacts with another membrane via molecular tethers that physically bridge the two membranes and attach them to each other." + "Binding to DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding." "An anatomical wall that is part of a cardiac ventricle [Automatically generated definition]." "MA:0002791 NCIT:C119295 FMA:13884" - "An enterocyte that is part of the epithelium proper of small intestine." "FMA:263096" "The change in morphology and behavior of a basophil resulting from exposure to a cytokine, chemokine, soluble factor, or to (at least in mammals) an antigen which the basophil has specifically bound via IgE bound to Fc-epsilonRI receptors." "Wikipedia:Basophil_activation" "The process in which anatomical structures of the mammary gland are generated and organized. Morphogenesis refers to the creation of shape. The mammary gland is a large compound sebaceous gland that in female mammals is modified to secrete milk." @@ -9712,7 +9738,6 @@ "A lymphoid follicle that is part of a lymph node." "EMAPA:35527 MA:0000742" "A developmental process in which a progressive change in the state of some part of an organism, germline or somatic, specifically contributes to its ability to form offspring." "The process in which a relatively unspecialized cell acquires the specialized features of a cellular spore, a cell form that can be used for dissemination, for survival of adverse conditions because of its heat and dessication resistance, and/or for reproduction." "Wikipedia:Sporogenesis" - "Any process that stops, prevents, or reduces the frequency, rate or extent of transmission of a nerve impulse, the sequential electrochemical polarization and depolarization that travels across the membrane of a neuron in response to stimulation." "A myoepithelial cell that is part of the dilatator pupillae." "FMA:70619" "A large binucleate cell that forms a 'garland' around the anterior end of the proventriculus (cardia) at its junction with the esophagus in both adults and larvae flies. Each cell is surrounded by a basement membrane and there are numerous micro-invaginations (lacunae) extending from the surface into the cytoplasm. At the mouth of each lacuna is a doubled filament forming a specialised filtration system (diaphragm). The filtrate is endocytosed from the lacunae." "FBbt:00005059 BTO:0004596" @@ -9724,15 +9749,16 @@ "Any process that stops, prevents, or reduces the frequency, rate or extent of embryonic development." "An epithelial cell of the kidney cortex." "KUPO:0001016" "A C-X-C chemokine receptor type 5 that is encoded in the genome of mouse." "UniProtKB:Q04683" - "The first few specialized divisions of an activated animal egg; Stage consisting of division of cells in the early embryo. The zygotes of many species undergo rapid cell cycles with no significant growth, producing a cluster of cells the same size as the original zygote. The different cells derived from cleavage are called blastomeres and form a compact mass called the morula. Cleavage ends with the formation of the blastula." "Wikipedia:Cleavage_(embryo) ZFS:0000046 BilaDO:0000006 OGES:000020 MESH:D002970 BILS:0000107 XAO:1000004 OGES:000015 PdumDv:0000200 MmusDv:0000004 EFO:0001290 FBdv:00000054" + "The first few specialized divisions of an activated animal egg; Stage consisting of division of cells in the early embryo. The zygotes of many species undergo rapid cell cycles with no significant growth, producing a cluster of cells the same size as the original zygote. The different cells derived from cleavage are called blastomeres and form a compact mass called the morula. Cleavage ends with the formation of the blastula." "Wikipedia:Cleavage_(embryo) BilaDO:0000006 ZFS:0000046 OGES:000020 MESH:D002970 BILS:0000107 XAO:1000004 OGES:000015 PdumDv:0000200 MmusDv:0000004 EFO:0001290 FBdv:00000054" - "A single extraembryonic epithelium, which closes the germband dorsally." "BTO:0004800 EFO:0000250" + "A single extraembryonic epithelium, which closes the germband dorsally." "BTO:0004800 EFO:0000250 FBbt:00000095" "Any process that activates or increases the frequency, rate or extent of iron ions import across plasma membrane." "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of carbohydrates." + "Any glial cell that is part of some lateral line nerve." "Any process that decreases the frequency, rate or extent of mesenchymal cell proliferation. A mesenchymal cell is a cell that normally gives rise to other cells that are organized as three-dimensional masses, rather than sheets." "Any process that stops, prevents or reduces the frequency, rate or extent of L-glutamate import into a cell." "A preadipocyte that is capable of differentiating into a brown adipocyte. This cell type expresses uncoupling protein-1, PPAR-gamma, PR-domain-containing 16; and PGC-1alpha (peroxisome proliferator-activated receptor-gamma (PPARgamma) coactivator-1alpha)." - "An organ that detects light." "MIAA:0000140 GAID:69 EFO:0000827 CALOHA:TS-0309 Wikipedia:Eye BILA:0000017 BTO:0000439 MESH:D005123 EV:0100336 MAT:0000140" + "An organ that detects light." "MIAA:0000140 GAID:69 EFO:0000827 CALOHA:TS-0309 FBbt:00005162 Wikipedia:Eye BILA:0000017 BTO:0000439 EV:0100336 MESH:D005123 MAT:0000140" "An enteroendocrine cell which produces a gastrin- and cholecystokinin-like peptide. The apical microvilli-rich plasma membrane is in open contact with the small intestine mucosa. This cell type is devoid of gastrin-17 but contains other fragments of the gastrin polypeptide." "FMA:63421" "Any process that stops, prevents, or reduces the frequency, rate or extent of T-helper 1 cell differentiation." "A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together." @@ -9740,14 +9766,15 @@ "A tissue-resident macrophage found in the alveoli of the lungs. Ingests small inhaled particles resulting in degradation and presentation of the antigen to immunocompetent cells. Markers include F4/80-positive, CD11b-/low, CD11c-positive, CD68-positive, sialoadhesin-positive, dectin-1-positive, MR-positive, CX3CR1-negative." "BTO:0000802 CALOHA:TS-0030 FMA:83023" "Obsolete. Use PO:0020094 from Plant Ontology instead. The female gamete of plants." "Any process that stops, prevents, or reduces the frequency, rate or extent of the movement of proteins from the cytoplasm into the nucleus." - "One of the two photoreceptor cell types in the vertebrate retina. In cones the photopigment is in invaginations of the cell membrane of the outer segment. Cones are less sensitive to light than rods, but they provide vision with higher spatial and temporal acuity, and the combination of signals from cones with different pigments allows color vision." "FMA:67748 CALOHA:TS-0866 BTO:0001036" + "One of the two photoreceptor cell types in the vertebrate retina. In cones the photopigment is in invaginations of the cell membrane of the outer segment. Cones are less sensitive to light than rods, but they provide vision with higher spatial and temporal acuity, and the combination of signals from cones with different pigments allows color vision." "ZFA:0009262 FMA:67748 CALOHA:TS-0866 BTO:0001036" "A thick plate of cells derived from the neural ectoderm in the head region of the embryo that develops into the olfactory region of the nasal cavity." "EMAPA:16543 ZFA:0000048 Wikipedia:Nasal_placode AAO:0011076 EFO:0003420 XAO:0000005 EHDAA2:0001232 FMA:293971 TAO:0000048 VHOG:0000186 EHDAA:1504" "Any process that modulates the frequency, rate or extent of the directed movement of nucleobases, nucleosides, nucleotides and nucleic acids, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." + "A DNA-binding transcription factor activity that modulates the transcription of specific gene sets transcribed by RNA polymerase II." "The spinal accessory nucleus lies within the cervical spinal cord (C1-C5) in the ventral horn. The nucleus ambiguus is classically said to provide the 'cranial component' of the accessory nerve. However, the very existence of this cranial component has been recently questioned and seen as contributing exclusively to the vagus nerve. The terminology continues to be used in describing both human anatomy, and that of other animals." "Wikipedia:Spinal_accessory_nucleus EMAPA:37067 MA:0001033 neuronames:2003 FMA:83965" "A macromolecular complex containing both protein and DNA molecules." "The structure containing the glomerular capsule and the glomerulus that serves as the initial blood-filtering component of a nephron." "VHOG:0001262 BTO:0000333 Wikipedia:Renal_corpuscle EMAPA:28236 TAO:0005281 EV:0100385 SCTID:361329009 FMA:15625 MA:0000376 ZFA:0005281 NCIT:C33456 UMLS:C0227635 EMAPA:35726 CALOHA:TS-1317" "Any process that stops, prevents, or reduces the frequency, rate or extent of the formation and development of a tooth or teeth." - "A precursor B cell is a B cell with the phenotype CD10-positive." "CALOHA:TS-0819 BTO:0001133" + "A precursor B cell is a B cell with the phenotype CD10-positive." "ZFA:0009344 CALOHA:TS-0819 BTO:0001133" "Any process that modulates the frequency, rate or extent of a response to an external stimulus." "Any process that activates or increases the rate or extent of osteoblast proliferation." "Any process that activates or increases the rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule." @@ -9767,7 +9794,6 @@ "A specialized epithelial cell that contains \"feet\" that interdigitate with the \"feet\" of other glomerular epithelial cells in the metanephros." "A hindlimb bone or its cartilage or pre-cartilage precursor." "A T-cell surface glycoprotein CD5 that is encoded in the genome of human." "UniProtKB:P06127" - "KUPO:0001070" "The initial attachment of a membrane or protein to a target membrane. Docking requires only that the proteins come close enough to interact and adhere." "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of juvenile hormone." "Any process that modulates the frequency, rate or extent of skeletal muscle contraction by changing the calcium ion signals that trigger contraction." @@ -9801,10 +9827,9 @@ "A compact bone tissue that is part of a diaphysis." "FMA:32678" "A nuclear bag fiber that is sensitive only changes in muscle length but not the rate of that change." "The chemical reactions and pathways involving glycogen, a polydisperse, highly branched glucan composed of chains of D-glucose residues in alpha-(1->4) glycosidic linkage, joined together by alpha-(1->6) glycosidic linkages." - "Ganglion containing neurons that receive innervation from parasympathetic neurons in the central nervous system and subserves parasympathetic functions through innervation of smooth muscle, cardiac muscle and glands." "FMA:5894 UMLS:C0017069 EHDAA2:0001400 NCIT:C52557 EMAPA:32813 Wikipedia:Parasympathetic_ganglion NLXANAT:100303 BTO:0001256 SCTID:279284004 MA:0002469" + "Ganglion containing neurons that receive innervation from parasympathetic neurons in the central nervous system and subserves parasympathetic functions through innervation of smooth muscle, cardiac muscle and glands." "MA:0002469 FMA:5894 UMLS:C0017069 EHDAA2:0001400 NCIT:C52557 EMAPA:32813 Wikipedia:Parasympathetic_ganglion NLXANAT:100303 BTO:0001256 SCTID:279284004" "The chemical reactions and pathways resulting in the breakdown of an organic substance, any molecular entity containing carbon." "An anastomosing network of delicate tubules located in the hilum of the testicle (mediastinum testis) that carries sperm from the seminiferous tubules to the vasa efferentia[WP]." "FMA:19834 MESH:D012152 Wikipedia:Rete_testis UMLS:C0035278 MA:0003013 GAID:399 EMAPA:18332 NCIT:C33467 SCTID:279617009" - "KUPO:0001069" "The metatarsus or metatarsal bones are a group of five long bones in the pes located between the tarsal bones of the hind- and mid-pes and the phalanges of the toes. Lacking individual names, the metatarsal bones are numbered from the medial side (side of big toe): the first, second, third, fourth, and fifth metatarsal. The metatarsals are analogous to the metacarpal bones of the manus. [WP,unvetted]." "UMLS:C0025584 BTO:0002347 MESH:D008682 Wikipedia:Metatarsal_bone EMAPA:36159 NCIT:C12752 FMA:24492 EMAPA:32940 SCTID:302532000 galen:Metatarsal MA:0000303 GAID:193" "The metathalamus is a composite structure of the thalamus, consisting of the medial geniculate nucleus and the lateral geniculate nucleus. [WP,unvetted]." "SCTID:361550004 EV:0100217 EMAPA:35376 Wikipedia:Metathalamus MBA:1008 BAMS:Metathalamus neuronames:351 BAMS:MetThal MA:0000868 FMA:62023 BAMS:MTh BIRNLEX:1461 BAMS:GENd" "A primary neuron (sensu Teleostei) that has a sensory function." @@ -9820,8 +9845,8 @@ "A ring of ribrous tissue that surrounds the atrioventricular and arterial orifices." "EMAPA:37422 FMA:9497 BTO:0003628 Wikipedia:Fibrous_rings_of_heart" "A myeloid dendritic cell found in the blood, lymph nodes, tonsil, bone marrow, and spleen that is CD141-positive (BDCA-3), XCR1-positive, and Clec9A-positive. This cell-type can cross-present antigen to CD8-positive T cells and can produce inteferon-beta." "The pair of anatomical structures comprised of a left lung and right lung." "FMA:68877" - "The combination of pericardial sac (a double-walled sac containing the heart and the roots of the great vessels) plus fibrous pericardium." "VHOG:0001280 FMA:9869 BSA:0000090 EHDAA:5376 UMLS:C0031050 GAID:569 NCIT:C13005 AAO:0010817 ZFA:0000054 CALOHA:TS-0761 MA:0000099 EV:0100023 SCTID:181295003 XAO:0004182 MAT:0000454 EFO:0000820 galen:Pericardium Wikipedia:Pericardium MESH:D010496 RETIRED_EHDAA2:0001443 BTO:0000717" - "KUPO:0001066" + "Any goblet cell that is part of some lung." + "The combination of pericardial sac (a double-walled sac containing the heart and the roots of the great vessels) plus fibrous pericardium." "VHOG:0001280 FMA:9869 BSA:0000090 EHDAA:5376 UMLS:C0031050 GAID:569 NCIT:C13005 AAO:0010817 ZFA:0000054 MA:0000099 EV:0100023 CALOHA:TS-0761 SCTID:181295003 XAO:0004182 MAT:0000454 EFO:0000820 galen:Pericardium Wikipedia:Pericardium MESH:D010496 RETIRED_EHDAA2:0001443 BTO:0000717" "An epithelium of the lobular bronchiole." "Tissue that is part of some adrenal gland." "NCIT:C32051" "The process in which the anatomical structures of the pronephros are generated and organized. In mammals, the pronephros is the first of the three embryonic kidneys to be established and exists only transiently. In lower vertebrates such as fish and amphibia, the pronephros is the fully functional embryonic kidney and is indispensable for larval life." @@ -9842,7 +9867,6 @@ "Any process that stops, prevents, or reduces the frequency, rate or extent of zygospore formation, a process in which a thick-walled spore of some algae and fungi is formed by union of two similar sexual cells, usually serves as a resting spore, and produces the sporophytic phase." "Any process that activates or increases the frequency, rate or extent of cell motility." "A polychromatophilic erythroblast that is Lyg 76-high and is Kit-negative." - "KUPO:0001067" "A proximal phalanx that is part of a pedal digit [Automatically generated definition]." "SCTID:85533000 NCIT:C52785 FMA:75828 MA:0001387 UMLS:C0224020 EMAPA:37312" "Any process that activates or increases the frequency, rate or extent of plasma cell differentiation." "The external part of the developing pharynx that is made of ectoderm. During vertebrate development, pockets form in pharyngeal ectoderm between the pharyngeal arches." "ZFA:0001379 TAO:0001379" @@ -9862,6 +9886,7 @@ "The process whose specific outcome is the progression of the lateral line over time, from its formation to the mature structure. The lateral line consists of small sensory patches (neuromasts) located superficially on the skin or just under the skin in fluid-filled canals on the head and body of all fishes and most amphibians. The lateral line develops from cranial ectodermal placodes situated behind the ear and between the eye and ear." "Any process that activates or increases the frequency, rate or extent of response to calcium ion." "Any process that modulates the frequency, rate or extent of extracellular matrix assembly." + "Any neuron that is capable of some detection of mechanical stimulus involved in sensory perception of touch." "The process in which the anatomical structures of the olfactory placode are generated and organized. The olfactory placode is a thickening of the neural ectoderm in the head region of the vertebrate embryo which develops into the olfactory region of the nasal cavity." "The process in which a relatively unspecialized hemocyte precursor cell acquires the specialized features of a lamellocyte. Lamellocytes are a hemocyte lineage that exists only in larvae, but are seldom observed in healthy animals. Lamellocytes differentiate massively in the lymph glands after parasitization and are large flat cells devoted to encapsulation of invaders too large to be phagocytosed by plasmatocytes." "A memory regulatory T cell with phenotype CD4-positive, CD25-positive, CD127lo, CCR4-positive, and CD45RO-positive." @@ -9872,7 +9897,7 @@ "A CD34 molecule that is encoded in the genome of mouse." "UniProtKB:Q64314" "The process whose specific outcome is the progression of the branchiomeric skeletal muscle over time, from its formation to the mature structure. The branchiomeric muscle is derived from cranial mesoderm and controls facial expression, pharyngeal and laryngeal function, operating the jaw. The muscle begins its development with the differentiation of the muscle cells and ends with the mature muscle. Branchiomeric muscles of mammals correspond to the gill musculature of fish." "A fibroblast that is part of the areolar connective tissue." "FMA:261279" - "A photoreceptor cell that is sensitive to blue light." + "A photoreceptor cell that is sensitive to blue light." "ZFA:0009222" "A ribonucleoprotein complex that contains aminoacylated initiator methionine tRNA, GTP, and initiation factor 2 (either eIF2 in eukaryotes, or IF2 in prokaryotes). In prokaryotes, fMet-tRNA (initiator) is used rather than Met-tRNA (initiator)." "A transparent homogeneous acellular layer found between the substantia propria and the endothelial layer of the cornea[MP]." "TAO:0002157 FMA:58309 MA:0001246 SCTID:281076002 EMAPA:18804 ZFA:0001686 Wikipedia:Descemet%27s_membrane NCIT:C32454 MESH:D003886 GAID:894 UMLS:C0011665" "A neurogenic placode that arises at the level of the midbrain-hindbrain boundary and develops into a trigeminal ganglion." "EHDAA2:0004209 VHOG:0000109 TAO:0000162 XAO:0000225 ZFA:0000162 EFO:0003433" @@ -9909,7 +9934,8 @@ "Formation and maintenance of a polarized microtubule array originating from a microtubule-organizing center (MTOC) in the oocyte. An example of this is found in Drosophila melanogaster." "A bistratified amacrine cell with a medium dendritic field, a flat and sparse dendritic arbor, and post-synaptic terminals at the intersections of S1 and S2, and S3 and S4." "Any process that stops, prevents or reduces the frequency, rate or extent of protein localization to cilium." - "This cell type produces and secretes melatonin and forms the pineal parenchyma. Extending from each cell body, which has a spherical, oval or lobulated mucleus, are one or more tortuous basophilic processes, containing parallel microtubules known as synaptic ribbons. These processes end in expanded terminal buds near capillaries or less, frequently, ependymal cells of the pineal recess. The terminal buds contain granular endoplasmic reticulum, mitochondria and electron-dense cored vesicles, which store monoamines and polypeptide hormones, release of which appears to require sympathetic innervation." "FMA:83417 BTO:0001068" + "The series of molecular signals initiated by a signaling molecule binding to its nuclear receptor inside the cell, and ending with the regulation of a downstream cellular process, e.g. transcription." + "This cell type produces and secretes melatonin and forms the pineal parenchyma. Extending from each cell body, which has a spherical, oval or lobulated mucleus, are one or more tortuous basophilic processes, containing parallel microtubules known as synaptic ribbons. These processes end in expanded terminal buds near capillaries or less, frequently, ependymal cells of the pineal recess. The terminal buds contain granular endoplasmic reticulum, mitochondria and electron-dense cored vesicles, which store monoamines and polypeptide hormones, release of which appears to require sympathetic innervation." "ZFA:0009284 FMA:83417 BTO:0001068" "Obsolete. Use PO:0000289 from Plant Ontology instead. One of the series of cellular components of a sieve tube. It shows a more or less pronounced differentiation between sieve plates (wide pores) and lateral sieve areas (narrow pores). Also sieve tube element and the obsolete sieve tube segment." "A muscular coat that is part of a duodenum." "SCTID:362147007 FMA:14944" "Any process that modulates the frequency, rate or extent of gastric mucosal blood circulation." @@ -9939,13 +9965,14 @@ "A portal vein that drains the descending colon. It is a tributary of the inferior mesenteric vein, and follows the path of its corresponding artery, the left colic artery." "FMA:15394" "The lacrimal glands are paired almond-shaped glands, located in or near the orbital region, that secrete the aqueous layer of the tear film.[WP]." "Wikipedia:Lacrimal_gland CALOHA:TS-0512 EMAPA:35463 SCTID:181147003 MA:0001296 BTO:0000044 Wikipedia:Preorbital_gland EFO:0001389 UMLS:C0022907 EV:0100339 FMA:59101 VHOG:0001476 NCIT:C12346" "The directed movement of dopamine into a cell." + "Any neuron that is capable of some detection of chemical stimulus involved in sensory perception of smell." "ZFA:0009125 BTO:0004185 FMA:67860 MESH:D018034 Wikipedia:Olfactory_receptor_neuron" "Any process that modulates the frequency or amplitude of synaptic transmission, the process of communication from a neuron to a target (neuron, muscle, or secretory cell) across a synapse. Amplitude, in this case, refers to the change in postsynaptic membrane potential due to a single instance of synaptic transmission." "The directed movement of a neurotransmitter receptor complex along microtubules in nerve cell dendrites towards the postsynapse." "An otic fibrocyte that lines the otic capsule." "The radial migration of a pyramidal neuron along radial glial cells." "Any process that stops, prevents or reduces the rate or extent of hemocyte proliferation. Hemocytes are blood cells associated with a hemocoel (the cavity containing most of the major organs of the arthropod body) which are involved in defense and clotting of hemolymph, but not involved in transport of oxygen. An example of this is found in Drosophila melanogaster." "Any process that activates or increases the frequency, rate or extent of outer hair cell apoptotic process." - "A somatic cell located in skeletal muscle." "FMA:9727 CALOHA:TS-2158 BTO:0004392" + "A somatic cell located in skeletal muscle." "ZFA:0009115 FMA:9727 CALOHA:TS-2158 BTO:0004392" "Any process that activates or increases the frequency, rate or extent of macrophage differentiation." "The cellular chemical reactions and pathways involving RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage." "The movement of organelles or other particles from one location in the cell to another along microtubules, driven by motor activity." @@ -9957,7 +9984,7 @@ "A cell whose primary function is intermediary metabolism." "A cellular component that forms a specialized region of connection between two or more cells, or between a cell and the extracellular matrix, or between two membrane-bound components of a cell, such as flagella." "Wikipedia:Cell_junction" "The process in which a relatively unspecialized cell acquires the specialized features of a DN4 thymocyte. A DN4 thymocyte is a CD4-,CD8- thymocyte that is also CD44-,CD25-." - "A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the outer half of the inner plexiform layer. These cells depolarize in response to light to dark transition." + "A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the outer half of the inner plexiform layer. These cells depolarize in response to light to dark transition." "ZFA:0009320" "Any process that activates or increases the frequency, rate, or extent of myeloid dendritic cell antigen processing and presentation." "One of of the pair of folds derived from the cloacal folds which give rise to a portion of the external genitalia; in male embryos they close over the urethral plate and fuse to form the spongy (penile) urethra and ventral aspect of the penis, not including the glans; failure of fusion of the urethral folds leads to hypospadias; in female embryos they fuse only anterior to the anus and form the labia minora[MP]." "Wikipedia:Urogenital_folds EMAPA:30888 FMA:321919 EHDAA2:0004022" "A portion of connective tissue that is part of a wrist [Automatically generated definition]." "EMAPA:37320 MA:0000636" @@ -9978,9 +10005,8 @@ "The process that gives rise to neurohypophysis. This process pertains to the initial formation of a structure from unspecified parts. The neurohypophysis is the part of the pituitary gland that secretes hormones involved in blood pressure regulation." "A pre-BCR-negative large pre-B-II cell is a large pre-B-II cell that is pre-B cell receptor-negative, composed of surrogate light chain protein (SL), which is composed of VpreB and Lambda 5/14.1, in complex with immunoglobulin mu heavy chain (IgHmu), on the cell surface, and lack a DNA rearrangement of immunoglobulin light chain genes." "An alpha-type platelet-derived growth factor receptor that is encoded in the genome of human." "UniProtKB:P16234 DTO:03100403" - "Combining with somatostatin to initiate a change in cell activity. Somatostatin is a peptide hormone that regulates the endocrine system by signaling via G protein-coupled somatostatin receptors. Somatostatin has two active forms produced by proteolytic cleavage: a 14 amino acid peptide (SST-14) and a 28 amino acid peptide (SST-28)." - "A cell that secretes insulin and is located towards the center of the islets of Langerhans." "EV:0200009 ncithesaurus:Beta_Cell MA:0002419 BTO:0000783 FMA:70586" + "A cell that secretes insulin and is located towards the center of the islets of Langerhans." "ZFA:0009102 EV:0200009 ncithesaurus:Beta_Cell MA:0002419 BTO:0000783 FMA:70586" "The popliteal vein course runs alongside the popliteal artery but carries the blood from the knee joint and muscles in the thigh and calf back to the heart. Its origin is defined by the junction of the posterior tibial vein and anterior tibial vein. It drains the peroneal vein before reaching the knee joint and turns into the femoral vein when leaving the adductor canal (also known as Hunter's canal). The popliteal artery extends from the femoral artery behind the popliteal fossa which is the space behind the knee. [WP,unvetted]." "FMA:44327 MA:0002197 galen:PoplitealVein EMAPA:37181 Wikipedia:Popliteal_vein GAID:537 MESH:D011152 UMLS:C0032652 NCIT:C33339 SCTID:281065001" "A ligament that is part of a middle ear." "A secondary follicle that is located in a lymph node." "EMAPA:35531 MA:0000744 FMA:312352" @@ -10000,6 +10026,7 @@ "Any process that activates or increases the frequency, rate or extent of T-helper cell differentiation." "A reflex process in which a response to an angular or linear acceleration stimulus begins with an afferent nerve impulse from a receptor in the inner ear and ends with the compensatory action of eye muscles. Signaling never reaches a level of consciousness." "Any process that stops, prevents, or reduces the frequency, rate or extent of cell migration." + "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 5. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', L5 IT." "ILX:0770157" "A collecting duct of renal tubule that is part of a metanephros [Automatically generated definition]." "VHOG:0000983" "A multi-organ-part structure that consists of three vessels of the portal lobule including the bile duct, a terminal branch of the hepatic artery and portal vein, and may also include a lymphatic vessel." "Wikipedia:Portal_triad MA:0002499 NCIT:C33342 FMA:17523 SCTID:362192000 UMLS:C0227514" "The stage of being a sexually mature adult animal." "OGES:000027 XAO:1000093 BILS:0000113 ZFS:0000044 OGES:000026 EV:0300064 MmusDv:0000110 EV:0300070 MIAA:0000403" @@ -10026,7 +10053,7 @@ "A developmental process, independent of morphogenetic (shape) change, that is required for a nucleate erythrocyte to attain its fully functional state. A nucleate erythrocyte is an erythrocyte with a nucleus." "The process in which a relatively unspecialized cell acquires specialized features of the embryonic placenta." "Any process that stops, prevents or reduces the frequency, rate or extent of sperm capacitation." - "A pharyngeal puch that is between the pharyngeal arches 2 and 3." "EHDAA2:0000058 VHOG:0000967 RETIRED_EHDAA2:0000060 UMLS:C0231069 SCTID:345349000 EMAPA:16275 AAO:0011115 XAO:0000247 ZFA:0001130 TAO:0001130 EFO:0003633 FMA:295676 Wikipedia:Pharyngeal_pouch_(embryology)#Second_pouch NCIT:C34289 VHOG:0000561" + "A pharyngeal puch that is between the pharyngeal arches 2 and 3." "EHDAA2:0000058 VHOG:0000967 RETIRED_EHDAA2:0000060 SCTID:345349000 UMLS:C0231069 EMAPA:16275 AAO:0011115 XAO:0000247 ZFA:0001130 TAO:0001130 EFO:0003633 FMA:295676 Wikipedia:Pharyngeal_pouch_(embryology)#Second_pouch NCIT:C34289 VHOG:0000561" "Any process that activates or increases the frequency, rate or extent of striated muscle cell differentiation." "An ureter that is part of a left side of organism [Automatically generated definition]." "UMLS:C0227683 FMA:15572 MA:0001684 EMAPA:37372 NCIT:C49324 SCTID:276340002" "FMA:58098" @@ -10036,14 +10063,14 @@ "Any process that modulates the frequency, rate or extent of T-helper cell differentiation." "A proenkephalin-B that is encoded in the genome of human." "UniProtKB:P01213" "Any process that modulates the frequency, rate or extent of serotonin biosynthetic process." - "An anatomical collection that is arranged in a line." + "An anatomical collection that is arranged in a line." "FBbt:00100152" "A lamina propria that is part of a urinary bladder [Automatically generated definition]." "MA:0001695 FMA:15935 EMAPA:30088 UMLS:C1706967 NCIT:C48940" "A T-cell acute lymphocytic leukemia protein 1 that is encoded in the genome of human." "Reactome:R-HSA-8956511 UniProtKB:P17542" "An immature or mature cell of the first erythroid lineage to arise during embryonic development." "Any process that activates or increases the frequency, rate or extent of lymphocyte differentiation." "Any process that activates or increases the frequency, rate or extent of reproductive process." "The directed movement of substances from the Golgi to other parts of the cell, including organelles and the plasma membrane, mediated by small transport vesicles." - "A gland that secretes a seminal fluid." "WBbt:0006870" + "A gland that secretes a seminal fluid." "FBbt:00004958 WBbt:0006870" "The orderly movement of a glial cell, non-neuronal cells that provide support and nutrition, maintain homeostasis, form myelin, and participate in signal transmission in the nervous system." "The movement of a macrophage in response to an external stimulus." "Any process that stops, prevents, or reduces the frequency, rate or extent of the innate immune response." @@ -10058,6 +10085,7 @@ "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving phosphates." "The movement of a granulocyte within or between different tissues and organs of the body." "The controlled release of a peptide from a cell in which the peptide acts as a neurotransmitter." + "Any vasa recta cell that is part of some inner renal medulla vasa recta." "KUPO:0001069" "The developmental process pertaining to the initial formation of a cardiac ventricle from unspecified parts. A cardiac ventricle receives blood from a cardiac atrium and pumps it out of the heart." "A bodily secretion that is produced by a gland of anal sac." "A renal system process in which water is taken up from the collecting ducts and proximal and distal loops of the nephron. In non-mammalian species, absorption may occur in related structures." @@ -10081,11 +10109,11 @@ "A neuromuscular junction that functions in the excitation of somatic muscle myotubes, such as an arthropod somatic muscle cells." "A urethral meatus that is part of a male urethra[Automatically generated definition]." "EMAPA:36434 FMA:85265 Wikipedia:External_urethral_orifice_(male) SCTID:279478000 MA:0002642" "Any process that modulates the frequency, rate or extent of lysosome organization." - "A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." + "A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." "Wikipedia:Reproduction" "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an inorganic substance stimulus." "The progression of the hepatic duct over time, from its formation to the mature structure. The hepatic duct is the duct that leads from the liver to the common bile duct." "The process in which the anatomical structures of the epidermis are generated and organized. The epidermis is the outer epithelial layer of an animal, it may be a single layer that produces an extracellular material (e.g. the cuticle of arthropods) or a complex stratified squamous epithelium, as in the case of many vertebrate species." - "A specialized kidney epithelial cell, contained within a glomerulus, that contains \"feet\" that interdigitate with the \"feet\" of other podocytes." "FMA:70967 BTO:0002295" + "A specialized kidney epithelial cell, contained within a glomerulus, that contains \"feet\" that interdigitate with the \"feet\" of other podocytes." "ZFA:0009285 FMA:70967 BTO:0002295" "GC_ID:1" "An immature, nucleated erythrocyte occupying the stage of erythropoeisis that follows formation of erythroid progenitor cells. This cell is CD71-positive, has both a nucleus and a nucleolus, and lacks hematopoeitic lineage markers." "FMA:83518" "Any process that stops, prevents or reduces the frequency, rate or extent of calcium ion transmembrane transport." @@ -10093,7 +10121,7 @@ "Any process that modulates the frequency, rate or extent of asymmetric cell division." "An endothelium that is part of a right lung." "EHDAA2:0001755" "The process whose specific outcome is the progression of a lymph vessel over time, from its formation to the mature structure." - "A pigment cell derived from the neural crest. Contains cartenoid pigments in structures called pterinosomes or xanthosomes. This gives an appearance ranging from a golden yellow to orange and red." + "A pigment cell derived from the neural crest. Contains cartenoid pigments in structures called pterinosomes or xanthosomes. This gives an appearance ranging from a golden yellow to orange and red." "ZFA:0009198" "Any apoptotic process in a nurse cell. During late oogenesis, following the transfer of substances from the nurse cells to the oocyte, nurse cell remnants are cleared from the egg chamber by apoptotic process." "A natural killer cell receptor NKG2 that is a translation product of the human KLRC1 gene or a 1:1 ortholog thereof." "IUPHARobj:2849" "The series of events in which a chemical stimulus is received by a cell and converted into a molecular signal." @@ -10139,7 +10167,7 @@ "A near-projecting glutamatergic neuron with a soma found in layer 5/6 of the primary motor cortex." "ILX:0770161" "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a lipid stimulus." "Any process that activates or increases the frequency, rate or extent of the directed movement of a neurotransmitter into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." - "A lymphocyte that can spontaneously kill a variety of target cells without prior antigenic activation via germline encoded activation receptors and also regulate immune responses via cytokine release and direct contact with other cells." "MESH:D007694 FMA:63147 BTO:0004716 VHOG:0001697 BTO:0000914 CALOHA:TS-0664 FMA:83601" + "A lymphocyte that can spontaneously kill a variety of target cells without prior antigenic activation via germline encoded activation receptors and also regulate immune responses via cytokine release and direct contact with other cells." "ZFA:0009278 MESH:D007694 FMA:63147 BTO:0004716 VHOG:0001697 BTO:0000914 CALOHA:TS-0664 FMA:83601" "A zone of skin that is part of a hip region." "EMAPA:18148 MA:0000658 SCTID:181518004 FMA:45282" "A mucosa that is part of a terminal bronchiole [Automatically generated definition]." "FMA:263232" "A tube lumen that is part of a mesonephric duct." "EHDAA2:0001244" @@ -10176,7 +10204,6 @@ "The process in which relatively unspecialized cells acquire specialized structural and/or functional features of an epithelial cell that characterize the cells of the kidney as it progresses from its formation to the mature state." "A T cell that is located in the intestinal epithelium and is capable of a mucosal immune response." "MESH:D000075942" "A blood vessel that drains blood from the large intestine that usually terminates when reaching the splenic vein, which goes on to form the portal vein with the superior mesenteric vein (SMV). Anatomical variations include the IMV draining into the confluence of the SMV and splenic vein and the IMV draining in the SMV. The IMV lies to the right of the similarly name artery, the inferior mesenteric artery, which originates from the abdominal aorta. [WP,unvetted]." "BTO:0002782 VHOG:0001118 Wikipedia:Inferior_mesenteric_vein SCTID:281055007 MA:0002178 UMLS:C0226754 EHDAA:8712 EHDAA2:0000819 NCIT:C32782 EMAPA:18642 FMA:15391" - "KUPO:0001077" "A mature NK cell that is NK1.1-positive." "Front (ventral) portion of the vascular, pigmentary, or middle coat of the eye, including the ciliary body and the iris." "SCTID:280656002 EMAPA:37417" "A small medullary thymic epithelial cell with a spindle shape, often arranged in groups and connected to each other by large desmosomes and interdigitations. The cytoplasm is sparse, with scanty organelles and thick bundles of cytokeratin." @@ -10193,7 +10220,7 @@ "Any process that decreases the rate, frequency, or extent of hair follicle placode formation, the developmental process in which a hair placode forms. An hair follicle placode is a thickening of the ectoderm that will give rise to the hair follicle bud." "A langerin-positive lymph node dendritic cell that is CD103-negative and CD11b-high." "The ileocolic vein is a vein which drains the ileum, colon, and cecum. [WP,unvetted]." "UMLS:C0226744 SCTID:36208008 Wikipedia:Ileocolic_vein NCIT:C53047 MA:0002141 EMAPA:37150 FMA:15408" - "A proximal-distal subdivision of the digestive tract." "FMA:71131" + "A proximal-distal subdivision of the digestive tract." "FBbt:00100315 FMA:71131" "A protein that is a translation product of the human CD22 gene or a 1:1 ortholog thereof." "IUPHARobj:2786" "A chief cell of parathyroid glands that does not stain with hematoxylin or eosin. This cell is larger, has a larger nucleus and fewer secretory granules than dark chief cells." "FMA:69081" "Any process that stops or decreases the rate or extent of hepatocyte differentiation." @@ -10214,13 +10241,13 @@ "Layer of neocortex lying deep to the external pyramidal cell layer defined cytoarchitecturally by the presence of numerous small cells." "neuronames:2449 NCIT:C32844 FMA:77811 PBA:294021852 MA:0000900 UMLS:C1512872 ABA:CTX4 EMAPA:35258 NLXANAT:090810" "Portion of tissue composed of mesenchymal cells (motile cells that develop from epthelia via an epithelial to mesenchymal transition) and surrounding extracellular material. Mesenchyme has different embryological origins in different metazoan taxa - in many invertebrates it derives in whole or part from ectoderm. In vertebrates it derives largely from mesoderm, and sometimes the terms are used interchangeably, e.g. lateral plate mesoderm/mesenchyme." "NCIT:C13301 CALOHA:TS-0620 UMLS:C0162415 VHOG:0000170 EHDAA2:0003145 EV:0100007 ZFA:0000393 AAO:0010427 AEO:0000145 BTO:0001393 XAO:0003046 TAO:0000393 Wikipedia:Mesenchyme" - "The chemical reactions and pathways resulting in the formation of chondroitin sulfate, any member of a group of 10-60 kDa glycosaminoglycans, widely distributed in cartilage and other mammalian connective tissues, the repeat units of which consist of beta-(1,4)-linked D-glucuronyl beta-(1,3)-N-acetyl-D-galactosamine sulfate." + "The chemical reactions and pathways resulting in the formation of chondroitin sulfate, any member of a group of 10-60 kDa glycosaminoglycans, widely distributed in cartilage and other mammalian connective tissues, the repeat units of which consist of beta-(1,4)-linked D-glucuronyl beta-(1,3)-N-acetyl-D-galactosamine sulfate." "MetaCyc:PWY-6567" "A fully differentiated basophil, a granular leukocyte with an irregularly shaped, pale-staining nucleus that is partially constricted into two lobes, and with cytoplasm that contains coarse granules of variable size. Basophils contain vasoactive amines such as histamine and serotonin, which are released on appropriate stimulation." "CALOHA:TS-0688 BTO:0001026" "Any process that stops, prevents, or reduces the frequency, rate, or extent of muscle adaptation." "The regulated release of gastric acid (hydrochloric acid) by parietal or oxyntic cells during digestion." "A bone in the skull that separates the nasal cavity from the brain. As such, it is located at the roof of the nose, between the two orbits. The cubical bone is lightweight due to a spongy construction. The ethmoid bone is one of the bones that makes up the orbit of the eye[WP]." "UMLS:C0015027 NCIT:C12711 Wikipedia:Ethmoid_bone VHOG:0001317 MESH:D005004 FMA:52740 EMAPA:19018 SCTID:272674006 BTO:0004140 MA:0001483 GAID:212" "Any process that activates or increases the frequency, rate, or extent of the production of molecular mediator of immune response." - "A fibroblast that synthesizes collagen and uses it to produce reticular fibers, thus providing structural support. Reticular cells are found in many organs, including the spleen, lymph nodes and kidneys. Subtypes of reticular cells include epithelial, mesenchymal, and fibroblastic reticular cells. Fibroblastic reticular cells are involved in directing B cells and T cells to specific regions within a tissue, whereas epithelial and mesenchymal reticular cells are associated with certain areas of the brain." "FMA:62877" + "A fibroblast that synthesizes collagen and uses it to produce reticular fibers, thus providing structural support. Reticular cells are found in many organs, including the spleen, lymph nodes and kidneys. Subtypes of reticular cells include epithelial, mesenchymal, and fibroblastic reticular cells. Fibroblastic reticular cells are involved in directing B cells and T cells to specific regions within a tissue, whereas epithelial and mesenchymal reticular cells are associated with certain areas of the brain." "ZFA:0009200 FMA:62877" "EMAPA:37597 MA:0002449" "A slow mechanism of blood pressure regulation that responds to changes in pressure resulting from fluid and salt intake by modulating the quantity of blood in the circulatory system." @@ -10245,14 +10272,14 @@ "A muscle of the tympanic cavity that attaches to an auditory ossicle." "Wikipedia:Muscles_of_auditory_ossicles UMLS:C1513769 MA:0000256 SCTID:244778009 FMA:49026 NCIT:C33148 EMAPA:37776" "The nodules of small undifferentiated B lymphocytes and follicular dendritic cells located in the spleen white pulp." "EMAPA:37960 FMA:15843" "An artery of the neck." "UMLS:C1707349 NCIT:C52850 EMAPA:37075" - "The postcranial subdivision of skeleton structural components forming the long axis of the vertebrate body; in Danio, consisting of the notochord, vertebrae, ribs, supraneurals, intermuscular bones, and unpaired median fins; in human consists of the bones of the vertebral column, the thoracic cage and the pelvis[ZFA+FMA]." "VSAO:0000093 ZFA:0000317 MIAA:0000148 XAO:0003073 MA:0002986 EMAPA:37721 EFO:0000942 TAO:0000317 MAT:0000148 VHOG:0000317 EHDAA:5049 FMA:71221 EHDAA2:0000161 AAO:0000034" + "The postcranial subdivision of skeleton structural components forming the long axis of the vertebrate body; in Danio, consisting of the notochord, vertebrae, ribs, supraneurals, intermuscular bones, and unpaired median fins; in human consists of the bones of the vertebral column, the thoracic cage and the pelvis[ZFA+FMA]." "VSAO:0000093 ZFA:0000317 MIAA:0000148 XAO:0003073 MA:0002986 EMAPA:37721 EFO:0000942 TAO:0000317 MAT:0000148 VHOG:0000317 EHDAA:5049 FMA:71221 AAO:0000034 EHDAA2:0000161" "An immature T cell located in the thymus." "MESH:D060168 CALOHA:TS-1042 BTO:0001372 XAO:0003159 FMA:72202" "Any process that modulates the frequency, rate or extent of muscle hypertrophy." "The process in which a relatively unspecialized epithelial cell becomes a more specialized epithelial cell of the mammary gland cord. Epithelial cells of the mammary cord give it its funnel-like shape and some are cornified." "Any process that stops, prevents or reduces the frequency, rate or extent of motor neuron migration." "The tarsometatarsal articulations are arthrodial joints in the pes." "FMA:35216 Wikipedia:Tarsometatarsal_articulations SCTID:182222008" "Enables the transfer of a peptide from one side of a membrane to the other." "Reactome:R-HSA-1500817" - "A cell of an exocrine gland; i.e. a gland that discharges its secretion via a duct." "FMA:16014" + "A cell of an exocrine gland; i.e. a gland that discharges its secretion via a duct." "ZFA:0009092 FMA:16014" "A thermoreceptor cell that detects reduced temperatures." "A platelet glycoprotein Ib alpha chain that is encoded in the genome of mouse." "UniProtKB:O35930" "The biological process whose specific outcome is the progression of a lobar bronchus mesenchyme from an initial condition to its mature state. This process begins with the formation of the lobar bronchus mesenchyme and ends with the mature structure. The lobar bronchus mesenchyme is the mass of tissue composed of mesenchymal cells in the lobar bronchus." @@ -10286,10 +10313,11 @@ "The progression of the neural retina over time from its initial formation to the mature structure. The neural retina is the part of the retina that contains neurons and photoreceptor cells." "Any process that modulates the frequency, rate or extent of epithelial cell differentiation." "The process in which a relatively unspecialized cell acquires specialized features of a neural crest cell." - "The distalmost portion of the digestive tract, derived from the hindgut, and terminating with the anus." "WBbt:0005773" + "The distalmost portion of the digestive tract, derived from the hindgut, and terminating with the anus." "FBbt:00005756 WBbt:0005773" "A CNS interneuron located in the dorsal horn of the spinal cord." "The lipid bilayer surrounding a zymogen granule." "A lymphocyte of B lineage with the commitment to express an immunoglobulin complex." + "Any process that modulates the frequency, rate or extent of transcription mediated by RNA polymerase II." "The galea aponeurotica (epicranial aponeurosis, aponeurosis epicranialis) is a tough layer of dense fibrous tissue which covers the upper part of the cranium; behind, it is attached, in the interval between its union with the Occipitales, to the external occipital protuberance and highest nuchal lines of the occipital bone; in front, it forms a short and narrow prolongation between its union with the Frontales. On either side it gives origin to the Auriculares anterior and superior; in this situation it loses its aponeurotic character, and is continued over the temporal fascia to the zygomatic arch as a layer of laminated areolar tissue. It is closely connected to the integument by the firm, dense, fibro-fatty layer which forms the superficial fascia of the scalp: it is attached to the pericranium by loose cellular tissue, which allows the aponeurosis, carrying with it the integument to move through a considerable distance." "EMAPA:19210 FMA:46768 Wikipedia:Galea_aponeurotica SCTID:368677009" "Any collection of muscles that is part of a foot [Automatically generated definition]." "FMA:50214" "BIRNLEX:749" @@ -10304,24 +10332,26 @@ "An ON bipolar cell type with dendrites selectively contacting S-cones." "A rib bone or its cartilage or pre-cartilage precursor." "Any process that activates or increases the frequency, rate or extent of muscle adaptation." - "A muscle cell that develops tension more slowly than a fast-twitch fiber." - "Any sensillum (UBERON:6007152) that is part of some larva (UBERON:6001727)." + "A muscle cell that develops tension more slowly than a fast-twitch fiber." "ZFA:0009116" + "Any sensillum (UBERON:6007152) that is part of some larva (UBERON:6001727)." "FBbt:00007240" "The somatic process allowing for the production of immune receptors whose specificity is not encoded in the germline genomic sequences." "The process in which a relatively unspecialized cell acquires specialized structural and/or functional features of an adrenal chromaffin cell. An adrenal chromaffin cell is a neuroendocrine cell that stores epinephrine secretory vesicles." "Binding to a lipoprotein particle. A lipoprotein particle, also known as a lipoprotein, is a clathrate complex consisting of a lipid enwrapped in a protein host without covalent binding in such a way that the complex has a hydrophilic outer surface consisting of all the protein and the polar ends of any phospholipids." "Any process that modulates the frequency, rate or extent of the assembly of actin filament bundles." "The progression of the mammary gland lobule over time, from its formation to the mature structure. A mammary gland lobule is a small rounded projection of the mammary gland." "Any process that stops, prevents, or reduces the frequency, rate or extent of reproductive process." + "A cell type located in the first layer of the neocortex with radial protrusions extending transversely into the deeper cortex layers, herby facilitating communication across neurons, astrocytes, capillaries, meninges and cerebrospinal fluid through contact with neurons, pia mater and capillaries." "A layer of dense irregular connective tissue that lines organs and supports the mucosa, as well as joins the mucosa to the bulk of underlying smooth muscle. [WP,unvetted]." "Wikipedia:Submucosa FMA:85392 NCIT:C13167 UMLS:C0225344 FMA:85391 BTO:0002107 SCTID:68439008" "A stem cell that gives rise to the follicle cells that surround the oocyte in female arthropods." "FBbt:00004903" "A pre-B-I cell is a precursor B cell that expresses CD34 and surrogate immunoglobulin light chain (VpreB , Lambda 5 (mouse)/14.1 (human)) on the cell surface, and TdT, Rag1,and Rag2 intracellularly. Cell type carries a D-JH DNA rearrangement, and lacks expression of immunglobulin heavy chain protein." "A cytotoxic T-lymphocyte protein 4 that is encoded in the genome of human." "UniProtKB:P16410" "An OFF calbindin-positive bipolar cell that has a large dendritic field and stratifies narrowly close to the middle of the inner plexiform layer. Its axon terminal is characterized by regularly branching and varicose processes resembling beads on a string. Most of DB3a contacts with cones are triad-associated." "The ciliary muscle is a ring of smooth muscle in the middle layer of the eye that controls the eye's accommodation for viewing objects at varying distances and regulates the flow of aqueous humour through Schlemm's canal. [WP,unvetted]." "EMAPA:35240 BTO:0000654 SCTID:280862009 MA:0001269 UMLS:C0559230 Wikipedia:Ciliary_muscle FMA:49151 NCIT:C32315" - "A type of enteocrine cell found in the periphery of the islets of Langerhans that secretes glucagon." "FMA:70585 BTO:0000990 MESH:D050416" - "A neuron that uses GABA as a vesicular neurotransmitter" "FBbt:00007228 WBbt:0005190 MESH:D059330 FMA:84788" + "A type of enteocrine cell found in the periphery of the islets of Langerhans that secretes glucagon." "ZFA:0009104 FMA:70585 BTO:0000990 MESH:D050416" + "A neuron that uses GABA as a vesicular neurotransmitter" "ZFA:0009276 FBbt:00007228 WBbt:0005190 MESH:D059330 FMA:84788" "GC_ID:1" "The veins that run parallel to the phrenic arteries which include the two superior and two inferior phrenic veins." "EMAPA:37180 UMLS:C1709532 NCIT:C53062 MA:0002194" + "Any renal intercalated cell that is part of some collecting duct of renal tubule." "http://en.wikipedia.org/wiki/Collecting_duct_system#Intercalated_cells KUPO:0001129" "The process whose specific outcome is the progression of the epidermis over time, from its formation to the mature structure. The epidermis is the outer epithelial layer of an animal, it may be a single layer that produces an extracellular material (e.g. the cuticle of arthropods) or a complex stratified squamous epithelium, as in the case of many vertebrate species." "The reorganization or renovation of existing tissues. This process can either change the characteristics of a tissue such as in blood vessel remodeling, or result in the dynamic equilibrium of a tissue such as in bone remodeling." "Mesenchyme that is part of a hindlimb bud." @@ -10339,7 +10369,7 @@ "The process whose specific outcome is the progression of the lateral line system over time, from its formation to the mature structure. The lateral line system is a network of sensory organs (neuromasts) and lateral line nerves located superficially on the skin or just under the skin in fluid-filled canals on the head and body of all fishes and most amphibians. The lateral line system develops from cranial ectodermal placodes situated between the eye and ear." "A thymocyte that has a T cell receptor consisting of a gamma chain that does not contain the Vgamma2 segment, and a delta chain. This cell type is CD4-negative, CD8-negative and CD24-negative." "The synthesis or release of any molecular mediator of the immune response, resulting in an increase in its intracellular or extracellular levels." - "An epithelial cell that has a cilia." "FMA:70605" + "An epithelial cell that has a cilia." "ZFA:0009035 FMA:70605" "OBSOLETED. Commonly used for a cell in root epidermis that gives rise to a root hair. The daughter cell produced by the asymmetric division of a root epidermal cell that gives rise to a root hair." "Specialized elongated ventricular ependymal cell that has processes that extend to the outer, or pial, surface of the CNS. Resemble spongioblasts seen in developing brain. Found in the adult brain in the third ventricle, cerebral aqueduct, spinal canal and floor of the fourth ventricle." "FMA:54560 BTO:0001953" "Any process that activates or increases the frequency, rate or extent of export of iron ions from inside of a cell, across the plasma membrane and into the extracellular region." @@ -10355,7 +10385,7 @@ "The process in which the anatomical structure of the trigeminal nerve is generated and organized. The trigeminal nerve is composed of three large branches. They are the ophthalmic (V1, sensory), maxillary (V2, sensory) and mandibular (V3, motor and sensory) branches. The sensory ophthalmic branch travels through the superior orbital fissure and passes through the orbit to reach the skin of the forehead and top of the head. The maxillary nerve contains sensory branches that reach the pterygopalatine fossa via the inferior orbital fissure (face, cheek and upper teeth) and pterygopalatine canal (soft and hard palate, nasal cavity and pharynx). The motor part of the mandibular branch is distributed to the muscles of mastication, the mylohyoid muscle and the anterior belly of the digastric. The mandibular nerve also innervates the tensor veli palatini and tensor tympani muscles. The sensory part of the mandibular nerve is composed of branches that carry general sensory information from the mucous membranes of the mouth and cheek, anterior two-thirds of the tongue, lower teeth, skin of the lower jaw, side of the head and scalp and meninges of the anterior and middle cranial fossae." "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a histamine stimulus. Histamine, the biogenic amine 2-(1H-imidazol-4-yl)ethanamine, is involved in local immune responses as well as regulating physiological function in the gut and acting as a neurotransmitter." "The process whose specific outcome is the progression of the metanephric pyramids over time, from their formation to the mature structures. Metanephric pyramids are the conical masses that constitute the renal medulla in a metanephros; they contain the loops of Henle and the medullary collecting ducts." - "A subdivision of the muscular system corresponding to a subdisivision of an organism." "MA:0000165 NCIT:C13056 EFO:0001949 ZFA:0000548 TAO:0000548 BTO:0000887 EMAPA:35577 WBbt:0005737 VSAO:0005038 FMA:32558 Wikipedia:Muscular_system UMLS:C0026845" + "A subdivision of the muscular system corresponding to a subdisivision of an organism." "MA:0000165 NCIT:C13056 EFO:0001949 ZFA:0000548 TAO:0000548 BTO:0000887 EMAPA:35577 VSAO:0005038 FMA:32558 WBbt:0005737 Wikipedia:Muscular_system UMLS:C0026845" "Any process that activates or increases the frequency, rate or extent of neuroblast migration." "Any process that activates or increases the frequency, rate or extent of ovarian cumulus cell differentiation." "A chromaffin cell that is part of the paraaortic body." "FMA:69328" @@ -10378,10 +10408,12 @@ "A vertebra in the trunk or cervical region. Includes all cervical, thoracic and lumbar vertebrae, but excludes caudal vertebra." "XAO:0003077 EMAPA:37722 MA:0002869" "The polygonal structure of the liver that consists of hepatocytes radiating outward from a hepatic vein." "UMLS:C0227518 Wikipedia:Lobules_of_liver NCIT:C32732 SCTID:362194004 MA:0002494 EMAPA:35499 FMA:14471" "The developmental process pertaining to the initial formation of a renal capsule from unspecified parts. The renal capsule is the tough fibrous layer surrounding the kidney, covered in a thick layer of perinephric adipose tissue. It provides some protection from trauma and damage. During development, it comprises a single layer of flattened cells that lie just above the cortical stroma and the condensed mesenchyme of the nephrogenic zone. It is in this region that the early stages of nephron induction and formation of new generations ureteric bud branches occur, as the kidney expands." + "The series of molecular signals initiated by corticosteroid binding to its nuclear receptor inside the cell, and ending with the regulation of a downstream cellular process, e.g. transcription." "A stromal cell that is part of the thymus." "A developmental process, independent of morphogenetic (shape) change, that is required for the cerebellar molecular layer to attain its fully functional state. The molecular layer is the outermost layer of the cerebellar cortex. It contains the parallel fibers of the granule cells, interneurons such as stellate and basket cells, and the dendrites of the underlying Purkinje cells." "Any process that stops, prevents, or reduces the frequency, rate or extent of keratinocyte differentiation." "The process in which the anatomical structure of the endocardium is generated and organized. The endocardium is an anatomical structure comprised of an endothelium and an extracellular matrix that forms the innermost layer of tissue of the heart, and lines the heart chambers." + "Any nucleus that has characteristic some alobate." "The process whose specific outcome is the progression of the inner stripe over time, from its formation to the mature structure. The inner stripe is a deep, centrally located portion of the renal outer medulla and is traversed by thin descending and thick ascending portions of the loops of Henle." "A proximal epiphysis that is part of a metatarsal bone [Automatically generated definition]." "SCTID:119545008 FMA:33817" "Any process that modulates the frequency, rate, or extent of leukocyte chemotaxis." @@ -10445,7 +10477,7 @@ "The directed movement of iron (Fe) ions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." "Sweat that is produced by the glands on the palmar and plantar surfaces." "FMA:63084" "Any process that modulates the frequency, rate or extent of apoptotic process involved in morphogenesis." - "Any of the numerous small mucous-secreting glands located in the wall of the penile urethra." "SCTID:303562001 UMLS:C1314737 EMAPA:29645 Wikipedia:Urethral_gland NCIT:C49311 FMA:21443" + "Any of the numerous small mucous-secreting glands located in the wall of the penile urethra." "SCTID:303562001 EMAPA:29645 UMLS:C1314737 Wikipedia:Urethral_gland NCIT:C49311 FMA:21443" "The process whose specific outcome is the progression of a neuron over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell." "Any process that modulates the frequency, rate, or extent of interferon type I production. Type I interferons include the interferon-alpha, beta, delta, episilon, zeta, kappa, tau, and omega gene families." "Any process that activates or increases the frequency, rate or extent of mitotic chromosome condensation." @@ -10476,21 +10508,21 @@ "Any process that increases the rate, frequency, or extent of the regulated release of a peptide hormone from secretory granules." "A protein complex which is capable of catalytic activity." "Any collection of muscles that is part of a forelimb [Automatically generated definition]." "FMA:50396" - "An organ that functions as a secretory or excretory organ." "EHDAA:2161 MA:0003038 WikipediaCategory:Glands Wikipedia:Gland galen:Gland SCTID:134358001 FMA:7146 MAT:0000021 MIAA:0000021 EFO:0000797 AAO:0000212 NCIT:C13319 EHDAA2:0003096 FMA:86294 AEO:0000096 BTO:0000522 EMAPA:18425 HAO:0000375 UMLS:C1285092" + "An organ that functions as a secretory or excretory organ." "EHDAA:2161 MA:0003038 WikipediaCategory:Glands Wikipedia:Gland galen:Gland SCTID:134358001 FMA:7146 MAT:0000021 MIAA:0000021 EFO:0000797 AAO:0000212 NCIT:C13319 EHDAA2:0003096 FMA:86294 FBbt:00100317 AEO:0000096 BTO:0000522 EMAPA:18425 HAO:0000375 UMLS:C1285092" "One of two hemispherical bulges on the base of the posterior hypothalamus (Butler and Hodos, Comparative Vertebrate Neuroanatomy, 2nd ed., 2005, pg 455)." "UMLS:C0024670 EMAPA:35542 BAMS:MBO ZFA:0000334 FMA:74877 DHBA:15546 MESH:D008326 BAMS:mmb BAMS:MB HBA:12909 neuronames:412 TAO:0000334 MA:0000174 UMLS:C1305759 Wikipedia:Mammillary_body NCIT:C33052 BIRNLEX:865 GAID:652 SCTID:279306001 DMBA:15723 MBA:331" "Muscle that is part of the respiratory system." "A cell type found in the gastrointestinal and respiratory tracts that is characterized by the presence of a tuft of blunt, squat microvilli (120-140 per cell). Function of this cell type is not known." "FMA:67978" - "Primordia are populations of contiguous cells that are morphologically distinct and already correspond in extent to a later organ/tissue[FBbt, Hartenstein, V. (2004)]." "NCIT:C34275 BTO:0001886 FMA:86589 EHDAA2:0003171 EFO:0001652 Wikipedia:Primordium MAT:0000482 AEO:0000171 UMLS:C0678727 XAO:0003043" + "Primordia are populations of contiguous cells that are morphologically distinct and already correspond in extent to a later organ/tissue[FBbt, Hartenstein, V. (2004)]." "NCIT:C34275 BTO:0001886 FMA:86589 EHDAA2:0003171 EFO:0001652 FBbt:00005495 Wikipedia:Primordium MAT:0000482 AEO:0000171 UMLS:C0678727 XAO:0003043" "A change in the morphology or behavior of a follicular dendritic cell resulting from exposure to an activating factor such as a cellular or soluble ligand." "Any process that modulates the frequency, rate or extent of coagulation, the process in which a fluid solution, or part of it, changes into a solid or semisolid mass." "The external membrane of Gram-negative bacteria or certain organelles such as mitochondria and chloroplasts; freely permeable to most ions and metabolites." - "Anatomical cavity bounded by visceral and parietal peritoneum." "SCTID:181616008 MA:0000054 GAID:24 NCIT:C12769 BTO:0001782 EMAPA:16138 VHOG:0000852 FMA:14704 Wikipedia:Peritoneal_cavity EHDAA2:0001446 UMLS:C1704247 MESH:D010529" + "Anatomical cavity bounded by visceral and parietal peritoneum." "MESH:D010529 SCTID:181616008 MA:0000054 GAID:24 NCIT:C12769 BTO:0001782 EMAPA:16138 VHOG:0000852 FMA:14704 Wikipedia:Peritoneal_cavity EHDAA2:0001446 UMLS:C1704247" "Any process that activates or increases the frequency, rate or extent of production of a cytokine." "Enables the transfer of modified amino acids from one side of a membrane to the other." "A myeloid dendritic cell found in the blood that is CD16-positive." "A NK1.1-positive T cell that is Ly49D-positive." "A large, oval stomach epithelial cell with a central nucleus; source of gastric acid. Secretes HCl." "BTO:0001780 FMA:62901" - "An organ that houses olfactory neurons and is responsible for the sense of smell. Examples include the vertebrate nose and the Drosophila dorsal organ." "FMA:77659 BTO:0001772 VHOG:0000287 XAO:0000273 AAO:0010180" + "An organ that houses olfactory neurons and is responsible for the sense of smell. Examples include the vertebrate nose and the Drosophila dorsal organ." "FBbt:00005158 FMA:77659 BTO:0001772 VHOG:0000287 XAO:0000273 AAO:0010180" "The process whose specific outcome is the progression of the central nervous system over time, from its formation to the mature structure. The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the brain and spinal cord. In those invertebrates with a central nervous system it typically consists of a brain, cerebral ganglia and a nerve cord." "Wikipedia:Neural_development" "Any process that modulates the frequency, rate or extent of defense response to insect." "A transferrin receptor protein 1 that has been processed by proteolytic cleavage." @@ -10539,7 +10571,7 @@ "A high endothelial venule that is located in the vermiform appendix." "Any process that modulates the frequency, rate or extent of intestinal epithelial cell development." "A joint that connects two adjacent metatarsals." "Wikipedia:Intermetatarsal_articulations SCTID:361868009 FMA:35219" - "An endorphine cell that secretes enkephalin." + "An endorphine cell that secretes enkephalin." "ZFA:0009231" "A promyelocyte committed to the eosinophil lineage." "FMA:84199" "The directed movement of a protein to a part of a chromosome that is organized into chromatin." "A goblet cell that is part of the epithelium proper of appendix." "FMA:263069" @@ -10549,21 +10581,20 @@ "A mucosa that is part of a prostatic urethra [Automatically generated definition]." "FMA:77079" "Any process that modulates the frequency, rate, or extent of interleukin-22 production." "Mucus produced in the respiratory tract." "NCIT:C93171 UMLS:C0225378" - "Any sense organ that is part of some larva." + "Any sense organ that is part of some larva." "FBbt:00002639" "The epithelial layer of the alveoli[MP]. The layer of cells covering the lining of the tiny air sacs at the end of the bronchioles[BTO]." "FMA:63915 NCIT:C12867 BTO:0003511 MA:0001771 EMAPA:35121" "The inner layer of peritoneum that is wrapped around organs located inside the intraperitoneal space." "Wikipedia:Visceral_peritoneum SCTID:362702003 TAO:0005132 ZFA:0005132 FMA:14703 VHOG:0001528 EMAPA:16592" "A type D cell found in the stomach." "FMA:83410" "Any apoptotic process in an inflammatory cell, any cell participating in the inflammatory response to a foreign substance e.g. neutrophil, macrophage." "A retinal ganglion cell that is depolarized by decreased illumination of their receptive field center." - "Anatomical structure that is part of the head consisting entirely of cranium and mandible[WP]." "WikipediaCategory:Skull CALOHA:TS-2344 MESH:D012886 SCTID:110530005 EHDAA2:0000325 NCIT:C12789 GAID:82 Wikipedia:Skull FMA:46565 UMLS:C0037303 BTO:0001295 EMAPA:17680 galen:Skull" + "Anatomical structure that is part of the head consisting entirely of cranium and mandible[WP]." "WikipediaCategory:Skull CALOHA:TS-2344 MESH:D012886 SCTID:110530005 EHDAA2:0000325 NCIT:C12789 GAID:82 Wikipedia:Skull UMLS:C0037303 FMA:46565 BTO:0001295 EMAPA:17680 galen:Skull" "A stem cell that can give rise to multiple cell types (i.e. smooth muscle, endothelial) in the developing heart." "An M9 retinal ganglion cell with synaptic terminals in S4 that is depolarized by decreased illumination of their receptive field center" "A Thy-1 membrane glycoprotein that is encoded in the genome of mouse." "UniProtKB:P01831" - "A subdivision of an anatomical system." "SCTID:91690000 FMA:67509" + "A subdivision of an anatomical system." "SCTID:91690000 FBbt:00007330 FMA:67509" "The progression of the lateral geniculate nucleus over time from its initial formation until its mature state. The lateral geniculate nucleus is the primary processor of visual information received from the retina." "The gingival sulcus is an area of potential space between a tooth and the surrounding gingival tissue and is lined by sulcular epithelium. The depth of the sulcus (Latin for groove) is bounded by two entities: apically by the gingival fibers of the connective tissue attachment and coronally by the free gingival margin." "Wikipedia:Gingival_sulcus NCIT:C114645 FMA:74580 SCTID:245753001" "Capillary that has pores in the endothelial cells (60-80 nm in diameter) that are spanned by a diaphragm of radially oriented fibrils and allow small molecules and limited amounts of protein to diffuse." "FMA:63196 NCIT:C32595 TAO:0005260 UMLS:C1179615 ZFA:0005260 Wikipedia:Capillary#Types" - "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an epinephrine stimulus. Epinephrine is a catecholamine that has the formula C9H13NO3; it is secreted by the adrenal medulla to act as a hormone, and released by certain neurons to act as a neurotransmitter active in the central nervous system." "CD8_alpha-negative CD11b-positive dendritic cell is a conventional dendritic cell that is CD11b-positive, CD4-positive and is CD205-negative and CD8_alpha-negative." "Any process that increases the frequency, rate or extent of cell communication. Cell communication is the process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." "An epithelium that is part of a knee [Automatically generated definition]." "EHDAA:6186 EMAPA:17494 VHOG:0000810 EHDAA2:0000896 EHDAA:5161" @@ -10612,6 +10643,7 @@ "The process in which a relatively unspecialized cell acquires the specialized features of a granulosa cell, a supporting cell for the developing female gamete in the ovary of mammals." "The aggregation, arrangement and bonding together of the mature ribosome and of its subunits." "The joining of the lipid bilayer membrane that surround a cell with that of another cell, producing a single cell." + "Binding to proton." "GC_ID:1" "OBSOLETE. A respiratory stem cell found at the junction of the terminal (conductive) bronchiole and the respiratory bronchiole, which gives rise to alveolar cell types and club cells in response to lung injury." "The chemical reactions and pathways resulting in the breakdown of an alpha-amino acid." @@ -10628,7 +10660,7 @@ "Any process that stops, prevents or reduces the frequency, rate or extent of platelet formation." "The morphogenetic process in which an epithelial sheet bends along a linear axis." "A sesamoid element that is composed primarily of cartilage tissue." "FMA:55379" - "A cell of an endocrine gland, ductless glands that secrete substances which are released directly into the circulation and which influence metabolism and other body functions." "FMA:83809" + "A cell of an endocrine gland, ductless glands that secrete substances which are released directly into the circulation and which influence metabolism and other body functions." "ZFA:0009096 FMA:83809" "An amacrine cell with a medium dendritic field and post-synaptic terminals in S2 and S3. This cell type releases the neurotransmitter gamma-aminobutyric acid (GABA)." "BTO:0003122" "Any process that activates or increases the frequency, rate or extent of alpha-beta T cell proliferation." @@ -10669,8 +10701,8 @@ "A protein that is a translation product of the human CD84 gene or a 1:1 ortholog thereof." "Any process that stops, prevents, or reduces the rate of the chemical reactions and pathways resulting in the formation of substances." "Any neuromast mantle cell that is part of a posterior lateral line." - - "A fasciculated bundle of neuron projections (GO:0043005), largely or completely lacking synapses." "NLX:147821 CARO:0001001" + "FBbt:00004227" + "A fasciculated bundle of neuron projections (GO:0043005), largely or completely lacking synapses." "NLX:147821 CARO:0001001 FBbt:00005099" "Fluid that lines the vaginal walls that consists of multiple secretions that collect in the vagina from different glands." "A fibroblast that is part of the dense regular elastic tissue." "FMA:261287" "The parenchymatous tissue of the spleen that surrounds splenic blood vessels, consists of compact masses of lymphatic cells and is where foreign material removed from the blood is used to initiate an immune reaction that results in the production of antibodies." "EMAPA:35809 NCIT:C12993 CALOHA:TS-1264 UMLS:C0229686 FMA:62805 Wikipedia:White_pulp MA:0000762" @@ -10687,7 +10719,7 @@ "The process aimed at the progression of an astrocyte over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell. An astrocyte is the most abundant type of glial cell. Astrocytes provide support for neurons and regulate the environment in which they function." "Any process that activates or increases the frequency, rate, or extent of interleukin-6 production." "Any process that activates, maintains or increases the frequency, rate or extent of smooth muscle cell migration." - "A multilayered structure surrounding all or part of a cell; encompasses one or more lipid bilayers, and may include a cell wall layer; also includes the space between layers." + "Any process that activates or increases the frequency, rate or extent of transcription from an RNA polymerase II promoter." "Any process that increases the rate, frequency or extent of microtubule nucleation. Microtubule nucleation is the 'de novo' formation of a microtubule, in which tubulin heterodimers form metastable oligomeric aggregates, some of which go on to support formation of a complete microtubule. Microtubule nucleation usually occurs from a specific site within a cell." "A pyramidal neuron which lacks a tuft formation but extends small radial distances forming a star-like shape." "A cultured cell that is freshly isolated from a organismal source, or derives in culture from such a cell prior to the culture being passaged." "BTO:0002290" @@ -10739,9 +10771,9 @@ "A nuclear factor NF-kappa-B p100 subunit that is encoded in the genome of mouse." "UniProtKB:Q9WTK5" "An epithelial cell that is part of an outer medullary collecting duct." "KUPO:0001062" "A regulatory system of the body that integrates the nervous system and the endocrine system. This system is formed by specialized neuroendocrine cells located mainly in the nervous system and neuroendocrine glands. However, they can also be found as either single cells or small clusters of cells dispersed throughout the surface epithelium of different tissues. The neuroendocrine system functions through the release of neurotransmitters and neurohormones, enabling communication between the endocrine and nervous systems to govern vitally important processes that include growth, reproduction, metabolism and energy homeostasis, electrolyte and water balance, and responses to stress." - "The molecular layer is the outermost layer of the cerebellar cortex. It contains the parallel fibers of the granule cells, interneurons such as stellate and basket cells, and the dendrites of the underlying Purkinje cells." "FMA:83897 BAMS:thf MA:0000996 CALOHA:TS-1248 UMLS:C1289474 neuronames:366 UMLS:C0228469 NCIT:C49139 MBA:1144 UMLS:C1709064 BIRNLEX:810 EMAPA:35221 SCTID:369045002" + "The molecular layer is the outermost layer of the cerebellar cortex. It contains the parallel fibers of the granule cells, interneurons such as stellate and basket cells, and the dendrites of the underlying Purkinje cells." "FMA:83897 MA:0000996 BAMS:thf CALOHA:TS-1248 UMLS:C1289474 neuronames:366 UMLS:C0228469 NCIT:C49139 MBA:1144 UMLS:C1709064 BIRNLEX:810 EMAPA:35221 SCTID:369045002" "The specific behavior of an organism that is associated with reproduction." - "A cell whose primary function is to support other cell types." "BTO:0002315" + "A cell whose primary function is to support other cell types." "ZFA:0009387 BTO:0002315" "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of CD4." "A gamma-synuclein that is encoded in the genome of human." "UniProtKB:O76070" "One of the curved arteries at the corticomedullary border of the kidney that arise from the interlobar arteries and give rise to the interlobular arteries." "MA:0002583 EMAPA:28215 FMA:70497 Wikipedia:Arcuate_arteries_of_the_kidney" @@ -10778,15 +10810,17 @@ "A portion of cardiac muscle tissue that is part of an atrium [Automatically generated definition]." "FMA:7283" "An endothelial cell that is part of the thoracic endothelium." "A mucosa that is part of a ileum [Automatically generated definition]." "BTO:0000619 FMA:14956 CALOHA:TS-0470 EMAPA:35424 MA:0003216 SCTID:85458007" + "Any chondrocyte that is part of some growth plate cartilage." "a L6 intratelencephalic projecting glutamatergic neuron of the primary motor cortex that has inverted pyramidal morphology." "The regrowth of a lost or destroyed animal organ." "A blood vessel that is part of a tympanic cavity [Automatically generated definition]." "MA:0001219 EMAPA:37775" "Any process that stops, prevents or reduces the frequency, rate or extent of export of iron ions from inside of a cell, across the plasma membrane and into the extracellular region." "Any process that modulates the frequency, rate or extent of defense response to bacterium." "A loop of Henle that is part of a kidney outer medulla outer stripe." "MA:0002630 EMAPA:29665" + "Any neuron that develops from some migratory neural crest cell." "ZFA:0009009" "An ovary that is part of a left side of organism [Automatically generated definition]." "EMAPA:37366 UMLS:C0227874 NCIT:C32969 FMA:7214 SCTID:280124008 MA:0001704" "The various hormone- or neurotransmitter-secreting cells present throughout the mucosa of the stomach." - "A neuron that is capable of some neurotansmission by glutamate secretion." "FBbt:00100291 WBbt:0006829" + "A neuron that is capable of some neurotansmission by glutamate secretion." "ZFA:0009290 FBbt:00100291 WBbt:0006829" "Any process that stops, prevents, or reduces the frequency, rate, or extent of antigen processing and presentation of peptide antigen via MHC class I." "Any process that modulates the frequency, rate or extent of neuromuscular junction development." "A myocardial endocrine cell that is part of the interventricular septum." "FMA:83390" @@ -10801,7 +10835,7 @@ "The process in which a precursor cell type acquires the specialized features of a B cell. A B cell is a lymphocyte of B lineage with the phenotype CD19-positive and capable of B cell mediated immunity." "The female muscular organ of gestation in which the developing embryo or fetus is nourished until birth." "EMAPA:29915 galen:Uterus FMA:17558 Wikipedia:Uterus EFO:0000975 MAT:0000127 MIAA:0000127 NCIT:C12405 BTO:0001424 EV:0100113 UMLS:C0042149 MA:0000389 VHOG:0001137 MESH:D014599 SCTID:181452004 GAID:172 CALOHA:TS-1102" "Any process that activates or increases the frequency, rate or extent of spermatid nuclear differentiation." - "A cell capable of processing and presenting lipid and protein antigens to T cells in order to initiate an immune response." + "A cell capable of processing and presenting lipid and protein antigens to T cells in order to initiate an immune response." "ZFA:0009088" "Any process that stops, prevents or reduces the frequency, rate or extent of cardiac conduction." "An epithelial cell of the anal canal that is keratinized. This cell type is found towards the lower, rectal end of the anal canal." "An amacrine cell with a wide dendritic field, dendrites in S2, and post-synaptic terminals in S1." @@ -10819,8 +10853,8 @@ "A mammalian developmental stage that covers the period from birth until weaning." "A protein that is a translation product of the mouse Klra1 gene or a 1:1 ortholog thereof." "The controlled release of glutamate by a cell. The glutamate is the most abundant excitatory neurotransmitter in the nervous system." - "An intrinsic neuron of the mushroom body of arthropods and annelids. They have tightly packed, cytoplasm-poor cell bodies." "FBbt:00003686" "Dense connective tissue that separates the atria from the ventricles and provides physical support for the heart." "Wikipedia:Cardiac_skeleton EMAPA:36645 FMA:9496" + "An intrinsic neuron of the mushroom body of arthropods and annelids. They have tightly packed, cytoplasm-poor cell bodies." "FBbt:00003686" "The process in which nitrogen is taken from its relatively inert molecular form (N2) in the atmosphere and converted into nitrogen compounds useful for other chemical processes, such as ammonia, nitrate and nitrogen dioxide." "Wikipedia:Nitrogen_fixation MetaCyc:N2FIX-PWY" "The process whose specific outcome is the progression of the blastocyst over time, from its formation to the mature structure. The mammalian blastocyst is a hollow ball of cells containing two cell types, the inner cell mass and the trophectoderm." "The movement of a neutrophil within or between different tissues and organs of the body." @@ -10831,7 +10865,7 @@ "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a lipoprotein particle stimulus." "A nerve that is part of a forelimb [Automatically generated definition]." "EMAPA:37334 MA:0000616" "Any process that modulates the frequency, rate or extent of microtubule polymerization or depolymerization by the addition or removal of tubulin heterodimers from a microtubule." - "Sympathetic neurons are part of the sympathetic nervous system and are primarily adrenergic producing the neurotransmitter noradrenalin along with other neuropeptides." + "Sympathetic neurons are part of the sympathetic nervous system and are primarily adrenergic producing the neurotransmitter noradrenalin along with other neuropeptides." "ZFA:0005777" "A blood vessel that is part of a trachea." "MA:0001852 EMAPA:35874" "Any process that modulates the frequency, rate or extent of intracellular signal transduction." "A sebaceous gland that is part of a camera-type eye. Example: a tarsal gland." "MA:0002452 EMAPA:37531" @@ -10871,12 +10905,13 @@ "A CCAAT/enhancer-binding protein alpha that is encoded in the genome of mouse." "UniProtKB:P53566" "The axial mesoderm includes the prechordal mesoderm and the chordamesoderm. It gives rise to the prechordal plate and to the notochord." "VHOG:0000107 AAO:0011017 EFO:0003647 Wikipedia:Chordamesoderm TAO:0001204 XAO:0000205 ZFA:0001204" "One of sublaminar layers S1 or S2." "CP:0000118" - "Portion of tissue, that consists of one or more layers of epithelial cells connected to each other by cell junctions and which is underlain by a basal lamina. Examples: simple squamous epithelium, glandular cuboidal epithelium, transitional epithelium, myoepithelium[CARO]." "BILA:0000066 FMA:9639 EMAPA:32738 BTO:0000416 UMLS:C0014609 HAO:0000066 XAO:0003045 CALOHA:TS-0288 Wikipedia:Epithelium SCTID:31610004 TAO:0001486 VHOG:0000387 MESH:D004848 CARO:0000066 NCIT:C12710 GAID:402 AEO:0000066 AAO:0000144 EHDAA2:0003066 ZFA:0001486 AAO:0010055 MA:0003060" + "Portion of tissue, that consists of one or more layers of epithelial cells connected to each other by cell junctions and which is underlain by a basal lamina. Examples: simple squamous epithelium, glandular cuboidal epithelium, transitional epithelium, myoepithelium[CARO]." "BILA:0000066 FMA:9639 EMAPA:32738 BTO:0000416 UMLS:C0014609 HAO:0000066 XAO:0003045 CALOHA:TS-0288 Wikipedia:Epithelium SCTID:31610004 TAO:0001486 FBbt:00007005 VHOG:0000387 MESH:D004848 CARO:0000066 NCIT:C12710 GAID:402 AEO:0000066 AAO:0000144 EHDAA2:0003066 ZFA:0001486 AAO:0010055 MA:0003060" "The cytoplasm of an ovum." "A chief cell that is smaller than light chief cells and has a smaller and darker nucleus and a finely granular cytoplasm with many granules." "FMA:69080" "A duct that is part of a digestive system [Automatically generated definition]." "ZFA:0005162 TAO:0005162" "The directed movement of a substance from one side of an epithelium to the other." "The directed movement of neuronal dense core vesicles along axonal microtubules towards the cell body." + "Any smooth muscle cell that is part of some interlobular artery." "KUPO:0001083" "Any process that activates or increases the frequency, rate or extent of protein localization to ciliary membrane." "The cyclical phases of growth (anagen), regression (catagen), quiescence (telogen), and shedding (exogen) in the life of a hair; one of the collection or mass of filaments growing from the skin of an animal, and forming a covering for a part of the head or for any part or the whole of the body." "A thymic medullary epithelial cell considered to be a pre-AIRE mTEC population." @@ -10890,7 +10925,7 @@ "A process in which a protein is transported to, or maintained in, a location within an euchromatin." "A kidney that is part of a left side of organism [Automatically generated definition]." "UMLS:C0227614 MA:0001655 SCTID:362209008 FMA:7205 NCIT:C34006 EMAPA:36589" "Any process that activates or increases the frequency, rate, or extent of granuloma formation." - "A round chondrocyte that first differentiates in the late embryonic growth plate of bone." + "A round chondrocyte that first differentiates in the late embryonic growth plate of bone." "ZFA:0009312" "Musculature system of the pharyngeal and head regions." "MA:0000571 ZFA:0000328 TAO:0000328 EMAPA:37259" "The series of events required for an organism to receive a sensory mechanical stimulus, convert it to a molecular signal, and recognize and characterize the signal. This is a neurological process." "A Vgamma1.1-positive, Vdelta6.3-positive thymocyte that is CD24-positive." @@ -10915,7 +10950,7 @@ "An endothelial cell that is part of the small intestine Peyer's patch." "FMA:67757" "A region of the cilium between the basal body and proximal segment that is characterized by Y-shaped assemblages that connect axonemal microtubules to the ciliary membrane. The ciliary transition zone appears to function as a gate that controls ciliary membrane composition and separates the cytosol from the ciliary plasm." "Any process that activates or increases the frequency, rate or extent of the directed movement of a neurotransmitter into a neuron or glial cell." - "A stem cell that is the precursor of gametes." "FBbt:00004861" + "A stem cell that is the precursor of gametes." "ZFA:0005956 FBbt:00004861" "EHDAA2:0000450 EMAPA:17535 VHOG:0000884 EHDAA:5437" "Any process that modulates the frequency, rate or extent of motor neuron migration." "The biological process whose specific outcome is the progression of a lung lobe from an initial condition to its mature state. This process begins with the formation of a lung lobe by branching morphogenesis and ends with the mature structure. A lung lobe is one of the rounded projections that compose the lung." @@ -10951,7 +10986,9 @@ "A portions of the gut that is derived from endoderm." "EMAPA:32930" "A netrin-G1 that is encoded in the genome of mouse." "UniProtKB:Q8R4G0" "Any process that modulates the frequency, rate or extent of mechanoreceptor differentiation." + "Any kidney cortex vein cell that is part of some renal interlobular vein." "KUPO:0001088" "The assembly and organization of an axoneme, the bundle of microtubules and associated proteins that forms the core of cilia (also called flagella) in eukaryotic cells and is responsible for their movements." + "Any extraembryonic cell that is part of some amnioserosa." "A cartilaginous condensation that has the potential to develop into a patella." "EMAPA:19140" "All of the contents of a plasma membrane bounded cell projection, excluding the plasma membrane surrounding the projection." "Any process that activates or increases the frequency, rate or extent of anterograde dense core granule transport." @@ -10970,6 +11007,7 @@ "The orderly movement of epithelial cells within a renal tubule that contributes to mesonephric nephron tubule morphogenesis." "A smooth muscle cell of the bladder." "KUPO:0001122" "Any process that contributes to cytokine production by a dendritic cell." + "The chemical reactions and pathways resulting in the formation of amino acids, organic acids containing one or more amino substituents." "Wikipedia:Amino_acid_synthesis" "A CD4-positive, CD25-positive alpha-beta regulatory T cell that has encountered antigen." "PMID:10490293 PMID:10939677 PMID:11411719 PMID:8123559 GC_ID:11 PMID:11321083 PMID:8590690 PMID:10425795 PMID:10843050 PMID:9336922 PMID:11211268 PMID:11321113 PMID:10939673 PMID:11760965 PMID:25527841 PMID:11542149 PMID:10425797 PMID:270744 PMID:32628106 PMID:2112744 PMID:11541975 PMID:11542064 PMID:11540071 PMID:10939651 PMID:36748408 PMID:9103655 PMID:10425796 PMID:12054223" "Cranial nerves are nerves that emerge directly from the brain, in contrast to spinal nerves, which emerge from segments of the spinal cord." "TAO:0000641 SCTID:244447006 UMLS:C0010268 EMAPA:17264 MBA:967 XAO:0003089 BTO:0001104 EHDAA2:0000323 XAO:0000429 BIRNLEX:1623 GAID:802 FMA:5865 neuronames:1227 UMLS:C1269897 ZFA:0000641 MA:0000215 AAO:0000108 VHOG:0000279 HBA:9299 NCIT:C12700 MESH:D003391 Wikipedia:Cranial_nerve BAMS:cran" @@ -10997,14 +11035,13 @@ "Any process that activates, maintains or increases the frequency, rate or extent of nervous system development, the origin and formation of nervous tissue." "A protein complex facilitating transport of molecules (proteins, small molecules, nucleic acids) into, out of or within a cell, or between cells." "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism." - "Extension of the dorsal aorta in the tail." "TAO:0000011 VHOG:0000123 AAO:0011023 EFO:0003472 ZFA:0000011 XAO:0000364 Wikipedia:Caudal_artery" + "Extension of the dorsal aorta in the tail." "TAO:0000011 VHOG:0000123 EFO:0003472 AAO:0011023 ZFA:0000011 XAO:0000364 Wikipedia:Caudal_artery" "A zone of skin that is part of a neck [Automatically generated definition]." "UMLS:C0205030 FMA:23022 FMA:23021 SCTID:361705004 EMAPA:37277 MA:0000590 NCIT:C52756" "A hole in the diaphragm through which the esophagus passes." "FMA:58289" "Any process that modulates the frequency, rate or extent of oligodendrocyte differentiation." - "KUPO:0001084" "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an iron ion stimulus." "A cell from the inner layer of the trophoblast of the early mammalian embryo that gives rise to the outer surface and villi of the chorion. Mononuclear crytoblasts fuse to give rise to a multinuclear cytotrophoblast." "FMA:83042" - + "FBbt:00004223" "Any epithelial cell proliferation that is involved in renal tubule morphogenesis." "Any process that stops, prevents or reduces the frequency, rate or extent of thymocyte migration." "One of the three layers of the dentate gyrus of the hippocampal formation." "MA:0002429 FMA:83678 EMAPA:35278" @@ -11028,7 +11065,7 @@ "A SCO-spondin that is encoded in the genome of mouse." "UniProtKB:Q8CG65" "Any process that stops, prevents, or reduces the frequency, rate or extent of the activity of any intracellular steroid hormone receptor signaling pathway." "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an insulin stimulus. Insulin is a polypeptide hormone produced by the islets of Langerhans of the pancreas in mammals, and by the homologous organs of other organisms." - + "FBbt:00004225" "The process whose specific outcome is the progression of a tooth or teeth over time, from formation to the mature structure(s). A tooth is any hard bony, calcareous, or chitinous organ found in the mouth or pharynx of an animal and used in procuring or masticating food." "Wikipedia:Odontogenesis" "The developmental process pertaining to the initial formation of a mesonephric capsule from unspecified parts. The mesonephric capsule is the tough fibrous layer surrounding the mesonephros, covered in a thick layer of perinephric adipose tissue. It provides some protection from trauma and damage." "Any process that modulates the frequency, rate or extent of export of iron ions from inside of a cell, across the plasma membrane and into the extracellular region." @@ -11069,7 +11106,6 @@ "Mesenchyme that is part of a extraembryonic membrane." "Any process that activates or increases the frequency, rate or extent of T-helper 1 cell differentiation." "Any process that modulates the rate, frequency, or extent of vesicle-mediated transport, the directed movement of substances, either within a vesicle or in the vesicle membrane, into, out of or within a cell." - "Primary lysosomal granule found in neutrophil granulocytes. Contains a wide range of hydrolytic enzymes and is released into the extracellular fluid." "The perichondrium consists of two separate layers: an outer fibrous layer and inner chondrogenic layer. The fibrous layer contains fibroblasts, which produce collagenous fibers." "Wikipedia:The_Free_Encyclopedia BTO:0005091" "The process of binding or confining calcium ions such that they are separated from other components of a biological system." "An otic capsule endochondral element that is composed primarily of cartilage tissue." "TAO:0001500 ZFA:0001500 EMAPA:18803 EHDAA2:0001333 EMAPA:37467 EHDAA:4704" @@ -11090,7 +11126,7 @@ "A mature CD14-positive dermal dendritic cell is CD80-high, CD86-high, MHCII-high and is CD83-positive." "A nerve that is part of a head." "Any collection of muscles that is part of the forelimb stylopod region [Automatically generated definition]." "FMA:50202" - "Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome." "CARO:0000003 MA:0003000 AEO:0000003 FMA:67135 http://dbpedia.org/ontology/AnatomicalStructure TAO:0000037 AAO:0010825 HAO:0000003 FMA:305751 ZFA:0000037 SCTID:362889002 EHDAA2:0003003 TGMA:0001823 XAO:0003000 BILA:0000003 VHOG:0001759 MESH:D000825 GAID:781 EMAPA:0" + "Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome." "CARO:0000003 MA:0003000 AEO:0000003 FMA:67135 http://dbpedia.org/ontology/AnatomicalStructure TAO:0000037 AAO:0010825 HAO:0000003 FMA:305751 ZFA:0000037 SCTID:362889002 EHDAA2:0003003 TGMA:0001823 XAO:0003000 BILA:0000003 VHOG:0001759 MESH:D000825 GAID:781 FBbt:00007001 EMAPA:0" "The layer of flattened cells containing basophilic granules of keratohyalin and lying just above the stratum spinosum (spiny layer) of the epidermis." "SCTID:418563001 MA:0000805 NCIT:C33627 FMA:70344 BTO:0000361 EMAPA:32786 Wikipedia:Stratum_granulosum UMLS:C0221923" "The embryonic vessels grow through the layer to come in close contact with the maternal blood supply." "Any process that modulates the frequency, rate or extent of the activity of any intracellular steroid hormone receptor signaling pathway." @@ -11098,8 +11134,9 @@ "A mesentery that is part of a digestive system [Automatically generated definition]." "EMAPA:37068 MA:0001900" "OBSOLETE: A cell line cell that is expected to be capable of replicating a limited number of times in culture before undergoing senescence. Mortal cell line cells cannot be propagated indefinitely (as immortal cell line cells can)." - "An olfactory receptor cell in which the apical ending of the dendrite is a pronounced ciliated olfactory knob." - + "An olfactory receptor cell in which the apical ending of the dendrite is a pronounced ciliated olfactory knob." "ZFA:0009358" + "A molecular function that controls the rate, timing and/or magnitude of gene transcription. The function of transcriptional regulators is to modulate gene expression at the transcription step so that they are expressed in the right cell at the right time and in the right amount throughout the life of the cell and the organism. Genes are transcriptional units, and include bacterial operons." + "FBbt:00004221" "The directed movement of bicarbonate into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." "Mucosal layer that lines the intestine." "FMA:15695 NCIT:C49241 EMAPA:35440 GAID:296 BTO:0000642 MA:0001537 MESH:D007413 UMLS:C0021839 SCTID:362080002" "The medial border of the scapula (vertebral border, medial margin) is the longest of the three borders, and extends from the medial to the inferior angle. It is arched, intermediate in thickness between the superior and the axillary borders, and the portion of it above the spine forms an obtuse angle with the part below. This border presents an anterior and a posterior lip, and an intermediate narrow area. The anterior lip affords attachment to the Serratus anterior; the posterior lip, to the Supraspinatus above the spine, the Infraspinatus below; the area between the two lips, to the Levator scapulC& above the triangular surface at the commencement of the spine, to the Rhomboideus minor on the edge of that surface, and to the Rhomboideus major below it; this last is attached by means of a fibrous arch, connected above to the lower part of the triangular surface at the base of the spine, and below to the lower part of the border." "Wikipedia:Medial_border_of_scapula SCTID:368187009 EMAPA:25127 FMA:23242" @@ -11163,7 +11200,7 @@ "A portion of connective tissue that is part of a neck [Automatically generated definition]." "MA:0000585 EMAPA:37250" "The subdivision of the vertebrate body between the thorax and pelvis. The ventral part of the abdomen contains the abdominal cavity and visceral organs. The dorsal part includes the abdominal section of the vertebral column." "BTO:0000020 SCTID:302553009 EV:0100011 MAT:0000298 EMAPA:35102 CALOHA:TS-0001 Wikipedia:Abdomen galen:Abdomen MIAA:0000298 EFO:0000968 MESH:D000005 FMA:9577 MA:0000029 GAID:16" "A membrane-bounded organelle, specialized for the storage and secretion of various substances (surfactant phospholipids, glycoproteins and acid phosphates) which are arranged in the form of tightly packed, concentric, membrane sheets or lamellae. Has some similar properties to, but is distinct from, a lysosome." "NIF_Subcellular:sao1379604862" - "A neuron that uses acetylcholine as a vesicular neurotransmitter." "FBbt:00007173 WBbt:0006840 MESH:D059329 FMA:84796 BTO:0004902" + "A neuron that uses acetylcholine as a vesicular neurotransmitter." "ZFA:0009060 FBbt:00007173 WBbt:0006840 MESH:D059329 FMA:84796 BTO:0004902" "Any process that activates or increases the frequency, rate or extent of the directed movement of iron ions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." "BAMS:MEZ FMA:77683 neuronames:2291 EMAPA:35419 MBA:467 MA:0000837 BAMS:MZ" "A neuropilin and tolloid-like protein 1 that is encoded in the genome of mouse." "UniProtKB:Q8R4I7" @@ -11179,9 +11216,8 @@ "The continuous network of membranes encompassing the nuclear outer membrane and the endoplasmic reticulum membrane." "A M cell that is part of the epithelium proper of jejunum." "FMA:263136" "Any process that modulates the frequency, rate or extent of R7 differentiation." - "A skeletal muscle myoblast that differentiates into slow muscle fibers." + "A skeletal muscle myoblast that differentiates into slow muscle fibers." "ZFA:0009368" "An autopod endochondral element that is composed primarily of cartilage tissue." - "KUPO:0001072" "A fibroblast of the lymphatic system." "An anatomical surface that is part of a tongue." "FMA:54647 SCTID:314870004" "The sensory system for the sense of proprioception." "NLXANAT:090814" @@ -11195,8 +11231,6 @@ "Any process that modulates the frequency, rate or extent of protein localization to presynapse." "Any process in which macromolecules aggregate, disaggregate, or are modified, resulting in the formation, disassembly, or alteration of a ribonucleoprotein complex." "A developmental process, independent of morphogenetic (shape) change, that is required for the vagus nerve to attain its fully functional state. This nerve is primarily sensory but also has visceromotor components. It originates in the brain stem and controls many autonomic functions of the heart, lungs, stomach, pharynx, larynx, trachea, esophagus and other gastrointestinal tract components. It controls some motor functions such as speech. The sensory branches mediate sensation from the pharynx, larynx, thorax and abdomen; it also innervates taste buds in the epiglottis." - "KUPO:0001073" - "KUPO:0001053" "The chemical reactions and pathways resulting in the breakdown of primary amino compound." "The process in which a relatively unspecialized cell acquires specialized structural and/or functional features that characterize an acinar cell of the salivary gland. Acinar cells are protein-secreting cells in the gland." "The formation of mesodermal clusters that are arranged segmentally along the anterior posterior axis of an embryo." "Wikipedia:Somitogenesis" @@ -11206,7 +11240,7 @@ "A submucosa that is part of a common bile duct [Automatically generated definition]." "FMA:18011" "FMA:268630 DHBA:10654" "The process whose specific outcome is the creation of the forebrain-midbrain boundary." - "A non-terminally differentiated cell that is capable of developing into a muscle cell." + "A non-terminally differentiated cell that is capable of developing into a muscle cell." "ZFA:0009291" "Mesenchyme that is part of a developing lower arm [Automatically generated definition]." "EHDAA:6222 EHDAA2:0000555 VHOG:0000504 EMAPA:17419 EHDAA:4176" "A fibroblasts found in interstitial spaces in the pulmonary tract. Greater numbers of these cells are found in idiopathic pulmonary fibrosis." "FMA:84467" @@ -11218,17 +11252,17 @@ "A cervical vertebra endochondral element that is composed primarily of a pre-cartilage condensation." "The vessels formed within the fourth pair of branchial arches in embryogenesis." "ZFA:0005008 EHDAA2:0000087 XAO:0000355 Wikipedia:Aortic_arches#Arch_4 TAO:0005008 SCTID:308777005 EMAPA:17004 AAO:0010420" "The fibrous membrane forming the innermost of the three coverings that surrounds the brain within the cranial cavity that is firmly attached to the glial capsule." "NCIT:C49335 VHOG:0000470 UMLS:C1706994 MA:0000816 EMAPA:32667" - "Anatomical system that has as its parts the organs concerned with reproduction." "WBbt:0005747 GAID:363 UMLS:C1261210 MA:0000326 EV:0100100 EFO:0000809 Wikipedia:Reproductive_system CALOHA:TS-1318 FMA:7160 EHDAA2:0001603 HAO:0000374 MIAA:0000305 HAO:0000895 XAO:0000142 SCTID:278875001 BILA:0000103 ZFA:0000632 TAO:0000632 BTO:0000081 NCIT:C12841 EHDAA:5923 AAO:0010258 EMAPA:17381 VHOG:0000182" + "Anatomical system that has as its parts the organs concerned with reproduction." "WBbt:0005747 GAID:363 UMLS:C1261210 FBbt:00004857 MA:0000326 EV:0100100 EFO:0000809 Wikipedia:Reproductive_system CALOHA:TS-1318 FMA:7160 EHDAA2:0001603 HAO:0000374 MIAA:0000305 HAO:0000895 XAO:0000142 SCTID:278875001 BILA:0000103 ZFA:0000632 TAO:0000632 BTO:0000081 NCIT:C12841 EHDAA:5923 AAO:0010258 EMAPA:17381 VHOG:0000182" "A mucosa that is part of a fallopian tube [Automatically generated definition]." "FMA:18319" "A muscular coat that is part of a ileum." "FMA:14958 BTO:0005574" - "A mature osteoblast that has become embedded in the bone matrix. They occupy a small cavity, called lacuna, in the matrix and are connected to adjacent osteocytes via protoplasmic projections called canaliculi." "CALOHA:TS-1167 BTO:0002038 FMA:66779 VSAO:0000124" + "A mature osteoblast that has become embedded in the bone matrix. They occupy a small cavity, called lacuna, in the matrix and are connected to adjacent osteocytes via protoplasmic projections called canaliculi." "ZFA:0009083 CALOHA:TS-1167 BTO:0002038 FMA:66779 VSAO:0000124" "DHBA:10157 FMA:268608" "The process of regulating the proliferation and elimination of B cells of the B-1 subset such that the total number of B-1 B cells within a whole or part of an organism is stable over time in the absence of an outside stimulus. B-1 B cells are a distinct subset of B cells characterized as being CD5 positive, found predominantly in the peritoneum, pleural cavities, and spleen, and enriched for self-reactivity." "Skeletal tissue that is avascular, rich in glycosaminoglycans (GAGs) and typically includes chondrocytes within isolated lacunae. Cartilage tissue is deposited by chondroblasts." "SCTID:309312004 TAO:0001501 MA:0000104 XAO:0000170 EV:0100141 ZFA:0005622 MIAA:0000189 NCIT:C12373 MESH:D002356 BTO:0000206 UMLS:C0007301 FMA:37377 EMAPA:32730 EFO:0000949 VHOG:0001207 NCIT:C32268 MAT:0000189 EHDAA2:0003087 Wikipedia:Cartilage AAO:0000060 VSAO:0000040 galen:Cartilage AEO:0000087 GAID:99" - "Any neuron having a sensory function; an afferent neuron conveying sensory impulses." "FBbt:00005124 WBbt:0005759 MESH:D011984 FMA:84649 BTO:0001037" + "Any neuron having a sensory function; an afferent neuron conveying sensory impulses." "ZFA:0009053 FBbt:00005124 WBbt:0005759 MESH:D011984 FMA:84649 BTO:0001037" "A C-C chemokine receptor type 1 that is encoded in the genome of mouse." "UniProtKB:P51675" "A Be cell that facilitates development of T-helper 2 (Th2) phenotype T cells, and secretes high levels of interleukin-2, interleukin-10, interleukin-4, and interleukin-6." - "A cell specialized to transduce mechanical stimuli and relay that information centrally in the nervous system." + "A cell specialized to transduce mechanical stimuli and relay that information centrally in the nervous system." "ZFA:0009120" "An inducible T-cell costimulator that is encoded in the genome of human." "UniProtKB:Q9Y6W8" "Any process that modulates the frequency, rate, or extent of interleukin-5 production." "Thin cylindrical membrane-covered projections on the surface of an animal cell containing a core bundle of actin filaments. Present in especially large numbers on the absorptive surface of intestinal cells." "Wikipedia:Microvillus NIF_Subcellular:sao671419673" @@ -11324,7 +11358,8 @@ "The appearance of any member of the interleukin-17 family of cytokines due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." "The chemical reactions and pathways resulting in the breakdown of a protein by the destruction of the native, active configuration, with or without the hydrolysis of peptide bonds." "Wikipedia:Protein_catabolism" "Any process that modulates the frequency, rate or extent of the regulated release of norepinephrine." - "A connective tissue cell of an organ found in the loose connective tissue. These are most often associated with the uterine mucosa and the ovary as well as the hematopoietic system and elsewhere." "FMA:83624 BTO:0002064" + "Any vasa recta descending limb cell that is part of some outer medulla vasa recta descending limb." "KUPO:0001073" + "A connective tissue cell of an organ found in the loose connective tissue. These are most often associated with the uterine mucosa and the ovary as well as the hematopoietic system and elsewhere." "ZFA:0009226 FMA:83624 BTO:0002064" "A cone cell that detects ultraviolet (UV) wavelength light." "Any process that modulates the frequency, rate or extent of spermatid nuclear differentiation." "A phalanx that is part of a forelimb autopod[Automatically generated definition]." "Wikipedia:Phalanges_of_the_hand UMLS:C0223792 MA:0000306 EMAPA:32650 http://mbe.oxfordjournals.org/content/26/3/613/F1.large.jpg AAO:0000947 NCIT:C52771 SCTID:181976001 SCTID:361100001 FMA:23914" @@ -11333,8 +11368,8 @@ "A melanocyte located between the epithelial marginal cell layer and the mesodermal basal cell layer within the intrastrial space; the predominant cellular component of the electrogenic machinery that generates an endocochlear potential (80-100 mV) ." "Any process that activates or increases the frequency, rate or extent of calcium ion transmembrane transporter activity." "GC_ID:1" - "A neuron that releases hypocretin as a neurotransmitter." - "Anterior subdivision of a digestive tract." "EHDAA:520 AAO:0011042 UMLS:C0231051 FMA:45616 EHDAA2:0000557 NCIT:C34180 XAO:0000232 MA:0001526 BILA:0000085 SCTID:361409009 TGMA:0001014 BTO:0000507 VHOG:0000285 Wikipedia:Foregut EMAPA:16548" + "A neuron that releases hypocretin as a neurotransmitter." "ZFA:0005778" + "Anterior subdivision of a digestive tract." "EHDAA:520 AAO:0011042 UMLS:C0231051 FMA:45616 EHDAA2:0000557 NCIT:C34180 XAO:0000232 MA:0001526 BILA:0000085 SCTID:361409009 TGMA:0001014 BTO:0000507 FBbt:00005379 VHOG:0000285 Wikipedia:Foregut EMAPA:16548" "Any process that modulates the frequency, rate or extent of movement of RNA from the cytoplasm to the nucleus." "Any stellate cell that is part of a dentate gyrus of hippocampal formation." "Any native cell that is part of a cardiac septum." @@ -11344,7 +11379,7 @@ "The chemical reactions and pathways involving any conjugated, water-soluble protein in which the covalently attached nonprotein group consists of a lipid or lipids." "An arteriole that arises from the hilar artery of a lymph node and radiates centrifugally, branching in the medulla." "Any process that stops, prevents, or reduces the frequency, rate, or extent of peripheral T cell tolerance induction." - "A motor neuron that synapses to parasympathetic neurons that innervate tear glands, sweat glands, and the smooth muscles and glands of the pulmonary, cardiovascular, and gastrointestinal systems." + "A motor neuron that synapses to parasympathetic neurons that innervate tear glands, sweat glands, and the smooth muscles and glands of the pulmonary, cardiovascular, and gastrointestinal systems." "ZFA:0005732" "Any apoptotic process in a lymphocyte, a leukocyte commonly found in the blood and lymph that has the characteristics of a large nucleus, a neutral staining cytoplasm, and prominent heterochromatin." "A bone marrow proteoglycan that has had the signal peptide removed." "Obsolete. Use PO:0020048 from Plant Ontology instead. A haploid (1n) spore developing into a male gametophyte in heterosporous plants; the uninucleate pollen grain in seed plants." @@ -11356,7 +11391,7 @@ "An epiphysis that is part of a tibia [Automatically generated definition]." "FMA:33112 MA:0003113 SCTID:314626006 EMAPA:37771" "The process whose specific outcome is the progression of a trachea over time, from its formation to the mature structure. The trachea is the portion of the airway that attaches to the bronchi as it branches." "A parvalbumin alpha that is encoded in the genome of human." "UniProtKB:P20472" - "A neuron of the human embryonic marginal zone which display, as a salient feature, radial ascending processes that contact the pial surface, and a horizontal axon plexus located in the deep marginal zone. One feature of these cells in mammals is that they express the Reelin gene." + "A neuron of the human embryonic marginal zone which display, as a salient feature, radial ascending processes that contact the pial surface, and a horizontal axon plexus located in the deep marginal zone. One feature of these cells in mammals is that they express the Reelin gene." "ZFA:0009300" "A lobar bronchus that is part of a right lung [Automatically generated definition]." "SCTID:245511004 MA:0003134 EMAPA:17664" "A transitional myocyte that is part of the ventricular part of atrioventricular bundle." "FMA:263176" "Any process that activates or increases the frequency, rate or extent of lymphocyte chemotaxis." @@ -11371,7 +11406,7 @@ "A smooth muscle cell that is part of the jejunum." "FMA:15062" "A bone tissue that is part of a long bone." "FMA:83117 SCTID:425475006" "Any process that activates or increases the frequency, rate or extent of CD4-positive, alpha-beta T cell activation." - "Epithelial cell found in the ducts of the pancreas. This cell type contributes to the high luminal pH." "FMA:63099" + "Epithelial cell found in the ducts of the pancreas. This cell type contributes to the high luminal pH." "ZFA:0009380 FMA:63099" "Any process that stops, prevents or reduces the frequency, rate or extent of border follicle cell migration." "EMAPA:16844 VHOG:0000215 MA:0001636" "A glandular epithelium that is part of a uterine cervix." "UMLS:C1707350 NCIT:C54414" @@ -11386,6 +11421,7 @@ "The process by which an organism or tissue maintains a population of female germ-line stem cells." "CD7-negative lymphoid progenitor cell is a lymphoid progenitor cell that is CD34-positive, CD7-negative and CD45RA-negative." "FMA:66809" + "Any cell that is part of some urinary bladder." "KUPO:0001120" "The chemical reactions and pathways resulting in the breakdown of dopamine, a catecholamine neurotransmitter and a metabolic precursor of noradrenaline and adrenaline." "The process in which a relatively unspecialized thymocyte acquires specialized features of a T-helper cell." "The reason for which a term has been deprecated. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value."@en @@ -11410,10 +11446,10 @@ "An amacrine cell with a small, asymteric dendritic field." "Any pyramidal cell that is part of a primary motor cortex." "A renal system process in which fluid circulating through the body is filtered through a barrier system." - "Connected anatomical system that forms a barrier between an animal and its environment. In vertebrates, the integumental system consists of the epidermis, dermis plus associated glands and adnexa such as hair and scales. In invertebrates, the integumental system may include cuticle." "EHDAA2_RETIRED:0003154 EFO:0000807 SCTID:361692004 BILA:0000118 AEO:0000154 CARO:0002001 EHDAA2:0000836 TADS:0000108 UMLS:C0037267 NCIT:C12907 MAT:0000033 EV:0100151 MA:0000014 Wikipedia:Integumentary_system EHDAA:6520 HAO:0000421 EMAPA:17524 FMA:72979 VHOG:0000403 galen:Surface CALOHA:TS-1299 XAO:0000176 MESH:D034582 MIAA:0000033" + "Connected anatomical system that forms a barrier between an animal and its environment. In vertebrates, the integumental system consists of the epidermis, dermis plus associated glands and adnexa such as hair and scales. In invertebrates, the integumental system may include cuticle." "EHDAA2_RETIRED:0003154 EFO:0000807 SCTID:361692004 BILA:0000118 AEO:0000154 CARO:0002001 EHDAA2:0000836 TADS:0000108 FBbt:00004969 UMLS:C0037267 NCIT:C12907 MAT:0000033 EV:0100151 MA:0000014 Wikipedia:Integumentary_system EHDAA:6520 HAO:0000421 EMAPA:17524 FMA:72979 VHOG:0000403 galen:Surface CALOHA:TS-1299 XAO:0000176 MESH:D034582 MIAA:0000033" "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the nucleolus." "Any process that stops, prevents, or reduces the frequency, rate or extent of keratinocyte migration." - "The outer serous membrane of the pulmonary pleural." "FMA:9733 Wikipedia:Parietal_pleura UMLS:C0225777 MA:0002488 EMAPA:16776 NCIT:C33273 VHOG:0001495 SCTID:361998003" + "The outer serous membrane of the pulmonary pleural." "Wikipedia:Parietal_pleura FMA:9733 UMLS:C0225777 MA:0002488 EMAPA:16776 NCIT:C33273 VHOG:0001495 SCTID:361998003" "The process that results in the patterns of cell differentiation that will arise in an embryo." "Any process that activates or increases the frequency, rate or extent of axonogenesis." "AEO:0000149 EHDAA2_RETIRED:0003149" @@ -11430,7 +11466,7 @@ "Any process that modulates the frequency, rate, or extent of immunoglobulin production." "Any process that stops, prevents or reduces the frequency, rate or extent of trophoblast cell migration." "Any process that modulates the frequency, rate or extent of ureter smooth muscle cell differentiation." - "A cell of a hematopoietic lineage." "FMA:70366 FMA:83598 BTO:0000574 CALOHA:TS-2017" + "A cell of a hematopoietic lineage." "ZFA:0005830 FMA:70366 FMA:83598 BTO:0000574 CALOHA:TS-2017" "Binding to an RNA molecule or a portion thereof." "Reactome:R-HSA-203922" "Any process that stops, prevents or reduces the frequency, rate or extent of cardiac muscle cell myoblast differentiation." "GC_ID:1" @@ -11449,9 +11485,9 @@ "The directed movement of acidic amino acids, amino acids with a pH below 7, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." "An epithelium that is part of a digestive system [Automatically generated definition]." "MA:0001520 EMAPA:32683" "A mucous cell in the epithelium of the stomach." "FMA:63464" - "A nerve root that extends_fibers_into a trigeminal nerve." "TAO:0000192 ZFA:0000192 BIRNLEX:1346 DMBA:17739 DHBA:12865 SCTID:280185007 FMA:52610" - "A bipolar neuron found in the retina that is synapsed by rod photoreceptor cells but not by cone photoreceptor cells. These neurons depolarize in response to light." "FMA:67750" - "A peptide hormone secreting cell pituitary that produces luteinizing hormone." + "A nerve root that extends_fibers_into a trigeminal nerve." "ZFA:0000192 BIRNLEX:1346 DMBA:17739 DHBA:12865 SCTID:280185007 FMA:52610 TAO:0000192" + "A bipolar neuron found in the retina that is synapsed by rod photoreceptor cells but not by cone photoreceptor cells. These neurons depolarize in response to light." "ZFA:0009321 FMA:67750" + "A peptide hormone secreting cell pituitary that produces luteinizing hormone." "ZFA:0009203" "A somatostatin that is encoded in the genome of human." "UniProtKB:P61278" "The formation of spores derived from the products of meiosis." "Any process that activates or increases the frequency, rate or extent of progesterone biosynthetic process." @@ -11485,15 +11521,15 @@ "Any process that modulates the frequency, rate or extent of myotube differentiation. Myotube differentiation is the process in which a relatively unspecialized cell acquires specialized features of a myotube cell. Myotubes are multinucleated cells that are formed when proliferating myoblasts exit the cell cycle, differentiate and fuse." "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a entire pharyngeal arch associated mesenchyme." "A protein that is a translation product of the human CD14 gene or a 1:1 ortholog thereof." "PIRSF:PIRSF002017" - "A mononuclear phagocyte present in variety of tissues, typically differentiated from monocytes, capable of phagocytosing a variety of extracellular particulate material, including immune complexes, microorganisms, and dead cells." "BTO:0000801 FMA:63261 FMA:83585 MESH:D008264 CALOHA:TS-0587" + "A mononuclear phagocyte present in variety of tissues, typically differentiated from monocytes, capable of phagocytosing a variety of extracellular particulate material, including immune complexes, microorganisms, and dead cells." "ZFA:0009141 BTO:0000801 FMA:63261 FMA:83585 MESH:D008264 CALOHA:TS-0587" "A meninx that is part of a diencephalon [Automatically generated definition]." "MA:0000826 EHDAA2:0000399 VHOG:0000009 EHDAA:5458 EMAPA:17764" "Any small, fluid-filled, spherical organelle enclosed by membrane." "Wikipedia:Vesicle_(biology) NIF_Subcellular:sao221389602" "An IgG-negative double negative memory B cell is a double negative memory B cell with the phenotype IgG-negative, IgD-negative, and CD27-negative." - "The lower segment of the trunk, inferioposterior to the abdomen proper, in the transition area between the trunk and the lower limbs." "EMAPA:35931 GAID:87 CALOHA:TS-2227 galen:Pelvis Wikipedia:Pelvis UMLS:C0030797 NCIT:C12767 EFO:0002805 EV:0100012 FMA:9578 MESH:D010388 SCTID:229765004 BTO:0001006 MA:0000030" + "The lower segment of the trunk, inferioposterior to the abdomen proper, in the transition area between the trunk and the lower limbs." "EMAPA:35931 GAID:87 CALOHA:TS-2227 galen:Pelvis Wikipedia:Pelvis UMLS:C0030797 EFO:0002805 NCIT:C12767 EV:0100012 FMA:9578 MESH:D010388 SCTID:229765004 BTO:0001006 MA:0000030" "Any process in an organism in which a relatively long-lasting adaptive behavioral change occurs in response to (repeated) exposure to an olfactory cue." "A neuromere that is part of the presumptive forebrain." "FMA:61996" "A bone marrow proteoglycan that is encoded in the genome of human." "UniProtKB:P13727" - + "ZFA:0009370" "A cellular process in which two or more cells combine together, their plasma membrane fusing, producing a single cell. In some cases, nuclei fuse, producing a polyploid cell, while in other cases, nuclei remain separate, producing a syncytium." "Any process that activates or increases the frequency, rate or extent of an iron transmembrane transporter activity." "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of bile acids." @@ -11512,7 +11548,7 @@ "A reproductive process that is a step in the formation and maturation of an ovum or female gamete from a primordial female germ cell." "The section of the renal tubule in the kidney medulla with a hairpin bend; consists of a descending limb and an ascending limb, and is situated between the proximal convoluted tubule to the distal convoluted tubule; it functions to reabsorb water and ions from the urine." "MESH:D008138 MA:0001675 EV:0100390 VHOG:0001270 SCTID:361335009 UMLS:C0023986 EMAPA:19280 BTO:0004608 NCIT:C33006 FMA:17698 GAID:437 Wikipedia:Loop_of_Henle" "Any process that modulates the rate, frequency, or extent of the process in which a chondroblast acquires specialized structural and/or functional features of a chondrocyte that will contribute to the development of a bone. A chondrocyte is a polymorphic cell that forms cartilage." - + "ZFA:0009371" "A thymic epithelial cell that has an eccentric, round, or irregularly shaped hetero or euchromatic nucleus. The hallmark of this cell type is the presence of vacuoles, which are clustered in one area of the cytoplasm in the vicinity of the nucleus. The vacuoles are small and acquire a grape-like form, occasionally showing delicate internal microvillous projections." "FMA:72214" "Combining with calcitonin and transmitting the signal across the membrane by activating an associated G-protein; promotes the exchange of GDP for GTP on the alpha subunit of a heterotrimeric G-protein complex." "A ligament that does not connect two skeletal elements." "MA:0003004 FMA:25625 SCTID:410746001" @@ -11538,6 +11574,7 @@ "A thick plate of mesodermal tissue that occupies the space between the thoracic cavity and yolk stalk in the early embryo, forming a transverse partition partially separating the coelomic cavity into thoracic and abdominal portions. It gives rise to the central tendon of the diaphragm[VHOG]." "Wikipedia:Septum_transversum FMA:295593 SCTID:308819008 VHOG:0000019 UMLS:C0231004 NCIT:C34296 EMAPA:16318 EHDAA:736 EHDAA2:0001829" "Any process that activates or increases the frequency, rate or extent of addition of phosphate groups to a molecule." "FMA:83912" + "Any kidney venous blood vessel cell that is part of some renal cortex vein." "KUPO:0001084" "An interleukin-17 receptor B that is encoded in the genome of mouse." "UniProtKB:Q9JIP3" "The series of events involved in the perception of pain in which a mechanical stimulus is received and converted into a molecular signal." "The subscapular artery, the largest branch of the axillary artery, arises at the lower border of the Subscapularis, which it follows to the inferior angle of the scapula, where it anastomoses with the lateral thoracic and intercostal arteries and with the descending branch of the transverse cervical, and ends in the neighboring muscles. About 4 cm. from its origin it gives off two branches, first the scapular circumflex artery and then the thoracodorsal artery. [WP,unvetted]." "MA:0002050 Wikipedia:Subscapular_artery FMA:22677 SCTID:244311006 EMAPA:37116 UMLS:C0226422 NCIT:C33650" @@ -11549,7 +11586,6 @@ "Any process that activates or increases the frequency, rate or extent of alpha-beta T cell activation." "Any process that activates or increases the frequency, rate or extent of enzymatic generation of superoxide by a cell." - "Organ component adjacent to an organ cavity and which consists of a maximal aggregate of organ component layers." "FMA:82482 galen:Wall" "Vascular layer containing connective tissue, of the eye lying between the retina and the sclera. The choroid provides oxygen and nourishment to the outer layers of the retina. Along with the ciliary body and iris, the choroid forms the uveal tract[WP]." "EMAPA:19077 MESH:D002829 VHOG:0001568 UMLS:C0008520 GAID:913 CALOHA:TS-2054 EV:0100347 ZFA:0005229 MA:0000263 NCIT:C12344 TAO:0005229 FMA:58298 SCTID:181172003 BTO:0001829 Wikipedia:Choroid" "Region of ovarian follicle filled with follicular fluid." "EMAPA:37867 Wikipedia:Follicular_antrum FMA:18675" @@ -11560,7 +11596,7 @@ "The chemical reactions and pathways resulting in the breakdown of melatonin (N-acetyl-5-methoxytryptamine)." "The process in which a relatively unspecialized cell acquires specialized features of an interstitial cell of Cajal. An interstitial cell of Cajal is an intestinal neuroepithelial cell that serves as a pacemaker to trigger gut contraction." "The synthesis or release of a cytokine following a inflammatory stimulus as part of an inflammatory response, resulting in an increase in its intracellular or extracellular levels." - "An enclosed, cable-like bundle of axons in the peripheral nervous system originating in a nerve root in the central nervous system (or a condensed nervous structure) connecting with peripheral structures." "EV:0100371 SCTID:244457007 NCIT:C12466 MA:0000217 EMAPA:32808 TAO:0007009 EHDAA:3776 EHDAA:4657 MESH:D010525 BIRNLEX:1615 NCIT:C12768 NLX:147826 FMA:65132 XAO:0003047 FMA:65239 SCTID:256864008 BSA:0000098 GAID:747 MA:0000228 BTO:0001027 BAMS:n EMAPA:32815 XAO:0000204 EHDAA:2851 GAID:758 EHDAA2:0003137 AEO:0000137 Wikipedia:Nervous_system UMLS:C0031119 galen:Nerve VHOG:0000901 BTO:0000925 UMLS:C0027740 ZFA:0007009 CALOHA:TS-0772 AAO:0011070" + "An enclosed, cable-like bundle of axons in the peripheral nervous system originating in a nerve root in the central nervous system (or a condensed nervous structure) connecting with peripheral structures." "EV:0100371 SCTID:244457007 NCIT:C12466 MA:0000217 EMAPA:32808 TAO:0007009 EHDAA:3776 EHDAA:4657 MESH:D010525 BIRNLEX:1615 NCIT:C12768 NLX:147826 XAO:0003047 FMA:65132 FMA:65239 SCTID:256864008 BSA:0000098 GAID:747 MA:0000228 BTO:0001027 BAMS:n EMAPA:32815 XAO:0000204 EHDAA:2851 GAID:758 EHDAA2:0003137 FBbt:00005105 AEO:0000137 Wikipedia:Nervous_system UMLS:C0031119 galen:Nerve VHOG:0000901 BTO:0000925 UMLS:C0027740 ZFA:0007009 CALOHA:TS-0772 AAO:0011070" "The retina is the innermost layer or coating at the back of the eyeball, which is sensitive to light and in which the optic nerve terminates." "EFO:0000832 MESH:D012160 BAMS:R EMAPA:17168 BTO:0001175 FMA:58301 AAO:0010352 MBA:304325711 TAO:0000152 GAID:755 UMLS:C0035298 EV:0100348 NCIT:C12343 XAO:0000009 NIFSTD_RETIRED:birnlex_1156 MIAA:0000142 EHDAA2:0001627 ZFA:0000152 CALOHA:TS-0865 UMLS:C1278894 neuronames:1862 SCTID:181171005 EHDAA:4757 Wikipedia:Retina MA:0000276 MAT:0000142 BIRNLEX:1153 VHOG:0000229" "The formation of bone or of a bony substance, or the conversion of fibrous tissue or of cartilage into bone or a bony substance." "Wikipedia:Ossification" "A protein that is a translation product of the human TFRC gene or a 1:1 ortholog thereof." @@ -11574,7 +11610,7 @@ "Any process that stops, prevents or reduces the frequency, rate or extent of cytokine production involved in inflammatory response." "A cerebral hemisphere that is in the right side of a brain." "SCTID:362322002 BIRNLEX:1797 UMLS:C0228175 NCIT:C33472 FMA:67292" "Any of the veins that carries deoxygenated blood from a part of the body into the right atrium of the heart." "AAO:0010215 UMLS:C0042460 FMA:321896 MA:0000068 BTO:0001438 NCIT:C12817 SCTID:244405007 EMAPA:18415 Wikipedia:Venae_cavae GAID:547 MESH:D014684" - "An anatomical space that surrounded_by a open tracheal system trachea." + "An anatomical space that surrounded_by a open tracheal system trachea." "FBbt:00007410" "An anatomical system that eliminates waste products that arise as a result of metabolic activity." "The process whose specific outcome is the progression of the distal convoluted tubule over time, from its formation to the mature structure. The distal convoluted tubule is the first segment of the nephron lying just downstream from the loop of Henle, immediately after the macula densa. Among other functions, in humans it is responsible for the reabsorption of about 5% of filtered sodium via the thiazide-sensitive Na-Cl symporter." "Missing definition for term UBERON:0008921. Please replace it using linked reference." @@ -11584,7 +11620,7 @@ "Any process that stops, prevents, or reduces the frequency, rate, or extent of tolerance induction." "A non-neuronal cell of the nervous system. They not only provide physical support, but also respond to injury, regulate the ionic and chemical composition of the extracellular milieu. Form the myelin insulation of nervous pathways, guide neuronal migration during development, and exchange metabolites with neurons. Neuroglia have high-affinity transmitter uptake systems, voltage-dependent and transmitter-gated ion channels, and can release transmitters, but their role in signaling (as in many other functions) is unclear." - "A neuron that laterally connects other neurons in the inner nuclear layer of the retina." "BTO:0004120" + "A neuron that laterally connects other neurons in the inner nuclear layer of the retina." "ZFA:0009315 BTO:0004120" "A cell that anchors the cell body of a scolopidial neuron to the integument." "FBbt:00005221" "The attachment of one cell to another cell via adhesion molecules." "Any process that stops, prevents or reduces the frequency, rate or extent of monocyte activation." @@ -11600,21 +11636,21 @@ "The process whose specific outcome is the progression of the ureter over time, from its formation to the mature structure. The ureter is a muscular tube that transports urine from the kidney to the urinary bladder or from the Malpighian tubule to the hindgut." "Any process that stops, prevents or reduces the frequency, rate or extent of respiratory gaseous exchange." "A neural nucleus that is part of the brain." "SCTID:426465002 NCIT:C49346 EMAPA:35185 FMA:83840 UMLS:C1706993 MA:0000811 ZFA:0005575" - "MIAA:0000204 MAT:0000204" + "MIAA:0000204 MAT:0000204 FBbt:00004114" "The process whose specific outcome is the progression of the mesonephric nephron epithelium over time, from its formation to the mature structure. An epithelium is a tissue that covers the internal or external surfaces of an anatomical structure. The mesonephric nephron epithelium is a tissue that covers the surface of a nephron in the mesonephros." - "Serous membrane which is divided into parietal and visceral serous pericardium." "Wikipedia:Serous_pericardium EMAPA:19030 SCTID:243954002 MA:0002739 FMA:9582" + "Serous membrane which is divided into parietal and visceral serous pericardium." "EMAPA:19030 SCTID:243954002 MA:0002739 FMA:9582 Wikipedia:Serous_pericardium" "A mono-stratified retinal ganglion cell that has a large dendritic field and a sparse dendritic arbor with post synaptic terminals in sublaminar layer S4." "An unstimulated network of follicular dendritic cells and small resting B cells in the lymph node cortex." "EMAPA:35530 MA:0000743 FMA:312350" "Any process that modulates the frequency, rate or extent of natural killer cell differentiation as part of an immune response." "Any process that modulates the frequency, rate or extent of the directed movement of RNA from the nucleus to the cytoplasm." - "A structural cell that is part of optic choroid." + "A structural cell that is part of optic choroid." "ZFA:0009175" "An epithelium that is part of a nasopharynx [Automatically generated definition]." "VHOG:0001038 CALOHA:TS-0662 EMAPA:17672 BTO:0004480 MA:0001865 NCIT:C49263 EHDAA2:0001241 UMLS:C1179157 FMA:62452 EHDAA:7090" "An anatomical wall that is part of a uterus [Automatically generated definition]." "BTO:0003083 FMA:17560 SCTID:245485002" "Any process that modulates the frequency, rate or extent of germ cell proliferation." "The area of the white pulp where the affinity maturation of B cells and the generation of memory B cells and plasma cells occur." "NCIT:C33602 EMAPA:35804 SCTID:35845000 MA:0002672 UMLS:C1519475" "The process in which a solute is transported from one side of the vacuolar membrane to the other." - "Cell of the intestinal epithelium with a brush border made up of many parallel packed microvilli; associated with absorption, particularly of macromolecules." + "Cell of the intestinal epithelium with a brush border made up of many parallel packed microvilli; associated with absorption, particularly of macromolecules." "ZFA:0009289" "Any process that increases the rate, frequency, or extent of the process in which a highly ordered sequence of patterning events generates the branched structures of the lung, consisting of reiterated combinations of bud outgrowth, elongation, and dichotomous subdivision of terminal units." "A cell in the hilum of the ovary that produces androgens." "FMA:18710" "A vein that is part of a thorax [Automatically generated definition]." "EMAPA:37197 MA:0002235 UMLS:C0226629 NCIT:C53142 SCTID:281472008" @@ -11627,14 +11663,14 @@ "A blood vessel that drains from from an eyelid." "SCTID:152208004 FMA:51997" "Any process that modulates the frequency, rate or extent of zygospore formation, a process in which a thick-walled spore of some algae and fungi is formed by union of two similar sexual cells, usually serves as a resting spore, and produces the sporophytic phase." "Any process that modulates the rate, frequency or extent of granulocyte chemotaxis. Granulocyte chemotaxis is the movement of a granulocyte in response to an external stimulus." - "Anlagen are populations of contiguous cells, typically arranged in one plane, that are morphologically indistinct, but that already correspond in extent to a later organ/tissue." "EHDAA2:0003170 AEO:0000170 EFO:0001649 Wikipedia:Anlage_(biology)" + "Anlagen are populations of contiguous cells, typically arranged in one plane, that are morphologically indistinct, but that already correspond in extent to a later organ/tissue." "EHDAA2:0003170 AEO:0000170 FBbt:00005426 EFO:0001649 Wikipedia:Anlage_(biology)" "An amacrine cell with a wide dendritic field, dendrites in S4, and post-synaptic terminals in S4." - "A secondary neuron (sensu Teleostei) that has a motor function." + "A secondary neuron (sensu Teleostei) that has a motor function." "ZFA:0009247" "The multiplication or reproduction of cells, resulting in the expansion of a cell population in the hindbrain." "The process whose specific outcome is the progression of an osteoblast over time, from its formation to the mature structure. Osteoblast development does not include the steps involved in committing a cranial neural crest cell or an osteoprogenitor cell to an osteoblast fate. An osteoblast is a cell that gives rise to bone." "The directed movement of calcium ion into a cytosol." "The breakdown of the nucleus into small membrane-bounded compartments, or blebs, each of which contain compacted DNA." - "A flattened epithelial cell of mesenchymal origin that lines the serous cavity." "FMA:66773" + "A flattened epithelial cell of mesenchymal origin that lines the serous cavity." "ZFA:0009040 FMA:66773" "Any process that stops, prevents or reduces the frequency, rate or extent of gastric mucosal blood circulation." "One of the cartilaginous structures surrounding the embryonic spinal cord, formed by the dorsal growth of the dorsolateral arcualia; it is the primordium of the vertebral arch." "BTO:0001763" @@ -11646,7 +11682,7 @@ "GC_ID:1" "Any process that modulates the frequency, rate or extent of epithelial cell proliferation." "The process in which immunoglobulin genes are formed through recombination of the germline genetic elements, also known as immunoglobulin gene segments, within a single locus following the induction of and contributing to an immune response." - "A naive B cell is a mature B cell that has the phenotype surface IgD-positive, surface IgM-positive, CD20-positive, CD27-negative and that has not yet been activated by antigen in the periphery." + "A naive B cell is a mature B cell that has the phenotype surface IgD-positive, surface IgM-positive, CD20-positive, CD27-negative and that has not yet been activated by antigen in the periphery." "ZFA:0009334" "A optical quality inhering in a bearer by virtue of the bearer's lacking opacity." "A structure embedded in the superior olivary complex that is driven by input pathways from the octopus cells in the cochlear nucleus and the neurons of the medial nucleus of the trapezoid body." "Any process that stops, prevents or reduces the frequency, rate or extent of eosinophil activation." @@ -11656,6 +11692,7 @@ "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus by a cell and ends with a change in state or activity or the cell." "Any process that modulates the frequency, rate or extent of the growth of the imaginal disc." "A skeletal element that is part of a limb and composed of cartilage tissue." + "A protein complex that is capable of associating with DNA by direct binding, or via other DNA-binding proteins or complexes, and regulating transcription." "A gland that is part of a eye. The eye is a compound unit which depending on the species may consist of an eyeballs plus associated ducts and integumentary structures. Eye glands therefore include the various types of lacrimal gland, the various types of apocrine and sebaceous glands associated with the eyelid." "MA:0000267 EMAPA:35334" "Any process that stops, prevents, or reduces the frequency, rate or extent of angiogenesis." "A glutamatergic motor neuron with a soma in the brainstem or cerebral cortex. They do not synapse directly to muscles but rather to lower motor neurons, which do. They are the main controllers of voluntary movement." @@ -11676,10 +11713,9 @@ "Any apoptotic process in a glial cell, a non-neuronal cell of the nervous system." "Any process, acting in the presynapse that results in modulation of chemical synaptic transmission." "A collagen alpha-1(I) chain that has been processed by proteolytic cleavage." - "Olfactory epithelial support cell is a columnar cell that extends from the epithelial free margin to the basement membrane of the olfactory epithelium. This cell type has a large, vertically, elongate, euchromatic nucleus, along with other nuclei, forms a layer superficial to the cell body of the receptor cell; sends long somewhat irregular microvilli into the mucus layer; at the base, with expanded end-feet containing numerous lamellated dense bodies resembling lipofuscin of neurons." "FMA:62302" + "Olfactory epithelial support cell is a columnar cell that extends from the epithelial free margin to the basement membrane of the olfactory epithelium. This cell type has a large, vertically, elongate, euchromatic nucleus, along with other nuclei, forms a layer superficial to the cell body of the receptor cell; sends long somewhat irregular microvilli into the mucus layer; at the base, with expanded end-feet containing numerous lamellated dense bodies resembling lipofuscin of neurons." "ZFA:0009364 FMA:62302" "An pulmonary artery endothelium is an epithelium that lines the pulmonary artery[GO]." "BTO:0000137" "A smooth muscle cell of the intestine." - "The developmental process in which a ventricular septum is generated and organized. A ventricular septum is an anatomical structure that separates the lower chambers (ventricles) of the heart from one another." "Luminal space of the left atrium of the heart." "FMA:9465 EMAPA:26011" "An early growth response protein 2 that is encoded in the genome of human." "Reactome:R-HSA-977385 UniProtKB:P11161" @@ -11718,7 +11754,7 @@ "A reflex that occurs in response to suckling, beginning with a nerve impulse from a receptor in the mammary gland and ending with the ejection of milk from the gland. Signaling never reaches a level of consciousness." "OBSOLETE: A cell of the lymphoid series that can react with antigen to produce specific cell products called antibodies. Various cell subpopulations, often B cells, can be defined, based on the different classes of immunoglobulins that they synthesize." - "A mature contractile cell, commonly known as a myocyte. This cell has as part of its cytoplasm myofibrils organized in various patterns." "FBbt:00005074 BTO:0000902 WBbt:0003675 BTO:0000888 CALOHA:TS-2032 FMA:67328" + "A mature contractile cell, commonly known as a myocyte. This cell has as part of its cytoplasm myofibrils organized in various patterns." "ZFA:0009114 FBbt:00005074 BTO:0000902 WBbt:0003675 BTO:0000888 CALOHA:TS-2032 FMA:67328" "A retinal cell that is immature or undifferentiated." "The process in which a relatively unspecialized cell acquires specialized structural and/or functional features of an ionocyte. Ionocytes are specialized epithelial cells that contribute to osmotic homeostasis." "A delimited region of dense mesenchyme within looser mesenchyme." "EHDAA:8979 EHDAA2_RETIRED:0003148 AEO:0000148" @@ -11732,11 +11768,10 @@ "The bone forming the forehead and roof of the eye orbit." "FMA:52734 Wikipedia:Frontal_bone EMAPA:19016 MA:0001466 UMLS:C0016732 SCTID:181793006 VSAO:0000208 MESH:D005624 AAO:0000206 GAID:226 NCIT:C32635" "A hematopoietic stem cell of the placenta. This cell type is first observed E10.5 This cell type may give rise to fetal liver hematopoietic stem cells." "Any process that modulates the frequency, rate, or extent of neutrophil chemotaxis. Neutrophil chemotaxis is the directed movement of a neutrophil cell, the most numerous polymorphonuclear leukocyte found in the blood, in response to an external stimulus, usually an infection or wounding." - "An epithelial cell of the kidney." "KUPO:0001019" + "An epithelial cell of the kidney." "ZFA:0009374 KUPO:0001019" "A portion of smooth muscle tissue that is part of an iliac vein." "A part of the epithalamus present in some animal species. The eye may be photoreceptive and is usually associated with the pineal gland, regulating circadian rhythmicity and hormone production for thermoregulation. The parietal eye is a part of the epithalamus, which can be divided into two major parts; the epiphysis (the pineal organ, or pineal gland if mostly endocrine) and the parietal organ (often called the parietal eye, or third eye if it is photoreceptive). It arises as an anterior evagination of the pineal organ or as a separate outgrowth of the roof of the diencephalon. In some species, it protrudes through the skull.[4] The parietal eye uses a different biochemical method of detecting light than rod cells or cone cells in a normal vertebrate eye[WP]." "Wikipedia:Parietal_eye" "The cochlear nuclei consist of: (a) the dorsal cochlear nucleus, corresponding to the tuberculum acusticum on the dorso-lateral surface of the inferior peduncle; and (b) the ventral or accessory cochlear nucleus, placed between the two divisions of the nerve, on the ventral aspect of the inferior peduncle. [WP,unvetted]." "neuronames:720 BM:Me-Co Wikipedia:Cochlear_nuclei UMLS:C0152411 EV:0100260 FMA:72240 BIRNLEX:1151 DHBA:12437 MBA:607 HBA:9528 BAMS:CN" - "SCTID:360394002 NCIT:C34268 UMLS:C1514442 BILA:0000084" "A squamous cell that has keratin in the esophagus." "FMA:86549" "Any muscle organ that is part of either the head or the neck." "NCIT:C32716 UMLS:C0448281" @@ -11753,14 +11788,14 @@ "A lymphocyte that lacks characteristic T cell, B cell, myeloid cell, and dendritic cell markers, that functions as part of the innate immune response to produce cytokines and other effector responses." "A goblet cell that is part of the epithelium of large intestine." "FMA:263054" "Any process that modulates a cellular process that is involved in the progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events." - "Anatomical structure that consists of cell parts and cell substances and together does not constitute a cell or a tissue." "AEO:0000040 AAO:0010268 EHDAA2:0003040 CARO:0000040 TAO:0000382 FMA:63863 HAO:0000040 XAO:0003162 ZFA:0000382 TGMA:0001841 BILA:0000040" + "Anatomical structure that consists of cell parts and cell substances and together does not constitute a cell or a tissue." "AEO:0000040 AAO:0010268 EHDAA2:0003040 CARO:0000040 TAO:0000382 FMA:63863 HAO:0000040 XAO:0003162 ZFA:0000382 FBbt:00007013 TGMA:0001841 BILA:0000040" "Any protein complex that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function." "An enterocyte that is part of the epithelium proper of jejunum." "FMA:263100" "The multiplication or reproduction of hemocytes, resulting in the expansion of the cell population. Hemocytes are blood cells associated with a hemocoel (the cavity containing most of the major organs of the arthropod body) which are involved in defense and clotting of hemolymph, but not involved in transport of oxygen." "An ovary that is part of a right side of organism [Automatically generated definition]." "FMA:7213 MA:0001705 NCIT:C33487 SCTID:280123002 UMLS:C0227873 EMAPA:37367" "A developmental process involving two tissues in which one tissue (the inducer) produces a signal that directs cell fate commitment of cells in the second tissue (the responder)." "A bushy cell that receives only few large excitatory endbulb synapses from auditory nerves. Spherical bush cells give excitatory input to the lateral and medial parts of the superior olive." - "A non-neuronal cell that surrounds the neuronal cell bodies of the ganglia." "FMA:54550" + "A non-neuronal cell that surrounds the neuronal cell bodies of the ganglia." "ZFA:0009237 FMA:54550" "Skeletal element that forms as a replacement or substitution of another element or tissue." "ZFA:0005624 XAO:0004016 VSAO:0000135" "A B-cell lymphoma 6 protein that is encoded in the genome of human." "UniProtKB:P41182 Reactome:R-HSA-5223066" "Outermost layer of cells surrounding the embryo." "EFO:0003425 ZFA:0000086 TAO:0000086" @@ -11772,10 +11807,10 @@ "Blood vessels in respiratory skin." "The autonomic nerve is a small nerve which carries postganglionic sympathetic and parasympathetic neurons from the zygomaticotemporal nerve; a branch of the maxillary nerve, to the lacrimal nerve; a branch of the ophthalmic nerve. These neurons derive from the superior cervical ganglion and the pterygopalatine ganglion respectively. They will travel to the lacrimal gland via the lacrimal nerve. Parasympathetic will induce lacrimation and vice versa." "Wikipedia:Autonomic_nerve SCTID:276145003 EMAPA:37957 MESH:D017776 FMA:5866" "A protein that is a translation product of the human FCER2 gene or a 1:1 ortholog thereof." "IUPHARobj:2935 PIRSF:PIRSF002426" - "The sclera and cornea form the fibrous tunic of the bulb of the eye; the sclera is opaque, and constitutes the posterior five-sixths of the tunic; the cornea is transparent, and forms the anterior sixth." "SCTID:361318005 Wikipedia:Fibrous_tunic_of_eyeball FMA:58102" + "The sclera and cornea form the fibrous tunic of the bulb of the eye; the sclera is opaque, and constitutes the posterior five-sixths of the tunic; the cornea is transparent, and forms the anterior sixth." "FMA:58102 SCTID:361318005 Wikipedia:Fibrous_tunic_of_eyeball" "The process whose specific outcome is the progression of the subpallium over time, from its formation to the mature structure. The subpallium is the base region of the telencephalon." "A pre-B cell precursor is CD19-low, CD22-positive , CD34-positive, CD38-positive." - "A region of the lens consisting of packed elongated enucleate cells packed with crystallin." "FMA:76827 EHDAA:4745 RETIRED_EHDAA2:0000979 EHDAA:9065 UMLS:C0229224 Wikipedia:Lens_(anatomy)#Lens_fibers VHOG:0000444 NCIT:C32976 XAO:0004096 EMAPA:17841 CALOHA:TS-0544 BTO:0000724 MA:0001304" + "A region of the lens consisting of packed elongated enucleate cells packed with crystallin." "FMA:76827 EHDAA:4745 RETIRED_EHDAA2:0000979 EHDAA:9065 UMLS:C0229224 VHOG:0000444 Wikipedia:Lens_(anatomy)#Lens_fibers NCIT:C32976 XAO:0004096 EMAPA:17841 CALOHA:TS-0544 BTO:0000724 MA:0001304" "A CNS neuron of the dorsal spinal cord." "Anatomical system that consists of the glands and parts of glands that produce exocrine secretions and help to integrate and control bodily metabolic activity. Exocrine glands are glands that secrete their products (hormones) into ducts (duct glands). They are the counterparts to endocrine glands, which secrete their products (hormones) directly into the bloodstream (ductless glands) or release hormones (paracrines) that affect only target cells nearby the release site. [Wikipedia]." "CALOHA:TS-2057 MA:0002411 NCIT:C12957 Wikipedia:Exocrine_gland FMA:85539 UMLS:C1516995 WikipediaCategory:Exocrine_system EHDAA2:0002225 EMAPA:35329" "The behavioral interactions between organisms for the purpose of mating, or sexual reproduction resulting in the formation of zygotes." "Wikipedia:Mating_behaviour" @@ -11900,7 +11935,7 @@ "An immune response mediated by cells expressing specific receptors for antigens produced through a somatic diversification process, and allowing for an enhanced secondary response to subsequent exposures to the same antigen (immunological memory)." "Wikipedia:Adaptive_immune_system" "A protein that is a translation product of the human MS4A1 gene or a 1:1 ortholog thereof." "IUPHARobj:2628 PIRSF:PIRSF001995" "An anatomical wall that lines the insider of a urinary bladder." "EMAPA:35175 MA:0002493 FMA:15902 NCIT:C48941 SCTID:362225003 UMLS:C0458421 BTO:0001462" - "Non-material anatomical entity of three dimensions, that is generated by morphogenetic or other physiologic processes; is surrounded by one or more anatomical structures; contains one or more organism substances or anatomical structures." "CARO:0000005 NCIT:C94478 TGMA:0001825 HAO:0000005 VHOG:0001728 FMA:5897 AEO:0000005 EHDAA2:0003005 TAO:0001668 BILA:0000005 XAO:0003190 AAO:0010110 UMLS:C0524461 ZFA:0001643" + "Non-material anatomical entity of three dimensions, that is generated by morphogenetic or other physiologic processes; is surrounded by one or more anatomical structures; contains one or more organism substances or anatomical structures." "CARO:0000005 NCIT:C94478 TGMA:0001825 HAO:0000005 VHOG:0001728 FMA:5897 AEO:0000005 EHDAA2:0003005 TAO:0001668 BILA:0000005 XAO:0003190 AAO:0010110 ZFA:0001643 UMLS:C0524461 FBbt:00007017" "Any process that activates or increases the frequency, rate or extent of pro-B cell differentiation." "An artery that supplies the liver." "MA:0001963 GAID:496 BTO:0004307 ZFA:0005161 FMA:14769 SCTID:76015000 NCIT:C32729 TAO:0005161 MESH:D006499 EMAPA:17859 galen:HepaticArtery UMLS:C0019145" "A protein that is a translation product of the human CD48 gene or a 1:1 ortholog thereof." "PIRSF:PIRSF001973" @@ -11908,10 +11943,11 @@ "The controlled release of a fluid by a cell or tissue in an animal." "Obsolete. Use PO:0000355 from Plant Ontology instead. A fiber like tracheid in the secondary xylem; commonly thick walled, with pointed ends and bordered pits that have lenticular to slit like apertures." "Any microvascular endothelial cell that is part of a female urethra." + "Any stellate neuron that has its soma located in some cerebellum." "A concave 3-D shape quality inhering in a bearer by virtue of the bearer's having the shape of a kidney." "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an organonitrogen stimulus. An organonitrogen compound is formally a compound containing at least one carbon-nitrogen bond." "The process in which a relatively unspecialized cell acquires the specialized structural and/or functional features of a disseminated nephrocyte. A disseminated nephrocyte is an insect renal cell that filters hemolymph and is found at scattered locations in the fat body or other tissues. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state." - "A major subdivision of an organism that divides an organism along an axis perpedicular to the main body anterior-posterior axis. In vertebrates, this is typically a fin or limb segment. In insects, this includes segments of appendages such as antennae, as well as segments of the insect leg." + "A major subdivision of an organism that divides an organism along an axis perpedicular to the main body anterior-posterior axis. In vertebrates, this is typically a fin or limb segment. In insects, this includes segments of appendages such as antennae, as well as segments of the insect leg." "FBbt:00007018" "A lymphocyte antigen 75 that is encoded in the genome of mouse." "UniProtKB:Q60767" "An endoderm that is part of a thymus primordium." "Any of three grooves in the temporal lobe including the inferior, middle, and superior temporal sulci." "HBA:9377 UMLS:C0459389 NCIT:C33744" @@ -11946,12 +11982,12 @@ "Any cellular process that depends upon or alters the microtubule cytoskeleton, that part of the cytoskeleton comprising microtubules and their associated proteins." "A strand of hair that is part of a manus." "GC_ID:1" - "Motor neuron that innervate muscles that control eye, jaw, and facial movements of the vertebrate head and parasympathetic neurons that innervate certain glands and organs." "PMID:14699587" + "Motor neuron that innervate muscles that control eye, jaw, and facial movements of the vertebrate head and parasympathetic neurons that innervate certain glands and organs." "ZFA:0005730 PMID:14699587" "GC_ID:1" "An acellular anatomical structure that is the bounding layer of a anatomical structure." "FMA:63871" "Mucosa-associated lymphoid tissue in digestive tract. includes Peyer's patches, appendix, and solitary lymph nodules[GO]." "NCIT:C12936 MA:0000136 Wikipedia:Gut-associated_lymphoid_tissue UMLS:C0596638 FMA:62820" "De novo generation of a long process of a neuron, including the terminal branched region. Refers to the morphogenesis or creation of shape or form of the developing axon, which carries efferent (outgoing) action potentials from the cell body towards target cells." - "A distinct juvenile form many animals undergo before metamorphosis into adults. Animals with indirect development such as insects, amphibians, or cnidarians typically have a larval phase of their life cycle." "Wikipedia:Larva HAO:0000459 AEO:0000126 BTO:0000707 TAO:0002048" + "A distinct juvenile form many animals undergo before metamorphosis into adults. Animals with indirect development such as insects, amphibians, or cnidarians typically have a larval phase of their life cycle." "FBbt:00001727 Wikipedia:Larva HAO:0000459 AEO:0000126 BTO:0000707 TAO:0002048" "A type II muscle cell that contains large amounts of myoglobin, has many mitochondria and very many blood capillaries. Type II A cells are red, have a very high capacity for generating ATP by oxidative metabolic processes, split ATP at a very rapid rate, have a fast contraction velocity and are resistant to fatigue." "FMA:84415 BTO:0001813" "A supporting cell that is attached to the basement membrane and forms rows that support the hair cells." "FMA:79800" "A tubular structure that contains, conveys body fluid, such as blood or lymph." @@ -11998,7 +12034,7 @@ "A membrane-spanning 4-domains subfamily A member 1 that is encoded in the genome of human." "UniProtKB:P11836" "A developing mesenchymal capsule that covers the developing brain and spinal cord and is the precursor of the meningeal cluster. In mammals this gives rise to the arachnoid mater, pia mater and dura mater. In cyclostomes and fishes, the future meninx gives rise to a single meningeal layer, the primitive meninx." "EHDAA2:0004453" "CD4-positive alpha-beta T cell with regulatory function that produces IL-10." - "A cell found within the adrenal medulla that secrete biogenic amine hormones upon stimulation." "FMA:69262" + "A cell found within the adrenal medulla that secrete biogenic amine hormones upon stimulation." "ZFA:0009167 FMA:69262" "Companion vein of the thoracodorsal artery, draining the apical part of the latissimus dorsi and merging with the circumflex scapular vein to form a subscapular vein." "FMA:71213 EMAPA:37198 MA:0002238" "Any process that modulates the frequency, rate or extent of sister chromatid segregation." "Most dorsal part of the thalamus, comprising the pineal gland and habenular nuclei in most vertebrates. In a few vertebrates, it also includes the parietal eye. (Butler and Hodos, Comparative Vertebrate Neuroanatomy, 2nd ed, 2005, pg. 345-346." "BAMS:Epi EV:0100220 MAT:0000422 EMAPA:17532 HBA:4520 EFO:0000918 EHDAA:5433 BIRNLEX:1710 BAMS:ETh MIAA:0000422 NCIT:C12457 UMLS:C0152361 neuronames:292 GAID:455 CALOHA:TS-2060 VHOG:0000178 FMA:62009 BM:Die-Epi SCTID:281487003 Wikipedia:Epithalamus AAO:0010482 MBA:958 BAMS:EPI DHBA:10451 MESH:D019261 ZFA:0000509 MA:0000172 EHDAA2:0000448 PBA:128013147 TAO:0000509 BAMS:EpT BTO:0000175" @@ -12029,6 +12065,7 @@ "Any process that activates or increases the frequency, rate or extent of morphogenesis of an epithelium." "Any process that stops, prevents or reduces the frequency, rate or extent of somatic stem cell population maintenance." "EMAPA:32956 EMAPA:35568 VHOG:0000948" + "Binding to a nucleic acid region that regulates a nucleic acid-based process. Such processes include transcription, DNA replication, and DNA repair." "An extension of a neural arches dorsal to the neural canal[TAO,modified]." "FMA:11948 Wikipedia:Spinous_process ZFA:0001336 AAO:0000705 MA:0001455 NCIT:C116112 TAO:0001336 SCTID:264259004 EMAPA:25107" "The process by which an organism or tissue maintains a population of male germ-line stem cells." "A eosinophil precursor in the granulocytic series, being a cell intermediate in development between a eosinophilic myelocyte and a band form eosinophil. The nucleus becomes indented where the indentation is smaller than half the distance to the farthest nuclear margin; chromatin becomes coarse and clumped; specific granules predominate while primary granules are rare. Markers are integrin alpha-M-positive, fucosyltransferase FUT4-positive, low affinity immunoglobulin gamma Fc region receptor III-positive, CD33-positive, CD24-positive and aminopeptidase N-negative." @@ -12040,7 +12077,7 @@ "Cartilage that will provide a scaffold for mineralization of endochondral bones as they elongate or grow." "The regrowth of skeletal muscle tissue to repair injured or damaged muscle fibers in the postnatal stage." - "A leukocyte with abundant granules in the cytoplasm." "BTO:0000539 CALOHA:TS-0422 FMA:62854 BTO:0001026" + "A leukocyte with abundant granules in the cytoplasm." "ZFA:0009048 BTO:0000539 CALOHA:TS-0422 FMA:62854 BTO:0001026" "Any process that stops, prevents, or reduces the frequency, rate or extent of plasmatocyte differentiation." "Cell-cell signaling from post to pre-synapse, across the synaptic cleft." "Any process that modulates the rate, frequency, or extent of neural retina development, the progression of the neural retina over time from its initial formation to the mature structure. The neural retina is the part of the retina that contains neurons and photoreceptor cells." @@ -12056,14 +12093,13 @@ "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the nucleus." "Any process that activates or increases the frequency, rate or extent of macrophage migration." "Any process that modulates the frequency, rate or extent of smooth muscle hypertrophy." - "A stem cell from which all cells of the body can form." "MESH:D039901 FMA:84790" - "Material anatomical entity consisting of multiple anatomical structures that are not connected to each other." "CARO:0020000" + "A stem cell from which all cells of the body can form." "ZFA:0009024 MESH:D039901 FMA:84790" + "Material anatomical entity consisting of multiple anatomical structures that are not connected to each other." "CARO:0020000 FBbt:00007276" "A vein that conducts blood from the digestive organs, spleen, pancreas, and gallbladder to the liver[BTO]." "galen:PortalVein UMLS:C0032718 MESH:D011169 NCIT:C33343 EHDAA2:0001485 EMAPA:17349 GAID:540 CALOHA:TS-0814 BTO:0001792 MA:0002198 SCTID:362064007 FMA:66645 XAO:0000392 VHOG:0000656 EHDAA:6510" "The progression of the pineal gland over time from its initial formation until its mature state. The pineal gland is an endocrine gland that secretes melatonin and is involved in circadian rhythms." "A homeostatic process involved in the maintenance of an internal steady state of a carbohydrate within an organism or cell." "Any process that modulates the rate, frequency or extent of macrophage derived foam cell differentiation. Macrophage derived foam cell differentiation is the process in which a macrophage acquires the specialized features of a foam cell. A foam cell is a type of cell containing lipids in small vacuoles and typically seen in atherosclerotic lesions, as well as other conditions." "A serous secreting cell that is part of the epithelium of terminal bronchiole." "FMA:263082" - "Any process that modulates the rate, frequency or extent of epithelial cell proliferation that contributes to the progression of the prostate gland over time." "The process in which relatively unspecialized cells acquire specialized structural and/or functional features that characterize the cells of the metanephric nephron tubule as it progresses from its formation to the mature state." "An adipose tissue that is part of a dermis [Automatically generated definition]." "MA:0000798" @@ -12090,13 +12126,12 @@ "Mesenchyme that is part of a 1st arch mandibular component." "EMAPA:16385 EHDAA2:0000034" "Any process that modulates the frequency, rate or extent of embryonic development." "Any cellular process that results in the specification, formation or maintenance of polarized cytoskeletal structures that contribute to the cell polarity of a migrating ameboid cell." - "OBSOLETE: A goblet cell that is part of the epithelium of small intestine." "FMA:263042" "A neuropilin and tolloid-like protein 1 that is encoded in the genome of human." "UniProtKB:Q8TDF5" "A CD34 molecule that is encoded in the genome of human." "UniProtKB:P28906" "Any process that stops, prevents or reduces the frequency, rate or extent of glomerular visceral epithelial cell apoptotic process." "A LIM/homeobox protein Lhx3 that is encoded in the genome of mouse." "UniProtKB:P50481" - "Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form." "ZFA:0000279 TAO:0000279 VHOG:0000559 XAO:0000057 AAO:0011086 EMAPA:16752 EMAPA:16189 EFO:0001982" + "Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form." "ZFA:0000279 VHOG:0000559 TAO:0000279 XAO:0000057 EMAPA:16752 AAO:0011086 EMAPA:16189 EFO:0001982" "Any process that activates or increases the frequency, rate or extent of signaling receptor activity." "The process whose specific outcome is the progression of the midbrain over time, from its formation to the mature structure. The midbrain is the middle division of the three primary divisions of the developing chordate brain or the corresponding part of the adult brain (in vertebrates, includes a ventral part containing the cerebral peduncles and a dorsal tectum containing the corpora quadrigemina and that surrounds the aqueduct of Sylvius connecting the third and fourth ventricles)." "A lamina propria that is part of an ileum." @@ -12120,6 +12155,7 @@ "A double-walled sac containing the heart and the roots of the great vessels." "SCTID:361326002 FMA:9868 RETIRED_EHDAA2:0001443" "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of aldosterone." "An epithelium that is part of a bronchiole [Automatically generated definition]." "FMA:69077 NCIT:C48942 EMAPA:32693 UMLS:C1181296 CALOHA:TS-0570 BTO:0001866 MA:0001772" + "A transcription regulator activity that modulates transcription of gene sets via selective and non-covalent binding to a specific double-stranded genomic DNA sequence (sometimes referred to as a motif) within a cis-regulatory region. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units, and include bacterial operons." "OBSOLETE: A classification of cells by their microscopic appearance." @@ -12131,6 +12167,7 @@ "Any process that stops, prevents or reduces the frequency, rate or extent of postsynaptic membrane organization." "A bone that is part of a cranium." "SCTID:181792001" "An artery in males that provides blood to the vas deferens. The artery usually arises from the anterior trunk of the superior vesical artery. It accompanies the vas deferens into the testis, where it anastomoses with the testicular artery. In this way it also supplies blood to the testis and epididymis. A small branch supplies the ureter[WP]." "FMA:18930 MA:0001940 Wikipedia:Artery_to_the_ductus_deferens EMAPA:37513 SCTID:279659005" + "Any renal principal cell that is part of some papillary duct." "KUPO:0001137" "A mucosa that is part of a duodenum [Automatically generated definition]." "MA:0003207 SCTID:362146003 EMAPA:27235 BTO:0000367 FMA:14942 CALOHA:TS-0213" "The orderly movement of an interneuron from one site to another." "Any process that modulates the frequency, rate, or destination of vesicle-mediated transport to, from or within the Golgi apparatus." @@ -12140,7 +12177,6 @@ "The epithelial component of the choroid plexus. Consists of cuboidal epithelial cells surrounding a core of capillaries and loose connective tissue." "UMLS:C1516506 NCIT:C42079 MA:0000824 EMAPA:36608 FMA:242811" "A muscle that is part of the eye region." "MA:0000271 EMAPA:35335 AAO:0000156" "A mesothelial cell that is part of the peritoneum." "FMA:86736" - "MESH:D005057" "A rib that is ventrally connected to the sternum." "FMA:7592 Wikipedia:True_ribs EMAPA:37774 SCTID:368044009 MA:0001419" "The distal elements of the developing limb of vertebrates that will give rise to the pes (foot)." "EHDAA:5143 UMLS:C1517291 NCIT:C34177 FMA:296800 EMAPA:17249 EHDAA:6096" "The process in which the anatomical structures of the metanephric capsule are generated and organized. The metanephric capsule is the tough fibrous layer surrounding the metanephros, covered in a thick layer of perinephric adipose tissue. It provides some protection from trauma and damage." @@ -12155,7 +12191,7 @@ "A vein that drains blood from the right adrenal gland into the inferior vena cava." "UMLS:C0226721 NCIT:C53131 SCTID:69354005 FMA:14343" "A bronchiole that is the first segment of the respiratory zone." "SCTID:128517006 UMLS:C1261270 BTO:0003222 FMA:7412 NCIT:C33465 Wikipedia:Respiratory_bronchiole EMAPA:35729 MA:0000423" "The directed movement of a T-helper 2 cell in response to an external stimulus." - "The metatarsophalangeal articulations are the joints between the metatarsal bones of the foot and the proximal bones of the toes . They are condyloid joints meaning an elliptical or rounded surface (of the metatarsal bones) come close to the shallow cavities (of the proximal phalanges). The ligaments are the plantar and two collateral." "SCTID:302535003 SCTID:239747005 GAID:258 galen:MetatarsoPhalangealJoint Wikipedia:Metatarsophalangeal_articulations MESH:D008683 SCTID:370752004 NCIT:C33108 UMLS:C0025589 FMA:35222" + "The metatarsophalangeal articulations are the joints between the metatarsal bones of the foot and the proximal bones of the toes . They are condyloid joints meaning an elliptical or rounded surface (of the metatarsal bones) come close to the shallow cavities (of the proximal phalanges). The ligaments are the plantar and two collateral." "SCTID:302535003 GAID:258 SCTID:239747005 galen:MetatarsoPhalangealJoint Wikipedia:Metatarsophalangeal_articulations MESH:D008683 NCIT:C33108 SCTID:370752004 UMLS:C0025589 FMA:35222" "A process in which a protein is transported to, or maintained in, a location within a bicellular tight junction." "The dorsal cochlear nucleus (DCN, also known as the 'tuberculum acousticum'), is a cortex-like structure on the dorso-lateral surface of the brainstem. Along with the ventral cochlear nucleus, it forms the cochlear nucleus, where all auditory nerve fibers from the cochlea form their first synapses. [WP,unvetted]." "NCIT:C32471 SCTID:280179000 Wikipedia:Dorsal_cochlear_nucleus BIRNLEX:2569 HBA:9530 MBA:96 DHBA:12438 UMLS:C1281210 BAMS:DCo BM:Me-CD FMA:54624 BAMS:DCO UMLS:C0175499 BAMS:DC EMAPA:35289 neuronames:721" "A basal cell found in the bronchus epithelium." "FMA:263120" @@ -12173,17 +12209,16 @@ "A myeloblast committed to the eosinophil lineage." "The orderly movement of epithelial cells within a renal tubule that contributes to mesonephric proximal tubule morphogenesis." "EHDAA:595 EHDAA2:0000038 EMAPA:16388" - "A MHC-II-negative classical monocyte located in lymphoid tissue that is F4/80-positive, CD11c-negative, and CD11b-high." - "A steroid hormone secreting cell that secretes androgen." + "A steroid hormone secreting cell that secretes androgen." "ZFA:0009271" "A pericyte cell that is part of a lung." "EFO:0010669" "The chemical reactions and pathways involving melatonin (N-acetyl-5-methoxytryptamine)." "Any process that stops, prevents or reduces the frequency, rate or extent of synoviocyte proliferation." "FMA:9560" "Any process that modulates the frequency, rate or extent of cardiac myofibril assembly." "An adipocyte that is part of the breast." "CALOHA:TS-2377" - "The chemical reactions and pathways resulting in the breakdown of hyaluronan, the naturally occurring anionic form of hyaluronic acid, any member of a group of glycosaminoglycans, the repeat units of which consist of beta-1,4 linked D-glucuronyl-beta-(1,3)-N-acetyl-D-glucosamine." + "The chemical reactions and pathways resulting in the breakdown of hyaluronan, the naturally occurring anionic form of hyaluronic acid, any member of a group of glycosaminoglycans, the repeat units of which consist of beta-1,4 linked D-glucuronyl-beta-(1,3)-N-acetyl-D-glucosamine." "MetaCyc:PWY-7645" "A vein that begins near the upper part of the greater sciatic foramen, passes upward behind and slightly medial to the hypogastric artery and, at the brim of the pelvis, joins with the external iliac to form the common iliac vein. [WP,unvetted]." "EHDAA2:0000874 galen:InternalIliacVein MA:0002145 NCIT:C32847 FMA:18884 Wikipedia:Internal_iliac_vein MA:0002139 VHOG:0000749 UMLS:C0226764 SCTID:181399007 EMAPA:37148" "A small pre-B cell that is CD22-positive and CD38-low." "A white matter of cerebral lobe that is part of a temporal lobe." "FMA:256186 SCTID:362344007" @@ -12208,18 +12243,18 @@ "Any process that modulates the frequency, rate or extent of apoptotic process involved in metanephric nephron tubule development." "Any process that stops, prevents, or reduces the frequency, rate, or extent of tolerance induction to nonself antigen." "The vascularized and branched structures arising from the rodent trophoblast-derived epithelium that allow an increase its surface area for the efficient exchange of nutrients and wastes between the maternal and fetal circulation." - + "ZFA:0009152" "The thickened portion of the vascular tunic, which lies between the choroid and the iris, composed of ciliary muscle and ciliary processes." "BTO:0000260 GAID:916 Wikipedia:Ciliary_body EV:0100346 AAO:0010341 XAO:0000186 UMLS:C0008779 SCTID:263340007 NCIT:C12345 MA:0000264 FMA:58295 MESH:D002924 VHOG:0000102 CALOHA:TS-0694 neuronames:1571 EMAPA:19065" "The chemical reactions and pathways resulting in the formation of monocarboxylic acids, any organic acid containing one carboxyl (-COOH) group." "The process in which neuroblasts acquire specialized structural and/or functional features that characterize the mature cerebellar Golgi cell. Differentiation includes the processes involved in commitment of a neuroblast to a Golgi cell fate. A cerebellar Golgi cell is an inhibitory GABAergic interneuron found in the cerebellar cortex." "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane." - + "ZFA:0009188" "A laminar subdivision of the neocortex that is comprised of a part of layer V and a part of layer VI." "The lacrimal nerve is the smallest of the three branches of the ophthalmic division of the trigeminal nerve." "FMA:52628 SCTID:280218007 NCIT:C32908 Wikipedia:Lacrimal_nerve" "Any process that activates or increases the frequency, rate or extent of colon smooth muscle contraction." "A subdivision of the skeleton of the autopod consisting of the phalanges of pedal digit plus the associated metapodial element." "A megakaroycotye progenitor cell that is CD34-positive, CD41-positive and CD42-positive on the cell surface." - "A smooth muscle cell that synthesizes, stores, and secretes the enzyme renin. This cell type are located in the wall of the afferent arteriole at the entrance to the glomerulus. While having a different origin than other kidney smooth muscle cells, this cell type expresses smooth muscle actin upon maturation." "FMA:84138" + "A smooth muscle cell that synthesizes, stores, and secretes the enzyme renin. This cell type are located in the wall of the afferent arteriole at the entrance to the glomerulus. While having a different origin than other kidney smooth muscle cells, this cell type expresses smooth muscle actin upon maturation." "ZFA:0005238 FMA:84138" "A sphincter muscle that is part of a anal region." "EMAPA:36052" "Undifferentiated; mitotic stem cell for other epithelial cell types; rounded or elliptical with little cytoplasm and few organelles; contain cytokeratin intermediate filament." "FMA:62516 BTO:0000939" "An iliac endochondral element that is composed primarily of a pre-cartilage condensation." "EHDAA2:0000809 EHDAA:9568 VHOG:0000964 EMAPA:18029" @@ -12231,7 +12266,7 @@ "The mucosal layer that lines the stomach." "EMAPA:35817 GAID:321 Wikipedia:Gastric_mucosa FMA:14907 UMLS:C0017136 BTO:0001308 NCIT:C32656 SCTID:362131005 MA:0002683 galen:GastricMucosa MESH:D005753 CALOHA:TS-0404" "A glandular cell found in the epithelium of the small intestine. Example: Enterocytes, Goblet cells, enteroendocrine cells; Paneth cells; M cells; Somatostatin-secreting Cells (D-cells) ." "CALOHA:TS-1286 FMA:86928" - "The smallest morphological and functional unit of the compound eye that consists of a usually limited and often constant number of rhabdomeric photoreceptor cells, cornea-secreting epithelial cells, and interommatidial pigment cells, and may additionally contain crystalline cone cells." "MIAA:0000143 HAO:0000666 Wikipedia:Ommatidium BTO:0001922 MAT:0000143" + "The smallest morphological and functional unit of the compound eye that consists of a usually limited and often constant number of rhabdomeric photoreceptor cells, cornea-secreting epithelial cells, and interommatidial pigment cells, and may additionally contain crystalline cone cells." "MIAA:0000143 HAO:0000666 Wikipedia:Ommatidium BTO:0001922 FBbt:00004510 MAT:0000143" "A smooth muscle cell of the trachea." "Obsolete. Use PO:0004011 from Plant Ontology instead. A cell constituting an active locus of meristematic activity in a tissue composed of somewhat older, differentiating cells." "OBSOLETE: A classification of cells by the number of haploid genome equivalents of their nucleus or nuclei." @@ -12239,7 +12274,7 @@ "A natural killer cell that is developmentally immature, has the phenotype CD34-negative, CD56-positive, CD117-positive, CD122-positive,and CD161-positive." "The cellular developmental process in which a specific cell progresses from an immature to a mature state. Cell development start once cell commitment has taken place." "A rhodopsin-like G-protein coupled receptor that is a translation product of the human RXFP1 to RXFP4 genes, 1:1 orthologs thereof, or a semi-ortholog thereof. The active form binds relaxins." "PIRSF:PIRSF038662 IUPHARfam:60" - + "ZFA:0009153" "EMAPA:37958 SCTID:181098007" "The distal sub-portion of the ascending loop of Henle which is lined by simple cuboidal epithelium and enters the renal cortex to empty a hypotonic filtrate into the distal convoluted tubule." "SCTID:244953001 EMAPA:29671 FMA:17722 EMAPA:28396 EMAPA:35512 MA:0001677 Wikipedia:Thick_ascending_limb_of_loop_of_Henle" @@ -12294,11 +12329,11 @@ "Glandular cell of salivary gland. Example: Serous cells, mucous cells, cuboidal epithelial cells of the intercalated ducts, simple cuboidal epithelium of the striated ducts, epithelial cells of excretory ducts." "CALOHA:TS-1282" "A retinal ganglion cell B that has medium body size, medium dendritic field and dense dendritic arbor, and has post synaptic terminals in S2." "BAMS:1047" "A tributary of the iliac vein that drains the urinary bladder." "SCTID:12683000 EMAPA:37205 Wikipedia:Vesical_veins MA:0002263" - "A subdivision of the digestive tract that connects the small intestine to the cloaca or anus. Lacks or has few villi[Kardong]." "EFO:0000840 EV:0100077 BTO:0000706 galen:LargeIntestine NCIT:C12379 EMAPA:19252 VHOG:0000054 SCTID:181254001 AAO:0010396 GAID:306 FMA:7201 MA:0000333 XAO:0000131 CALOHA:TS-1306 UMLS:C0021851 Wikipedia:Large_intestine_(anatomy) MESH:D007420 MIAA:0000046" + "A subdivision of the digestive tract that connects the small intestine to the cloaca or anus. Lacks or has few villi[Kardong]." "EFO:0000840 EV:0100077 BTO:0000706 galen:LargeIntestine NCIT:C12379 EMAPA:19252 VHOG:0000054 SCTID:181254001 AAO:0010396 GAID:306 FMA:7201 MA:0000333 XAO:0000131 CALOHA:TS-1306 Wikipedia:Large_intestine_(anatomy) UMLS:C0021851 MESH:D007420 MIAA:0000046" "A polychromatiic erythroblast that is Gly-A-positive and CD71-low." - "A neuron that uses neuropeptides as transmitters." "FBbt:00004101" "Any process that stops or reduces the activity of an ion transporter." - "A cell that takes up and metabolizes substances." + "A neuron that uses neuropeptides as transmitters." "ZFA:0009062 FBbt:00004101" + "A cell that takes up and metabolizes substances." "ZFA:0009129" "A CD8-positive, alpha beta memory T cell with the phenotype CD45RA-positive, CD45RO-negative, and CCR7-negative." "The process in which the anatomical structure of the cerebellar molecular layer is generated and organized. The molecular layer is the outermost layer of the cerebellar cortex. It contains the parallel fibers of the granule cells, interneurons such as stellate and basket cells, and the dendrites of the underlying Purkinje cells." "The axilla is the area directly under the joint where the forelimb connects to the shoulder." "CALOHA:TS-2208 SCTID:362732006 galen:Axilla NCIT:C12674 EFO:0001395 UMLS:C0004454 FMA:24864 MESH:D001365 Wikipedia:Axilla" @@ -12315,6 +12350,7 @@ "A cone whose sensitivity measurements have an average spectral peak of 510 nm. These cones are described in rat." "BAMS:1028" "A GABAergic cell located in the cerebral cortex that expresses meis2." "The ureteral branches of renal artery are small branches which supply the ureter." "FMA:70491 SCTID:65376008 EMAPA:37676 MA:0002074 Wikipedia:Ureteral_branches_of_renal_artery" + "Any melanocyte of skin that is part of a skin of prepuce of penis." "A cadherin-5 that is encoded in the genome of mouse." "UniProtKB:P55284" "A fibroblast that is part of upper back skin." "A hollow, muscular organ, which, by contracting rhythmically, contributes to the circulation of lymph, blood or analogs. Examples: a chambered vertebrate heart; the tubular peristaltic heart of ascidians; the dorsal vessel of an insect; the lymoh heart of a reptile." @@ -12323,13 +12359,13 @@ "A striated muscle cell of an arthropod heart that participates in heart contraction." "NCIT:C12893 BIRNLEX:955 SCTID:180966009 FMA:16422 UMLS:C0581631" "EMAPA:18772 FMA:294628 MA:0000162" - "A small cluster of cells of various types which form a discrete structure, largely delimited by a morphological boundary and whose components work together to make the whole structure capable of a specific function." "CARO:0010001" + "A small cluster of cells of various types which form a discrete structure, largely delimited by a morphological boundary and whose components work together to make the whole structure capable of a specific function." "CARO:0010001 FBbt:00007229" "EHDAA2:0000031 EHDAA:583 EMAPA:16382 VHOG:0000510" "A class switched memory B cell that expresses IgE on the cell surface." "Any process that stops, prevents or reduces the rate or extent of mitosis. Mitosis is the division of the eukaryotic cell nucleus to produce two daughter nuclei that, usually, contain the identical chromosome complement to their mother." "An endothelium that is part of a sclera." "A laminar subdivision of the neocortex that is comprised of a part of layer II and a part of layer III." - "Chordotonal organs are arthropod sensory structures consisting of special sensilla called the scolopidia, which are mechano-transducers and respond mainly to stretch or flexion. In insects, they consist of bundles of internal sensilla, each of which has a cap cell, an enveloping cell and one or more sense cells. The distal end of the organ is usually attached to the cuticle of the body wall, marked by a pit, a thickened disc or a nodule of chitin, and the base of the organ is connected with the hypodermis, often by a special ligament." "EFO:0000940 MAT:0000209 Wikipedia:Chordotonal_organ MIAA:0000209" + "Chordotonal organs are arthropod sensory structures consisting of special sensilla called the scolopidia, which are mechano-transducers and respond mainly to stretch or flexion. In insects, they consist of bundles of internal sensilla, each of which has a cap cell, an enveloping cell and one or more sense cells. The distal end of the organ is usually attached to the cuticle of the body wall, marked by a pit, a thickened disc or a nodule of chitin, and the base of the organ is connected with the hypodermis, often by a special ligament." "EFO:0000940 FBbt:00005215 MAT:0000209 Wikipedia:Chordotonal_organ MIAA:0000209" "Any collagen timer that is part of a basement membrane." "A dense accumulation of exocrine glands in the pancreas often surrounding islets of Langerhans." "MA:0000721 EMAPA:37710 FMA:16012" "PMID:29367151 GC_ID:1" @@ -12356,7 +12392,7 @@ "The series of events required for an organism to receive a gravitational stimulus, convert it to a molecular signal, and recognize and characterize the signal. This is a neurological process." "A B lymphocyte that resides in the mantle zone of the lymph node germinal center. These are generally IgM and IgD positive activated B cells that form a 'corona' around the germinal center and are part of the establishment of a secondary lymphatic follicule." "The process whose specific outcome is the progression of a spermatid over time, from its formation to the mature structure." "Wikipedia:Spermiogenesis" - "A cell of the embryo." "WBbt:0007028 FMA:82840 CALOHA:TS-0263" + "A cell of the embryo." "ZFA:0007089 WBbt:0007028 FMA:82840 CALOHA:TS-0263" "The process in which an amino acid is transported across a membrane." "End of the life of an organism." "XAO:0000437 XtroDO:0000085" @@ -12381,7 +12417,7 @@ "Any process that modulates the rate or extent of cardiac cell apoptotic process, a form of programmed cell death induced by external or internal signals that trigger the activity of proteolytic caspases whose actions dismantle a cardiac muscle cell and result in its death." "A process that is carried out at the cellular level that results in the assembly, arrangement of constituent parts, or disassembly of chromosomes, structures composed of a very long molecule of DNA and associated proteins that carries hereditary information. This term covers covalent modifications at the molecular level as well as spatial relationships among the major components of a chromosome." "A lymph node that is part of a pancreas [Automatically generated definition]." "UMLS:C0229783 MA:0002881 NCIT:C77642 SCTID:276170003 FMA:16626" - "A D cell located in the pancreas. Peripherally placed within the islets like type A cells; contains somatostatin." "FMA:70587 BTO:0000803" + "A D cell located in the pancreas. Peripherally placed within the islets like type A cells; contains somatostatin." "ZFA:0005743 FMA:70587 BTO:0000803" "Any process that decreases the rate or extent of the process whose specific outcome is the progression of an oocyte over time, from initial commitment of the cell to its specific fate, to the fully functional differentiated cell." "Any process that stops, prevents or reduces the frequency, rate or extent of execution phase of apoptosis." "The parts of the orbital region that are outside of the the eyeball, including the lacrimal apparatus, the extraocular muscles and the eyelids, eyelashes, eyebrows and the conjunctiva." "SCTID:120612006 NCIT:C32574 UMLS:C0229243 Wikipedia:Accessory_visual_structures FMA:76554" @@ -12396,18 +12432,18 @@ "Any process that activates or increases the frequency, rate or extent of aortic smooth muscle cell differentiation." "EHDAA2:0001836 EHDAA:8493 EMAPA:17712" "Any process that modulates the physical form or the activity of a synapse, the junction between a neuron and a target (neuron, muscle, or secretory cell)." - "A specialized mononuclear osteoclast associated with the absorption and removal of cementum." - "A cuboidal epithelial cell of the kidney that regulates acid/base balance." "FMA:86560" + "A specialized mononuclear osteoclast associated with the absorption and removal of cementum." "ZFA:0009330" + "A cuboidal epithelial cell of the kidney that regulates acid/base balance." "ZFA:0009375 FMA:86560" "The tubules that carry lymph throughout the body that are in the interior of the body or limbs." "SCTID:14033005 FMA:52012 UMLS:C1282746 NCIT:C32439" "Subdivision of long bone which forms the part of the bone between the two epiphyses, excluding the metaphyses[FMA,modified]." "FMA:24013 GAID:189 SCTID:361729006 Wikipedia:Diaphysis EMAPA:35504 MESH:D018483" "Any process that modulates the rate, frequency, or extent of the controlled release of molecules that form the extracellular matrix, including carbohydrates and glycoproteins by a cell or a group of cells." "A protein that is a translation product of the human SOX2 gene or a 1:1 ortholog thereof." "A smooth muscle cell that is part of the transverse colon." "FMA:17519" - "An epithelial cell of the pancreas." "BTO:0000028" + "An epithelial cell of the pancreas." "ZFA:0009045 BTO:0000028" "A cell that lines the trabecular meshwork, which is an area of tissue in the eye located around the base of the cornea, near the ciliary body, and is responsible for draining the aqueous humor from the eye via the anterior chamber (the chamber on the front of the eye covered by the cornea). This cell may play a role in regulating intraocular pressure." "Any hepatocyte that is part of the liver lobule centrilobular region. These cells are the primary location for the biotransformation of drugs." "Any of the immature or mature forms of a granular leukocyte that in its mature form has an irregularly shaped, pale-staining nucleus that is partially constricted into two lobes, and with cytoplasm that contains coarse, bluish-black granules of variable size. Basophils contain vasoactive amines such as histamine and serotonin, which are released on appropriate stimulation. A basophil is CD123-positive, CD193-positive, CD203c-positive, and FceRIa-positive." "FMA:62862 CALOHA:TS-0073 BTO:0000129" - "A pigment cell derived from the neural crest. Contains uric acid or other purine crystals deposited in stacks called leucosomes. The crystals reflect light and this gives a white appearance under white light." + "A pigment cell derived from the neural crest. Contains uric acid or other purine crystals deposited in stacks called leucosomes. The crystals reflect light and this gives a white appearance under white light." "ZFA:0009261" "The jelly-like substance in the middle of the spinal disc which is a remnant of the notochord." "SCTID:316586000 MA:0000112 EMAPA:18008 FMA:76703 FMA:13550 Wikipedia:Nucleus_pulposus BTO:0003626" "A process in which a protein is transported to, or maintained in, a specific location in the plasma membrane." "The process whose specific outcome is the progression of the cartilage that will provide a scaffold for mineralization of endochondral bones." @@ -12425,6 +12461,7 @@ "Any process that modulates the frequency, rate or extent of protein complex assembly." "A basally situated, mitotically active, columnar-shaped keratinocyte attached to the basement membrane." "FMA:70571" "Any process in which a protein is maintained in a specific location a specific location on or in an organelle, and is prevented from moving elsewhere. Encompasses establishment of localization in the membrane or lumen of a membrane-bounded organelle." + "Any vasa recta ascending limb cell that is part of some inner medulla vasa recta ascending limb." "KUPO:0001075" "A muscular organ in the floor of the mouth." "CALOHA:TS-1050 NCIT:C12422 Wikipedia:Tongue MAT:0000040 EMAPA:17185 AAO:0010360 MESH:D014059 MA:0000347 EFO:0000833 EHDAA:9144 BTO:0001385 TAO:0005333 MIAA:0000040 XAO:0000446 SCTID:181226008 ZFA:0005333 VHOG:0000419 UMLS:C0040408 GAID:816 FMA:54640 EV:0100058 EHDAA2:0002062" "The process whose specific outcome is the progression of a posterior lateral line neuromast hair cell over time, from its formation to the mature structure. A neuromast hair cell is a hair cell that acts as a sensory receptor of the neuromast; it is morphologically polarized as a result of the relative position of the single kinocilium and the clusters of stereocilia on its apical surface. Cell development does not include the steps involved in committing a cell to a specific fate." "Glandular cell of gallbladder epithelium." "CALOHA:TS-1278" @@ -12488,7 +12525,7 @@ "A cell morphology that inheres in neurons which possess three or more neurites, usually a single axon and many dendrites and dendritic branches." "NLX:378 ILX:0107196" "Any process that activates, maintains or increases the frequency, rate or extent of synapse assembly, the aggregation, arrangement and bonding together of a set of components to form a synapse." "A hemocyte that synthesizes and secretes melanins as part of the antimicrobial immune response. It is characterized morphologically by crystal inclusions of phenoloxidases in its cytoplasm, hence its name." - "Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue." "NCIT:C12703 EHDAA2:0000428 GAID:1304 MIAA:0000173 XAO:0000001 EV:0100003 VHOG:0000153 SCTID:362851007 MAT:0000173 EFO:0000414 CALOHA:TS-0216 FMA:69070 Wikipedia:Ectoderm TAO:0000016 MESH:D004475 ZFA:0000016 MAT:0000155 BILA:0000036 AAO:0000137 BTO:0000315 EMAPA:16069 UMLS:C0013574" + "Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue." "NCIT:C12703 EHDAA2:0000428 GAID:1304 MIAA:0000173 XAO:0000001 EV:0100003 FBbt:00000111 VHOG:0000153 SCTID:362851007 MAT:0000173 EFO:0000414 CALOHA:TS-0216 FMA:69070 Wikipedia:Ectoderm TAO:0000016 MESH:D004475 ZFA:0000016 MAT:0000155 BILA:0000036 AAO:0000137 BTO:0000315 EMAPA:16069 UMLS:C0013574" "Paired appendage that consists of the posterior appendicular skeleton and associated soft and hard tissues, but excludes the pelvic girdle and its associated soft and hard tissues." "VSAO:0000126" "The directed movement of an amide, any compound containing one, two, or three acyl groups attached to a nitrogen atom, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." "The process in which the anatomical structures of the ascending aorta are generated and organized. The ascending aorta is the portion of the aorta in a two-pass circulatory system that lies between the heart and the arch of aorta. In a two-pass circulatory system blood passes twice through the heart to supply the body once." @@ -12538,12 +12575,11 @@ "A complete three dimensional shape in which for every line connecting pair of points on the object is within the object. Or: a shape lacking cavities. Contrast: concave." "Image:http://upload.wikimedia.org/wikipedia/commons/0/06/Convex_polygon_illustration1.png" "The directed, self-propelled movement of a cilium (aka flagellum) that contributes to the movement of a flagellated sperm." "Wikipedia:Sperm_motility" "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a vasopressin stimulus." - + "ZFA:0009187" "An L-selectin that has been processed by proteolytic cleavage." "The portion of the small intestine that extends from the jejunum to the colon." "BTO:0000620 galen:Ileum AAO:0010403 MIAA:0000282 CALOHA:TS-0472 FMA:7208 XAO:0000237 MESH:D007082 GAID:315 NCIT:C12387 EV:0100075 EFO:0001334 MAT:0000282 EMAPA:32764 SCTID:181249005 MA:0000339 VHOG:0000647 Wikipedia:Ileum UMLS:C0020885" "Any process that stops, prevents or reduces the frequency, rate or extent of granulosa cell proliferation." "FMA:260877" - "KUPO:0001137" "The rightmost of the two common carotid arteries, originating from in the neck from the brachiocephalic trunk." "EMAPA:35749 UMLS:C0226086 FMA:3941 NCIT:C33473 MA:0001928 Wikipedia:Right_common_carotid_artery SCTID:362042003" "Any process that activates or increases the frequency, rate, or extent of leukocyte activation." "An integrin alpha with A domain that is a translation product of the human ITGA2 gene or a 1:1 ortholog thereof." "IUPHARobj:2440" @@ -12554,15 +12590,16 @@ "Subdivision of skeletal system that consists of all skeletal elements in the thoracic region of the trunk. In most vertebrates this is the rib cage and sternum." "FMA:77169 Wikipedia:Thoracic_skeleton EHDAA2:0002013" "The process in which the anatomical structures of a mesonephric nephron tubule are generated and organized. A mesonephric nephron tubule is an epithelial tube that is part of the mesonephric nephron, the functional part of the mesonephros." "GC_ID:1" + "Any kidney cortical cell that is part of some juxtaglomerular apparatus." "KUPO:0001028" "Any process that modulates the frequency, rate or extent of dendrite morphogenesis." - "Specialized ependymal cell that produces the cerebrospinal fluid from the blood and secretes it into the lumen of the brain and spinal chord." "FMA:70549" + "Specialized ependymal cell that produces the cerebrospinal fluid from the blood and secretes it into the lumen of the brain and spinal chord." "ZFA:0009304 FMA:70549" "An OFF bipolar cell with a small dendritic tree that provides most of the triad-associated basal (flat) contacts at cone pedicles." "The process in which a relatively unspecialized cell acquires the specialized structural and/or functional features of a nephrocyte. A nephrocyte is an insect renal cell that filters hemolymph. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state." "A visceromotor motor neuron whose soma is located in the hindbrain, and which synapses to parasympathetic neurons that innervate tear glands, sweat glands, and the smooth muscles of the head." "An epithelial cell of the retinal pigmented epithelium." "FMA:75802 BTO:0004910" "DHBA:12682 EMAPA:32917" "The chemical reactions and pathways resulting in the breakdown of norepinephrine, a hormone secreted by the adrenal medulla, and a neurotransmitter in the sympathetic peripheral nervous system and in some tracts in the central nervous system. It is also the demethylated biosynthetic precursor of epinephrine." "Wikipedia:Norepinephrine#Degradation" - "Multicellular, connected anatomical structure that has multiple organs as parts and whose parts work together to achieve some shared function." "UMLS:C0460002 AAO:0000007 EMAPA:16103 CARO:0000011 SCTID:278195005 BILA:0000011 TAO:0001439 AEO:0000011 NCIT:C12919 MA:0000003 WBbt:0005746 ZFA:0001439 galen:AnatomicalSystem BSA:0000049 HAO:0000011 VHOG:0001725 WBbt:0005763 BIRNLEX:14 XAO:0003002 EHDAA:392 TGMA:0001831 EV:0100000 CALOHA:TS-2088 Wikipedia:Organ_system FMA:7149 EHDAA2:0003011" + "Multicellular, connected anatomical structure that has multiple organs as parts and whose parts work together to achieve some shared function." "UMLS:C0460002 AAO:0000007 EMAPA:16103 CARO:0000011 SCTID:278195005 BILA:0000011 TAO:0001439 AEO:0000011 FBbt:00004856 NCIT:C12919 MA:0000003 WBbt:0005746 galen:AnatomicalSystem ZFA:0001439 BSA:0000049 HAO:0000011 VHOG:0001725 WBbt:0005763 BIRNLEX:14 XAO:0003002 EHDAA:392 TGMA:0001831 EV:0100000 CALOHA:TS-2088 Wikipedia:Organ_system FMA:7149 EHDAA2:0003011" "A joint that connects the tibia and the fibula." "Wikipedia:Tibiofibular_joint FMA:35181 SCTID:244554002" "The progression of the adenohypophysis over time from its initial formation until its mature state. The adenohypophysis is the anterior part of the pituitary. It secretes a variety of hormones and its function is regulated by the hypothalamus." "The process in which the mesonephric S-shaped body is generated and organized. The mesonephric S-shaped body is the successor of the mesonephric comma-shaped body that contributes to the morphogenesis of a nephron in the mesonephros." @@ -12574,7 +12611,7 @@ "The directed movement of a carbohydrate derivative into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." "The process whose specific outcome is the progression of the posterior lateral line ganglion over time, from its formation to the mature structure. The posterior lateral line ganglion develops from cranial ectodermal placodes situated behind the ear." "A sulcus limitans of neural tube that is part of a future myelencephalon." "EHDAA2:0001945" - "A myeloid progenitor cell committed to the monocyte lineage. This cell is CD11b-positive, has basophilic cytoplasm, euchromatin, and the presence of a nucleolus." "CALOHA:TS-1195 FMA:83553" + "A myeloid progenitor cell committed to the monocyte lineage. This cell is CD11b-positive, has basophilic cytoplasm, euchromatin, and the presence of a nucleolus." "ZFA:0009017 CALOHA:TS-1195 FMA:83553" "A process in which a protein is transported to, or maintained in, a location within an organelle." "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of a neurotransmitter into a neuron or glial cell." "Binding to a protein-lipid complex, any macromolecular complex that contains both protein and lipid molecules." @@ -12594,9 +12631,8 @@ "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a ketone stimulus." "Any process that stops, prevents, or reduces the frequency, rate or extent of isotype switching to IgE isotypes." "The movement of a leukocyte within or between different tissues and organs of the body as part of an immune response." - "A compound tubular submucosal gland found in that portion of the duodenum which is above the hepatopancreatic sphincter (Sphincter of Oddi). The main function of these glands is to produce a mucus-rich alkaline secretion (containing bicarbonate)[WP]." "BTO:0002376 GAID:314 UMLS:C0006323 MA:0001551 FMA:15060 EMAPA:36522 MESH:D002011 NCIT:C13010 Wikipedia:Brunner's_glands SCTID:41298001" + "A compound tubular submucosal gland found in that portion of the duodenum which is above the hepatopancreatic sphincter (Sphincter of Oddi). The main function of these glands is to produce a mucus-rich alkaline secretion (containing bicarbonate)[WP]." "BTO:0002376 SCTID:41298001 GAID:314 UMLS:C0006323 MA:0001551 FMA:15060 EMAPA:36522 MESH:D002011 NCIT:C13010 Wikipedia:Brunner's_glands" "An afferent neuron of the vestibular system that innervate the base of the hair cell and increase or decrease their neural firing rate as the receptor cell is excited or inhibited." - "KUPO:0001136" "The process in which a relatively unspecialized cell acquires specialized features of a neuron that will reside in the forebrain." "The process in which the anatomical structure of the retina is generated and organized." "A dura mater that is part of a midbrain [Automatically generated definition]." "MA:0001060 EMAPA:17793 VHOG:0000410" @@ -12613,7 +12649,6 @@ "The process in which a relatively unspecialized cell acquires specialized features of a hippocampal pyramidal neuron, a pyramidal cell of the hippocampus." "FMA:83521" "A dendritic cell type of distinct morphology, localization, and surface marker expression (CD123-positive) from other dendritic cell types and associated with early stage immune responses, particularly the release of physiologically abundant amounts of type I interferons in response to infection." "BTO:0004625" - "KUPO:0001057" "Any process that enhances the establishment or increases the extent of the excitatory postsynaptic potential (EPSP) which is a temporary increase in postsynaptic potential due to the flow of positively charged ions into the postsynaptic cell. The flow of ions that causes an EPSP is an excitatory postsynaptic current (EPSC) and makes it easier for the neuron to fire an action potential." "A dendritic cell that captures antigens in a lung and migrates to a lymph node or to the spleen to activate T cells." "The process in which the vasculature of the retina is generated and organized." @@ -12655,16 +12690,17 @@ "A zone of skin that is part of a leg [Automatically generated definition]." "FMA:37828 MA:0000674 EMAPA:37352 UMLS:C0222279 NCIT:C52749" "Any process that activates or increases the frequency, rate or extent of lung goblet cell differentiation." "An embryonic structure that is derived from the inner cell mass and lies above the hypoblast and gives rise to the three primary germ layers." "EHDAA2:0000444 UMLS:C1516906 EMAPA:16050 EHDAA:75 EHDAA:42 NCIT:C34164" - "One of the two photoreceptor cell types of the vertebrate retina. In rods the photopigment is in stacks of membranous disks separate from the outer cell membrane. Rods are more sensitive to light than cones, but rod mediated vision has less spatial and temporal resolution than cone vision." "FMA:67747 CALOHA:TS-0870 BTO:0001024" + "One of the two photoreceptor cell types of the vertebrate retina. In rods the photopigment is in stacks of membranous disks separate from the outer cell membrane. Rods are more sensitive to light than cones, but rod mediated vision has less spatial and temporal resolution than cone vision." "ZFA:0009275 FMA:67747 CALOHA:TS-0870 BTO:0001024" "Any signal transduction that is involved in cellular response to ammonium ion." "The cellular developmental process by which a cell establishes the intrinsic character of a cell or tissue region irreversibly committing it to a particular fate." - "A tubule that extends from the posterior part of the digestive tract which absorbs solutes, water, and wastes from the surrounding hemolymph. Each tubule consists of a single layer of cells that is closed off at the distal end with the proximal end joining the alimentary canal at the junction between the midgut and hindgut[WP,modified]." "GAID:1228 SCTID:41055008 TADS:0000163 EFO:0000243 MESH:D008317 MIAA:0000123 BTO:0000810 Wikipedia:Malpighian_tubule TGMA:0001038 MAT:0000123" + "A tubule that extends from the posterior part of the digestive tract which absorbs solutes, water, and wastes from the surrounding hemolymph. Each tubule consists of a single layer of cells that is closed off at the distal end with the proximal end joining the alimentary canal at the junction between the midgut and hindgut[WP,modified]." "GAID:1228 SCTID:41055008 TADS:0000163 EFO:0000243 FBbt:00005786 MESH:D008317 MIAA:0000123 BTO:0000810 Wikipedia:Malpighian_tubule TGMA:0001038 MAT:0000123" "The subdivision of the skeleton that consists of all the skeletal elements at the distalmost end of the pedal autopodium - i.e. the bones of the foot or their cartilaginous precursors[cjm]." "FMA:78512 VSAO:0005030 Wikipedia:Phalanges_of_the_foot" + "Any kidney arterial blood vessel cell that is part of some renal efferent arteriole." "KUPO:0001041" "Any process that decreases the rate, frequency or extent of mast cell differentiation, the process in which a relatively unspecialized myeloid precursor cell acquires the specialized features of a mast cell. A mast cell is a cell that is found in almost all tissues containing numerous basophilic granules and capable of releasing large amounts of histamine and heparin upon activation." "Any of the coil glands of the skin that secrete sweat." "CALOHA:TS-0993 Wikipedia:Sweat_gland MA:0000150 UMLS:C0038989 EV:0100160 GAID:943 BTO:0001331 FMA:59152 EMAPA:35844 MESH:D013545 VHOG:0001467 NCIT:C33712 SCTID:361700009" "The process whose specific outcome is the formation of the central canal of the spinal cord from its formation to the mature structure. The central canal is a spinal cord structure that is part of the ventricular system and is filled with cerebral-spinal fluid and runs the length of the spinal cord." - "Interneuromast cell is a neuroectodermal cell deposited by the migrating lateral line primordium between the neuromasts. Interneuromast cells proliferate and migrate to form additional neuromasts." + "Interneuromast cell is a neuroectodermal cell deposited by the migrating lateral line primordium between the neuromasts. Interneuromast cells proliferate and migrate to form additional neuromasts." "ZFA:0009365" "Any process that decreases the rate, frequency or extent of blood vessel remodeling, the reorganization or renovation of existing blood vessels." "Any process that stops or reduces the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase." "The binding by a cell-adhesion protein on a cell surface to an adhesion molecule on another cell surface or an external substrate, to mediate adhesion of the cell to the external substrate or to another cell." @@ -12696,13 +12732,12 @@ "A glandular epithelium that lines the stomach. The stomach's glandular epithelium is characterized by the presence of gastric glands." "MA:0002784 FMA:63458 EMAPA:35814" "Any process that stops, prevents, or reduces the frequency, rate, or extent of natural killer cell cytokine production." "Subdivision of trunk that lies between the head and the abdomen." "MA:0000022 SCTID:302551006 FMA:259209 EMAPA:35862 Wikipedia:Thorax" + "A molecular entity that minimally consists of a protein." "A zone of skin that is part of a external nose." "FMA:24763 EMAPA:37684 MA:0003090" "The progression of the cornea over time, from its formation to the mature structure. The cornea is the transparent structure that covers the anterior of the eye." - - + "ZFA:0009078" "The process in which a relatively unspecialized cell acquires specialized features of a Malpighian tubule tip cell. A Malpighian tubule tip cell is a mitogenic signaling cell that controls the proliferation of its neighboring cells." - "KUPO:0001015" "The directed movement of a natural killer cell guided by a specific chemical concentration gradient. Movement may be towards a higher concentration (positive chemotaxis) or towards a lower concentration (negative chemotaxis)." "A T-cell-specific surface glycoprotein CD28 that is encoded in the genome of human." "UniProtKB:P10747" "Lymphatic vessel that is part of the mesentery." @@ -12729,7 +12764,7 @@ "Any process that activates or increases the frequency, rate or extent of oligodendrocyte apoptotic process." "Obsolete. Use PO:0000077 from Plant Ontology instead. Cell variable in form and size, being more or less thick, often lignified, secondary walls. Belongs to the category of subcells and may or may not be devoid of protoplast at maturity." "Mutations occurring somatically that result in amino acid changes in the rearranged V regions of immunoglobulins." - "Myeloid mononuclear recirculating leukocyte that can act as a precursor of tissue macrophages, osteoclasts and some populations of tissue dendritic cells." "FMA:62864 BTO:0000876 CALOHA:TS-0638" + "Myeloid mononuclear recirculating leukocyte that can act as a precursor of tissue macrophages, osteoclasts and some populations of tissue dendritic cells." "ZFA:0009265 FMA:62864 BTO:0000876 CALOHA:TS-0638" "The process in which the anatomical structures of a mesonephric mesenchymal tissue are generated and organized. Mesonephric mesenchyme is the tissue made up of loosely connected mesenchymal cells in the mesonephros." @@ -12742,10 +12777,10 @@ "A bone marrow proteoglycan that is a translation product of some mRNA whose exon structure and start site selection renders it capable of giving rise to a protein with the amino acid sequence represented by UniProtKB:P13727-1 or a 1:1 ortholog thereof." "Any process that decreases the rate, frequency or extent of metanephros development. Metanephros development is the process whose specific outcome is the progression of the metanephros over time, from its formation to the mature structure. The metanephros is an organ that filters the blood and excretes the end products of body metabolism in the form of urine." "A shape quality inhering in a bearer by virtue of the bearer's being wound in a continuous series of loops." - "A membranous fold of the heart that prevents reflux of fluid." "UMLS:C0018826 NCIT:C12729 SCTID:181285005 BTO:0000564 Wikipedia:Cardiac_valve EV:0100024 VHOG:0000818 MESH:D006351 FMA:7110 XAO:0004126 TAO:0005065 ZFA:0005065 EMAPA:17869 GAID:176 galen:HeartValve MA:0000086" + "A membranous fold of the heart that prevents reflux of fluid." "UMLS:C0018826 NCIT:C12729 SCTID:181285005 BTO:0000564 Wikipedia:Cardiac_valve VHOG:0000818 EV:0100024 MESH:D006351 FMA:7110 XAO:0004126 TAO:0005065 ZFA:0005065 EMAPA:17869 GAID:176 galen:HeartValve MA:0000086" "A blood vasculature that is part of a head." "TAO:0005297 ZFA:0005297" "Binding to glycosphingolipid, a compound with residues of sphingoid and at least one monosaccharide." - "FBbt:00001691" + "The process in which bone which forms deep in the organism are generated and organized." "The chemical reactions and pathways involving steroids, compounds with a 1,2,cyclopentanoperhydrophenanthrene nucleus." "Wikipedia:Steroid_metabolism" @@ -12777,7 +12812,7 @@ "A neuron found in the anterior part of the ventral cochlear nucleus that has the appearance of bushes, having short dendrites. Bushy cells give outputs to different parts of the superior olivary complex." "A tunica media that is part of a artery." "FMA:14273 UMLS:C1710627 NCIT:C49321 EMAPA:36294 SCTID:84300001 EV:0100029" "An epithelial cell of the placenta." - "Cell that provides some or all mechanical, nutritional and phagocytic support to their neighbors." "BTO:0002315" + "Cell that provides some or all mechanical, nutritional and phagocytic support to their neighbors." "ZFA:0009302 BTO:0002315" "The myofibril assembly process that results in the organization of muscle actomyosin into sarcomeres. The sarcomere is the repeating unit of a myofibril in a muscle cell, composed of an array of overlapping thick and thin filaments between two adjacent Z discs." "An interleukin-2 receptor subunit alpha that is encoded in the genome of human." "UniProtKB:P01589" "Intrinsic membrane that arises from embryonic germ layers and grow to surround the developing embryo." "SCTID:362840007 FMA:305915 EHDAA2:0004714" @@ -12795,6 +12830,7 @@ "Any process that modulates the frequency, rate, or extent of macrophage antigen processing and presentation." "A portion of smooth muscle tissue that is part of an arterial system [Automatically generated definition]." "MA:0000704 EMAPA:36503" + "Any process that modulates the frequency, rate or extent of the activity of a transcription factor, any factor involved in the initiation or regulation of transcription." "The chemical reactions and pathways resulting in the formation of a nitric-oxide synthase, an enzyme which catalyzes the reaction L-arginine + n NADPH + n H+ + m O2 = citrulline + nitric oxide + n NADP+." "The process, occurring after animal embryonic development, by which anatomical structures are generated and organized." "The process in which the anatomical structure of the glossopharyngeal nerve is generated and organized. Various sensory and motor branches of the glossopharyngeal nerve supply nerve connections to the pharynx and back of the tongue. The branchial motor component contains motor fibers that innervate muscles that elevate the pharynx and larynx, and the tympanic branch supplies parasympathetic fibers to the otic ganglion." @@ -12802,6 +12838,7 @@ "Mesenchyme that is part of a developing hindlimb stylopod [Automatically generated definition]." "EHDAA2:0002132 EMAPA:17501 VHOG:0000506" "Any process that modulates the frequency or rate of macrophage activation." "The process whose specific outcome is the formation of dentin, the mineralized tissue that constitutes the major bulk of teeth. Dentin may be one of three types: primary dentin, secondary dentin, and tertiary dentin." + "A DNA-binding transcription factor activity that activates or increases transcription of specific gene sets transcribed by RNA polymerase II." "EFO:0003704 ZFA:0005041 TAO:0005041" "One of sublaminar layers S2, S3, or S4." "CP:0001043" "OBSOLETE. An intratelencephalic-projecting glutamatergic neuron with a soma found in layer 5 of the human primary motor cortex." "ILX:0770157" @@ -12809,7 +12846,7 @@ "Any process that stops, prevents, or reduces the frequency, rate or extent of translational termination." "The chemical reactions and pathways resulting in the formation of small molecules, any low molecular weight, monomeric, non-encoded molecule." "The leftmost of the two common carotid arteries, originating from the aortic arch in the thorax." "UMLS:C0226087 MA:0001927 NCIT:C32956 SCTID:362043008 FMA:4058 EMAPA:35491 Wikipedia:Left_common_carotid_artery" - "An interneuron that has its cell body in a central nervous system." + "An interneuron that has its cell body in a central nervous system." "ZFA:0009191" "An alpha-beta T cell that is found in the lamina propria of mucosal tissues and is restricted by the MR-1 molecule." "Any process that activates or increases the frequency, rate or extent of mesoderm development." "GC_ID:1 PMID:25249442" @@ -12823,7 +12860,6 @@ "An epithelium that is part of a otic placode [Automatically generated definition]." "ZFA:0007068 EHDAA2:0001341 EMAPA:16197 VHOG:0000636 EHDAA:510" "EMAPA:35113 FMA:69086 SCTID:68594002 MA:0001887" "A protein that is a translation product of the human ARG1 gene or a 1:1 ortholog thereof." "IUPHARobj:1244" - "A thrombomodulin-like receptor that is a translation product of the human CD93 gene or a 1:1 ortholog thereof." "The process in which relatively unspecialized cells, acquire specialized structural and/or functional features of inner ear receptor cells. Inner ear receptor cells are mechanorecptors found in the inner ear responsible for transducing signals involved in balance and sensory perception of sound." "GC_ID:1" @@ -12854,7 +12890,7 @@ "Any process that modulates the frequency, rate or extent of mesenchymal cell apoptotic process." "A B cell of distinct lineage and surface marker expression. B-1 B cells are thought to be the primary source of natural IgM immunoglobulin, that is, IgM produced in large quantities without prior antigenic stimulation and generally reactive against various microorganisms, as well as the source of T-independent IgA immunoglobulin in the mucosal areas. These cells are CD43-positive." "An intestinal tuft cell that is a part of a vermiform appendix." - "A supporting cell for the developing female gamete in the ovary of mammals. They develop from the coelomic epithelial cells of the gonadal ridge. Granulosa cells form a single layer around the mammalian oocyte in the primordial ovarian follicle and advance to form a multilayered cumulus oophorus surrounding the ovum in the Graafian follicle. The major functions of granulosa cells include the production of steroids and LH receptors." "FMA:18718 CALOHA:TS-0729 BTO:0000542" + "A supporting cell for the developing female gamete in the ovary of mammals. They develop from the coelomic epithelial cells of the gonadal ridge. Granulosa cells form a single layer around the mammalian oocyte in the primordial ovarian follicle and advance to form a multilayered cumulus oophorus surrounding the ovum in the Graafian follicle. The major functions of granulosa cells include the production of steroids and LH receptors." "ZFA:0009227 FMA:18718 CALOHA:TS-0729 BTO:0000542" "Mesenchyme that is part of a developing elbow [Automatically generated definition]." "EMAPA:17416 EHDAA:4170 EHDAA:6216 EHDAA2:0000432 VHOG:0001075" "A myoblast that detemines the properties (size, shape and attachment to the epidermis) of a `somatic muscle myotube` (CL:0008003) . It develops into a somatic muscle myotube via fusion with `fusion component myoblasts` (CL:0000621)." "A merocrine, unbranched, unbranched, coiled, tubular gland sweat gland. In humans, distributed over almost all of the body surface, and promote cooling by evaporation of their secretion." "MESH:D004439 BTO:0002323 UMLS:C0013492 FMA:59154 NCIT:C32490 GAID:945 MA:0003039 SCTID:361699008 Wikipedia:Eccrine_sweat_gland" @@ -12933,17 +12969,20 @@ "A sulcus limitans of neural tube that is part of a future metencephalon." "EHDAA2:0001161 EMAPA:17567" "The process whose specific outcome is the progression of the autonomic nervous system over time, from its formation to the mature structure. The autonomic nervous system is composed of neurons that are not under conscious control, and is comprised of two antagonistic components, the sympathetic and parasympathetic nervous systems. The autonomic nervous system regulates key functions including the activity of the cardiac (heart) muscle, smooth muscles (e.g. of the gut), and glands." "The directed movement of the Golgi to a specific location." + "Any fibroblast that is part of some gingiva." "Any process that stops, prevents, or reduces the frequency, rate or extent of microglia differentiation, the process in which a relatively unspecialized cell acquires specialized features of a microglial cell." "An ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 that is encoded in the genome of human." "Reactome:R-HSA-8938080 UniProtKB:P28907" + "Any endothelial cell of vascular tree that is part of some pulmonary artery." "BTO:0001141" "Any process that activates or increases the frequency, rate or extent of midbrain dopaminergic neuron differentiation." "A capillary that is part of a respiratory system [Automatically generated definition]." "MA:0001807 EMAPA:37574" "An ionocyte that is part of the lung epithelium. The cells from this type are major sources of the CFTR protein in human and mice." "Rearrangements of the microtubule cytoskeleton that contribute to the movement of cells along radial glial cells as a component of the process of cerebral cortex glial-mediated radial migration." - "A cell that secretes glucagon." "FMA:84045" + "A cell that secretes glucagon." "ZFA:0009103 FMA:84045" "A protein that is a translation product of the human CHODL gene or a 1:1 ortholog thereof." "Binding to an iron (Fe) ion." "Any nerve that innervates the pinna." "EMAPA:36513 MA:0001232" "Any collection of muscles that is part of an arm [Automatically generated definition]." "EHDAA2:0000141" + "Any smooth muscle cell that is part of some renal interlobular vein." "KUPO:0001090" "The directed killing of a target cell by a microglial cell." "The directed movement of hormones into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." "Any process that modulates the frequency, rate or extent of activated CD4-positive, alpha-beta T cell apoptotic process." @@ -12973,7 +13012,7 @@ "The process whose specific outcome is the progression of the dentate gyrus over time, from its formation to the mature structure. The dentate gyrus is one of two interlocking gyri of the hippocampus. It contains granule cells, which project to the pyramidal cells and interneurons of the CA3 region of the ammon gyrus." "A CD4 molecule that is encoded in the genome of human." "UniProtKB:P01730" "Anatomical system that consists of all the joints of the body." "FMA:23878 VSAO:0000181 EMAPA:35150 MA:0003007 SCTID:361827000" - "An absorptive cell of the gut epithelium that endocytoses microorganisms and intact macromolecules from the gut lumen and transports them to the subepithelial space where they are presented to antigen-presenting cells and lymphocytes." "BTO:0003600 FMA:62929" + "An absorptive cell of the gut epithelium that endocytoses microorganisms and intact macromolecules from the gut lumen and transports them to the subepithelial space where they are presented to antigen-presenting cells and lymphocytes." "ZFA:0009293 BTO:0003600 FMA:62929" "The orderly movement of a macrophage from one site to another." "An arteriole that is part of a lymph node." "A bone that is part of the manus skeleton. Note that this includes the carpal bones." "SCTID:426741001 MA:0000619 EMAPA:35391" @@ -13032,27 +13071,26 @@ "EHDAA2:0002094" "Any process that activates or increases the frequency, rate or extent of erythrocyte apoptotic process." "The chemical reactions and pathways resulting in the formation of mineralocorticoids, hormonal C21 corticosteroids synthesized from cholesterol." - "KUPO:0001115" + "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a double-stranded DNA stimulus." "The controlled release of acid by a cell or a tissue." "Any process that stops, prevents, or reduces the frequency, rate, or extent of interferon-gamma production. Interferon-gamma is also known as type II interferon." "Tissue with cells that deposit non-polarized extracellular matrix including connective tissue fibers and ground substance." "galen:ConnectiveTissue GAID:100 EFO:0000952 TAO:0001641 XAO:0001017 MIAA:0000301 BTO:0000421 AAO:0000098 NCIT:C12374 CALOHA:TS-2009 UMLS:C0009780 MAT:0000301 VSAO:0000017 ZFA:0001632 FMA:9640 SCTID:361919005 MA:0000011 MESH:D003238 EMAPA:35251" "A macrophage that expresses the T cell receptor complex at the cell surface." "Any process that stops, prevents or reduces the frequency, rate or extent of T-helper 1 cell activation." - "A hematopoietic multipotent progenitor cell is multipotent, but not capable of long-term self-renewal. These cells are characterized as lacking lineage cell surface markers and being CD34-positive in both mice and humans." "BTO:0000725 CALOHA:TS-0448" + "A hematopoietic multipotent progenitor cell is multipotent, but not capable of long-term self-renewal. These cells are characterized as lacking lineage cell surface markers and being CD34-positive in both mice and humans." "ZFA:0009354 BTO:0000725 CALOHA:TS-0448" "Metanephric pyramids are the conical masses that constitute the renal medulla in a metanephros; they contain the loops of Henle and the medullary collecting ducts[GO]." "Any process that modulates the rate, frequency, or extent of cartilage development, the process whose specific outcome is the progression of the cartilage over time, from its formation to the mature structure. Cartilage is a connective tissue dominated by extracellular matrix containing collagen type II and large amounts of proteoglycan, particularly chondroitin sulfate." "The primitive cartilagionous skeletal structure of the fetal skull that grows to envelop the rapidly growing embyonic brain. In humans, the chondrocranium begins forming at 28 days from mesenchymal condensations and is fully formed between week 7 and 9 of fetal development. While the majority of the chondrocranium is succeeded by the bony skull in most higher vertebrates, some components do persist into adulthood.[1] In Cartilagious fishes and Agnathans, the chondrocranium persist throughout life.[2] Embryologically, the chondrocranium represent the basal cranial structure, and lay the base for the formation of the endocranium in higher vertebrates[WP]." "FMA:76621 UMLS:C1516496 NCIT:C34121 XAO:0003059 Wikipedia:Chondrocranium SCTID:155540009 AAO:0000094 EHDAA:6031" "The flattened smooth myoepithelial cells of mesodermal origin that lie just outside the basal lamina of the seminiferous tubule." - "KUPO:0001116" "GC_ID:1" "Any process that activates or increases the frequency, rate or extent of calcium ion export across the plasma membrane." "A cell that is a specialized type of pericyte providing structural support for the capillary loops of kidney. A flat, elongated cell with extensive fine cytoplasmic processes found outside the kidney glomerulus near the macula densa and bound laterally by afferent and efferent arterioles. Being phagocytic, this cell participates in the continuous turnover of the basal lamina by removing its outer portion containing residues of filtration, while the lamina is renewed on its inner surface by the endothelial cells." "FMA:84143 KUPO:0001033" "The increase in mass of imaginal discs by cell proliferation prior to metamorphosis. Imaginal discs are epithelial infoldings in the larvae of holometabolous insects that develop into adult structures (legs, antennae, wings, etc.) during metamorphosis from larval to adult form." "The directed movement of nuclei within the syncytial embryo of insects. These precise temporal and spatial patterns of nuclear movement are coordinated with mitotic divisons and are required during blastoderm formation to reposition dividing nuclei from the interior of the syncytial embryo to the cortex." "A cell type that forms the boundary with the surrounding epithelium." "FMA:67941" - "KUPO:0001042" "GC_ID:1" + "Any myoblast that develops into some cardiac muscle cell." "MESH:D032386" "Specialized cardiac myocyte which is in the internodal tract and atrioventricular node. The cell is more slender than ordinary atrial myocytes and has more myofibrils than nodal myocytes." "FMA:67142" "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving juvenile hormone." "An ureter that is part of a right side of organism [Automatically generated definition]." "SCTID:276251000 FMA:15571 EMAPA:37373 MA:0001685 NCIT:C49327 UMLS:C0227682" @@ -13060,7 +13098,6 @@ "Enables the transmembrane transfer of an ion by a channel that opens when a specific ligand has been bound by the channel complex or one of its constituent parts." "Reactome:R-HSA-451311 Reactome:R-HSA-622325 Reactome:R-HSA-629595 Reactome:R-HSA-622326 Reactome:R-HSA-451310" "Any process that activates or increases the frequency, rate or extent of osteoclast differentiation." "Any process that modulates the frequency, rate or extent of prolactin signaling pathway." - "KUPO:0001039" "The series of molecular signals initiated by a ligand binding to its receptor, in which the activated receptor promotes the exchange of GDP for GTP on the alpha-subunit of an associated heterotrimeric G-protein complex. The GTP-bound activated alpha-G-protein then dissociates from the beta- and gamma-subunits to further transmit the signal within the cell. The pathway begins with receptor-ligand interaction, and ends with regulation of a downstream cellular process. The pathway can start from the plasma membrane, Golgi or nuclear membrane." "The multiplication or reproduction of Leydig cells, resulting in the expansion of a cell population. Leydig cells are interstitial cells located adjacent to the seminiferous tubules in the testis which produce testosterone." "Any process that stops, prevents, or reduces the frequency, rate, or extent of interleukin-4 production." @@ -13071,7 +13108,6 @@ "A specialized axon terminus which is produced by retinal cone cells. Pedicles are large, conical, flat end-feet (8-10 micrometers diameter) of the retinal cone axon that lie more or less side by side on the same plane at the outer edge of the outer plexiform layer (OPL)." "The area at the bottom of the stomach on the caudal side of the pyloric canal that contains gastrin-producing G cells, which stimulate acid production, and the luminal pH-sensitive population of somatostatin-producing D cells." "NCIT:C12259 MESH:D011706 FMA:14579 GAID:332 Wikipedia:Pyloric_antrum galen:PyloricAntrum SCTID:362142001 UMLS:C0034193 EFO:0002555 BTO:0001732 MA:0001624 EMAPA:17891" "A urokinase plasminogen activator surface receptor that is encoded in the genome of human." "UniProtKB:Q03405" - "KUPO:0001040" "Any process that activates or increases the frequency, rate or extent of iridophore differentiation." "Any process that stops, prevents, or reduces the frequency, rate, or extent of a chronic inflammatory response." "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an extracellular matrix." @@ -13099,7 +13135,7 @@ "Combining with an acetylcholine receptor ligand and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity." "The orderly movement of a neuroblast from one site to another, often during the development of a multicellular organism or multicellular structure. A neuroblast is any cell that will divide and give rise to a neuron." "The characteristic movement of trunk neural crest cells from the neural tube to other locations in the vertebrate embryo." - "A neuron with three or more neurites, usually an axon and multiple dendrites." "FMA:67287" + "A neuron with three or more neurites, usually an axon and multiple dendrites." "ZFA:0009056 FMA:67287" "A sphincter muscle that is part of a cloaca." "NCIT:C34129 UMLS:C1516658" "A protein that is a translation product of the human GFAP gene or a 1:1 ortholog thereof." "A basal cell that is part of the epithelium of terminal bronchiole." "FMA:263122" @@ -13111,13 +13147,14 @@ "Any process that modulates the frequency, rate, or extent of production of oxytocin." "A primordium that has the potential to develop into a saliva-secreting gland." "Any process that modulates the frequency, rate or extent of differentiation of CD4-positive, CD25-positive, alpha-beta regulatory T cells as part of an immune response." - "A mass of cells that develop into the body of the embryo and some extraembryonic tissues." "Wikipedia:Inner_cell_mass SCTID:361456007 VHOG:0000742 EHDAA2:0000830 FMA:86557 NCIT:C13740 EFO:0000547 EHDAA:40 UMLS:C1283994 EMAPA:16041" + "A mass of cells that develop into the body of the embryo and some extraembryonic tissues." "Wikipedia:Inner_cell_mass SCTID:361456007 VHOG:0000742 EHDAA2:0000830 NCIT:C13740 FMA:86557 EFO:0000547 EHDAA:40 UMLS:C1283994 EMAPA:16041" "Any process that modulates the frequency, rate or extent of flagellated sperm motility." "Tolerance induction of T cells in the periphery, in this case, any location in the body other than the thymus." "Any process contributing to lymphocyte anergy, a state of functional inactivation." "Any mononuclear cell that is part of a umbilical cord." "A NK1.1-positive T cell that is Ly49H-negative." "Any macroglial cell that is part of a brain." + "Any glial cell that is part of some heart." "A fibroblast that is located in the renal medulla interstitium." "The glomerular layer is the most superficial layer, consisting of mitral cell dendritic arborizations (glomeruli), olfactory nerve fibers, and periglomerular cells. Periglomerular cells contact multiple mitral cell dendrites within the glomeruli and provide lateral inhibition of neighboring glomeruli while allowing excitation of a specific mitral cell dendritic tree. Each mitral cell is contacted by at least 1000 olfactory nerve fibers[BTO]. Portion of tissue which is located in between the primary olfactory fiber layer and the external cellular layer of the olfactory bulb[ZFA]." "ZFA:0000357 BTO:0001317 neuronames:2710 BAMS:Gl MBA:212 MA:0000970 NLXANAT:1005007 TAO:0000357 DHBA:11327 EMAPA:35608" "Any process that modulates the frequency, rate or extent of nuclease activity, the hydrolysis of ester linkages within nucleic acids." @@ -13140,7 +13177,7 @@ "Any process that stops, prevents, or reduces the frequency, rate or extent of T-helper cell differentiation." "Any process that modulates the frequency, rate or extent of Schwann cell chemotaxis." - + "ZFA:0009089" "A portion of connective tissue that is part of a trachea." "EMAPA:35876 MA:0001853" "A cytoskeletal structure that forms a distinct elongated structure, characteristically 10 nm in diameter, that occurs in the cytoplasm of eukaryotic cells. Intermediate filaments form a fibrous system, composed of chemically heterogeneous subunits and involved in mechanically integrating the various components of the cytoplasmic space. Intermediate filaments may be divided into five chemically distinct classes: Type I, acidic keratins; Type II, basic keratins; Type III, including desmin, vimentin and others; Type IV, neurofilaments and related filaments; and Type V, lamins." "NIF_Subcellular:sao952483289 FMA:63851 Wikipedia:Intermediate_filament" "A C-X-C chemokine receptor type 4 that is encoded in the genome of human." "UniProtKB:P61073 Reactome:R-HSA-2980772 DTO:02100078" @@ -13153,7 +13190,6 @@ "A developmental process, independent of morphogenetic (shape) change, that is required for the olfactory placode to attain its fully functional state. The olfactory placode is a thickening of the neural ectoderm in the head region of the vertebrate embryo which develops into the olfactory region of the nasal cavity." "Any process that stops, prevents, or reduces the frequency, rate, or extent of interleukin-1 beta production." "The process whose specific outcome is the progression of the lymph gland over time, from its formation to the mature structure. The lymph gland is one of the sites of hemocyte differentiation. It consists of three to six bilaterally paired lobes that are attached to the cardioblasts during larval stages, and it degenerates during pupal stages." - "KUPO:0001119" "Any process that activates or increases the frequency, rate or extent of the directed movement of norepinephrine into a cell." "A portion of skeletal muscle tissue that is part of a esophagus [Automatically generated definition]." "EMAPA:36523 MA:0001572" "The multiplication or reproduction of cells, resulting in the expansion of a cell population that contributes to the shaping of the outflow tract." @@ -13161,7 +13197,6 @@ "The posterior part of the developing vertebrate hindbrain or the corresponding part of the adult brain composed of the medulla oblongata and a portion of the fourth ventricle; as well as the glossopharyngeal nerve (CN IX), vagus nerve (CN X), accessory nerve (CN XI), hypoglossal nerve (CN XII), and a portion of the vestibulocochlear nerve (CN VIII).[BTO,WP]." "EHDAA:5526 CALOHA:TS-0607 Wikipedia:Myelencephalon EHDAA2:0001207 EMAPA:17082 VHOG:0000456 HBA:9512 MA:0000205 CALOHA:TS-2365 DHBA:10662 BTO:0000758" "Combining with a neurotransmitter and transmitting the signal to initiate a change in cell activity." - "KUPO:0001045" "Any process that modulates the frequency, rate, or extent of endothelial cell proliferation." "The series of events required for an organism to receive a painful stimulus, convert it to a molecular signal, and recognize and characterize the signal. Pain is medically defined as the physical sensation of discomfort or distress caused by injury or illness, so can hence be described as a harmful stimulus which signals current (or impending) tissue damage. Pain may come from extremes of temperature, mechanical damage, electricity or from noxious chemical substances. This is a neurological process." "Wikipedia:Nociception" "A thick walled, sexual, resting spore formed by Zygomycetes; sometimes refers to the spore and the multi-layered cell wall that encloses the spore, the zygosporangium." "FAO:0000040" @@ -13172,8 +13207,6 @@ "A mesothelial cell that is part of the pleura." "FMA:86737" "Any process that modulates the frequency, rate or extent of vascular smooth muscle cell differentiation." "The mesonephric comma-shaped body is the precursor structure to the mesonephric S-shaped body that contributes to the morphogenesis of a nephron in the mesonephros[GO]." - "KUPO:0001117" - "KUPO:0001046" "The process of biting and mashing food with the teeth prior to swallowing." "A motor neuron that is capable of directly inhibiting muscle contraction." "Artery that receives blood from the renal cortex[MP, modified]." "MA:0002592 EMAPA:28152" @@ -13188,7 +13221,6 @@ "The directed movement of a protein from the nucleus into the cytoplasm." "The flow of blood through the network of arteries and veins supplying the cerebrum, enabling the transport of nutrients to the tissues and the removal of waste products." "A CD27 molecule that is encoded in the genome of mouse." "UniProtKB:P41272" - "KUPO:0001114" "SCTID:363673006 EMAPA:30807" "KUPO:0001100" "SCTID:363130003 FMA:75634" @@ -13229,7 +13261,6 @@ "Any process that activates or increases the frequency, rate or extent of the inflammatory response to wounding." "Any process that stops, prevents or reduces the frequency, rate or extent of lens fiber cell differentiation." "Any process that stops, prevents, or reduces the frequency, rate or extent of skeletal muscle regeneration." - "KUPO:0001113" "Endochondral bones that are often elongate and arranged in rows of articulating elements, and form the visible part of the digits." "Wikipedia:Phalanx_bones EMAPA:32614 galen:Phalanx NCIT:C33317 FMA:321661 VSAO:0000199 CALOHA:TS-2211 UMLS:C0222682 MA:0000304 SCTID:290029003" "Any process that stops, prevents, or reduces the frequency, rate or extent of alpha-beta T cell activation." "The thin layer of gray matter on the surface of the cerebral hemisphere that develops from the telencephalon. It consists of the neocortex (6 layered cortex or isocortex), the hippocampal formation and the olfactory cortex." "VHOG:0000722 BM:Tel-Cx BTO:0000233 GAID:629 DHBA:10159 SCTID:362880003 EHDAA:5464 CALOHA:TS-0091 UMLS:C0007776 MAT:0000108 EV:0100166 EHDAA2:0000234 BAMS:C MA:0000185 neuronames:39 PBA:128011354 FMA:61830 BAMS:Cerebral_cortex BAMS:Cx MBA:688 BIRNLEX:1494 EMAPA:17544 MIAA:0000108 Wikipedia:Cerebral_cortex MESH:D002540 EFO:0000328 BAMS:CTX HBA:4008 NCIT:C12443" @@ -13255,12 +13286,12 @@ "Obsolete. Use PO:0000400 from Plant Ontology instead. A cambial cell on the phloem side of the cambial zone that is the source of one or more cells arising by periclinal divisions and differentiating into phloem elements with or without additional divisions in various planes." "A process in which a protein is transported to or maintained in a location within an axon." "The series of events by which an electrical stimulus is received and converted into a molecular signal. This occurs as part of the regulation of muscle adaptation." - "An external organ of a male organism that is specialized to deliver sperm during copulation. Intromittent organs are found most often in terrestrial species, as most aquatic species fertilize their eggs externally, although there are exceptions[WP]." "HAO:0000091 TAO:0002036 Wikipedia:Intromittent_organ AAO:0010255 TGMA:0000585" + "An external organ of a male organism that is specialized to deliver sperm during copulation. Intromittent organs are found most often in terrestrial species, as most aquatic species fertilize their eggs externally, although there are exceptions[WP]." "HAO:0000091 FBbt:00004850 TAO:0002036 Wikipedia:Intromittent_organ AAO:0010255 TGMA:0000585" "Any process that activates or increases the frequency, rate or extent of programmed cell death, cell death resulting from activation of endogenous cellular processes." "FMA:32888" "The process in which the conus arteriosus is generated and organized. The conus arteriosus is a valved chamber with thick muscular walls stemming from the ventricle and connecting to the pulmonary trunk." - "Multicellular anatomical structure that consists of many cells of one or a few types, arranged in an extracellular matrix such that their long-range organisation is at least partly a repetition of their short-range organisation." "ZFA:0001477 WBbt:0005729 NCIT:C12801 TGMA:0001844 BIRNLEX:19 CARO:0000043 BILA:0000043 EHDAA2:0003043 XAO:0003040 EMAPA:35868 MESH:D014024 TAO:0001477 AAO:0010054 AEO:0000043 AAO:0000607 MA:0003002 VHOG:0001757 FMA:9637 UMLS:C0040300 galen:Tissue HAO:0000043 CALOHA:TS-2090" - "A neuron that is capable of some hormone secretion in response to neuronal signals." "FBbt:00005130 FMA:83810 BTO:0002691" + "Multicellular anatomical structure that consists of many cells of one or a few types, arranged in an extracellular matrix such that their long-range organisation is at least partly a repetition of their short-range organisation." "ZFA:0001477 WBbt:0005729 NCIT:C12801 TGMA:0001844 BIRNLEX:19 CARO:0000043 BILA:0000043 EHDAA2:0003043 XAO:0003040 EMAPA:35868 MESH:D014024 TAO:0001477 AAO:0010054 AEO:0000043 AAO:0000607 MA:0003002 VHOG:0001757 FMA:9637 UMLS:C0040300 FBbt:00007003 galen:Tissue HAO:0000043 CALOHA:TS-2090" + "A neuron that is capable of some hormone secretion in response to neuronal signals." "ZFA:0009098 FBbt:00005130 FMA:83810 BTO:0002691" "Any process that modulates the frequency, rate, or extent of proteolysis associated with antigen processing and presentation." "A portion of smooth muscle tissue that is part of a outflow tract [Automatically generated definition]." "EMAPA:37708 MA:0000492" "Any epithelial cell that is part of a female gonad." @@ -13280,6 +13311,7 @@ "A enteroendocrine cell part of the glands of the gastric mucosa. They produce histamine and peptides such as chromogranins. This cell type respond to gastrin by releasing histamine which acts as a paracrine stimulator of the release of hydrochloric acid from the gastric parietal cells." "BTO:0002692" "An epithelium that is part of a cochlear duct of membranous labyrinth [Automatically generated definition]." "EHDAA:4722 RETIRED_EHDAA2:0000264 VHOG:0000640 EMAPA:17600" "GC_ID:1" + "Any neuronal receptor cell that is capable of some detection of mechanical stimulus involved in sensory perception of gravity." "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of lipids within cells." "Any process that modulates the frequency, rate or extent of endothelial cell chemotaxis." "A retinal amacrine cell with a medium dendritic field and post-synaptic terminals in S1, S2, S3, and S4. This cell type releases the neurotransmitter gamma-aminobutyric acid (GABA)." @@ -13326,6 +13358,7 @@ "The multiplication or reproduction of cells, resulting in the expansion of a mesenchymal cell population that contributes to the progression of the lung over time. A mesenchymal cell is a cell that normally gives rise to other cells that are organized as three-dimensional masses, rather than sheets." "OBSOLETE: The cell characteristic of an organ, as distinguished from associated connective or supporting tissues." "FMA:84638 BTO:0002174" "The series of events required for an organism to receive a visual stimulus, convert it to a molecular signal, and recognize and characterize the signal. Visual stimuli are detected in the form of photons and are processed to form an image." "Wikipedia:Visual_perception" + "Any secretory cell that is capable of some mineralocorticoid secretion." "A vasculature that is part of a post-anal tail." "XAO:0004151 ZFA:0005037 TAO:0005037" "An ON diffuse bipolar cell that predominantly connects to ON parasol cells and lateral amacrine cells." "An endothelium that is part of a lymph node [Automatically generated definition]." "EMAPA:35526 MA:0000741" @@ -13347,7 +13380,7 @@ "Epithelial layer that lines the intestine." "ZFA:0005124 TAO:0005124 SCTID:266135004 FMA:17229 UMLS:C0226890 Wikipedia:Intestinal_epithelium MA:0001536 BTO:0000781 EMAPA:32873 NCIT:C49240" "Enables the transfer of nucleic acids from one side of a membrane to the other. Nucleic acids are single or double-stranded polynucleotides involved in the storage, transmission and transfer of genetic information." "A process of chromosome organization that is involved in a meiotic cell cycle." - "Enables the transfer of ammonium from one side of a membrane to the other. Ammonium is the cation NH4+ which is formed from N2 by root-nodule bacteria in leguminous plants and is an excretory product in ammonotelic animals." "RHEA:28747 Reactome:R-HSA-446277 Reactome:R-HSA-5623051 Reactome:R-HSA-444393 Reactome:R-HSA-446278 Reactome:R-HSA-444419 Reactome:R-HSA-444416" + "Enables the transfer of ammonium from one side of a membrane to the other. Ammonium is the cation NH4+ which is formed from N2 by root-nodule bacteria in leguminous plants and is an excretory product in ammonotelic animals." "RHEA:28747 Reactome:R-HSA-446277 Reactome:R-HSA-5623051 Reactome:R-HSA-444393 MetaCyc:RXN-9615 Reactome:R-HSA-446278 Reactome:R-HSA-444419 Reactome:R-HSA-444416" "The primordial embryonic connective tissue of the developing limbs, autopods and digits, consisting of mesenchymal cells supported in interlaminar jelly, that derive mostly from the mesoderm and contribute to limb connective tissue, bone and musculature in conjunction with myotome cells." "EMAPA:32705" "A splenic macrophage found in the red-pulp of the spleen, and involved in immune responses to blood-borne pathogens and in the clearance of senescent erythrocytes. Markers include F4/80-positive, CD68-positive, MR-positive, Dectin2-positive, macrosialin-positive, and sialoadhesin-low." "Any process that modulates the frequency, rate or extent of lymphocyte migration." @@ -13361,7 +13394,7 @@ "A portion of the respiratory and digestive tracts; its distal limit is the superior part of the esophagus and it connects the nasal and oral cavities with the esophagus and larynx; it contains the valleculae and the pyriform recesses; its upper limits are the nasal cavity and cranial base.[FEED]." "galen:Pharynx GAID:155 MESH:D010614 EHDAA:2947 EHDAA2:0001458 ZFA:0000056 MA:0000432 FMA:46688 EMAPA:16706 BTO:0001049 VHOG:0000462 EFO:0000836 XAO:0003227 Wikipedia:Pharynx CALOHA:TS-0785 UMLS:C0031354 AAO:0000967 NCIT:C12425 EV:0100065 SCTID:181211006 TAO:0000056" "Portion of neural crest that develops from the dorsal neural tube. It overlaps the vagal neural crest and migrates to populate the pharyngeal arches 3, 4 and 6 (producing structures in the head) and to the heart, forming connective tissue that separates the great vessels of the heart. [Wikipedia]." "XAO:0004190 ZFA:0001648 Wikipedia:Cardiac_neural_crest TAO:0002173" "Any process that modulates the frequency, rate or extent of the formation, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising actin filaments and their associated proteins." - "Neuromast support cell is a non-sensory cell of the neuromast that extend between the sensory hair cells from the basement membrane to the apical surface; neuromast support cells are surrounded by neuromast mantle cells." + "Neuromast support cell is a non-sensory cell of the neuromast that extend between the sensory hair cells from the basement membrane to the apical surface; neuromast support cells are surrounded by neuromast mantle cells." "ZFA:0009363" "An L-selectin that is encoded in the genome of mouse." "UniProtKB:P18337" "The first segment of the nephron lying just downstream from the loop of Henle, immediately after the macula densa." "EMAPA:28393 Wikipedia:Distal_convoluted_tubule MA:0001666 FMA:17721 SCTID:361336005 NCIT:C32469 EV:0100389 UMLS:C0022676" "Any process that modulates the frequency, rate or extent of tight junction disassembly." @@ -13372,14 +13405,14 @@ "A spore formed following mitosis or mitoses." "FAO:0000023" "A region of the stomach that is lined with glandular epithelium." "EMAPA:17623 UMLS:C0227197 NCIT:C77661 MA:0001613 SCTID:27633001" "Organism subdivision which is the part of the body posterior to the cervical region (or head, when cervical region not present) and anterior to the caudal region. Includes the sacrum when present." "EFO:0000966 ZFA:0001115 MA:0000004 galen:Trunk BTO:0001493 BILA:0000116 NCIT:C33816 CALOHA:TS-1071 XAO:0000054 SCTID:262225004 AAO:0010339 MIAA:0000296 Wikipedia:Torso XAO:0003025 EMAPA:31857 FMA:7181 TAO:0001115 MAT:0000296 UMLS:C0460005" - "A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors." + "A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors." "ZFA:0009166" "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving DNA." "The movement of a cell along the process of a radial glial cell involved in cerebral cortex glial-mediated radial migration." "Any process that mediates the transfer of information from a mesenchymal cell to an epithelial cell where it is received and interpreted contributing to the progression of the prostate gland over time." "The metanephric cortex is the outer region of the metanephros[GO]." "VHOG:0000714" "A submucosa that is part of a common hepatic duct [Automatically generated definition]." "FMA:18014" "Any process that modulates the frequency, rate, or extent of leukocyte mediated immunity." - "An epithelial cell that is part of a duct." + "An epithelial cell that is part of a duct." "ZFA:0009372" "A cartilaginous condensation that has the potential to develop into a fibula." "EMAPA:18154" "A joint that connects the bones of the crus to the proximal tarsal bones." "Wikipedia:Crurotarsal" "The process whose specific outcome is the progression of the hypoglossal nucleus over time, from its formation to the mature structure." @@ -13428,13 +13461,14 @@ "Fatty lubricant matter secreted by sebaceous glands, and made of made of triglyceride oils, wax, squalene, and metabolytes of fat-producing cells[BTO,WP]." "ENVO:02000037 MESH:D012629 BTO:0001981 MA:0002538 GAID:1168 Wikipedia:Sebaceous_glands#Sebum FMA:61304 NCIT:C13276 UMLS:C0036511" "An integrin alpha-2 that is encoded in the genome of human." "UniProtKB:P17301" "Any process that activates or increases the frequency, rate or extent of the regulated release of a gonadotropin." - "A mature male germ cell that develops from a spermatid." "FBbt:00004954 CALOHA:TS-0949 BTO:0002046 BTO:0001277 FMA:67338 WBbt:0006798" + "Any secretory cell that is capable of some steroid hormone secretion." "ZFA:0009106" + "A mature male germ cell that develops from a spermatid." "ZFA:0009006 FBbt:00004954 CALOHA:TS-0949 BTO:0002046 BTO:0001277 FMA:67338 WBbt:0006798" "Any process that stops, prevents, or reduces the frequency, rate, or extent of erythrocyte clearance." "Any process that stops, prevents, or reduces the frequency, rate or extent of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus." "The process in which a relatively unspecialized cell acquires specialized features of a cardiac muscle cell in the atrium. Cardiac muscle cells are striated muscle cells that are responsible for heart contraction. The atrium is the part of the heart that receives blood into the organ." "A nerve that innervates an eyelid." "MA:0001255 EMAPA:37535" "Any process that modulates the frequency, rate or extent of cell motility." - "A cell of a layer of transitional epithelium in the wall of the proximal urethra, bladder, ureter or renal pelvis, external to the lamina propria." "FMA:84127" + "A cell of a layer of transitional epithelium in the wall of the proximal urethra, bladder, ureter or renal pelvis, external to the lamina propria." "ZFA:0009308 FMA:84127" "A ring of cells capable of forming a limb or paired fin[Gilbert,modified]." "The process in which a relatively unspecialized cell acquires the specialized features of the R7 photoreceptor." "A T-cell surface glycoprotein CD8 alpha chain that is encoded in the genome of mouse." "UniProtKB:P01731" @@ -13448,7 +13482,7 @@ "Any process that activates or increases the frequency, rate, or extent of tolerance induction dependent upon immune response." "Any process that stops, prevents, or reduces the frequency, rate or extent of cell division." - "A cell that will develop into a neuron often after a migration phase." "FMA:70563 BTO:0000930" + "A cell that will develop into a neuron often after a migration phase." "ZFA:0009011 FMA:70563 BTO:0000930" "A precursor in the granulocytic series, being a cell intermediate in development between a myeloblast and myelocyte, that has distinct nucleoli, a nuclear-to-cytoplasmic ratio of 5:1 to 3:1, and containing a few primary cytoplasmic granules. Markers for this cell are fucosyltransferase FUT4-positive, CD33-positive, integrin alpha-M-negative, low affinity immunoglobulin gamma Fc region receptor III-negative, and CD24-negative." "FMA:83530 CALOHA:TS-0825" "The process whose specific outcome is the progression of a columnar/cuboidal epithelial cell over time, from its formation to the mature structure. A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube." "Any process that modulates the frequency, rate or extent of a signaling receptor activity. Receptor activity is when a molecule combines with an extracellular or intracellular messenger to initiate a change in cell activity." @@ -13482,7 +13516,7 @@ "Combining with the biogenic amine serotonin and transmitting a signal across a membrane by activating some effector activity. Serotonin (5-hydroxytryptamine) is a neurotransmitter and hormone found in vertebrates and invertebrates." "Any apoptotic process in an oligodendrocyte. Oligodendrocytes belong to a class of large neuroglial (macroglial) cells in the central nervous system, where they form the insulating myelin sheath of axons." "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances." - "An epithelium that lines the lumen of the digestive tract." "MA:0003201 EMAPA:32928 EHDAA2:0004567 UMLS:C0836205 BTO:0000956 NCIT:C12963 XAO:0003200 ZFA:0005123 TAO:0005123" + "An epithelium that lines the lumen of the digestive tract." "MA:0003201 EMAPA:32928 EHDAA2:0004567 UMLS:C0836205 BTO:0000956 FBbt:00047166 NCIT:C12963 XAO:0003200 ZFA:0005123 TAO:0005123" "A vasculature that is part of a trunk [Automatically generated definition]." "ZFA:0005024 TAO:0005024 FMA:74712" "Any process that activates or increases the rate or extent of white fat cell proliferation." "A fibroblast located between thymic lobules." @@ -13497,7 +13531,7 @@ "Any biological process involved in the maintenance of an internal steady state of a chemical." "Binding to a calcium ion (Ca2+)." "The part of the cardiac conduction system that controls the timing of heart muscle contraction. It relays electrical signals to the AV node[GO]. Subdivision of conducting system of heart at the junction of the right atrium and the superior vena cava, around the sinoatrial nodal branch of right coronary artery and is continuous with the internodal tract[FMA]." "EMAPA:35772 MA:0000097 SCTID:277687007 BTO:0004358 ZFA:0005069 MESH:D012849 TAO:0005069 Wikipedia:Sinoatrial_node GAID:561 NCIT:C33555 UMLS:C0037189 EHDAA2:0004184 FMA:9477" - "A blood brain barrier composed of glial cells." + "A blood brain barrier composed of glial cells." "FBbt:00007091" "A sweat producing cell of eccrine sweat glands. Pyramidal in shape, with its base resting on the basal lamina or myoepitheliocytes, and its microvillus-covered apical plasma membrane line up the intercellular canaliculi. Cell is not stained by hematoxylin or eosin." "FMA:70658" "Any process that decreases the rate, frequency or extent of the differentiation of a neuroendocrine cell in the stomach." "Any process that modulates the frequency, rate or extent of melanosome organization." @@ -13507,16 +13541,15 @@ "Any process that modulates the frequency, rate or extent of neurogenesis, the generation of cells in the nervous system." "Any process that modulates the frequency, rate or extent of iridophore differentiation." "Skeletal subdivision consisting of a set of bones linking the axial series to the hindlimb zeugopodium and offering anchoring areas for hindlimb and caudal musculature." "ZFA:0000565 EHDAA:8324 EHDAA:7149 VSAO:0000155 http://people.eku.edu/ritchisong/pectoralgirdles.gif galen:PelvicGirdle XAO:0003064 EFO:0000947 VHOG:0000305 EMAPA:18028 Wikipedia:Pelvis MAT:0000182 FMA:87592 TAO:0000565 AAO:0000768 EHDAA2:0001426 AAO:0000426 MIAA:0000182" - "A mesenchymal cell that is part of a small mass of condensed mesenchyme in the enamel organ; it differentiates into the dentin and dental pulp." + "A mesenchymal cell that is part of a small mass of condensed mesenchyme in the enamel organ; it differentiates into the dentin and dental pulp." "ZFA:0009173" "A mucosa that is part of a vas deferens [Automatically generated definition]." "SCTID:299626000 FMA:19240" "Self-propelled movement of a cell or organism from one location to another in a behavioral context; the aspect of locomotory behavior having to do with movement." "A muscular coat that is part of a colon." "FMA:14986 EMAPA:27383 SCTID:362158003 MA:0003198" "A thin, loose vascular connective tissue that makes up the membranes surrounding joints and the sheaths protecting tendons (particularly flexor tendons in the hands and feet) where they pass over bony prominences. Synovial tissue contains synovial cells, which secrete a viscous liquid called synovial fluid; this liquid contains protein and hyaluronic acid and serves as a lubricant and nutrient for the joint cartilage surfaces[BTO]. Synovial tissue can be found in tendons (tissues that connect muscle to bone), bursae (fluid-filled, cushioning sacs found in spaces between tendons, ligaments, and bones), and the cavity (hollow enclosed area) that separates the bones of a freely movable joint, such as the knee or elbow[BTO]." "BTO:0001338 CALOHA:TS-0998 FMA:66762" - "The chemical reactions and pathways resulting in the breakdown of heterocyclic compounds, those with a cyclic molecular structure and at least two different atoms in the ring (or rings)." "Any process that decreases the frequency, rate or extent of the chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." "The regulated exocytosis of secretory granules containing preformed mediators such as histamine, serotonin, and neutral proteases by a mast cell." - "A basophil cell of the anterior pituitary that produces thyroid stimulating hormone, thyrotrophin. This cell type is elongated, polygonal and lie in clusters towards the adenohypophyseal center." "MESH:D052684 FMA:83099" + "A basophil cell of the anterior pituitary that produces thyroid stimulating hormone, thyrotrophin. This cell type is elongated, polygonal and lie in clusters towards the adenohypophyseal center." "ZFA:0009218 MESH:D052684 FMA:83099" "A spatiotemporal region encompassing some part of the life cycle of an organism." "FMA:24120 EFO:0000399 MmusDv:0000000 ZFS:0100000 XAO:1000000 FBdv:00007012 HsapDv:0000000 PdumDv:0000090 BILS:0000105 ZFS:0000000 MESH:D008018 OlatDv:0000010 WBls:0000002 ncithesaurus:Developmental_Stage" "A germinal center B cell that develops from a Bm3 B cell. This cell has the phenotype IgM-negative, IgD-positive, and CD38-positive." "Ovarian vein, each instance of which is a tributary of some inferior vena cava that drains the right pampiniform plexus of some broad ligament." "FMA:14342" @@ -13530,8 +13563,8 @@ "Any process that stops, prevents or reduces the frequency, rate or extent of mitotic nuclear envelope disassembly." "Any process that stops, prevents, or reduces the frequency, rate, or extent of myeloid dendritic cell cytokine production." - "A immature or mature cell in the lineage leading to and including erythrocytes." "FMA:83516 FMA:62845 CALOHA:TS-0290" - "The elongated structure connected to the posterior surface of the testis that transports, stores, and matures spermatozoa between testis and vas deferens." "Wikipedia:Epididymis MAT:0000130 FMA:18255 BTO:0000408 galen:Epididymis SCTID:181432000 CALOHA:TS-0285 EFO:0000982 UMLS:C0014533 GAID:397 EMAPA:19290 MA:0000397 MESH:D004822 VHOG:0001265 EV:0100103 NCIT:C12328 MIAA:0000130" + "A immature or mature cell in the lineage leading to and including erythrocytes." "ZFA:0009325 FMA:83516 FMA:62845 CALOHA:TS-0290" + "The elongated structure connected to the posterior surface of the testis that transports, stores, and matures spermatozoa between testis and vas deferens." "Wikipedia:Epididymis FMA:18255 MAT:0000130 BTO:0000408 galen:Epididymis SCTID:181432000 CALOHA:TS-0285 EFO:0000982 UMLS:C0014533 GAID:397 EMAPA:19290 MA:0000397 MESH:D004822 VHOG:0001265 EV:0100103 NCIT:C12328 MIAA:0000130" "The activation of endogenous cellular processes that result in the death of a cell as part of its development." "Any protein complex that is part of the plasma membrane." "A parenchyma that is part of a left lobe of liver [Automatically generated definition]." "VHOG:0000839 FMA:71658 EHDAA2:0001002 EMAPA:18310" @@ -13546,11 +13579,11 @@ "Obsolete. Use PO:0000282 from Plant Ontology instead. An outgrowth from the epidermis. Trichomes vary in size and complexity and include hairs, scales, and other structures and may be glandular. In Arabidopsis, patterning of trichome development is not random but does not appear to be lineage-based like stomata." "The chemical reactions and pathways occurring at the level of individual cells involving any of a group of naturally occurring, biologically active amines, such as norepinephrine, histamine, and serotonin, many of which act as neurotransmitters." "A portion of skeletal muscle tissue that is part of a eye [Automatically generated definition]." "EHDAA2:0000486 EMAPA:17844 EHDAA:2923" - "A gonad of a male animal. A gonad produces and releases sperm." "AAO:0000606 VHOG:0000252 FMA:7210 EHDAA:8146 EFO:0000984 ZFA:0000598 MAT:0000132 galen:Testis EV:0100102 SCTID:181431007 BSA:0000085 MIAA:0000132 MA:0000411 BILA:0000124 BTO:0001363 UMLS:C0039597 WBbt:0006794 EMAPA:17972 MESH:D013737 TAO:0000598 CALOHA:TS-1030 EHDAA2:0002007 Wikipedia:Testis GAID:396 XAO:0000157 NCIT:C12412 HAO:0001007" + "A gonad of a male animal. A gonad produces and releases sperm." "AAO:0000606 VHOG:0000252 FMA:7210 EHDAA:8146 EFO:0000984 ZFA:0000598 MAT:0000132 galen:Testis EV:0100102 SCTID:181431007 BSA:0000085 MIAA:0000132 MA:0000411 BILA:0000124 BTO:0001363 FBbt:00004928 UMLS:C0039597 WBbt:0006794 EMAPA:17972 MESH:D013737 TAO:0000598 CALOHA:TS-1030 EHDAA2:0002007 Wikipedia:Testis GAID:396 XAO:0000157 NCIT:C12412 HAO:0001007" "An adult endothelial progenitor cell characterised in vivo by homing to ischemic sites and paracrine support of angiogenesis. These cells do not form colonies." "Enables the transfer of amines, including polyamines, from one side of a membrane to the other. Amines are organic compounds that are weakly basic in character and contain an amino (-NH2) or substituted amino group." "Any process that modulates the frequency, rate or extent of gliogenesis, the formation of mature glia." - "Specialized epithelial cells involved in the maintenance of osmotic homeostasis. They are characterized by abundant mitochondria and ion transporters. In amniotes, they are present in the renal system. In freshwater fish, ionocytes in the skin and gills help maintain osmotic homeostasis by absorbing salt from the external environment." + "Specialized epithelial cells involved in the maintenance of osmotic homeostasis. They are characterized by abundant mitochondria and ion transporters. In amniotes, they are present in the renal system. In freshwater fish, ionocytes in the skin and gills help maintain osmotic homeostasis by absorbing salt from the external environment." "ZFA:0005323" "A cell in vitro that is or has been maintained or propagated as part of a cell culture." "MESH:D002478" "The morphogenetic process in which an epithelial sheet bends along a linear axis and gives rise to a pouch that will form a semicircular canal." "Any process that modulates the frequency, rate or extent of synapse pruning." @@ -13612,7 +13645,6 @@ "The thoracic ganglia are paravertebral ganglia. The thoracic portion of the sympathetic trunk typically has 12 thoracic ganglia. Emerging from the ganglia are thoracic splancic nerves (the cardiopulmonary, the greater, lesser, and least splanchic nerves) that help provide sympathetic innervation to abdominal structures. Also, the ganglia of the thoracic sympathetic trunk have both white and gray rami communicantes. The white rami carry sympathetic fibers arising in the spinal cord into the sympathetic trunk. [WP,unvetted]." "MA:0001159 Wikipedia:Thoracic_ganglion EHDAA:4664 VHOG:0000515 SCTID:181102004 UMLS:C0229010 EMAPA:17158 FMA:6471 NCIT:C52829 RETIRED_EHDAA2:0002012 BTO:0001831" "A basal cell that is part of the urothelium. Compared to other urothelial cell types, a basal cell of the urothelium is positioned along the basement membrane, is the most undifferentiated and serves a progenitor role." "FMA:84150" "An endothelium of artery that is part of a respiratory system [Automatically generated definition]." "MA:0001801 EMAPA:37566" - "KUPO:0001135" "Any process that stops, prevents, or reduces the frequency, rate or extent of establishment or maintenance of neuroblast polarity." "Any cadherin binding that occurs as part of the process of cell-cell adhesion." "A cell that contains more than two haploid sets of chromosomes." @@ -13636,7 +13668,6 @@ "Any process contributing to anergy in T cells, a state of functional inactivation which is part of T cell tolerance induction." "Any process that decreases the frequency, rate or extent of the directed movement of proteins within cells." "A cell that is part of a collecting duct of renal tubule." "Wikipedia:Kidney_collecting_duct_cell KUPO:0001012" - "A intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layers L2/3-6" "That portion of the nasal mucosa containing the sensory endings for olfaction; the organ of smell[MESH]." "EMAPA:37918 FMA:77199 NCIT:C33205 UMLS:C0028937 Wikipedia:Olfactory_mucosa MESH:D009831 CALOHA:TS-2197 GAID:303" "Any process that modulates the frequency, rate or extent of T cell differentiation." "A proximal tarsal endochondral element that is composed primarily of cartilage tissue." @@ -13652,20 +13683,19 @@ "The process in which relatively unspecialized cells acquire specialized structural and/or functional features that characterize the cells of the mesonephros as it progresses from its formation to the mature state." "A specialized cardiomyocyte that transmit signals from the AV node to the cardiac Purkinje fibers." "The process in which an antigenically naive gamma-delta T cell acquires the specialized features of an effector, regulatory, or memory T cell and contributes to an immune response. Effector T cells include cells which provide T cell help or exhibit cytotoxicity towards other cells." - "A primary neuron (sensu Teleostei) that has a motor function." + "A primary neuron (sensu Teleostei) that has a motor function." "ZFA:0009244" "A pharyngeal pouch between pharyngeal arch 4 and arch 5 or 6 (a fifth arch never establishes in amniotes)." "UMLS:C0231071 EFO:0003637 NCIT:C34181 ZFA:0001134 AAO:0011117 EMAPA:16766 VHOG:0000578 FMA:295688 EHDAA2:0000091 VHOG:0000971 Wikipedia:Pharyngeal_pouch_(embryology)#Fourth_pouch SCTID:362858001 TAO:0001134 XAO:0000254 RETIRED_EHDAA2:0000090" "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a catecholamine stimulus. A catecholamine is any of a group of biogenic amines that includes 4-(2-aminoethyl)pyrocatechol [4-(2-aminoethyl)benzene-1,2-diol] and derivatives formed by substitution." "A macrophage colony-stimulating factor 1 receptor that is encoded in the genome of human." "DTO:03100090 UniProtKB:P07333" - "KUPO:0001134" "A spinal nerve root that is part of a thoracic nerve." "BIRNLEX:836 FMA:14064" "A nerve that innervates the sole of the foot. Planar nerves arise from the posterior branch of the tibial nerve." "SCTID:181074000 UMLS:C0446824 Wikipedia:Plantar_nerve https://upload.wikimedia.org/wikipedia/commons/thumb/1/16/Gray834.svg/180px-Gray834.svg.png NCIT:C77674" "The process of activating or increasing the rate or extent of mesenchymal cell proliferation. Mesenchymal cells are loosely organized embryonic cells." + "Any interneuron that has its soma located in some ganglion." "Any process that activates or increases the frequency, rate, or extent of interleukin-9 production." "The multiplication or reproduction of fat cells by cell division, resulting in the expansion of their population. A fat cell is an animal connective tissue cell specialized for the synthesis and storage of fat." "Any process that activates, maintains or increases the frequency or rate of cell fate commitment. Cell fate commitment is the commitment of cells to specific cell fates and their capacity to differentiate into particular kinds of cells. Positional information is established through protein signals that emanate from a localized source within a cell (the initial one-cell zygote) or within a developmental field." "FMA:19780" "Any process that modulates the rate, frequency or extent of ribosome biogenesis. Ribosome biogenesis is the cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of ribosome subunits." - "KUPO:0001131" "GC_ID:1" "A surface feature shape quality inhering in a bearer by virtue of the bearer's one part being layered over another connected part." "Any process that stops, prevents, or reduces the frequency, rate or extent of programmed cell death that occurs in the retina." @@ -13675,14 +13705,10 @@ "An excitatory neuron that has its soma located in the thalamic complex." "A developmental process, independent of morphogenetic (shape) change, that is required for a type B pancreatic cell to attain its fully functional state. A type B pancreatic cell is a cell located towards center of the islets of Langerhans that secretes insulin." "Any process that activates, maintains or increases the frequency, rate or extent of transmission of a nerve impulse, the sequential electrochemical polarization and depolarization that travels across the membrane of a neuron in response to stimulation." - "A forelimb that is on the left side of a pectoral complex." "FMA:7186" - - "Translation that occurs at the presynapse." "The directed movement of some substance from outside of a cell into a cell. This may occur via transport across the plasma membrane or via endocytosis." "A glial cell that ensheaths multiple small diameter axons in the peripheral nervous system. The non-myelinating Schwann cell is embedded among neurons (axons) with minimal extracellular spaces separating them from nerve cell membranes and has a basal lamina. Cells can survive without an axon present. These cells can de-differentiate into immature Schwann cells." - "KUPO:0001056" "Any process that activates or increases the frequency, rate or extent of directed movement of proteins from the nucleus into the cytoplasm." "Anatomical divisons of the brain according to one or more criteria, e.g. cytoarchitectural, gross anatomy. Parts may be contiguous in 3D or not, e.g., basal ganglia." "BIRNLEX:1167 NCIT:C13031 UMLS:C0445620 FMA:55676 SCTID:384763002" "Binding to a CCR3 chemokine receptor." @@ -13694,10 +13720,8 @@ "A structure in the head of a spermatozoon that contains acid hydrolases, and is concerned with the breakdown of the outer membrane of the ovum during fertilization. It lies just beneath the plasma membrane and is derived from the lysosome." "Wikipedia:Acrosome" "A portion of connective tissue that is part of a finger [Automatically generated definition]." "MA:0000623 EMAPA:37321" "The regrowth of neural tissue following its loss or destruction." - "Any process that modulates the frequency, rate or extent of transepithelial transport." "The ependymal cell layer that lines the brain ventricles." "MA:0000809 FMA:242837 MESH:D004805 EMAPA:35183" - "KUPO:0001118" "A collagen alpha-1(I) chain that is encoded in the genome of human." "UniProtKB:P02452" "A choroid plexus macrophage that is part of a choroid plexus stroma." "The structure from the trachea, bronchi, and bronchioles that forms the airways that supply air to the lungs. The lining of the tracheobronchial tree consists of ciliated columnar epithelial cells." "FMA:7393 NCIT:C117875 Wikipedia:Tracheobronchial_tree SCTID:361384001" @@ -13720,12 +13744,11 @@ "Any process that stops, prevents or reduces the frequency, rate or extent of water channel activity." "The conducting airway of the lungs found terminal to the bronchi; these structures contain neither cartilage nor mucous-secreting glands; the epithelium of the bronchioles becomes thinner with each branching." "EHDAA:8199 EHDAA:8171 Wikipedia:Bronchiole SCTID:278982001 UMLS:C0006270 FMA:7410 CALOHA:TS-2003 EMAPA:32697 VHOG:0000675 MA:0000422 EHDAA:8183 NCIT:C12684 BTO:0002375 EHDAA:8221" "A D(2) dopamine receptor that is encoded in the genome of mouse." "UniProtKB:P61168" - "KUPO:0001130" - "A cell which moves among different tissues of the body, via blood, lymph, or other medium." + "A cell which moves among different tissues of the body, via blood, lymph, or other medium." "ZFA:0009043" "The process occurring during the embryonic phase whose specific outcome is the progression of the eye over time, from its formation to the mature structure." "The progression of the limbic system over time from its initial formation until its mature state. The limbic system is a collection of structures in the brain involved in emotion, motivation and emotional aspects of memory." "Any process that activates or increases the frequency, rate or extent of cardiac myofibril assembly." - "Any of the immature or mature forms of a granular leukocyte that in its mature form has a nucleus with three to five lobes connected by slender threads of chromatin, and cytoplasm containing fine inconspicuous granules and stainable by neutral dyes." "MESH:D009504 CALOHA:TS-0688 BTO:0000130 FMA:62860" + "Any of the immature or mature forms of a granular leukocyte that in its mature form has a nucleus with three to five lobes connected by slender threads of chromatin, and cytoplasm containing fine inconspicuous granules and stainable by neutral dyes." "ZFA:0009327 MESH:D009504 CALOHA:TS-0688 BTO:0000130 FMA:62860" "The regulated exocytosis of secretory granules containing preformed mediators such as perforin and granzymes by a natural killer cell." "Any process that modulates the frequency, rate or extent of insulin receptor signaling." "Anterior portion of the neocortex, lying anterior to the central sulcus in humans. It is bounded by the parietal cortex posteriorly and the temporal cortex laterally[NIFSTD,modified]." "FMA:242199 DHBA:10161 DMBA:16002 GAID:674 MA:0000905 BTO:0000484 EMAPA:35357 NLXANAT:20090601 Wikipedia:Frontal_lobe" @@ -13733,6 +13756,7 @@ "The deepest layer of the neocortex. While layer 6b is considered part of layer 6, it is distinct morphologically, genetically, and developmentally from the rest of layer 6. Neurons in L6b project to cortical targets and higher-order thalamus and develop from a precursor population that arises from the subplate." "Any process that modulates the frequency, rate, or extent of the chemical reactions and pathways resulting in the breakdown of lipids." "Fusion of intracellular membrane-bounded vesicles with the pre-synaptic membrane of the neuronal cell resulting in release of neurotransmitter into the synaptic cleft." + "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a double-stranded DNA stimulus." "Any process that activates or increases the frequency, rate or extent of translation initiation as a result of a stimulus indicating the organism is under stress." "The process in which the anatomical structures of male genitalia are generated and organized." "The orderly movement of a cell from one site to another at least one of which is located in the forebrain." @@ -13791,13 +13815,14 @@ "EFO:0003677 ZFA:0001321 TAO:0001321" "Binding to an amino acid, organic acids containing one or more amino substituents." "MA:0001859 EMAPA:35878" - "A cell characteristically found lining hollow organs that are subject to great mechanical change due to contraction and distention; originally thought to represent a transition between stratified squamous and columnar epithelium." "FMA:66778" + "A cell characteristically found lining hollow organs that are subject to great mechanical change due to contraction and distention; originally thought to represent a transition between stratified squamous and columnar epithelium." "ZFA:0009148 FMA:66778" "The directed movement of norepinephrine into a cell, typically presynaptic neurons or glial cells. Norepinephrine (3,4-dihydroxyphenyl-2-aminoethanol) is a hormone secreted by the adrenal medulla and a neurotransmitter in the sympathetic peripheral nervous system and in some tracts of the CNS. It is also the biosynthetic precursor of epinephrine." "Binding to a component of the extracellular matrix." "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an acetylcholine stimulus." - "An immature B cell is a B cell that has the phenotype surface IgM-positive and surface IgD-negative, and have not undergone class immunoglobulin class switching or peripheral encounter with antigen and activation." + "An immature B cell is a B cell that has the phenotype surface IgM-positive and surface IgD-negative, and have not undergone class immunoglobulin class switching or peripheral encounter with antigen and activation." "ZFA:0009343" "The principal glutaminergic neuron located in the outer third of the external plexiform layer of the olfactory bulb; a single short primary dendrite traverses the outer external plexiform layer and terminates within an olfactory glomerulus in a tuft of branches, where it receives the input from olfactory receptor neuron axon terminals; axons of the tufted cells transfer information to a number of areas in the brain, including the piriform cortex, entorhinal cortex, olfactory tubercle, and amygdala." "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an amino acid stimulus. An amino acid is a carboxylic acids containing one or more amino groups." + "Any respiratory epithelial cell that is part of some upper respiratory tract." "A muscle cell that is part of the atrial septal branch of anterior internodal tract." "FMA:223278" "A stromal cell that is part_of a bone marrow." "The characteristic movement of cells from the dorsal ridge of the neural tube to a variety of locations in a vertebrate embryo." @@ -13811,16 +13836,15 @@ "The progression of a somite from its initial formation to the mature structure. Somites are mesodermal clusters that are arranged segmentally along the anterior posterior axis of an embryo." "The somatic process that results in the generation of sequence diversity of immunoglobulins." "The soft tissue that fills the cavities of bones." "MIAA:0000084 BTO:0000141 EV:0100046 MAT:0000084 galen:BoneMarrow EMAPA:32760 MESH:D001853 VHOG:0001218 CALOHA:TS-0087 MA:0000134 UMLS:C0005953 BTO:0000829 AAO:0011007 XAO:0000123 EFO:0000868 FMA:9608 Wikipedia:Bone_marrow GAID:1287 SCTID:421320006 NCIT:C12431" - "A head that is part of a embryo." "CALOHA:TS-0246 FMA:293011" + "A head that is part of a embryo." "CALOHA:TS-0246 FBbt:00000155 FMA:293011" "The process in which the anatomical structures of the descending aorta are generated and organized. The descending aorta is the portion of the aorta in a two-pass circulatory system from the arch of aorta to the point where it divides into the common iliac arteries. In a two-pass circulatory system blood passes twice through the heart to supply the body once." "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of hormones." "A bone that is part of a trunk [Automatically generated definition]." "MA:0000512 EMAPA:36583 SCTID:427358002" - "Formation of a prolongation or process extending from a cell, e.g. a flagellum or axon." "Any process that increases the frequency, rate or extent of cell morphogenesis contributing to cell differentiation. Cell morphogenesis involved in differentiation is the change in form (cell shape and size) that occurs when relatively unspecialized cells acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history." - "Catalysis of the reaction: ATP + a protein tyrosine = ADP + protein tyrosine phosphate." "Reactome:R-HSA-8848975 Reactome:R-HSA-399947 Reactome:R-HSA-2395412 Reactome:R-HSA-5654418 Reactome:R-HSA-1225960 Reactome:R-HSA-399946 Reactome:R-HSA-9026890 Reactome:R-HSA-399934 Reactome:R-HSA-2730862 Reactome:R-HSA-8851890 Reactome:R-HSA-912629 Reactome:R-HSA-5654634 Reactome:R-HSA-429441 Reactome:R-HSA-2424487 Reactome:R-HSA-5218806 Reactome:R-HSA-2404199 Reactome:R-HSA-9034875 Reactome:R-HSA-9032601 Reactome:R-HSA-1839110 Reactome:R-HSA-9612085 Reactome:R-HSA-5654655 Reactome:R-HSA-2730886 Reactome:R-HSA-2454208 Reactome:R-HSA-1472121 Reactome:R-HSA-5690702 Reactome:R-HSA-982807 Reactome:R-HSA-9698005 Reactome:R-HSA-8874078 Reactome:R-HSA-5654151 Reactome:R-HSA-9712085 Reactome:R-HSA-373747 Reactome:R-HSA-9634390 Reactome:R-HSA-8848077 Reactome:R-HSA-9037040 Reactome:R-HSA-9670412 Reactome:R-HSA-8874080 Reactome:R-HSA-8942607 Reactome:R-HSA-1963581 Reactome:R-HSA-9606163 Reactome:R-HSA-9672173 Reactome:R-HSA-1433506 Reactome:R-HSA-9700175 Reactome:R-HSA-8876230 Reactome:R-HSA-388833 Reactome:R-HSA-983703 Reactome:R-HSA-452122 Reactome:R-HSA-2033488 Reactome:R-HSA-1248655 Reactome:R-HSA-202168 Reactome:R-HSA-8956659 Reactome:R-HSA-2033490 Reactome:R-HSA-1888198 Reactome:R-HSA-2029453 Reactome:R-HSA-9665709 Reactome:R-HSA-418872 Reactome:R-HSA-9033284 Reactome:R-HSA-873922 Reactome:R-HSA-212710 Reactome:R-HSA-5637795 Reactome:R-HSA-879907 Reactome:R-HSA-1524186 Reactome:R-HSA-2454239 Reactome:R-HSA-8849463 Reactome:R-HSA-9673761 Reactome:R-HSA-418163 Reactome:R-HSA-4420128 Reactome:R-HSA-5654397 Reactome:R-HSA-5654575 Reactome:R-HSA-9700171 Reactome:R-HSA-8849032 Reactome:R-HSA-1295540 Reactome:R-HSA-8848776 Reactome:R-HSA-4420121 Reactome:R-HSA-9701488 Reactome:R-HSA-1839065 Reactome:R-HSA-2029989 Reactome:R-HSA-8857577 Reactome:R-HSA-8849102 Reactome:R-HSA-9669890 Reactome:R-HSA-9665032 Reactome:R-HSA-9674558 Reactome:R-HSA-445091 Reactome:R-HSA-9664275 Reactome:R-HSA-5218640 Reactome:R-HSA-190408 Reactome:R-HSA-2201322 Reactome:R-HSA-2586555 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Reactome:R-HSA-202165 Reactome:R-HSA-201521 Reactome:R-HSA-1963582 Reactome:R-HSA-3928583 Reactome:R-HSA-8875817 Reactome:R-HSA-1168394 Reactome:R-HSA-373750 Reactome:R-HSA-8983872 Reactome:R-HSA-8876948 Reactome:R-HSA-8851933 Reactome:R-HSA-5654222 Reactome:R-HSA-443817 Reactome:R-HSA-9027425 Reactome:R-HSA-6784006 Reactome:R-HSA-9665704 Reactome:R-HSA-6784319 Reactome:R-HSA-9670418 Reactome:R-HSA-9625487 Reactome:R-HSA-428888 Reactome:R-HSA-202174 Reactome:R-HSA-5683930 Reactome:R-HSA-9612996 Reactome:R-HSA-5655270 Reactome:R-HSA-8848005 Reactome:R-HSA-5654631 Reactome:R-HSA-5654582 Reactome:R-HSA-9026579 Reactome:R-HSA-9026464 Reactome:R-HSA-1225952 Reactome:R-HSA-2023460 Reactome:R-HSA-9604767 Reactome:R-HSA-1982066 Reactome:R-HSA-1250348 Reactome:R-HSA-5637796 Reactome:R-HSA-8848124 Reactome:R-HSA-183058 Reactome:R-HSA-879925 Reactome:R-HSA-177934 Reactome:R-HSA-9712082 Reactome:R-HSA-1250315 Reactome:R-HSA-202248 Reactome:R-HSA-3928580 Reactome:R-HSA-451942 Reactome:R-HSA-1839112 Reactome:R-HSA-445084 Reactome:R-HSA-2428926 Reactome:R-HSA-429449 Reactome:R-HSA-9034714 Reactome:R-HSA-174164 Reactome:R-HSA-5655301 Reactome:R-HSA-377640 Reactome:R-HSA-2033485 Reactome:R-HSA-9027272 Reactome:R-HSA-8848726 Reactome:R-HSA-2586553 Reactome:R-HSA-9606159 Reactome:R-HSA-69195 Reactome:R-HSA-3928648 Reactome:R-HSA-9026510 Reactome:R-HSA-2424484 Reactome:R-HSA-9700193 Reactome:R-HSA-5655243 Reactome:R-HSA-8853325 Reactome:R-HSA-5218820 Reactome:R-HSA-2023455 Reactome:R-HSA-8853313 Reactome:R-HSA-9762209 Reactome:R-HSA-8857583 Reactome:R-HSA-9703437 Reactome:R-HSA-389086 Reactome:R-HSA-8867041 Reactome:R-HSA-9028728 Reactome:R-HSA-1169421 Reactome:R-HSA-1433542 Reactome:R-HSA-8857925 Reactome:R-HSA-2404193 Reactome:R-HSA-372693 Reactome:R-HSA-9669911 Reactome:R-HSA-909732 Reactome:R-HSA-210872 Reactome:R-HSA-432129 Reactome:R-HSA-9032854 Reactome:R-HSA-186786 Reactome:R-HSA-177930 Reactome:R-HSA-2730884 Reactome:R-HSA-8849042 Reactome:R-HSA-3215391 Reactome:R-HSA-191062 Reactome:R-HSA-2730833 Reactome:R-HSA-3928627 Reactome:R-HSA-4420117 Reactome:R-HSA-1433488 Reactome:R-HSA-182969 Reactome:R-HSA-5624486 Reactome:R-HSA-3928578 Reactome:R-HSA-8964242 Reactome:R-HSA-9674567 Reactome:R-HSA-374701 Reactome:R-HSA-170070 Reactome:R-HSA-9699578 Reactome:R-HSA-9673756 Reactome:R-HSA-9664976 Reactome:R-HSA-9624014 Reactome:R-HSA-9032426 Reactome:R-HSA-9695834 Reactome:R-HSA-8875451 Reactome:R-HSA-445076 Reactome:R-HSA-4093332 Reactome:R-HSA-5654605 Reactome:R-HSA-1433454 Reactome:R-HSA-3928594 Reactome:R-HSA-5621370 Reactome:R-HSA-983707 Reactome:R-HSA-9024726 Reactome:R-HSA-2730858" - + "Catalysis of the reaction: ATP + a protein tyrosine = ADP + protein tyrosine phosphate." "Reactome:R-HSA-8848975 Reactome:R-HSA-399947 Reactome:R-HSA-2395412 Reactome:R-HSA-5654418 Reactome:R-HSA-1225960 Reactome:R-HSA-399946 Reactome:R-HSA-9026890 Reactome:R-HSA-399934 Reactome:R-HSA-2730862 Reactome:R-HSA-8851890 Reactome:R-HSA-912629 Reactome:R-HSA-5654634 Reactome:R-HSA-429441 Reactome:R-HSA-2424487 Reactome:R-HSA-5218806 Reactome:R-HSA-2404199 Reactome:R-HSA-9034875 Reactome:R-HSA-9032601 Reactome:R-HSA-1839110 Reactome:R-HSA-9612085 Reactome:R-HSA-5654655 Reactome:R-HSA-2730886 Reactome:R-HSA-2454208 Reactome:R-HSA-1472121 Reactome:R-HSA-5690702 Reactome:R-HSA-982807 Reactome:R-HSA-9698005 Reactome:R-HSA-8874078 Reactome:R-HSA-5654151 Reactome:R-HSA-9712085 Reactome:R-HSA-373747 Reactome:R-HSA-9634390 Reactome:R-HSA-8848077 Reactome:R-HSA-9037040 Reactome:R-HSA-9670412 Reactome:R-HSA-8874080 Reactome:R-HSA-9831136 Reactome:R-HSA-8942607 Reactome:R-HSA-1963581 Reactome:R-HSA-9606163 Reactome:R-HSA-9672173 Reactome:R-HSA-1433506 Reactome:R-HSA-9700175 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Reactome:R-HSA-391865 Reactome:R-HSA-1307963 Reactome:R-HSA-5621355 Reactome:R-HSA-9672175 Reactome:R-HSA-202307 Reactome:R-HSA-2671742 Reactome:R-HSA-1247844 Reactome:R-HSA-1839098 Reactome:R-HSA-1295609 Reactome:R-HSA-2395801 Reactome:R-HSA-9665705 Reactome:R-HSA-9012650 Reactome:R-HSA-5218851 Reactome:R-HSA-5654628 Reactome:R-HSA-190427 Reactome:R-HSA-8849068 Reactome:R-HSA-5686587 Reactome:R-HSA-9700186 Reactome:R-HSA-112333 Reactome:R-HSA-2424486 Reactome:R-HSA-5655278 Reactome:R-HSA-9706344 Reactome:R-HSA-873924 Reactome:R-HSA-2012073 Reactome:R-HSA-2029268 Reactome:R-HSA-68954 Reactome:R-HSA-879909 Reactome:R-HSA-8848758 Reactome:R-HSA-5654653 Reactome:R-HSA-5621363 Reactome:R-HSA-9021609 Reactome:R-HSA-9709918 Reactome:R-HSA-9613023 Reactome:R-HSA-8847977 Reactome:R-HSA-9698003 Reactome:R-HSA-508282 Reactome:R-HSA-190385 Reactome:R-HSA-9666425 Reactome:R-HSA-8848873 Reactome:R-HSA-9006323 Reactome:R-HSA-9606162 Reactome:R-HSA-8857555 Reactome:R-HSA-9018572 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Reactome:R-HSA-177937 Reactome:R-HSA-202165 Reactome:R-HSA-201521 Reactome:R-HSA-1963582 Reactome:R-HSA-3928583 Reactome:R-HSA-8875817 Reactome:R-HSA-1168394 Reactome:R-HSA-373750 Reactome:R-HSA-8983872 Reactome:R-HSA-8876948 Reactome:R-HSA-8851933 Reactome:R-HSA-5654222 Reactome:R-HSA-443817 Reactome:R-HSA-9027425 Reactome:R-HSA-6784006 Reactome:R-HSA-9665704 Reactome:R-HSA-6784319 Reactome:R-HSA-9670418 Reactome:R-HSA-9625487 Reactome:R-HSA-428888 Reactome:R-HSA-202174 Reactome:R-HSA-5683930 Reactome:R-HSA-9612996 Reactome:R-HSA-5655270 Reactome:R-HSA-8848005 Reactome:R-HSA-5654631 Reactome:R-HSA-5654582 Reactome:R-HSA-9026579 Reactome:R-HSA-9026464 Reactome:R-HSA-1225952 Reactome:R-HSA-2023460 Reactome:R-HSA-9604767 Reactome:R-HSA-1982066 Reactome:R-HSA-1250348 Reactome:R-HSA-5637796 Reactome:R-HSA-8848124 Reactome:R-HSA-183058 Reactome:R-HSA-879925 Reactome:R-HSA-177934 Reactome:R-HSA-9712082 Reactome:R-HSA-1250315 Reactome:R-HSA-202248 Reactome:R-HSA-3928580 Reactome:R-HSA-451942 Reactome:R-HSA-1839112 Reactome:R-HSA-445084 Reactome:R-HSA-2428926 Reactome:R-HSA-429449 Reactome:R-HSA-9034714 Reactome:R-HSA-174164 Reactome:R-HSA-5655301 Reactome:R-HSA-377640 Reactome:R-HSA-2033485 Reactome:R-HSA-9027272 Reactome:R-HSA-8848726 Reactome:R-HSA-2586553 Reactome:R-HSA-9606159 Reactome:R-HSA-69195 Reactome:R-HSA-9732738 Reactome:R-HSA-3928648 Reactome:R-HSA-9026510 Reactome:R-HSA-2424484 Reactome:R-HSA-9700193 Reactome:R-HSA-5655243 Reactome:R-HSA-8853325 Reactome:R-HSA-5218820 Reactome:R-HSA-2023455 Reactome:R-HSA-8853313 Reactome:R-HSA-9762209 Reactome:R-HSA-8857583 Reactome:R-HSA-9703437 Reactome:R-HSA-389086 Reactome:R-HSA-8867041 Reactome:R-HSA-9028728 Reactome:R-HSA-1169421 Reactome:R-HSA-1433542 Reactome:R-HSA-8857925 Reactome:R-HSA-2404193 Reactome:R-HSA-372693 Reactome:R-HSA-9669911 Reactome:R-HSA-909732 Reactome:R-HSA-210872 Reactome:R-HSA-432129 Reactome:R-HSA-9032854 Reactome:R-HSA-186786 Reactome:R-HSA-2730884 Reactome:R-HSA-8849042 Reactome:R-HSA-3215391 Reactome:R-HSA-191062 Reactome:R-HSA-2730833 Reactome:R-HSA-3928627 Reactome:R-HSA-4420117 Reactome:R-HSA-1433488 Reactome:R-HSA-182969 Reactome:R-HSA-5624486 Reactome:R-HSA-3928578 Reactome:R-HSA-8964242 Reactome:R-HSA-9674567 Reactome:R-HSA-374701 Reactome:R-HSA-170070 Reactome:R-HSA-9699578 Reactome:R-HSA-9673756 Reactome:R-HSA-9664976 Reactome:R-HSA-9624014 Reactome:R-HSA-9032426 Reactome:R-HSA-9695834 Reactome:R-HSA-8875451 Reactome:R-HSA-445076 Reactome:R-HSA-4093332 Reactome:R-HSA-5654605 Reactome:R-HSA-1433454 Reactome:R-HSA-3928594 Reactome:R-HSA-5621370 Reactome:R-HSA-983707 Reactome:R-HSA-9024726 Reactome:R-HSA-2730858" + "FBbt:00000004" "The expansion of a muscle cell population by cell division." "Any process that modulates the frequency, rate or extent of natural killer T cell differentiation." "Obsolete. Consult Plant Ontology. A cell that develops from the ray initial and composes all rays (panels of tissue variable in height and width, formed by the ray initials in the vascular cambium and extending radially in the secondary xylem and secondary phloem) in the secondary vascular tissues." @@ -13835,7 +13859,7 @@ "The process in which a relatively unspecialized cell acquires specialized features of a myotube cell. Myotube differentiation starts with myoblast fusion and the appearance of specific cell markers (this is the cell development step). Then individual myotubes can fuse to form bigger myotubes and start to contract. This process occurs as part of the process of skeletal muscle regeneration. Myotubes are multinucleated cells that are formed when proliferating myoblasts exit the cell cycle, differentiate and fuse." "Any process that modulates the frequency, rate or extent of alpha-beta T cell differentiation." "The narrowest portion of the gallbladder and distal to the cystic duct." "SCTID:245394007 UMLS:C0227546 NCIT:C32649 Wikipedia:Neck_of_gallbladder FMA:14538" - "The central sulcus is a fold in the cerebral cortex of brains in vertebrates. Also called the central fissure, it was originally called the fissure of Rolando or the Rolandic fissure, after Luigi Rolando. The central sulcus is a prominent landmark of the brain, separating the parietal lobe from the frontal lobe and the primary motor cortex from the primary somatosensory cortex. [WP,unvetted]." "BAMS:cs UMLS:C1281071 Wikipedia:Central_sulcus BM:Tel-Cx-CS BIRNLEX:4035 NCIT:C32280 UMLS:C0228188 SCTID:279340001 HBA:9403 FMA:83752 DHBA:10614 neuronames:48" + "The central sulcus is a fold in the cerebral cortex of brains in vertebrates. Also called the central fissure, it was originally called the fissure of Rolando or the Rolandic fissure, after Luigi Rolando. The central sulcus is a prominent landmark of the brain, separating the parietal lobe from the frontal lobe and the primary motor cortex from the primary somatosensory cortex. [WP,unvetted]." "BAMS:cs UMLS:C1281071 BM:Tel-Cx-CS Wikipedia:Central_sulcus BIRNLEX:4035 NCIT:C32280 UMLS:C0228188 SCTID:279340001 HBA:9403 FMA:83752 DHBA:10614 neuronames:48" "A M cell that is part of the epithelium proper of large intestine." "FMA:263142" "Any process that modulates the frequency, rate or extent of the regulated release of a neurotransmitter from a cell." "Enables the transfer of lactoferrin from one side of a membrane to the other." @@ -13845,11 +13869,11 @@ "Any process that modulates the frequency, rate or extent of the directed movement of a protein to a specific location." "A retinal ganglion cell C outer that has dense dendritic diversity." "A substance produced by the cervix and endocervical glands[BTO]. Thick acidic mucus that blocks the cervical os after mestruation[WP]. This 'infertile' mucus blocks spermatozoa from entering the uterus." "BTO:0000242 FMA:83689 Wikipedia:Mucus#Reproductive_system MESH:D002582" - "A multifate stem cell found in skeletal muscle than can differentiate into many different cell types, including muscle. Distinct cell type from satellite cell." "FMA:86767" + "A multifate stem cell found in skeletal muscle than can differentiate into many different cell types, including muscle. Distinct cell type from satellite cell." "ZFA:0009179 FMA:86767" "A gamma-synuclein that is encoded in the genome of mouse." "UniProtKB:Q9Z0F7" "Obsolete. Use PO:0000301 from Plant Ontology instead. A tracheary element of the xylem that has no perforations, as contrasted with a vessel member. May occur in primary and in secondary xylem. May have any kind of secondary wall thickening found in tracheary elements." "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an electromagnetic radiation stimulus. Electromagnetic radiation is a propagating wave in space with electric and magnetic components. These components oscillate at right angles to each other and to the direction of propagation." - "The chemical reactions and pathways resulting in the breakdown of glycogen, a polydisperse, highly branched glucan composed of chains of D-glucose residues." "MetaCyc:GLYCOCAT-PWY" + "The chemical reactions and pathways resulting in the breakdown of glycogen, a polydisperse, highly branched glucan composed of chains of D-glucose residues." "MetaCyc:PWY-5941 MetaCyc:GLYCOCAT-PWY MetaCyc:PWY-7662" "The series of events in which a temperature stimulus is received and converted into a molecular signal as part of thermoception." "The second nuclear division of meiosis, in which the two chromatids in each chromosome are separated, resulting in four daughter nuclei from the two nuclei produced in meiosis II." "Wikipedia:Meiosis#Meiosis_II" @@ -13894,6 +13918,7 @@ "Any of the tissue layers that comprise a blood vessel. Examples: tunica media, tunica adventitia." "EMAPA:36296 MA:0002854" "The process in which a relatively unspecialized cell acquires specialized features of a posterior lateral line neuromast support cell. Support cells are non-sensory cells of the neuromast that extend between the sensory hair cells from the basement membrane to the apical surface; they are surrounded by mantle cells." "The process whose specific outcome is the progression of a nephron in the mesonephros over time, from its formation to the mature structure. A nephron is the functional unit of the kidney." + "Any secretory cell that is capable of some testosterone secretion." "ZFA:0009107" "A cuboidal epithelium that is part of a oviduct." "MA:0001720" "A(n) smooth muscle cell that is part of a(n) large intestine smooth muscle longitudinal layer." @@ -13908,7 +13933,7 @@ "The process in which a relatively unspecialized cell acquires specialized features of a neuroblast. There are at least four stages through which the pluripotent cells of epiblast or blastula become neuroblasts." "The process of creating a trabecula in the heart. A trabecula is a tissue element in the form of a small beam, strut or rod." "Any of the vesicles of the constitutive secretory pathway, which carry cargo from the endoplasmic reticulum to the Golgi, between Golgi cisternae, from the Golgi to the ER (retrograde transport) or to destinations within or outside the cell." "NIF_Subcellular:sao885490876" - "The nervous system is an organ system containing predominantly neuron and glial cells. In bilaterally symmetrical organism, it is arranged in a network of tree-like structures connected to a central body. The main functions of the nervous system are to regulate and control body functions, and to receive sensory input, process this information, and generate behavior [CUMBO]." "UMLS:C0027763 SCTID:278196006 EV:0100162 FMA:7157 BIRNLEX:844 WBbt:0005735 neuronames:3236 GAID:466 VHOG:0000402 MA:0000016 AAO:0000324 EFO:0000802 MAT:0000026 EMAPA:16469 XAO:0000177 EHDAA2:0001246 EHDAA:826 ZFA:0000396 BTO:0001484 CALOHA:TS-1313 MIAA:0000026 TAO:0000396 Wikipedia:Nervous_system MESH:D009420 NCIT:C12755 BILA:0000079" + "The nervous system is an organ system containing predominantly neuron and glial cells. In bilaterally symmetrical organism, it is arranged in a network of tree-like structures connected to a central body. The main functions of the nervous system are to regulate and control body functions, and to receive sensory input, process this information, and generate behavior [CUMBO]." "UMLS:C0027763 SCTID:278196006 EV:0100162 FMA:7157 BIRNLEX:844 WBbt:0005735 FBbt:00005093 neuronames:3236 GAID:466 VHOG:0000402 MA:0000016 AAO:0000324 EFO:0000802 MAT:0000026 EMAPA:16469 XAO:0000177 EHDAA2:0001246 EHDAA:826 ZFA:0000396 BTO:0001484 CALOHA:TS-1313 MIAA:0000026 TAO:0000396 Wikipedia:Nervous_system MESH:D009420 NCIT:C12755 BILA:0000079" "The developmental process in which the mammary placode forms. The mammary placode is a transient lens shaped structure that will give rise to the mammary bud proper." "A flat or angular epithelial cell with condensed nuclei and darkly staining cytoplasm containing numerous intermediate filaments inserted into desmosomes contacting surrounding supporting cells; lie in contact with the basal lamina of olfactory epithelium." "FMA:62304" "Any of the tubular branching vessels that carry blood from the capillaries toward the heart." "TAO:0000082 MIAA:0000037 CALOHA:TS-1108 UMLS:C0042449 Wikipedia:Vein BTO:0000234 EV:0100031 NCIT:C12814 EHDAA2:0003254 GAID:492 ZFA:0000082 galen:Vein MAT:0000037 SCTID:181367001 EMAPA:35906 FMA:50723 EFO:0000816 MESH:D014680 XAO:0000115 MA:0000067 AEO:0000209 VHOG:0001743 AAO:0010212" @@ -13924,7 +13949,7 @@ "Tolerance induction taking place in the mucosal-associated lymphoid tissue (MALT) mediated by B cells." "Lymph node germinal centers contain two microenvironments: the light zone and the dark zone. The light zone is sparsely populated with B cells and includes additional cell types such as follicular dendritic cells, lymph node tingible macrophages and T follicular helper cells." "The collection of muscles that acts on the pharynx." "FMA:264609 TAO:0001307 ZFA:0001307" - "An epithelial cell derived from ectoderm." "FMA:69074" + "An epithelial cell derived from ectoderm." "ZFA:0009385 FMA:69074" "A pyramidal cell morphology that inheres in neurons which have an apical tree which is oriented towards the white matter." "ilxtr:InvertedPyramidalPhenotype" "A pyramidal cell morphology that inheres in neurons which lack a tuft formation but extend to small radial distances forming a star-like shape." "ilxtr:StarPyramidalPhenotype" "A DRD1-expressing, medium spiny neuron-like granule cell that is part of an Island of Calleja." @@ -13933,7 +13958,7 @@ "Any process that stops, prevents or reduces the frequency, rate or extent of endothelial cell development." "Any process that activates or increases the frequency, rate or extent of transport across blood-brain barrier." "Terminal segment of free limb, immediately distal to the zeugopod region. The fully developed autopod consists of the autopod skeleton plus associated structures such as integument, muscle tissue, vasculature etc. The autopod is divided into mesopodial, metapodiual, and acropodial segments. Examples: human hand, mouse paw, human foot." "NCIT:C77660 UMLS:C0687080 EFO:0000877 MAT:0000091 MA:0002714 FMA:83015 MIAA:0000091 BTO:0004359 SCTID:95936004 EMAPA:32722" - "A cell of the supporting or framework tissue of the body, arising chiefly from the embryonic mesoderm and including adipose tissue, cartilage, and bone." "MESH:D003239 FMA:63875 CALOHA:TS-2096" + "A cell of the supporting or framework tissue of the body, arising chiefly from the embryonic mesoderm and including adipose tissue, cartilage, and bone." "ZFA:0009392 MESH:D003239 FMA:63875 CALOHA:TS-2096" "A flattened, almost circular bilaminar plate of cells formed when the inner cell mass (aka embryoblast) forms two epithelial layers, each of a distinct lineage, separated by an extracellular basement membrane: the external (dorsal) layer is called the epiblast and the internal (ventral) layer is called the hypoblast (aka primitive endoderm); together, they compose the bilaminar embryonic disc." "Wikipedia:Bilaminar_disc NCIT:C34112 UMLS:C1283997 FMA:293863" "The process in which an embryonic mesoderm-derived hemocyte precursor cell acquires the specialized features of a crystal cell. Crystal cells are a class of cells that contain crystalline inclusions and are involved in the melanization of pathogenic material in the hemolymph." "GC_ID:1" @@ -13982,8 +14007,9 @@ "Any process that modulates the frequency, rate, or extent of an adaptive immune response." "The developmental process pertaining to the formation and shaping of the optic vesicle. This process begins with the specific processes that contribute to the appearance of the vesicle and ends when the vesicle has evaginated. The optic vesicle is the evagination of neurectoderm that precedes formation of the optic cup." "Directed movement of the oocyte, following its specification, from its original central position in the cyst to a posterior position relative to the nurse cells of the egg chamber, and its maintenance in this posterior location. This is the first sign of anterior-posterior asymmetry in the developing egg chamber." - "Anatomical entity that has mass." "HAO:0000006 VHOG:0001721 AAO:0010264 FMA:67165 BILA:0000006 TAO:0001836 AEO:0000006 EHDAA2:0003006 CARO:0000006 TGMA:0001826" + "Anatomical entity that has mass." "HAO:0000006 VHOG:0001721 AAO:0010264 FMA:67165 BILA:0000006 TAO:0001836 AEO:0000006 EHDAA2:0003006 CARO:0000006 TGMA:0001826 FBbt:00007016" "The most anterior region of the brain including both the telencephalon and diencephalon." "VHOG:0000383 FMA:61992 UMLS:C0085140 MAT:0000105 XAO:0000011 BIRNLEX:1509 Wikipedia:Forebrain ZFA:0000109 BTO:0000478 SCTID:362291003 AAO:0010147 EHDAA2:0000556 BAMS:FB DHBA:10156 neuronames:27 MESH:D016548 BAMS:Forebrain MIAA:0000105 MA:0000170 EHDAA:3470 TAO:0000109 CALOHA:TS-0380 EFO:0000909 NCIT:C40185 DMBA:15566 EMAPA:16895" + "Any endothelial cell that is part of some renal efferent arteriole." "KUPO:0001042" "One of the system of communicating cavities in the brain that are continuous with the central canal of the spinal cord, that like it are derived from the medullary canal of the embryo, that are lined with an epithelial ependyma, and that contain a serous fluid." "neuronames:2497 HBA:9418 EFO:0001914 MESH:D002552 SCTID:180929003 MA:0000818 UMLS:C0007799 EMAPA:32674 BIRNLEX:1356 FMA:78447 BTO:0001442 NCIT:C12356" "A loose connective tissue sheath surrounding each peripheral nerve. Composed mainly of colagen and fibroblasts, it forms a substantial covering over nerve trunks, then thins to an incomplete layer around smaller branches near their terminations. The epineurium is continuous centrally with the dura. Peripherally, it usually ends near the termination of a nerve fiber, but it may continue as the capsule of Meissner corpuscles and a few other encapsulated endings. Nolte, J. The Human Brain 3rd edition." "SCTID:64482002 FMA:12234 UMLS:C0205889 Wikipedia:Epineurium NLXANAT:090203 NCIT:C32528 EMAPA:37848 BTO:0003154" "Obsolete. Use PO:0020093 from Plant Ontology instead. OBSOLETE, use term from plant ontology. A cell located at the chalazal end of the mature embryo sac in angiosperms." @@ -14003,7 +14029,7 @@ "Any process that modulates the frequency, rate or extent of cell activation, the change in the morphology or behavior of a cell resulting from exposure to an activating factor such as a cellular or soluble ligand." "A layer of of the central nervous system that is composed of white matter." "FMA:83898" - "A the thin septum that separates adjacent pulmonary alveoli, containing connective tissue constituents of the respiratory tissue and the capillary network of the blood supply of the lung." "NCIT:C49473 BTO:0003149 MA:0000421 UMLS:C1706784 Wikipedia:Alveolar_septum EMAPA:35433" + "A the thin septum that separates adjacent pulmonary alveoli, containing connective tissue constituents of the respiratory tissue and the capillary network of the blood supply of the lung." "EMAPA:35433 NCIT:C49473 BTO:0003149 MA:0000421 UMLS:C1706784 Wikipedia:Alveolar_septum" "A frontal cortex that is part of a left cerebral hemisphere." "UMLS:C1281955 BIRNLEX:1787 SCTID:314142003 FMA:72970" "A plasmablast that secretes IgG." "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another and contributes to the physical shaping or formation of the camera-type eye." @@ -14033,7 +14059,7 @@ "Any process that stops, prevents, or reduces the frequency, rate or extent of insulin receptor signaling." "A protein that is a translation product of the human MYB gene or a 1:1 ortholog thereof." "A paneth cell that is part of the epithelium of small intestine." "FMA:263104" - "A non-sensory cell that extends from the basement membrane to the apical surface of the auditory epithelium and provides support for auditory hair cells." + "A non-sensory cell that extends from the basement membrane to the apical surface of the auditory epithelium and provides support for auditory hair cells." "ZFA:0005244" "Any process that modulates the frequency, rate or extent of chromatin organization." "A limb bud that develops into a hindlimb." "SCTID:346164003 XAO:0003066 RETIRED_EHDAA2:0003197 EHDAA:2358 MIAA:0000256 AAO:0010382 EMAPA:16779" "Sensory system responsible for the perception of spatial orientation and auditory stimuli." "EMAPA:37985 XAO:0003195 TAO:0001138 AAO:0000631 FMA:78500 ZFA:0001138" @@ -14042,13 +14068,15 @@ "A B cell found in the lymph node medullary sinus." "Any process that stops, prevents, or reduces the frequency, rate or extent of the migration of the endothelial cells of blood vessels." "The parenchyma of the spleen, consisting of lymphocytes and macrophages. It lies between the splenic trabecula. Red pulp is the part suffused with blood and white pulp consists of areas of lymphatic tissue where there are sleeves of lymphocytes and macrophages." "MA:0002487 NCIT:C33603 FMA:15845 UMLS:C0229691 EMAPA:35805 SCTID:13515001" - "An agranular supporting cell of the anterior pituitary (adenohypophysis) that is characterized by a star-like morphology and ability to form follicles. Folliculostellate cells communicate with each other and with endocrine cells via gap junctions." + "An agranular supporting cell of the anterior pituitary (adenohypophysis) that is characterized by a star-like morphology and ability to form follicles. Folliculostellate cells communicate with each other and with endocrine cells via gap junctions." "ZFA:0009281" + "Binding to a specific sequence of DNA that is part of a regulatory region that controls transcription of that section of the DNA. The transcribed region might be described as a gene, cistron, or operon." "Multilayered ectodermal region at the distal tip of a limb or fin bud necessary for the proper development of the underlying mesenchyme[MP,modified]. Along with the zone of polarizing activity, it is a crucial organizing region during limb development[WP]." "ZFA:0001702 XAO:0004121 EMAPA:32744 NCIT:C34109 Wikipedia:Apical_ectodermal_ridge UMLS:C1516037 AAO:0010760 TAO:0002146" "The process whose specific outcome is the progression of the ear over time, from its formation to the mature structure. The ear is the sense organ in vertebrates that is specialized for the detection of sound, and the maintenance of balance. Includes the outer ear and middle ear, which collect and transmit sound waves; and the inner ear, which contains the organs of balance and (except in fish) hearing. Also includes the pinna, the visible part of the outer ear, present in some mammals." "An anatomical structure that connects two structures." "FMA:5898 SCTID:91833003" "The increase in size or mass of a cardiac muscle, where the increase in size or mass has the specific outcome of the progression of the organism over time from one condition to another." "Any of the three loop-shaped membranous inner tubular parts of the semicircular canals that are about one-fourth the diameter of the corresponding outer bony canals, that communicate at each end with the utricle, and that have near one end an expanded ampulla containing an area of sensory epithelium." "FMA:61122 NCIT:C33528 SCTID:279833009 MA:0000251 VHOG:0000238 UMLS:C1323109 EMAPA:32830" + "Any neuroblast (sensu Vertebrata) that is part of some forebrain." "The movement of a plasmacytoid dendritic cell in response to an external stimulus." "Any process that activates or increases the frequency, rate or extent of the inflammatory response." @@ -14062,7 +14090,7 @@ "A depression in the inner retinal surface within the macula lutea, the photoreceptor layer of which is entirely cones and which is specialized for maximum visual acuity." "BIRNLEX:2543 VHOG:0001572 MESH:D005584 FMA:58658 Wikipedia:Fovea_centralis_in_macula UMLS:C0016622 EMAPA:37589 UMLS:C0450290 EV:0100350 SCTID:264479005 MA:0001307 GAID:910 CALOHA:TS-2055 NCIT:C26463" "A dura mater that is part of a telencephalon [Automatically generated definition]." "MA:0000981 EMAPA:17776" "The outer, i.e. cytoplasm-facing, lipid bilayer of the nuclear envelope; continuous with the endoplasmic reticulum of the cell and sometimes studded with ribosomes." "NIF_Subcellular:sao1617136075" - "A neuron that develops during the early segmentation stages in teleosts, before the neural tube is formed." + "A neuron that develops during the early segmentation stages in teleosts, before the neural tube is formed." "ZFA:0009242" "PMID:29367151 GC_ID:1" "A cluster of neuroendocrine cells derived from neural crest. Paraganglia may be chromaffin or nonchromaffin." "Wikipedia:Paraganglion SCTID:281695005 FMA:15648" "GC_ID:1" @@ -14096,10 +14124,11 @@ "Any process that activates or increases the frequency, rate or extent of protein localization to nucleolus." "A transition where a mesenchymal cell establishes apical/basolateral polarity, forms intercellular adhesive junctions, synthesizes basement membrane components and becomes an epithelial cell that will contribute to the shaping of the mesonephros." - "Lymphatic progenitor cells, derived from the veins, that give rise to lymphatic endothelial cells." + "Lymphatic progenitor cells, derived from the veins, that give rise to lymphatic endothelial cells." "ZFA:0009395" "The angular vein formed by the junction of the frontal vein and supraorbital vein, runs obliquely downward, on the side of the root of the nose, to the level of the lower margin of the orbit, where it becomes the anterior facial vein. It receives the external nasal veins of the ala nasi, and communicates with the superior ophthalmic vein through the nasofrontal vein, thus establishing an important anastomosis between the anterior facial vein and the cavernous sinus." "SCTID:151804007 Wikipedia:Angular_vein FMA:50893" "The progression of the right horn of the sinus venosus from its formation to the mature structure." "A splenic macrophage found in the areas surrounding the white pulp of the spleen, adjacent to the marginal sinus. Markers include F4/80-negative, Dectin2-low, sialoadhesin-positive." + "The cellular DNA metabolic process resulting in the breakdown of a nucleic acid." "A bone marrow proteoglycan that has been processed by proteolytic cleavage." "The process in which a relatively unspecialized cell acquires the specialized features of a foam cell. A foam cell is a type of cell containing lipids in small vacuoles and typically seen in atherosclerotic lesions, as well as other conditions." "Any process that activates or increases the frequency, rate, or extent of production of any member of the interleukin-17 family of cytokines." @@ -14108,14 +14137,14 @@ "Any process that decreases the rate or extent of striated muscle cell apoptotic process, a form of programmed cell death induced by external or internal signals that trigger the activity of proteolytic caspases whose actions dismantle a striated muscle cell and result in its death." "A naive regulatory T cell with the phenotype CD4-positive, CD25-positive, CD127lo, CCR4-positive, and CD45RO-negative." "The process whose specific outcome is the progression of the nephron over time, from its formation to the mature structure. A nephron is the functional unit of the kidney." - "A fat-storing cell found mostly in the abdominal cavity and subcutaneous tissue of mammals. Fat is usually stored in the form of triglycerides." "FMA:63880 CALOHA:TS-0012 BTO:0000443" + "A fat-storing cell found mostly in the abdominal cavity and subcutaneous tissue of mammals. Fat is usually stored in the form of triglycerides." "ZFA:0009082 FMA:63880 CALOHA:TS-0012 BTO:0000443" "Any process that stops, prevents or reduces the frequency, rate or extent of vasculogenesis." "A microtubule-based process that results in the transport of organelles, other microtubules, or other cellular components. Examples include motor-driven movement along microtubules and movement driven by polymerization or depolymerization of microtubules." "Regular cardiac myocyte of a cardiac atrium." "FMA:83108" "Circulating fluid that is part of the hemolymphoid system. Blood, lymph, interstitial fluid or its analogs." "CARO:0000081" "A luminal epithelial cell of the mammary gland that can proliferate and has the potential to differentiate into a lactocyte during pregnancy. In humans, a luminal adaptive secretory precursor cell can be identified by high levels of the markers EpCAM and CD49f, and in mice it can be identified by low levels of CD29 and high levels of CD14, Kit, CD61, and Tspan8." "An endothelium that is part of a peritubular capillary." - "An undifferentiated cell produced by early cleavages of the fertilized egg (zygote)." "FMA:72551 BTO:0001473" + "An undifferentiated cell produced by early cleavages of the fertilized egg (zygote)." "ZFA:0009177 FMA:72551 BTO:0001473" "An insect renal cell that filters hemolymph and is found with other pericardial nephrocytes in two rows flanking the dorsal vessel." "FBbt:00005058" "The embryonic structure that gives rise to the corneal ectoderm." "VHOG:0001296 EHDAA:938 EMAPA:16322 RETIRED_EHDAA2:0001308" "Any process that activates or increases the frequency, rate or extent of the migration of the endothelial cells of blood vessels." @@ -14173,7 +14202,7 @@ "A lymphocyte that has gotten larger after being stimulated by an antigen." "BTO:0000772 EFO:0000572 FMA:83030" "The progression of the mesonephric proximal tubule over time, from its formation to the mature structure. The mesonephric proximal tubule extends from the capsule to the distal tubule." "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of ecdysteroids." - "A cell specialized to detect chemical substances and relay that information centrally in the nervous system. Chemoreceptors may monitor external stimuli, as in taste and olfaction, or internal stimuli, such as the concentrations of oxygen and carbon dioxide in the blood." + "A cell specialized to detect chemical substances and relay that information centrally in the nervous system. Chemoreceptors may monitor external stimuli, as in taste and olfaction, or internal stimuli, such as the concentrations of oxygen and carbon dioxide in the blood." "ZFA:0009124" "Any process in which the Golgi is maintained in a specific location within a cell and prevented from moving elsewhere." "Any process that stops, prevents or reduces the frequency, rate or extent of type B pancreatic cell proliferation." "The process in which a relatively unspecialized cell acquires the specialized features of an iridophore. Iridophores are pigment cells derived from the neural crest. They contain guanidine or other purine crystals deposited in stacks called reflecting platets or iridisomes. This gives them a silver, gold, or iridescent appearance." @@ -14190,10 +14219,10 @@ "A double negative thymocyte that has a T cell receptor consisting of a gamma chain containing a Vgamma2 segment, and a delta chain. This cell type is CD4-negative, CD8-negative and CD24-positive and is found in the fetal thymus." "A stomal cell of the ovary" "FMA:72299" "Any process that modulates the frequency, rate or extent of cellular component biogenesis, a process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a cellular component." + "Any kidney capillary endothelial cell that is part of some glomerular capillary endothelium." "KUPO:0001037" "Any process that activates or increases the frequency, rate, or extent of antigen processing and presentation of antigen (peptide or polysaccharide) via MHC class II." "A renal pelvis that is part of a right ureter." "FMA:15578 SCTID:243419002" "A mesentery that is part of a midgut [Automatically generated definition]." "EMAPA:16721 VHOG:0000413 EHDAA2:0001202 EHDAA:3031 EMAPA:17197 EMAPA:17039" - "Ventral mesentery is the part of the peritoneum closest to the navel." "EHDAA2:0004569 Wikipedia:Ventral_mesentery SCTID:361430000" "One of the veins of the lower leg; empty into the popliteal vein." "UMLS:C0447138 MA:0002243 EMAPA:37199 NCIT:C33787" "Modulation of synaptic transmittion by cell-cell signaling across the synaptic cleft from postsynapse to presynapse, mediated by a neuropeptide." @@ -14230,13 +14259,11 @@ "Any process that stops, prevents or reduces the frequency, rate or extent of cell junction assembly." "Any process that modulates the frequency, rate or extent of glucocorticoid receptor signaling pathway." "A surface shape quality inhering in a bearer by virtue of the bearer's shape of features present on its surface or outer shell." - "Any melanocyte of skin that is part of a skin of prepuce of penis." "The layer of endometrial epithelium adjacent to the myometrium." "FMA:86493 NCIT:C32642" "The chemical reactions and pathways resulting in the breakdown of a protein at a presynapse." "Cranial neural crest that migrates into the mandibular arch." "ZFA:0007064 XAO:0000024 TAO:0007064" "Any process that activates or increases the frequency, rate or extent of the activity of any intracellular steroid hormone receptor signaling pathway." "An epithelial cell that is part of the gallbladder." "FMA:67780" - "BTO:0000783" "Any of the immature or mature forms of a granular leukocyte with a nucleus that usually has two lobes connected by one or more slender threads of chromatin, and cytoplasm containing coarse, round granules that are uniform in size and which can be stained by the dye eosin. Eosinophils are CD9-positive, CD191-positive, and CD193-positive." "CALOHA:TS-0279 FMA:62861 BTO:0000399 MESH:D004804" "Sum of all sensory systems in an organism." "FMA:78499" "Any process that activates or increases the frequency, rate or extent of the directed movement of iron ions from one side of a membrane to the other by means of some agent such as a transporter or pore." @@ -14252,6 +14279,7 @@ "Any process that activates, maintains or increases the frequency, rate or extent of microglia differentiation, the process in which a relatively unspecialized cell acquires specialized features of a microglial cell." "The process in which a relatively unspecialized cell acquires the specialized features of a Meynert cell." "The specification of the anterior/posterior axis of the embryo by gradients of maternally-transcribed gene products; exemplified in insects by the morphogens, bicoid and nanos." + "Any process that modulates the frequency, rate or extent of RNA polymerase II regulatory region sequence-specific DNA binding." "Any process that modulates the frequency, rate or extent of embryonic pattern specification." "A killer cell lectin-like receptor subfamily B member 1 that is encoded in the genome of human." "UniProtKB:Q12918 Reactome:R-HSA-2132225" "NLXANAT:20090508" @@ -14300,7 +14328,6 @@ "A slow muscle cell that contains high levels of myoglobin and oxygen storing proteins giving the cell a red appearance." "FMA:84448" "The orderly movement of a distal tip cell." "Any process that modulates the frequency or rate of heart contraction." - "The directed movement of L-glutamate across a membrane." "The process whose specific outcome is the progression of the ventral cochlear nucleus over time, from its formation to the mature structure." "The portion of the colon between the left colic flexure and the sigmoid colon at the pelvic brim; the portion of the descending colon lying in the left iliac fossa is sometimes called the iliac colon." "EFO:0000845 UMLS:C0227389 MAT:0000313 BTO:0000641 Wikipedia:Descending_colon FMA:14547 galen:DescendingColon CALOHA:TS-2010 SCTID:362165006 MA:0001542 MIAA:0000313 NCIT:C12268 EMAPA:35285" "NLXANAT:20090505" @@ -14314,12 +14341,12 @@ "The main division of the lateral geniculate body; consists of two magnocellular layers [TA] (strata magnocellularia [TA]) and four parvocellular layers [TA] (strata parvocellularia [TA]) and serves as a processing station in the major pathway from the retina to the cerebral cortex, receiving fibers from the optic tract and giving rise to the geniculocalcarine radiation to the visual cortex in the occipital lobe." "MBA:170 UMLS:C0175292 BAMS:LGd MA:0002775 neuronames:353 BM:GLd DHBA:10430 BIRNLEX:1595 PBA:128013074 FMA:62214 HBA:4440 DMBA:16436 BAMS:DLG EMAPA:35290" "Combining with an extracellular or intracellular signal and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity or state as part of signal transduction." "Reactome:R-HSA-193672" "Any process that activates or increases the frequency, rate or extent of astrocyte chemotaxis." - "Epithelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues, with tube shape and organization varying from the single-celled excretory organ in Caenorhabditis elegans to the branching trees of the mammalian kidney and insect tracheal system." "EHDAA2:0003114 AEO:0000114" + "Epithelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues, with tube shape and organization varying from the single-celled excretory organ in Caenorhabditis elegans to the branching trees of the mammalian kidney and insect tracheal system." "EHDAA2:0003114 AEO:0000114 FBbt:00007474" "A protein c-Fos that is encoded in the genome of mouse." "UniProtKB:P01101" "Connective tissue that is dominated by collagen fibres organized into a definitive pattern (e.g., parallel to one another), with comparatively fewer cells (mostly fibroblasts)." "FMA:64781 XAO:0004030 Wikipedia:Dense_regular_connective_tissue VSAO:0000050 UMLS:C0225333 SCTID:22560007 NCIT:C33453" "The process of providing, via surface-bound receptor-ligand pairs, a second, antigen-independent, signal in addition to that provided by the B cell receptor to augment B cell activation." - "A photoreceptor cell that is sensitive to red light." - "A pigment cell derived from the neural crest. The cell contains flat light-reflecting platelets, probably of guanine, in stacks called reflecting platelets or iridisomes. The color-generating components produce a silver, gold, or iridescent color." + "A photoreceptor cell that is sensitive to red light." "ZFA:0009224" + "A pigment cell derived from the neural crest. The cell contains flat light-reflecting platelets, probably of guanine, in stacks called reflecting platelets or iridisomes. The color-generating components produce a silver, gold, or iridescent color." "ZFA:0009199" "SCTID:362606005 FMA:12237 BIRNLEX:1019" "A plasmablast that secretes IgM." "The formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane. Syncytia are normally derived from single cells that fuse or fail to complete cell division." @@ -14355,6 +14382,7 @@ "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the nuclear envelope." "Any microtubule in a dendrite, a neuron projection." "NIF_Subcellular:sao110773650" "The process whose specific outcome is the progression of the camera-type eye over time, from its formation to the mature structure. The camera-type eye is an organ of sight that receives light through an aperture and focuses it through a lens, projecting it on a photoreceptor field." + "Enables the transfer of a proton from one side of a membrane to the other." "Reactome:R-HSA-168313 Reactome:R-HSA-74723 Reactome:R-HSA-917841 Reactome:R-HSA-1222516 Reactome:R-HSA-170026 Reactome:R-HSA-164834" "Binding to a vascular endothelial growth factor receptor." "The process in which an organism retains a population of mesenchymal stem cells that contributes to the shaping of a nephron. A mesenchymal stem cell is a cell that retains the ability to divide and proliferate throughout life to provide progenitor cells that can differentiate into specialized mesenchymal cells." "A cell that is capable of detection of a stimulus involved in sensory perception." "MESH:D011984" @@ -14371,6 +14399,7 @@ "Any process that stops, prevents or reduces the frequency, rate or extent of a protein localization." "The process that gives rise to the trigeminal nerve. This process pertains to the initial formation of a structure from unspecified parts. The trigeminal nerve is composed of three large branches. They are the ophthalmic (V1, sensory), maxillary (V2, sensory) and mandibular (V3, motor and sensory) branches. The sensory ophthalmic branch travels through the superior orbital fissure and passes through the orbit to reach the skin of the forehead and top of the head. The maxillary nerve contains sensory branches that reach the pterygopalatine fossa via the inferior orbital fissure (face, cheek and upper teeth) and pterygopalatine canal (soft and hard palate, nasal cavity and pharynx). The motor part of the mandibular branch is distributed to the muscles of mastication, the mylohyoid muscle and the anterior belly of the digastric. The mandibular nerve also innervates the tensor veli palatini and tensor tympani muscles. The sensory part of the mandibular nerve is composed of branches that carry general sensory information from the mucous membranes of the mouth and cheek, anterior two-thirds of the tongue, lower teeth, skin of the lower jaw, side of the head and scalp and meninges of the anterior and middle cranial fossae." "A neuroendocrine cell that is part of the prostate epithelium." + "Any endothelial cell that is part of some kidney arcuate artery." "KUPO:0001079" "The process in which a relatively unspecialized cell acquires specialized features of a hepatoblast. A hepatoblast is a cell that retains the ability to divide and proliferate throughout life to provide progenitor cells that can differentiate into hepatocytes and cholangiocytes." "A cone cell that detects medium wavelength light. Exact peak of spectra detected differs between species. In humans, spectra peaks at 534-545 nm." "A process in which force is generated within phasic smooth muscle tissue, resulting in a change in muscle geometry. Force generation involves a chemo-mechanical energy conversion step that is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis. In the phasic smooth muscle, the muscle contraction occurs without an ordered sarcomeric structure. Phasic smooth muscle contraction occurs in a series of discrete contractions and relaxations." @@ -14400,7 +14429,7 @@ "The distal tubule is a nephron tubule that consists of the distal convoluted tubule and distal straight tubule segments." "CALOHA:TS-0504 MA:0002633 MESH:D007686 EMAPA:28387 BTO:0000482" "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving DNA." "A protein complex composed of two identical immunoglobulin heavy chains of an IgG isotype and two identical immunoglobulin light chains, held together by disulfide bonds, and present in the extracellular space, in mucosal areas or other tissues, or circulating in the blood or lymph." - "Portion of the middle of the three primary germ layers of the embryo that resides on the periphery of the embryo, is continuous with the extra-embryonic mesoderm, splits into two layers enclosing the intra-embryonic coelom, and gives rise to body wall structures[MP]." "VHOG:0000118 UMLS:C1517749 EHDAA2:0000919 AAO:0010574 ZFA:0000121 SCTID:361477005 FMA:293149 EHDAA:379 XAO:0000311 TAO:0000121 NCIT:C34199 EMAPA:16179 Wikipedia:Lateral_plate_mesoderm" + "Portion of the middle of the three primary germ layers of the embryo that resides on the periphery of the embryo, is continuous with the extra-embryonic mesoderm, splits into two layers enclosing the intra-embryonic coelom, and gives rise to body wall structures[MP]." "VHOG:0000118 UMLS:C1517749 EHDAA2:0000919 AAO:0010574 ZFA:0000121 SCTID:361477005 FMA:293149 EHDAA:379 XAO:0000311 TAO:0000121 EMAPA:16179 NCIT:C34199 Wikipedia:Lateral_plate_mesoderm" "A zone of skin that is part of a craniocervical region." "NCIT:C12294 UMLS:C1522650 MA:0000574 EMAPA:37276" "An artery that supplies oxygenated blood to the ear." "NCIT:C52849 UMLS:C1706858 EMAPA:37072 MA:0001918" "A femur bone or its cartilage or pre-cartilage precursor." @@ -14410,8 +14439,8 @@ "A portion of the tympanic cavity epithelium which makes up the outer (cuticular) layer of the tympanic membrane." "FMA:56844 SCTID:36411006" "A taste bud that is located on a lip." "The process in which the anatomical structures of the salivary gland are generated and organized." - "The peripheral receptor for pain. Includes receptors which are sensitive to painful mechanical stimuli, extreme heat or cold, and chemical stimuli. All mammalian nociceptors are free nerve endings." - "A joint that connects the forelimb zeugopod and stylopod skeletons[Obol]." "EMAPA:19102 MESH:D004551 GAID:253 VHOG:0000997 UMLS:C0013770 galen:ElbowJoint SCTID:182169008 NCIT:C32497 FMA:35289 Wikipedia:Elbow MA:0000451" + "The peripheral receptor for pain. Includes receptors which are sensitive to painful mechanical stimuli, extreme heat or cold, and chemical stimuli. All mammalian nociceptors are free nerve endings." "ZFA:0009119" + "A joint that connects the forelimb zeugopod and stylopod skeletons[Obol]." "MA:0000451 EMAPA:19102 MESH:D004551 GAID:253 VHOG:0000997 UMLS:C0013770 galen:ElbowJoint SCTID:182169008 NCIT:C32497 FMA:35289 Wikipedia:Elbow" "A mucosa that is part of a gallbladder [Automatically generated definition]." "SCTID:362196002 FMA:14662" "The enlarged, fluid filled nucleus of a primary oocyte, the development of which is suspended in prophase I of the first meiotic division between embryohood and sexual maturity." "A vein that is part of a ureter [Automatically generated definition]." "EMAPA:37679 MA:0002250" @@ -14424,7 +14453,6 @@ "A protein complex composed of two identical immunoglobulin heavy chains of the IgM isotype and two identical immunoglobulin light chains, held together by disulfide bonds, and in its circulating form complexed with J chain in polymeric forms. An IgM immunoglobulin complex may be embedded in the plasma membrane or present in the extracellular space, in mucosal areas or other tissues, or circulating in the blood or lymph." "Any process that mediates interactions between a cell and its surroundings that contributes to the process of cardiac conduction. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." "A cellular potency that is the capacity to form multiple differentiated cell types of a specific lineage and lack self renewing capacity." - "The chemical reactions and pathways resulting in the breakdown of aromatic compounds, any substance containing an aromatic carbon ring." "An unconventional T lymphocyte population within the thymic medulla that is potentially a thymic resident population." "Any process that stops, prevents or reduces the frequency, rate or extent of cilium-dependent cell motility." "The biological process whose specific outcome is the progression of a bronchus from an initial condition to its mature state. This process begins with the formation of the bronchus and ends with the mature structure. The bronchus is the portion of the airway that connects to the lungs." @@ -14432,7 +14460,7 @@ "The part of the cardiovascular system consisting of all venous vessels. In vertebrates with a double circulation, this can be divided into systemic and pulmonary portions." "VHOG:0000277 UMLS:C1267406 EHDAA:486 NCIT:C33858 MA:0002720 EHDAA2:0002171 BTO:0004692 EMAPA:16240 SCTID:362060003" "Skeletal subdivision that undergoes indirect development and includes elements that develop as a replacement or substitution of other elements or tissues." "Wikipedia:Endoskeleton VSAO:0000037 XAO:0004026" "The atrial part of middle layer of the heart, comprised of involuntary muscle." "MA:0000081 ZFA:0001374 EMAPA:32746 EFO:0003087 VHOG:0000602 TAO:0001374 FMA:83509 SCTID:191910002" - "An epithelial cell of the hypodermis of Caenorhabditis." "WBbt:0007846" + "An epithelial cell of the hypodermis of Caenorhabditis." "ZFA:0009196 WBbt:0007846" "A portion of smooth muscle tissue that is part of a neck of urinary bladder [Automatically generated definition]." "MA:0001699 EMAPA:30123 FMA:67990" "A structure created during embryogenesis when the lateral mesoderm splits into two layers - the outer (or somatic) layer becomes applied to the inner surface of the ectoderm, and with it forms the somatopleure.[WP]." "Wikipedia:Somatopleure VHOG:0000557 UMLS:C1519423 NCIT:C34301 FMA:295566 EHDAA2:0001847 EMAPA:16180 EHDAA:381" "NCIT:C12749 FMA:82500 MESH:D008566 FMA:30322" @@ -14451,11 +14479,10 @@ "A mesenchyme that is part of a chorion." "EMAPA:16266 RETIRED_EHDAA2:0000247 EHDAA2:0003245 EMAPA:16114 VHOG:0000620 EHDAA:154" "BAMS:AHR BIRNLEX:1005 FMA:62027 neuronames:2381 MESH:D007032 DHBA:266441551 HBA:4570 neuronames:376 UMLS:C0020653 HBA:12902" "A calcareous tooth that is part of the upper jaw region. In mammals, the upper jaw teeth are attached to the maxilla." "NCIT:C49792 SCTID:422279005 EHDAA:8045 UMLS:C1710581 MA:0001909 EMAPA:17938" - "An osteocytelike cell with numerous processes, trapped in a lacuna in the cement of the tooth." "FMA:63003" + "An osteocytelike cell with numerous processes, trapped in a lacuna in the cement of the tooth." "ZFA:0009087 FMA:63003" "The aggregation, arrangement and bonding together of a set of components to form a melanosome, a tissue-specific, membrane-bounded cytoplasmic organelle within which melanin pigments are synthesized and stored." "Any process that modulates the frequency, rate or extent of actin filament organization." "Any process that activates or increases the frequency, rate or extent of DNA catabolic process." - "KUPO:0001030" "The collection of muscles that are part of the larynx." "FMA:264611 FMA:46616 MESH:D007821 Wikipedia:Muscles_of_larynx" "The process where neuronal precursors migrate tangentially in the telencephalon, primarily guided by interactions that do not require cell-cell contact." "The process in which a monocyte acquires the specialized features of a dendritic cell, an immunocompetent cell of the lymphoid and hemopoietic systems and skin." "Wikipedia:Dendritic_cell" @@ -14475,7 +14502,6 @@ "The process in which an antigen-presenting cell expresses a peptide antigen of exogenous origin on its cell surface in association with an MHC class I protein complex. The peptide antigen is typically, but not always, processed from a whole protein. Class I here refers to classical class I molecules." "A pyramidal neuron with soma located in the cerebral cortex." "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a glucagon stimulus." - "KUPO:0001031" "The rhombencephalon (or hindbrain) is a developmental categorization of portions of the central nervous system in vertebrates. The rhombencephalon can be subdivided in a variable number of transversal swellings called rhombomeres. In the human embryo eight rhombomeres can be distinguished, from caudal to rostral: Rh7-Rh1 and the isthmus (the most rostral rhombomere). A rare disease of the rhombencephalon, 'rhombencephalosynapsis' is characterized by a missing vermis resulting in a fused cerebellum. Patients generally present with cerebellar ataxia. The caudal rhombencephalon has been generally considered as the initiation site for neural tube closure." "ZFA:0000569 FMA:295640 EHDAA2:0001630 EFO:0003440 TAO:0000569 BAMS:HB Wikipedia:Rhombencephalon CALOHA:TS-2118" "A process in which a protein is transported to, or maintained in, a location within a cytoplasmic microtubule." "A large pre-B-II cell is a pre-B-II cell that is proliferating and is Rag1-negative and Rag2-negative." @@ -14485,11 +14511,11 @@ "The process whose specific outcome is the progression of a glandular epithelial cell over time, from its formation to the mature structure. A glandular epithelial cell is a columnar/cuboidal epithelial cell is a cell found in a two dimensional sheet with a free surface exposed to the lumen of a gland." "The directed movement of an organelle to a specific location." "Any apoptotic process in a neuron, the basic cellular unit of nervous tissue. Each neuron consists of a body, an axon, and dendrites. Their purpose is to receive, conduct, and transmit impulses in the nervous system." - "The tubular intestinal glands found in the mucosal membranes of the small intestine." "UMLS:C0227267 MA:0001552 EMAPA:35777 NCIT:C33565 FMA:15693 SCTID:52688008" + "The tubular intestinal glands found in the mucosal membranes of the small intestine." "MA:0001552 EMAPA:35777 NCIT:C33565 FMA:15693 SCTID:52688008 UMLS:C0227267" "A paired box protein PAX-5 that is encoded in the genome of human." "Reactome:R-HSA-158583 UniProtKB:Q02548" "A plasmatocyte that derives from the larval lymph gland." "Any process that activates or increases the frequency, rate or extent of lipid localization." - "A layer of cells produced during the process of gastrulation during the early development of the animal embryo, which is distinct from other such layers of cells, as an early step of cell differentiation. The three types of germ layers are the endoderm, ectoderm, and mesoderm." "UMLS:C1708239 VHOG:0001223 Wikipedia:Germ_layer NCIT:C12950 GAID:1303 BTO:0000556 FMA:69069 UMLS:C0920502 XAO:0003011 MESH:D005855 AAO:0000480 EMAPA:36033 ZFA:0001122 TAO:0001122 NCIT:C54105 BILA:0000035" + "A layer of cells produced during the process of gastrulation during the early development of the animal embryo, which is distinct from other such layers of cells, as an early step of cell differentiation. The three types of germ layers are the endoderm, ectoderm, and mesoderm." "UMLS:C1708239 VHOG:0001223 Wikipedia:Germ_layer NCIT:C12950 GAID:1303 BTO:0000556 FMA:69069 UMLS:C0920502 FBbt:00000110 XAO:0003011 MESH:D005855 AAO:0000480 EMAPA:36033 ZFA:0001122 TAO:0001122 NCIT:C54105 BILA:0000035" "A membrane that is a (regional) part of the plasma membrane." "The process that modulates the frequency, rate or extent of cell proliferation in the dorsal spinal cord." @@ -14503,14 +14529,13 @@ "Any process that modulates the frequency, rate or extent of protein localization to synapse." "The shape change of an epithelial cell from a columnar to squamous cell morphology that contributes to the shaping of the Malpighian tubule." "Any basket cell that is part of a cerebellum." - "A cell that originates from the neural crest and differentiates into a pigment cell." "FMA:83377 BTO:0003217" + "A cell that originates from the neural crest and differentiates into a pigment cell." "ZFA:0009249 FMA:83377 BTO:0003217" "Any process that decreases the rate, frequency, or extent of the progression of the dermatome over time, from its initial formation to the mature structure. The dermatome is the portion of a somite that will form skin." "This is a cell found in the gastrointestinal tract of mammals and serves as a pacemaker that triggers gut contraction. ICCs mediate inputs from the enteric nervous system to smooth muscle cells and are thought to be the cells from which gastrointestinal stromal tumors (GISTs) arise." "BTO:0003914 FMA:86573" "A lymphocyte of B lineage that is devoted to secreting large amounts of immunoglobulin." "Nucleus located in the midbrain." "ZFA:0001665 SCTID:279285003 TAO:0002209" "An ectonucleotide pyrophosphatase/phosphodiesterase family member 3 that is encoded in the genome of human." "UniProtKB:O14638 Reactome:R-HSA-8939012" "The process whose specific outcome is the progression of the ectoderm over time, from its formation to the mature structure. In animal embryos, the ectoderm is the outer germ layer of the embryo, formed during gastrulation." - "KUPO:0001029" "A precursor of the central nervous system that gives rise to glial cells only." "FBbt:00005145" "The chemical reactions and pathways resulting in the breakdown of a protein at a postsynapse." @@ -14521,7 +14546,7 @@ "An organ or element that is part of the pelvic region. Examples: reproductive organs (in some organisms), urinary bladder, bones of the pelvis." "MA:0000543 EMAPA:37275" "A duct or series of ducts that transports sperm from the gonad. In mammals this is from the seminiferous tubules through rete testis, vas efferentia, epididymis, vas deferens, ejeculatory duct to the urethra." "TAO:0001268 FMA:55678 ZFA:0001268" "A sperm cell that is not cabaple of motion (motility)." - + "ZFA:0009010" "Any negative regulation of cell differentiation that is involved in stem cell population maintenance." "A circulating gamma-delta T cell that is CD27-positive and capable of producing IFN-gamma." "A cell with a single nucleus." @@ -14547,6 +14572,7 @@ "A protein that is encoded in the genome of some Eukaryota." "An enterocyte that is a part of a vermiform appendix." "The chemical reactions and pathways resulting in the formation of a protein in the cytoplasm. This is a ribosome-mediated process in which the information in messenger RNA (mRNA) is used to specify the sequence of amino acids in the protein." + "Any renal principal cell that is part of some cortical collecting duct." "KUPO:0001130" "Fusion of the membrane of a vesicle with the plasma membrane, thereby releasing its contents into the extracellular space." "A pro-B cell that is CD22-positive, CD34-positive, CD38-positive and TdT-positive (has TdT activity). Pre-BCR is expressed on the cell surface. Cell is CD19-negative, CD20-negative, complement receptor type 2-negative and CD10-low. D-to-J recombination of the heavy chain occurs at this stage." "Any process that modulates the frequency, rate or extent of cell proliferation that contributes to the shaping of the kidney." @@ -14582,7 +14608,7 @@ "A neuron that has its soma located in the mammillary body." "Any process that stops, prevents, or reduces the frequency, rate or extent of the assembly of actin filament bundles." "A complement receptor type 2 that is encoded in the genome of human." "UniProtKB:P20023" - "A neuroglial cell of the peripheral nervous system which forms the insulating myelin sheaths of peripheral axons." "FMA:62121 CALOHA:TS-0898" + "A neuroglial cell of the peripheral nervous system which forms the insulating myelin sheaths of peripheral axons." "ZFA:0009135 FMA:62121 CALOHA:TS-0898" "Any process that stops, prevents, or reduces the frequency, rate or extent of the controlled release of glutamate." "A peptide hormone secreting cell that secretes bombesin stimulating hormone." "The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones." "Wikipedia:Anabolism" @@ -14590,13 +14616,14 @@ "The chemical reactions and pathways resulting in the breakdown of organic acids, any acidic compound containing carbon in covalent linkage." "The multiplication or reproduction of myoblasts, resulting in the expansion of a myoblast cell population. A myoblast is a mononucleate cell type that, by fusion with other myoblasts, gives rise to the myotubes that eventually develop into skeletal muscle fibers." "A developmental process, independent of morphogenetic (shape) change, that is required for the hindbrain to attain its fully functional state. The hindbrain is the region consisting of the medulla, pons and cerebellum. Areas of the hindbrain control motor and autonomic functions." - "The output neuron of the cerebellar cortex." "BTO:0001011 CALOHA:TS-0845 FMA:67969" + "The output neuron of the cerebellar cortex." "ZFA:0009071 BTO:0001011 CALOHA:TS-0845 FMA:67969" "A longitudinal muscle layer of muscular coat that is part of a small intestine smooth muscle." "FMA:14936 EMAPA:37563 SCTID:59150006 MA:0001561" "A C-type lectin domain family 6 member A that is encoded in the genome of mouse." "UniProtKB:Q9JKF4" "A small, often microscopic, tissue element in the form of a small beam, strut or rod, generally having a mechanical function, and usually but not necessarily composed of dense collagenous tissue. On histological section, a trabecula can look like a septum, but in three dimensions they are topologically distinct, with trabeculae being roughly rod or pillar-shaped and septa being sheet-like. Trabeculae are usually composed of dense fibrous tissue, i.e. mainly of collagen, and in most cases provide mechanical strengthening or stiffening to a soft solid organ, such as the spleen. They can be composed of other materials, such as bone or muscle[WP]." "BTO:0002501 FMA:85273 Wikipedia:Trabecula" "Any apoptotic process in a glomerular visceral epithelial cell." "A supportive cell with a small, oval-shaped body and one to five telopodes. Telopodes are cytoplasmic protrusions from tens to hundreds of micrometers long and mostly below 0.2 microns of caliber." "Any nerve that innervates the clitoris." "EMAPA:35044" + "Any secretory cell that is capable of some glucocorticoid secretion." "ZFA:0009215" "Any process that stops, prevents or reduces the frequency, rate or extent of glial cell migration." "The long descending limb starts in the inner stripe of the outer medulla and extends into the inner medulla[GO]." "The developmental process pertaining to the initial formation of the mesonephros." @@ -14609,22 +14636,18 @@ "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of glycogen." "A renal vein that drains the right kidney." "NCIT:C52695 UMLS:C0508000 EMAPA:37381 FMA:14335 MA:0002212 SCTID:116357001" - "A perichondrial fibroblast that is part of the lung." - "KUPO:0001058" "Subdivision of skeleton that is the collection of all skeletal elements in a manus, which is the distal section of the anterior forelimb skeleton consisting of the mesopodium, the metapodium and the acropodium (e.g. including the wrist, palm, and fingers)[Phenoscape]." "EHDAA2:0002227 VSAO:0005020 EMAPA:32643 FMA:24159" "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving dopamine." "Any process that activates or increases the frequency, rate, or extent of neutrophil apoptotic process." "A thymocyte that has a T cell receptor consisting of a gamma chain that has as part a Vgamma3 segment, and a delta chain. This cell type is CD4-negative, CD8-negative and CD24-negative. This cell-type is found in the fetal thymus with highest numbers occurring at E17-E18." "Any apoptotic process in a dendritic cell, a cell of hematopoietic origin, typically resident in particular tissues, specialized in the uptake, processing, and transport of antigens to lymph nodes for the purpose of stimulating an immune response via T cell activation." - "The series of molecular signals in which a cell uses calcium ions released from an intracellular store to convert a signal into a response." "Any process that modulates the frequency, rate or extent of organelle assembly." "Any process that stops, prevents or reduces the frequency, rate or extent of flagellated sperm motility." "A complement component C1q receptor that is encoded in the genome of human." "UniProtKB:Q9NPY3" "The process in which the anatomical structures of the metanephric nephron are generated and organized. A metanephric nephron is the functional unit of the metanephros." - "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts."@en "The multiplication or reproduction of brown fat cells by cell division, resulting in the expansion of their population. A brown fat cell is a fat cell found the thermogenic form of adipose tissue found in newborns of many species." "Any lung endothelial cell that is part of a microvascular endothelium." "The controlled release of histamine by a cell, in which the histamine acts as a neurotransmitter." @@ -14635,22 +14658,22 @@ "A mucosa that is part of a sigmoid colon [Automatically generated definition]." "FMA:15026" "Either of the pair of major vessels which arise from the renal hilus and return blood from the kidneys, suprarenal gland and the ureter to the inferior vena cava." "EHDAA2:0001602 SCTID:116358006 EMAPA:28376 GAID:544 Wikipedia:Renal_vein EHDAA:8722 MESH:D012082 MA:0002210 NCIT:C33462 UMLS:C0035092 galen:RenalVein BTO:0002681 FMA:14334" "The process in which the wraps of cell membrane that constitute myelin are laid down around an axon by Schwann cells in the peripheral nervous system." - "A neuron which conveys sensory information centrally from the periphery." "FMA:87653" + "A neuron which conveys sensory information centrally from the periphery." "ZFA:0009238 FMA:87653" "A nucleate quality inhering in a bearer by virtue of the bearer's having one nucleus." "A chemokine receptor that is a translation product of the human CCR6 gene or a 1:1 ortholog thereof. The preferred ligand is CCL20." "IUPHARobj:63" "Any process that activates or increases the frequency, rate or extent of placenta blood vessel development." "A somatotropin hormone family member that is a translation product of the human PRL gene or a 1:1 ortholog thereof." "An endocrine cell found in the pyloric gland mucosa (antral mucosa) of the stomach of mammals and responsible for the secretion of gastrin and enkephalin. Most abundant in pyloric antrum, pyramidal in form with a narrow apex bearing long microvilli." "FMA:67609 BTO:0004108" + "Any process that modulates the frequency, rate or extent of cellular amino acid biosynthetic process." "The mesonephric nephron epithelium is a tissue that covers the surface of a nephron in the mesonephros[GO]." "A specialized eukaryotic organelle that consists of a filiform extrusion of the cell surface and of some cytoplasmic parts. Each cilium is largely bounded by an extrusion of the cytoplasmic (plasma) membrane, and contains a regular longitudinal array of microtubules, anchored to a basal body." "Wikipedia:Cilium FMA:67181 NIF_Subcellular:sao787716553" "A submucosa that is part of a intestine." "FMA:15696" "Cartilage tissue that is not mineralized." "XAO:0004044 VSAO:0000089" "Any process that modulates the frequency, rate or extent of a defense response." - "A cell capable of producting norepiniphrine. Norepiniphrine is a catecholamine with multiple roles including as a hormone and a neurotransmitter. In addition, epiniphrine is synthesized from norepiniphrine by the actions of the phenylethanolamine N-methyltransferase enzyme." + "A cell capable of producting norepiniphrine. Norepiniphrine is a catecholamine with multiple roles including as a hormone and a neurotransmitter. In addition, epiniphrine is synthesized from norepiniphrine by the actions of the phenylethanolamine N-methyltransferase enzyme." "ZFA:0009214" "Anatomical system that is involved in the production of hematopoietic cells." "MAT:0000022 EMAPA:35402 BTO:0000570 XAO:0000122 VHOG:0001624 NCIT:C12909 Wikipedia:Haematopoiesis MIAA:0000022 CALOHA:TS-0449 MA:0002434 FMA:9667 EFO:0000798 TAO:0005023 GAID:1008 MESH:D006413 ZFA:0005023 SCTID:362587009 UMLS:C0018957 EV:0100045 AAO:0011002" "A lymphocyte of B lineage that has gotten larger after being stimulated by an antigen." "FMA:83031 EFO:0005293" "A columnar cell of the colon that is part of the colonic epithelium." "FMA:263114" - "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time."@en "A proximal mesopodial endochondral element that is part of a forelimb." "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving any hormone." "FMA:15704" @@ -14668,7 +14691,7 @@ "The process in which the anatomical structure of the pericardium is generated and organized." "OBSOLETE, use term from Plant Ontology. A cell formed after asymmetric division of root epidermal cell that does not give rise to a root hair." "An adult endothelial progenitor cell characterised in vivo by homing to ischemic sites and paracrine support of angiogenesis. They may form discrete colonies." - "A cell type that encapsulates the capillaries and venules in the kidney. This cell secretes mesangial matrix that provides the structural support for the capillaries." "BTO:0000853 FMA:70972 MESH:D050527 CALOHA:TS-0617" + "A cell type that encapsulates the capillaries and venules in the kidney. This cell secretes mesangial matrix that provides the structural support for the capillaries." "ZFA:0009283 BTO:0000853 FMA:70972 MESH:D050527 CALOHA:TS-0617" "The change in morphology and behavior of a neutrophil resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." "Any process that modulates the frequency, rate or extent of dendritic cell dendrite assembly." "The differential increase in size or mass of the prostate gland that contributes to the gland attaining its form." @@ -14716,7 +14739,6 @@ "An endothelial cell that is part of a hepatic portal vein." "EFO:0010704" "A portion of smooth muscle tissue that is part of a stomach [Automatically generated definition]." "BTO:0001818 MA:0001627 EMAPA:35823" "A sst GABAergic cortical interneuron that also expresses Chodl. These neurons are rare and correspond to the only known cortical interneurons with long-range projection." - "The process in which neuroepithelial cells in the neural tube acquire specialized structural and/or functional features of ventral spinal cord interneurons. Ventral spinal cord interneurons are cells located in the ventral portion of the spinal cord that transmit signals between sensory and motor neurons and are required for reflexive responses. Differentiation includes the processes involved in commitment of a cell to a specific fate." "Any process that modulates the frequency, rate or extent of growth of an organ of an organism." "A follicular B cell that is IgD-positive, CD23-negative, and CD38-negative. This naive cell type is activated in the extrafollicular areas through interaction with interdigitating dendritic cells and antigen-specific CD4-positive T cells." @@ -14733,7 +14755,7 @@ "Any gland that is part os the respiratory system." "Combining with a glucocorticoid and transmitting the signal within the cell trigger a change in cell activity or function." "The process in which a naive natural killer cell acquires the specialized features of an effector natural killer T cell as part of an immune response." - "Anatomical junction where subdivisions of two or more neural trees interconnect with one another to form a network through which nerve fibers of the constituent nerve trees become regrouped; together with other nerve plexuses, nerves and ganglia, it constitutes the peripheral nervous system. Examples: cervical nerve plexus, brachial nerve plexus, sacral nerve plexus[FMA]." "EMAPA:37683 BTO:0000205 AEO:0000138 FMA:5901 EHDAA2:0003138 Wikipedia:Nervous_system_plexus MA:0002407 SCTID:122455009 NCIT:C12929 UMLS:C0501403 EHDAA:3780" + "Anatomical junction where subdivisions of two or more neural trees interconnect with one another to form a network through which nerve fibers of the constituent nerve trees become regrouped; together with other nerve plexuses, nerves and ganglia, it constitutes the peripheral nervous system. Examples: cervical nerve plexus, brachial nerve plexus, sacral nerve plexus[FMA]." "EMAPA:37683 BTO:0000205 AEO:0000138 FMA:5901 Wikipedia:Nervous_system_plexus EHDAA2:0003138 MA:0002407 SCTID:122455009 NCIT:C12929 UMLS:C0501403 EHDAA:3780" "Cranial neural crest which gives rise to the glossopharyngeal ganglion." "TAO:0007066 EHDAA:660 EHDAA2:0000714 ZFA:0007066" "Any process that modulates the frequency, rate or extent of smooth muscle cell proliferation." "Any process that stops, prevents, or reduces the frequency, rate, or extent of a humoral immune response." @@ -14753,12 +14775,12 @@ "a KNDy neuron that is located in the rostral periventricular region of the third ventricle." "Any process that activates or increases the frequency, rate or extent of the regulated release of corticotropin hormone from a cell." "Immune response taking place in the gut-associated lymphoid tissue (GALT). GALT includes Peyer's patches, appendix, and solitary lymph nodules." - "Anatomical structure that is part of an embryo." "XAO:0003042 CALOHA:TS-2110 SCTID:667009 NCIT:C13229 BILA:0000034 RETIRED_EHDAA2:0003169 BTO:0000174 UMLS:C0013948 MESH:D004628 TAO:0001105 AAO:0000138 EFO:0000461 GAID:407 FMA:69067 VSAO:0000178 ZFA:0001105" + "Anatomical structure that is part of an embryo." "XAO:0003042 CALOHA:TS-2110 SCTID:667009 NCIT:C13229 BILA:0000034 RETIRED_EHDAA2:0003169 BTO:0000174 UMLS:C0013948 MESH:D004628 TAO:0001105 FBbt:00004208 AAO:0000138 EFO:0000461 GAID:407 FMA:69067 VSAO:0000178 ZFA:0001105" "A bone that is part of a pelvic complex. Examples: pubis, ischium, fot phalanx, any tarsal bone, any bone of the pelvic fin or girdle." "EMAPA:35934 MA:0000660" "A collection of two or more connected limb segments. Examples: arm (comprising stylopod and zeugopod regions)." "A stromal cell of the ovarian medulla." "FMA:256171" "EMAPA:32721" - "A neuron which sends impulses peripherally to activate muscles or secretory cells." + "A neuron which sends impulses peripherally to activate muscles or secretory cells." "ZFA:0009239" "The third branchial arch contributes to the development of the hyoid bone, stylopharyngeus muscle, inferior parathyroid gland, and thymus." "VHOG:0000298 EMAPA:16399 EHDAA:1080 XAO:0000447 AAO:0010365 EHDAA2:0000069 FMA:293029 TAO:0001598 SCTID:308769006 ZFA:0001606" "An epithelium that is part of a thymus, forming a supporting framework[MP,modified]." "ZFA:0005779 EMAPA:35864 UMLS:C1711423 NCIT:C45713 VHOG:0001426 BTO:0001836 EHDAA2:0002019 MA:0000768 CALOHA:TS-1040" "The progression of the gallbladder over time, from its initial formation to the mature structure. The gallbladder is a cavitated organ that stores bile." @@ -14795,7 +14817,7 @@ "The nucleus of the female germ cell, a reproductive cell in females." "A nuclear factor NF-kappa-B p100 subunit that is encoded in the genome of human." "UniProtKB:Q00653 Reactome:R-HSA-2677931" "The process that gives rise to the cerebellar cortex. This process pertains to the initial formation of a structure from unspecified parts. The cerebellar cortex is a thin mantle of gray matter that covers the surface of each cerebral hemisphere. It has a characteristic morphology with convolutions (gyri) and crevices (sulci) that have specific functions. Six layers of nerve cells and the nerve pathways that connect them comprise the cerebellar cortex. Together, these regions are responsible for the processes of conscious thought, perception, emotion and memory as well as advanced motor function." - "Organ of metabolic interchange between fetus and mother, partly of embryonic origin and partly of maternal origin[GO]. The fetal portion of the placenta is known as the villous chorion. The maternal portion is known as the decidua basalis. The two portions are held together by anchoring villi that are anchored to the decidua basalis by the cytotrophoblastic shell." "Wikipedia:Placenta NCIT:C13272 MAT:0000279 VHOG:0001266 UMLS:C0032043 EV:0100119 MA:0000386 BTO:0001078 SCTID:181455002 MIAA:0000279 MESH:D010920 FMA:63934 GAID:379 CALOHA:TS-0799 EFO:0001407 EMAPA:35689" + "Organ of metabolic interchange between fetus and mother, partly of embryonic origin and partly of maternal origin[GO]. The fetal portion of the placenta is known as the villous chorion. The maternal portion is known as the decidua basalis. The two portions are held together by anchoring villi that are anchored to the decidua basalis by the cytotrophoblastic shell." "Wikipedia:Placenta NCIT:C13272 MAT:0000279 VHOG:0001266 UMLS:C0032043 EV:0100119 MA:0000386 SCTID:181455002 BTO:0001078 MIAA:0000279 MESH:D010920 FMA:63934 GAID:379 CALOHA:TS-0799 EFO:0001407 EMAPA:35689" "A syndecan-1 that is encoded in the genome of human." "UniProtKB:P18827" "EMAPA:16092 ZFA:0000417 TAO:0000417 EFO:0003438 EHDAA2:0000674 EHDAA:898 EMAPA:16755" "A naris that is located inside the nasal cavity and connects to the pharynx." "NCIT:C32856" @@ -14809,7 +14831,7 @@ "Any process that stops, prevents, or reduces the frequency, rate or extent of myeloid dendritic cell activation." "SCTID:277967008" "Any process that decreases the rate, frequency, or extent of prostatic bud formation, the morphogenetic process in which a region of the fetal urogenital sinus epithelium is specified to become the prostate, resulting in prostate bud outgrowth." - "Cardiac muscle cells are striated muscle cells that are responsible for heart contraction. In mammals, the contractile fiber resembles those of skeletal muscle but are only one third as large in diameter, are richer in sarcoplasm, and contain centrally located instead of peripheral nuclei." "MESH:D032383 BTO:0001539 CALOHA:TS-0115 FMA:14067" + "Cardiac muscle cells are striated muscle cells that are responsible for heart contraction. In mammals, the contractile fiber resembles those of skeletal muscle but are only one third as large in diameter, are richer in sarcoplasm, and contain centrally located instead of peripheral nuclei." "ZFA:0009316 MESH:D032383 BTO:0001539 CALOHA:TS-0115 FMA:14067" "A blood vessel that carries blood from the capillaries toward the heart." "FMA:86188 EMAPA:35932 MA:0000066" "The progression of the renal tubule over time from its formation to the mature form. A renal tubule is a tube that filters, re-absorbs and secretes substances to rid an organism of waste and to play a role in fluid homeostasis." "A recently activated CD4-positive, alpha-beta T cell with the phenotype HLA-DRA-positive, CD38-positive, CD69-positive, CD62L-negative, CD127-negative, and CD25-positive." @@ -14821,6 +14843,7 @@ "Any process that stops, prevents, or reduces the frequency, rate or extent of smooth muscle contraction." "Mesenchyme that is part of a pharyngeal arch 1." "EMAPA:16128" "Any process that activates or increases the frequency, rate or extent of otic vesicle morphogenesis." + "Any kidney cell that is part of some papillary duct." "KUPO:0001064" "A peptide hormone secreting cell that secretes gastrin stimulating hormone." "Characteristic early embryonic cell with a bottle or flask shape that is first to migrate inwards at the blastopore during gastrulation in amphibians." "A mucosa that is part of an ascending colon [Automatically generated definition]." "FMA:15005" @@ -14858,8 +14881,8 @@ "The process in which relatively unspecialized cells acquire specialized structural and/or functional features that characterize the glomerular mesangial cells of the kidney as it progresses from its formation to the mature state." "Any process that increases the rate, frequency or extent of the enlargement or overgrowth of all or part of the heart due to an increase in size (not length) of individual cardiac muscle fibers, without cell division." "Small blood vessel similar to a capillary but with a fenestrated endothelium. Sinusoids are found in the liver, lymphoid tissue, endocrine organs, and hematopoietic organs such as the bone marrow and the spleen. Sinusoids found within terminal villi of the placenta are not comparable to these; they possess a continuous endothelium and complete basal lamina[WP]." "ZFA:0005261 Wikipedia:Sinusoid_(blood_vessel) FMA:63131 SCTID:340163004 TAO:0005261" - "Notochordal cell that is part of the outer epithelium of the notochord and surrounds the vacuolated notochord cells." - "Chondrocyte that is terminally differentiated, produces type X collagen, is large in size, and often associated with the replacement of cartilage by bone (endochondral ossification)." + "Notochordal cell that is part of the outer epithelium of the notochord and surrounds the vacuolated notochord cells." "ZFA:0005744" + "Chondrocyte that is terminally differentiated, produces type X collagen, is large in size, and often associated with the replacement of cartilage by bone (endochondral ossification)." "ZFA:0009313" "A smooth muscle cell that is part of the ciliary body." "FMA:70610" "A renal principal cell located in the connecting tubule." "The movement of an immune cell in response to an external stimulus a part of an immune response." @@ -14882,7 +14905,7 @@ "A sphincter muscle that is part of the iris." "FMA:49157 MA:0001289 SCTID:280889004 Wikipedia:Iris_sphincter_muscle BTO:0000656 EMAPA:35788 UMLS:C0229189 NCIT:C33586" "Any process that stops, prevents or reduces the frequency, rate or extent of natural killer cell chemotaxis." "An enlarged chamber in the blood sinus capable of accumulating a large volume of blood." "ZFA:0007073" - "A cell that transports hormones from neurosecretory cells. This nerve cell is characterized by bipolar shape and endfeet that contact a basal lamina around blood vessels, and/or the pia mater or vitreous body of the eye and additionally contact the ventricular surface or sub-retinal space." "MESH:D063928" + "A cell that transports hormones from neurosecretory cells. This nerve cell is characterized by bipolar shape and endfeet that contact a basal lamina around blood vessels, and/or the pia mater or vitreous body of the eye and additionally contact the ventricular surface or sub-retinal space." "ZFA:0009294 MESH:D063928" "Any process that activates or increases the frequency, rate or extent of protein localization to chromatin." "Any process that activates or increases the frequency, rate or extent of protein kinase activity." "A CD8-positive, alpha-beta T cell with memory phenotype indicated by being CD45RO and CD127-positive. This cell type is also described as being CD25-negative, CD44-high, and CD122-high." @@ -14891,7 +14914,7 @@ "Any process that activates or increases the frequency, rate or extent of cell proliferation in dorsal spinal cord." "The duct that drains bile from the right half of the liver and joins the left hepatic duct to form the common hepatic duct." "EHDAA2:0001727 UMLS:C0227557 NCIT:C33476 MA:0001639 FMA:14669 VHOG:0000217 EMAPA:32797 SCTID:245401008 EHDAA:3992" "A flexibility which is relatively normal or average." - "A transient endocrine gland that develops from the postovulatory or atretic follicles and secretes progesterone; it is thought to be related to egg retention[PMID]." "FMA:18619 GAID:369 NCIT:C26465 MA:0002834 EMAPA:29886 UMLS:C0010092 MESH:D003338 BTO:0000292 Wikipedia:Corpus_luteum SCTID:257943001 CALOHA:TS-0181" + "A transient endocrine gland that develops from the postovulatory or atretic follicles and secretes progesterone; it is thought to be related to egg retention[PMID]." "FMA:18619 GAID:369 NCIT:C26465 MA:0002834 EMAPA:29886 MESH:D003338 UMLS:C0010092 BTO:0000292 Wikipedia:Corpus_luteum SCTID:257943001 CALOHA:TS-0181" "The change in morphology and behavior of a monocyte resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." "The process whose specific outcome is the progression of the early distal convoluted tubule over time, from its formation to the mature structure. The early distal convoluted tubule contains DCT cells and is vasopressin-insensitive." "The process in which a relatively unspecialized monocyte acquires the specialized features of an osteoclast. An osteoclast is a specialized phagocytic cell associated with the absorption and removal of the mineralized matrix of bone tissue." @@ -14905,7 +14928,7 @@ "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising actin filaments and their associated proteins in the presynaptic actin cytoskeleton." "GC_ID:1" "The surface (external) layer of ectoderm which begins to proliferate shortly after separation from the neuroectoderm." "EHDAA:350 EHDAA2:0001968 EHDAA:7860 EHDAA:4790 FMA:87656 EHDAA:1494 Wikipedia:External_ectoderm NCIT:C34309 EHDAA:4796 EHDAA:4784 UMLS:C1515087 EMAPA:16096" - "An organism subdivision that includes the pectoral girdle skeleton and associated soft tissue. Note that this includes both the skeletal elements and associated tissues (integument, muscle, etc). Examples: There are only two instances in an organism, right and left pectoral girdle regions." "galen:ShoulderGirdle FMA:23217 SCTID:229759004 EMAPA:37856 VSAO:0000305" + "An organism subdivision that includes the pectoral girdle skeleton and associated soft tissue. Note that this includes both the skeletal elements and associated tissues (integument, muscle, etc). Examples: There are only two instances in an organism, right and left pectoral girdle regions." "VSAO:0000305 galen:ShoulderGirdle FMA:23217 SCTID:229759004 EMAPA:37856" "A structural quality which is held by a bearer when the latter's disposition the presence of abnormally proliferating masses of cells." "An endothelial cell that lines the oral cavitiy including the mucosa of the gums, the palate, the lip, and the cheek." "The vessels formed within the sixth pair of branchial arches in embryogenesis." "AAO:0010422 EHDAA2:0000102 ZFA:0005016 SCTID:308779008 XAO:0000353 Wikipedia:Aortic_arches#Arch_6 TAO:0005016 VHOG:0000144 EMAPA:17005" @@ -14925,9 +14948,9 @@ "The processes by which anatomical structures that are only present in the male organism are generated and organized." "The process in which a trophoblast cell acquires specialized features of an epithelial cell of the placental labyrinthine layer." "Any process that mediates the transfer of information from a Purkinje myocyte to a ventricular cardiac muscle cell." - "A nerve trunk that is part of a vagus nerve." "EHDAA2:0002160 SCTID:280308004 EHDAA:4659 EMAPA:17272 FMA:6221 MA:0001150 VHOG:0000736" + "A nerve trunk that is part of a vagus nerve." "EHDAA2:0002160 SCTID:280308004 EHDAA:4659 FMA:6221 EMAPA:17272 MA:0001150 VHOG:0000736" "EMAPA:35958 MA:0003171" - "A CNS interneuron located in the spinal cord." + "A CNS interneuron located in the spinal cord." "ZFA:0000778" "The blood vessels that branch from the kidney interlobular artery, convey blood to the glomerular capillaries, and play an important role in the regulation of blood pressure as a part of the tubuloglomerular feedback mechanism." "EMAPA:28230 SCTID:67498004 TAO:0002139 FMA:77042 ZFA:0005307 MA:0002579 EMAPA:28266 Wikipedia:Afferent_arterioles" "Any developmental process that results in the creation of defined areas or spaces within an organism to which cells respond and eventually are instructed to differentiate." "A high affinity interleukin-8 receptor that is a translation product of the human CXCR1 gene or a 1:1 ortholog thereof." "IUPHARobj:68" @@ -14936,11 +14959,10 @@ "A neuronal acetylcholine receptor subunit alpha-7 that is encoded in the genome of mouse." "UniProtKB:P49582" "The lipid bilayer surrounding a lytic vacuole and separating its contents from the cytoplasm of the cell." "The connective tissue bundles in the extracellular matrix of bone tissue that are composed of collagen, and play a role in tissue strength and elasticity." - "KUPO:0001023" "GC_ID:1" "A follicle cell that migrates from the dorso-anterior part of the oocyte associated follicular epithelium, in between the nurse cells and the oocyte, and participates in the formation of the operculum." "FBbt:00004906" "A germinal center B cell that has the phenotype CD77-negative, IgD-negative, and CD38-positive. These cells have undergone somatic mutation of the B cell receptor." - "A pharyngeal pouch that is between pharyngeal arches 1 and 2." "FMA:295668 EMAPA:16124 TAO:0001128 AAO:0011114 UMLS:C0231068 VHOG:0000970 SCTID:345248006 VHOG:0000555 NCIT:C34176 EFO:0003631 EHDAA2:0000016 EMAPA:16125 XAO:0000102 Wikipedia:Pharyngeal_pouch_(embryology)#First_pouch ZFA:0001128" + "A pharyngeal pouch that is between pharyngeal arches 1 and 2." "FMA:295668 EMAPA:16124 TAO:0001128 AAO:0011114 UMLS:C0231068 SCTID:345248006 VHOG:0000970 VHOG:0000555 NCIT:C34176 EFO:0003631 EHDAA2:0000016 EMAPA:16125 XAO:0000102 Wikipedia:Pharyngeal_pouch_(embryology)#First_pouch ZFA:0001128" "A fully differentiated plasma cell that secretes IgG." "A stratified epithelium that surrounds the hair follicle that merges proximally with the basal layer of the interfollicular epidermis and distally with the hair bulb." "BTO:0003969 FMA:70943 MA:0000780 NCIT:C62490 SCTID:319224003 EMAPA:32793 Wikipedia:Outer_root_sheath" "The process whose specific outcome is the progression of the posterior lateral line over time, from its formation to the mature structure. The posterior lateral line consists of small sensory patches (neuromasts) located superficially on the skin or just under the skin in fluid-filled canals on the body and trunk of all fishes and most amphibians. The posterior lateral line develops from cranial ectodermal placodes situated behind the ear." @@ -14960,7 +14982,7 @@ "Any fibroblast that is part of a embryo." "Any process that stops, prevents, or reduces the frequency, rate or extent of epithelial cell differentiation." "The region of a cell that lies just beneath the plasma membrane and often, but not always, contains a network of actin filaments and associated proteins." "Wikipedia:Cell_cortex" - "A vein that carries deoxygenated blood from a single male gonad. It is the male equivalent of the ovarian vein, and is the venous counterpart of the testicular artery. It is a paired vein, with one supplying each testis." "FMA:14344 EMAPA:18647 NCIT:C53050 SCTID:264496006 UMLS:C0226718 BTO:0002678 Wikipedia:Testicular_vein MA:0002218 MA:0002234" + "A vein that carries deoxygenated blood from a single male gonad. It is the male equivalent of the ovarian vein, and is the venous counterpart of the testicular artery. It is a paired vein, with one supplying each testis." "FMA:14344 NCIT:C53050 EMAPA:18647 SCTID:264496006 UMLS:C0226718 BTO:0002678 Wikipedia:Testicular_vein MA:0002218 MA:0002234" "Subdivision of the skeletal system which consists of the appendicular skeleton plus associated joints." "FMA:7484 VSAO:0000306" "Mucosa that is part of a colon. The mucosa of the colon is lined by a simple columnar epithelium with a thin brush border and numerous goblet cells." "BTO:0000271 FMA:85388 CALOHA:TS-0164 FMA:14984 MA:0003194 EFO:0003038 EMAPA:27375 SCTID:362157008" "Any process that modulates the frequency, rate, or extent of cytokine production that contributes to an immune response." @@ -14996,16 +15018,18 @@ "An adipose macrophage that does not express MHC-II but is F4/80-positive." "Any process that activates or increases the frequency, rate or extent of cell proliferation involved in mesonephros development." "The subclasses of motor neurons which are organized into longitudinally oriented columns that occupy distinct and, in some cases, discontinuous domains along the rostrocaudal axis of the spinal cord; motor neurons within a single column send their axons to a common peripheral target." + "The chemical reactions and pathways resulting in the breakdown of amino acids, organic acids containing one or more amino substituents." "Any process that modulates the frequency, rate or extent of lung goblet cell differentiation." "An elastic tissue that is part of a trachea [Automatically generated definition]." "MA:0001861" "GC_ID:1" - "An epithelial cell that is part of the bile duct. Cholangiocytes contribute to bile secretion via net release of bicarbonate and water. They are cuboidal epithelium in the small interlobular bile ducts, but become columnar and mucus secreting in larger bile ducts approaching the porta hepatis and the extrahepatic ducts." "FMA:86481" + "An epithelial cell that is part of the bile duct. Cholangiocytes contribute to bile secretion via net release of bicarbonate and water. They are cuboidal epithelium in the small interlobular bile ducts, but become columnar and mucus secreting in larger bile ducts approaching the porta hepatis and the extrahepatic ducts." "ZFA:0009397 FMA:86481" + "Any cell that is part of some extraembryonic structure." "ZFA:0009176" "Any process that increases the rate, frequency, or extent of brown fat cell differentiation. Brown fat cell differentiation is the process in which a relatively unspecialized cell acquires specialized features of a brown adipocyte, an animal connective tissue cell involved in adaptive thermogenesis. Brown adipocytes contain multiple small droplets of triglycerides and a high number of mitochondria." - "An elongated, contractile cell found wrapped about precapillary arterioles outside the basement membrane. Pericytes are present in capillaries where proper adventitia and muscle layer are missing (thus distingushing this cell type from adventitial cells). They are relatively undifferentiated and may become fibroblasts, macrophages, or smooth muscle cells." "FMA:63174 BTO:0002441" + "An elongated, contractile cell found wrapped about precapillary arterioles outside the basement membrane. Pericytes are present in capillaries where proper adventitia and muscle layer are missing (thus distingushing this cell type from adventitial cells). They are relatively undifferentiated and may become fibroblasts, macrophages, or smooth muscle cells." "ZFA:0009112 FMA:63174 BTO:0002441" "MA:0003174 EMAPA:35952" "The clusters of hormone-producing cells that are scattered throughout the pancreas." "GAID:324 XAO:0000159 EFO:0000856 MESH:D007515 NCIT:C12608 MAT:0000076 VHOG:0000646 AAO:0010406 Wikipedia:Islets_of_Langerhans BTO:0000991 FMA:16016 CALOHA:TS-0741 EV:0100130 UMLS:C0022131 EMAPA:32927 MIAA:0000076 MA:0000127" "The progression of a chondrocyte over time from after its commitment to its mature state where the chondrocyte will contribute to the shaping of an endochondral bone." - "Subcortical nucleus of telencephalic , which together with the caudate nucleus, forms the striatum. The putamen lies lateral to the internal capsule and medial to the external medullary lamina, and is separated from the caudate nucleus by the fibers of the internal capsule for most of its length, except at its anterior portion." "EV:0100187 UMLS:C0034169 Wikipedia:Putamen BM:Tel-Pu PBA:10086 DHBA:10338 CALOHA:TS-2041 NCIT:C12452 MA:0000895 VHOG:0001456 BIRNLEX:809 MESH:D011699 FMA:61834 neuronames:230 HBA:4287 DMBA:15857 BAMS:Pu BAMS:PU EMAPA:35719 GAID:671 SCTID:281512002" + "Subcortical nucleus of telencephalic , which together with the caudate nucleus, forms the striatum. The putamen lies lateral to the internal capsule and medial to the external medullary lamina, and is separated from the caudate nucleus by the fibers of the internal capsule for most of its length, except at its anterior portion." "EV:0100187 UMLS:C0034169 Wikipedia:Putamen BM:Tel-Pu PBA:10086 DHBA:10338 CALOHA:TS-2041 NCIT:C12452 VHOG:0001456 MA:0000895 BIRNLEX:809 MESH:D011699 FMA:61834 neuronames:230 HBA:4287 DMBA:15857 BAMS:Pu BAMS:PU EMAPA:35719 GAID:671 SCTID:281512002" "A mature CD4-positive, CD8-negative alpha-beta T cell found in the thymus that is CD24-low and has high expression of the T cell receptor." "A process in which a protein is transported to, or maintained in, a location within a secretory granule in a T cell." "Any process that stops, prevents or reduces the frequency, rate or extent of a small molecule metabolic process." @@ -15026,8 +15050,8 @@ "The creation of two or more organelles by division of one organelle." "The metanephric glomerular endothelium is an epithelial tissue that covers the internal surfaces of the glomerulus of the metanephros[GO]." "The appearance of interleukin-8 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." + "Any renal principal cell that is part of some inner medullary collecting duct." "KUPO:0001134" "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of collagen, any of a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals." - "A collagen-containing extracellular matrix consisting of a thin layer of dense material found in various animal tissues interposed between the cells and the adjacent connective tissue. It consists of the basal lamina plus an associated layer of reticulin fibers." "Wikipedia:Basement_membrane" "An fMet-Leu-Phe receptor that is encoded in the genome of mouse." "UniProtKB:P33766" "The chemical reactions and pathways by which a cell derives energy from organic compounds; results in the oxidation of the compounds from which energy is released." @@ -15041,13 +15065,12 @@ "The volume enclosed by the nuclear inner membrane." "An endothelium that is part of a umbilical vein." "CALOHA:TS-1081 BTO:0001416" "A zone of skin that is part of a skin of pes." "SCTID:181566006 FMA:37849" - "A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane." "FBbt:00007002 CALOHA:TS-2035 MESH:D002477 XAO:0003012 VHOG:0001533 GO:0005623 FMA:68646 WBbt:0004017 KUPO:0000002" + "A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane." "ZFA:0009000 FBbt:00007002 CALOHA:TS-2035 MESH:D002477 XAO:0003012 VHOG:0001533 GO:0005623 FMA:68646 WBbt:0004017 KUPO:0000002" "Any process that modulates the frequency, rate or extent of action potential creation, propagation or termination in a cardiac muscle cell of the bundle of His. This typically occurs via modulation of the activity or expression of voltage-gated ion channels." "The developmental process in which a hair placode forms. An hair follicle placode is a thickening of the ectoderm that will give rise to the hair follicle bud." "FMA:64804" - - "A male germ cell that develops from the haploid secondary spermatocytes. Without further division, spermatids undergo structural changes and give rise to spermatozoa." "FBbt:00004942 BTO:0001274 EMAPA:31486 FMA:72294 WBbt:0006800 CALOHA:TS-0950" + "A male germ cell that develops from the haploid secondary spermatocytes. Without further division, spermatids undergo structural changes and give rise to spermatozoa." "ZFA:0005769 FBbt:00004942 BTO:0001274 EMAPA:31486 FMA:72294 WBbt:0006800 CALOHA:TS-0950" "A neuron that expresses kisspeptin. These neurons are predominantly located in the hypothalamus, but also found in other parts of the brain including the hippocampal dentate gyrus." "Any process that stops, prevents or reduces the frequency, rate or extent of cardiac chamber formation." "A hematopoietic stem cell that has plasma membrane part Kit-positive, SCA-1-positive, CD150-positive and CD34-negative." @@ -15058,13 +15081,12 @@ "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of a protein into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." "Any germinal center B cell that is part of a tonsil." "Any skeletal muscle that is part of the head region." "MA:0000578 BTO:0000021 ZFA:0001652 EFO:0003524 EHDAA2:0000322 AAO:0000107 FMA:9616 EMAPA:18172 SCTID:244718003" - "A chemokine receptor that is a translation product of the human CCR7 gene or a 1:1 ortholog thereof. The preferred ligands are CCL19 and CCL21." "IUPHARobj:64" "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving glucocorticoids." "The process whose specific outcome is the progression of the peripheral nervous system over time, from its formation to the mature structure. The peripheral nervous system is one of the two major divisions of the nervous system. Nerves in the PNS connect the central nervous system (CNS) with sensory organs, other organs, muscles, blood vessels and glands." "Any process that modulates the frequency, rate or extent of programmed cell death that occurs in the retina." "The directed movement of a protein to a specific location." - "The mammalian blastocyst is a hollow ball of cells containing two cell types, the inner cell mass and the trophectoderm[GO]." "EMAPA:36035 EFO:0000295 MESH:D001755 Wikipedia:Blastocyst FMA:83041 CALOHA:TS-0076 NCIT:C13739 GAID:1153 BTO:0001099 UMLS:C1281743 SCTID:308837009 EV:0100394" + "The mammalian blastocyst is a hollow ball of cells containing two cell types, the inner cell mass and the trophectoderm[GO]." "EMAPA:36035 EFO:0000295 MESH:D001755 Wikipedia:Blastocyst FMA:83041 CALOHA:TS-0076 NCIT:C13739 GAID:1153 BTO:0001099 UMLS:C1281743 EV:0100394 SCTID:308837009" "A lineage marker-negative, CD34-positive, IL5r-alpha-positive, and Sca1-negative eosinophil progenitor cell." "Any process that modulates the rate, frequency or extent of mesonephros development. Mesonephros development is the process whose specific outcome is the progression of the mesonephros over time, from its formation to the mature structure. The mesonephros is an endocrine and metabolic organ that filters the blood and excretes the end products of body metabolism in the form of urine." "Any process that modulates the frequency, rate or extent of natural killer cell differentiation." @@ -15086,7 +15108,7 @@ "The collecting duct system of the kidney consists of a series of tubules and ducts that connect the nephrons to the ureter. It participates in electrolyte and fluid balance through reabsorption and excretion, processes regulated by the hormones aldosterone and antidiuretic hormone." "SCTID:279371005 FMA:265239 Wikipedia:Collecting_duct_system" "The process in which a relatively unspecialized cell acquires specialized features of a mechanoreceptor, a cell specialized to transduce mechanical stimuli and relay that information centrally in the nervous system." "The lipid bilayer surrounding a lamellar body. A lamellar body is a membrane-bounded organelle, specialized for the storage and secretion of various substances (surfactant phospholipids, glycoproteins and acid phosphates) which are arranged in the form of tightly packed, concentric, membrane sheets or lamellae. Has some similar properties to, but is distinct from, a lysosome." - "A portion of smooth muscle tissue that is part of a lymphatic vessel [Automatically generated definition]." "EMAPA:36313 NCIT:C49260 UMLS:C1708791 MA:0000751 FMA:262026" + "A portion of smooth muscle tissue that is part of a lymphatic vessel [Automatically generated definition]." "NCIT:C49260 EMAPA:36313 UMLS:C1708791 MA:0000751 FMA:262026" "A plasma membrane that is part of a sperm cell." "A vertebral foramen that is part of a cervical vertebra." "FMA:13480 SCTID:280833008" "The series of events in which a stimulus is received by a cell or organism and converted into a molecular signal." @@ -15110,11 +15132,10 @@ "The process that gives rise to the vestibulocochlear nerve. This process pertains to the initial formation of a structure from unspecified parts. This sensory nerve innervates the membranous labyrinth of the inner ear. The vestibular branch innervates the vestibular apparatus that senses head position changes relative to gravity. The auditory branch innervates the cochlear duct, which is connected to the three bony ossicles which transduce sound waves into fluid movement in the cochlea." "A cell of a filament of a fungal mycelium." "An integrin beta that is a translation product of the human ITGB7 gene or a 1:1 ortholog thereof." "IUPHARobj:2461" - "Connective tissue consisting of fat-storing cells and arranged in lobular groups or along minor blood vessels[MP,modified]." "Wikipedia:White_adipose_tissue CALOHA:TS-1119 EFO:0000813 UMLS:C1704223 MIAA:0000199 BTO:0001456 FMA:20117 MAT:0000199 NCIT:C33889 MA:0000058 EMAPA:35926" "A protein that is a translation product of the human SIGLEC1 gene or a 1:1 ortholog thereof." "A partion of white matter that is part of a telencephalon. This can be further subdivided in some species, for example, into hemisphere white matter and the corpus callosum." "FMA:83930 ZFA:0000597 TAO:0000597 BIRNLEX:1075 HBA:9230 HBA:9219" - "A cell specialized to detect and transduce light." "FMA:86740 CALOHA:TS-0868 BTO:0001060" + "A cell specialized to detect and transduce light." "ZFA:0009127 FBbt:00004211 FMA:86740 CALOHA:TS-0868 BTO:0001060" "Any process that modulates the frequency, rate or extent of mesenchymal to epithelial transition involved in mesonephros morphogenesis." "The process in which the renal system vasculature is generated and organized. Morphogenesis pertains to the creation of form." "The biological process whose specific outcome is the progression of a mesonephric mesenchyme from an initial condition to its mature state. This process begins with the formation of mesonephric mesenchyme and ends with the mature structure. Mesonephric mesenchyme is the tissue made up of loosely connected mesenchymal cells in the mesonephros." @@ -15127,7 +15148,7 @@ "The process aimed at the progression of a cardiac neural crest cell over time, from initial commitment of the cell to its specific fate, to the fully functional differentiated cell that contributes to the shaping of the outflow tract." "An epithelial cell of the proximal tubule of the kidney." "FMA:70973 KUPO:0001044" "A smooth muscle cell that is part of the prostate gland." "FMA:84583" - "A type of interneuron that has two neurites, usually an axon and a dendrite, extending from opposite poles of an ovoid cell body." "FMA:67282" + "A type of interneuron that has two neurites, usually an axon and a dendrite, extending from opposite poles of an ovoid cell body." "ZFA:0009055 FMA:67282" "An epidermal invagination that has as parts a hair follicle, a sebaceous gland, and arrector pili muscle." "FMA:70661 Wikipedia:Pilosebaceous_unit EMAPA:36582" "A bone that is part of a hindlimb stylopod [Automatically generated definition]." "MA:0000682 EMAPA:35893" "MA:0001151 FMA:18157 EMAPA:37798" @@ -15139,7 +15160,6 @@ "Any biological process, occurring at the level of a multicellular organism, pertinent to its function." "The process whose specific outcome is the progression of a cardiac ventricle over time, from its formation to the mature structure. A cardiac ventricle receives blood from a cardiac atrium and pumps it out of the heart." "A rapidly cycling mature B cell that has distinct phenotypic characteristics and is involved in T-dependent immune responses and located typically in the germinal centers of lymph nodes. This cell type expresses Ly77 after activation." - "Any process that modulates the frequency, rate or extent of the formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by the fusion of the plasma membranes of two or more individual cells." "A pre-cartilage condensation that has the potential to develop into a tarsal bone." "EHDAA2:0001978" "The developmental process, independent of morphogenetic (shape) change, that is required for an epithelial cell to attain its fully functional state. An epithelial cell is a cell usually found in a two-dimensional sheet with a free surface." @@ -15168,11 +15188,11 @@ "The directed movement of dopamine into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Dopamine is a catecholamine neurotransmitter and a metabolic precursor of noradrenaline and adrenaline." "Any process in which macromolecules aggregate, disaggregate, or are modified, resulting in the formation, disassembly, or alteration of a protein-DNA complex." "Any process that increases the frequency, rate, or extent of monocyte chemotaxis." - "An early neural cell developing from the early ependymal cell of the neural tube." "FMA:70564" + "An early neural cell developing from the early ependymal cell of the neural tube." "ZFA:0009169 FMA:70564" "The chemical reactions and pathways resulting in the formation of juvenile hormones, the three sesquiterpenoid derivatives that function to maintain the larval state of insects at molting and that may be required for other processes, e.g. oogenesis." "A telopode is a plasma membrane bounded cell projection that is present on a telocyte and is tens to hundreds of microns long. Telopodes form a labyrinthine system communicating through gap junctions." "Any process that activates or increases the frequency, rate or extent of ossification, the formation of bone or of a bony substance or the conversion of fibrous tissue or of cartilage into bone or a bony substance." - "A cell of a platelike structure, especially a thickened plate of ectoderm in the early embryo, from which a sense organ develops." + "A cell of a platelike structure, especially a thickened plate of ectoderm in the early embryo, from which a sense organ develops." "ZFA:0009012" "Any process that modulates the frequency, rate or extent of epithelial cell apoptotic process." "A complete three dimensional shape in which there is a line connecting pair of points on the object that lies outside the object. Or: a shape with cavities. Contrast: concave." "Image:http://en.wikipedia.org/wiki/Image:Convex_polygon_illustration2.png" "The process whose specific outcome is the progression of the skeletal myofibril over time, from its formation to the mature structure. A skeletal myofibril is a myofibril specific to skeletal muscle cells." @@ -15190,7 +15210,6 @@ "An epithelial cell that is part of some loop of Henle thin descending limb." "KUPO:0001054" "Renal artery that supplies the right kidney." "UMLS:C0226332 EMAPA:37380 SCTID:36800007 FMA:14752 MA:0002037 NCIT:C52740" "The process whose specific outcome is the progression of a striated muscle over time, from its formation to the mature structure. Striated muscle contain fibers that are divided by transverse bands into striations, and cardiac and skeletal muscle are types of striated muscle. Skeletal muscle myoblasts fuse to form myotubes and eventually multinucleated muscle fibers. The fusion of cardiac cells is very rare and can only form binucleate cells." - "KUPO:0001028" "A mesenchymal stem cell of the umbilical cord." "One of sublaminar layers S3 or S4." "CP:0001040" "The distal part of the loop of Henle that is impermeable to water and actively pumps sodium out of the filtrate to generate the hypertonic interstitium that drives countercurrent exchange; it consists of an initial very thin segment lined by simple squamous epithelium followed by a distal thick segment lined by simple cuboidal epithelium[MP]." "EMAPA:35510 NCIT:C32154 UMLS:C0227658 SCTID:245434005 Wikipedia:Ascending_limb_of_loop_of_Henle FMA:17717 MA:0001676" @@ -15217,13 +15236,13 @@ "A muscle organ that attaches_to a clavicle and attaches_to a occipital bone." "MA:0002276 NCIT:C52895 EMAPA:37688" "An epidermal cell that is part of the germinal matrix." "Any process that reduces or removes the toxicity of inorganic compounds. These include transport of such compounds away from sensitive areas and to compartments or complexes whose purpose is sequestration of inorganic compounds." + "Enables the facilitated diffusion of a hydrogen ion (by an energy-independent process) involving passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism." "Reactome:R-HSA-9729542 RHEA:34979" "The chemical reactions and pathways resulting in the formation of steroids, compounds with a 1,2,cyclopentanoperhydrophenanthrene nucleus; includes de novo formation and steroid interconversion by modification." "Wikipedia:Steroid_metabolisms#Steroid_biosynthesis" "An ON-bipolar neuron found in the retina and having connections with cone photoreceptors cells and neurons in the inner half of the inner plexiform layer. This cell has the widest dendritic field and the widest axon terminal of all retinal bipolar cells. The axon terminal is delicate and stratified through sublaminae 4 and 5 of the inner plexiform layer." "The regulated release of proinsulin from secretory granules (B granules) in the B cells of the pancreas; accompanied by cleavage of proinsulin to form mature insulin, in response to a glucose stimulus." "Any process that stops, prevents, or reduces the frequency, rate, or extent of type I interferon production. Type I interferons include the interferon-alpha, beta, delta, episilon, zeta, kappa, tau, and omega gene families." "FMA:15090" "An interconnected tubular multi-tissue structure that contains fluid that is actively transported around the heart." "FMA:73747 ZFA:0005811" - "KUPO:0001025" "The modification of peptidyl-tyrosine." "A submucosa that is part of a pylorus [Automatically generated definition]." "EMAPA:27201 FMA:17462" "A vein that carries deoxygenated blood from its corresponding ovary to inferior vena cava or one of its tributaries." "FMA:14346 SCTID:278193003 NCIT:C53058 EMAPA:18644 Wikipedia:Ovarian_vein UMLS:C0226720 MA:0002186" @@ -15233,7 +15252,6 @@ "An epithelium that is part of a foregut-midgut junction." "EHDAA2:0000573 EMAPA:16564" "A retinal ganglion cell C outer that has symmetrical and dense dendritic dendritic tree with a large dendritic field." "BAMS:1066" "Any process that activates or increases the frequency, rate or extent of the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." - "KUPO:0001026" "A subdivision of the skeleton that corresponds to the upper part of the mouth. The lower jaw skeleton includes the following elements, when present: upper jaw teeth, the maxilla and other lower jaw bones." "VHOG:0000429 EHDAA:8041 XAO:0003087 EHDAA2:0002128 MA:0001908 FMA:54397 AAO:0000622 EMAPA:17927" "A type II vestibular sensory cell that is part of the stato-acoustic epithelium." "FMA:263194" "The left branch of the atrioventricular bundle that separates at the bundle of His, descends the septal wall of the left ventricle and connects to the terminal Purkinje fiber[MP]." "galen:LeftBundleBranch EMAPA:37358 FMA:9487 SCTID:277690001" @@ -15249,7 +15267,7 @@ "Any skin fibroblast that is part of a upper leg skin." "Missing definition for term UBERON:0005321. Please replace it using linked reference." "FMA:10483" - "A receptor in the vascular system, particularly the aorta and carotid sinus, which is sensitive to stretch of the vessel walls." + "A receptor in the vascular system, particularly the aorta and carotid sinus, which is sensitive to stretch of the vessel walls." "ZFA:0009274" "Diffuse system of small concentrations of lymphoid tissue found in various sites of the body such as the gastrointestinal tract, thyroid, breast, lung, salivary glands, eye, and skin[WP]. Mucosal-associated lymphoid tissue is typically found as nodules associated with mucosal epithelia with distinct internal structures including B- and T-zones for the activation of lymphocytes[GO]." "NCIT:C12910 Wikipedia:Mucosa-associated_lymphoid_tissue FMA:62819 MA:0000140 UMLS:C0599921" "An epithelial cell located on the basal lamina of the olfactory epithelium." "FMA:62303" "Any process that activates or increases the frequency, rate or extent of the formation and development of teeth, the hard, bony appendages that are borne on the jaws, or on other bones in the walls of the mouth or pharynx of most vertebrates." @@ -15262,7 +15280,7 @@ "Any process that activates or increases the frequency, rate, or extent of B cell anergy." "MA:0002732 FMA:86488 EMAPA:35308" "Any process that activates or increases the frequency, rate, or extent of myeloid cell apoptotic process." - "An endothelial progenitor cell that participates in angiogenesis during development." + "An endothelial progenitor cell that participates in angiogenesis during development." "ZFA:0005773" "A tyrosine-protein kinase Mer that is encoded in the genome of human." "UniProtKB:Q12866 DTO:03100312" "One of two small cells formed by the first and second meiotic division of oocytes." "WBbt:0008429 EHDAA2:0004716 XAO:0000262 MESH:D059705 FMA:85543" "The biological process whose specific outcome is the progression of a left lung from an initial condition to its mature state. This process begins with the formation of the left lung and ends with the mature structure. The left lung is the lung which is on the left side of the anterior posterior axis looking from a dorsal to ventral aspect." @@ -15279,7 +15297,8 @@ "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a dopamine stimulus." "A fibroblast that is part of the connective tissue of nonglandular part of prostate." "FMA:261281" "A putamen that is part of a right cerebral hemisphere." "HBA:4289 FMA:72828" - "Epithelial cell derived from mesoderm or mesenchyme." "FMA:69076" + "Epithelial cell derived from mesoderm or mesenchyme." "ZFA:0009388 FMA:69076" + "Any vasa recta descending limb cell that is part of some inner medulla vasa recta descending limb." "KUPO:0001072" "A venule that is part of a lung and drains oxygenated blood from pulmonary capillaries. A pulmonary venule merges into a pulmonary vein branch that runs in the pulmonary interlobular septa." "A cell that is part of some vasa recta ascending limb." "KUPO:0001074" "Any process that activates or increases the frequency, rate or extent of steroid hormone secretion." @@ -15315,6 +15334,7 @@ "A gastrulation process in which the initial invagination becomes the anus and the mouth forms second." "An enterocyte that is part of the epithelium of intestinal villus." "FMA:263088" "A circular smooth muscle cell of the iris, innervated by the ciliary nerves (parasympathetic), and acting to contract the pupil. This muscle cell derives from neuroectoderm. This smooth muscle cell results from transformation of epithelial cells to smooth muscle cells." "FMA:70611" + "Any smooth muscle cell that is part of some muscular coat of ureter." "KUPO:0001118" "Anterosuperior fibrous portion of the left ventricle that connects to the ascending aorta." "FMA:9473 SCTID:264070001 Wikipedia:Aortic_vestibule EMAPA:37925" "The chemical reactions and pathways involving any of a group of physiologically important biogenic amines that possess a catechol (3,4-dihydroxyphenyl) nucleus and are derivatives of 3,4-dihydroxyphenylethylamine." "The collection of all skeletal elements in a pelvic complex - i.e. the combination of free limb or fin plus pelvic girdle." "FMA:24140" @@ -15323,7 +15343,7 @@ "The process in which a relatively unspecialized cell acquires the specialized features of a respiratory basal cell." "The progression of the septum transversum from its initial formation to the mature structure. The septum transversum is a portion of the trunk mesenchyme." "Any process that activates or increases the frequency, rate or extent of protein maturation." - "Any photoreceptor cell that is part of a compound eye." "FBbt:00004211" + "Any photoreceptor cell that is part of a compound eye." "FBbt:00006009" "A nucleus accumbens shell and olfactory tubercle D1 medium spiny neuron that co-expresses TAC3 and the DRD1 receptor." "A process which begins when a cell receives an internal or external signal and activates a series of biochemical events (signaling pathway). The process ends with the death of the cell." "Wikipedia:Programmed_cell_death" "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the nuclear inner or outer membrane." @@ -15386,25 +15406,24 @@ "A structure created during embryogenesis when the lateral mesoderm splits into two layers - the inner (or splanchnic) layer adheres to the endoderm, and with it forms the splanchnopleure[WP]." "EHDAA:383 EHDAA2:0001903 FMA:295564 Wikipedia:Splanchnopleure VHOG:0000558 NCIT:C34303 UMLS:C1519472 EMAPA:16181" "The process whose specific outcome is the progression of a blood vessel of the retina over time, from its formation to the mature structure." "Ophthalmic veins are veins which drain the eye. More specifically, they can refer to: Superior ophthalmic vein Inferior ophthalmic vein." "EHDAA2:0004113 XAO:0004169 EMAPA:19313 Wikipedia:Ophthalmic_veins" - "Anatomical group whose component anatomical structures lie in close proximity to each other." "VHOG:0001737" + "Anatomical group whose component anatomical structures lie in close proximity to each other." "FBbt:00007277 VHOG:0001737" "Organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton, and prokaryotic structures such as anammoxosomes and pirellulosomes. Excludes the plasma membrane." "Wikipedia:Organelle NIF_Subcellular:sao1539965131" "The process whose specific outcome is the progression of the dendrite over time, from its formation to the mature structure." "The process whose specific outcome is the progression of the proximal straight tubule over time, from its formation to the mature structure. The proximal straight tubule is the part of the descending limb that extends from the proximal convoluted tubule to the descending thin tubule." "An epidermal progenitor cell that arises from neuroectoderm and in turn gives rise to the epidermal sheath of ventral and cephalic regions." "FBbt:00004994" - "A cell of the monocyte, granulocyte, mast cell, megakaryocyte, or erythroid lineage." "MESH:D022423 CALOHA:TS-0647 BTO:0001441" + "A cell of the monocyte, granulocyte, mast cell, megakaryocyte, or erythroid lineage." "ZFA:0009324 MESH:D022423 CALOHA:TS-0647 BTO:0001441" "Chemosensitive cells that innervate the vomernasal organ epithelium and are responsible for receiving and transmitting pheromone signals." "Any process that activates or increases the frequency, rate or extent of parathyroid hormone secretion." "Any biological process involved in the maintenance of an internal steady state." "Any process that activates or increases the rate or extent of brown fat cell proliferation." "A T cell that is located in the anorectum." - "An efferent neuron that passes from the central nervous system or a ganglion toward or to a muscle and conducts an impulse that causes or inhibits movement." "FBbt:00005123 WBbt:0005409 FMA:83617 BTO:0000312" + "An efferent neuron that passes from the central nervous system or a ganglion toward or to a muscle and conducts an impulse that causes or inhibits movement." "ZFA:0009052 FBbt:00005123 WBbt:0005409 FMA:83617 BTO:0000312" "A polymeric supramolecular structure." "Any process that modulates the rate, frequency or extent of the progression of the cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a specific fate." "Any process that activates or increases the frequency, rate or extent of T cell activation." "Epithelial cell that is part of segment 1 (S1) of the proximal tubule epithelium." "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of amides." "The process whose specific outcome is the progression of a cranial skeletal system over time, from its formation to the mature structure. The cranial skeletal system is the skeletal subdivision of the head, and includes the skull (cranium plus mandible), pharyngeal and/or hyoid apparatus." - "The chemical reactions and pathways resulting in the formation of organic and inorganic nitrogenous compounds." "A macrophage which develops from an inflammatory monocyte and is recruited into the tissues in response to injury and infection as part of an inflammatory response. Markers include CD11b-positive, CD68-positive, and F4/80-positive." "FMA:84643 FMA:84645" "A group 3 innate lymphoid cell in the human with the phenotype IL-7Ralpha-positive, and NKp44-negative." "The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation." "Wikipedia:Metabolism" @@ -15412,8 +15431,9 @@ "Endocardium that is part of the cardiac ventricle." "MA:0000079 EMAPA:32747 SCTID:192172004 ZFA:0001615 FMA:12148 VHOG:0000607 TAO:0002247" "GC_ID:1" "An eosinophil peroxidase that is encoded in the genome of mouse." "UniProtKB:P49290" - "Aggregate brain region defined as those areas of cerebral cortex receiving direct synaptic input from the olfactory bulb (Price, 1973). It usually includes the piriform cortex and sometimes other areas." "MA:0000193 EHDAA:5482 VHOG:0000325 BAMS:OLF UMLS:C0162434 FMA:276600 HBA:265504406 BIRNLEX:2707 neuronames:2275 EHDAA2:0001289 BTO:0001446 MESH:D066194 Wikipedia:Olfactory_cortex EMAPA:17779" + "Aggregate brain region defined as those areas of cerebral cortex receiving direct synaptic input from the olfactory bulb (Price, 1973). It usually includes the piriform cortex and sometimes other areas." "MA:0000193 EHDAA:5482 VHOG:0000325 BAMS:OLF UMLS:C0162434 FMA:276600 BIRNLEX:2707 HBA:265504406 neuronames:2275 EHDAA2:0001289 BTO:0001446 MESH:D066194 Wikipedia:Olfactory_cortex EMAPA:17779" "The directed movement of neurotransmitters into neurons or glial cells. This process leads to inactivation and recycling of neurotransmitters." + "Any secretory cell that is capable of some insulin secretion." "ZFA:0009101 BTO:0000783" "The nasal glands are the seromucous glands in the respiratory region of the nasal mucous membrane. The three major types of nasal glands are anterior serous glands, seromucous glands, and Bowman glands." "NCIT:C22725 UMLS:C1522269 FMA:321518 SCTID:368881007 EMAPA:37871 Wikipedia:Nasal_glands" "Any process that increases the frequency, rate or extent of muscle contraction of the hindgut, the posterior part of the alimentary canal, including the rectum, and the large intestine." "Any process that modulates the frequency, rate, or extent of dendritic cell antigen processing and presentation." @@ -15434,6 +15454,7 @@ "A scavenger receptor cysteine-rich type 1 protein M130 that is encoded in the genome of human." "UniProtKB:Q86VB7" "Any fibroblast that is part of a gallbladder." "A T-helper cell that is characterized by secreting interleukin 9 and responding to helminth infections. This cell-type can derives from Th2 cells in the presence of TGF-beta and IL-4. Th2 cytokine production is surpressed." + "Any smooth muscle cell that is part of some bronchus." "BTO:0004402" "Cell-cell signaling from postsynapse to presynapse, across the synaptic cleft, mediated by a lipid ligand." "Artery that supplies the axilla." "FMA:22654 SCTID:181321001 galen:AxillaryArtery Wikipedia:Axillary_artery MA:0002573 UMLS:C0004455 GAID:473 NCIT:C32169 MESH:D001366 EMAPA:18749" "An epithelial cell that is part_of a umbilical artery." @@ -15449,6 +15470,7 @@ "A simple columnar cell that populates the entire luminal surface including the gastric pits. This cell types secrete mucus to form a thick protective, lubricant layer over the gastric wall." "FMA:62949" "CD4-positive, alpha-beta long-lived T cell with the phenotype CD45RO-positive and CD127-positive. This cell type is also described as being CD25-negative, CD44-high, and CD122-high." "Binding to heparin, a member of a group of glycosaminoglycans found mainly as an intracellular component of mast cells and which consist predominantly of alternating alpha-(1->4)-linked D-galactose and N-acetyl-D-glucosamine-6-sulfate residues." + "An area of cerebral cortex defined on the basis of cytoarchitecture that have six layers. Starting from the cortical surface the layers are: molecular layer (I), external granular layer (II), external pyramidal layer (III), internal granular layer (IV), internal pyramidal layer (V), and multiform layer (VI). Neocortex is most prominent in the frontal lobe, the parietal lobe, the temporal lobe and the occipital lobe, less so in the cingulate gyrus, the parahippocampal gyrus and the insula. It is composed of two subdivisions: true isocortex and proisocortex (Carpenter-83)(NN)." "FMA:62429 MESH:D019579 BAMS:NCX BIRNLEX:2547 MA:0002754 BTO:0000920 GAID:677 EMAPA:32842 MBA:315 BAMS:Iso-cortex UMLS:C0175173 BAMS:ISO Wikipedia:Neocortex PBA:294021746 EMAPA:35589 neuronames:757 EHDAA2:0004662 DHBA:10160" "The process whose specific outcome is the progression of an esophagus over time, from its formation to the mature structure." "The orderly movement of an anterior visceral endoderm cell from one site to another." @@ -15462,7 +15484,7 @@ "A developmental process, independent of morphogenetic (shape) change, that is required for a platelet to attain its fully functional state. A platelet is a non-nucleated disk-shaped cell formed by extrusion from megakaryocytes, found in the blood of all mammals, and mainly involved in blood coagulation." "The regulated release of serotonin by a mast cell or group of mast cells." - "A progenitor cell of the B cell lineage, with some lineage specific activity such as early stages of recombination of B cell receptor genes, but not yet fully committed to the B cell lineage until the expression of PAX5 occurs." "BTO:0003104" + "A progenitor cell of the B cell lineage, with some lineage specific activity such as early stages of recombination of B cell receptor genes, but not yet fully committed to the B cell lineage until the expression of PAX5 occurs." "ZFA:0009349 BTO:0003104" "A nerve that is part of a hindlimb stylopod [Automatically generated definition]." "EMAPA:37344 MA:0000685" "The process in which the larynx is generated and organized. The larynx is a continuation of the pharynx that is involved in breathing, sound production, and protecting the trachea against food aspiration." "FMA:65265 MA:0001175 EMAPA:37719" @@ -15507,12 +15529,11 @@ "The process in which a precursor cell type acquires the specialized features of an alpha-beta T cell. An alpha-beta T cell is a T cell that expresses an alpha-beta T cell receptor complex." "A tuft cell located in the small intestine." "Endochondral bone that is paired, forming the posterior part of the pelvis, articulating with the pubis and ilium." "NCIT:C32884 FMA:16592 SCTID:182025004 galen:Ischium Wikipedia:Ischium EMAPA:18727 GAID:208 UMLS:C0022122 MESH:D007512 AAO:0000860 VSAO:0005006 MA:0001337" - "KUPO:0001024" "Any process that activates or increases the frequency, rate or extent of neuromuscular junction development." "The multiplication or reproduction of subpallium cells in the forebrain, resulting in the expansion of a cell population." "A type of mesothelial fibroblast that is derived from the neural crest, is localized on blood vessels, and is a key component of the pia and arachnoid membranes surrounding the brain." "ILX:0770143" "The movement of a basophil in response to an external stimulus." - "A neuron of the vertebrate central nervous system that is small in size. This general class includes small neurons in the granular layer of the cerebellar cortex, cerebral cortex neurons that are not pyramidal cells and small neurons without axons found in the olfactory bulb." "BTO:0003393" + "A neuron of the vertebrate central nervous system that is small in size. This general class includes small neurons in the granular layer of the cerebellar cortex, cerebral cortex neurons that are not pyramidal cells and small neurons without axons found in the olfactory bulb." "ZFA:0009070 BTO:0003393" "An epithelium that is part of a right lung [Automatically generated definition]." "MA:0003132 EMAPA:17663" "Any process that activates or increases the frequency, rate, or extent of an antimicrobial humoral response." "A developmental process, independent of morphogenetic (shape) change, that is required for a cranial nerve to attain its fully functional state. The cranial nerves are composed of twelve pairs of nerves that emanate from the nervous tissue of the hindbrain. These nerves are sensory, motor, or mixed in nature, and provide the motor and general sensory innervation of the head, neck and viscera. They mediate vision, hearing, olfaction and taste and carry the parasympathetic innervation of the autonomic ganglia that control visceral functions." @@ -15527,9 +15548,9 @@ "A mucosa that is part of a lacrimal sac [Automatically generated definition]." "FMA:72061" "PMID:15522813 PMID:12082125 GC_ID:1 PMID:11214319" + "Any epithelial cell of proximal tubule that is part of some proximal convoluted tubule." "KUPO:0001045" "Any process involved in the maintenance of an internal steady state of calcium ions within an organism or cell." - "KUPO:0001021" - "Major subdivision of an organism that protrudes from the body[DOS, CARO]." "EFO:0000799 BTO:0001492 VSAO:0000075 EHDAA2:0003193 EMAPA:37283 UMLS:C0598782 NCIT:C61460 MESH:D005121 XAO:0000218 Wikipedia:Appendage EV:0100155 HAO:0000144 AEO:0000193 MIAA:0000023 BILA:0000018 MAT:0000023 CARO:0010003" + "Major subdivision of an organism that protrudes from the body[DOS, CARO]." "EFO:0000799 BTO:0001492 VSAO:0000075 FBbt:00007000 EHDAA2:0003193 EMAPA:37283 UMLS:C0598782 NCIT:C61460 MESH:D005121 XAO:0000218 Wikipedia:Appendage EV:0100155 HAO:0000144 AEO:0000193 MIAA:0000023 BILA:0000018 MAT:0000023 CARO:0010003" "Any process that activates or increases the frequency, rate or extent of differentiation of CD4-positive, CD25-positive, alpha-beta regulatory T cells as part of an immune response." "A mature T cell that differentiated and acquired cytotoxic function with the phenotype perforin-positive and granzyme-B positive." "CALOHA:TS-0190 BTO:0000289 FMA:70573" "Any muscle organ that is part of a shoulder [Automatically generated definition]." "MA:0000633 FMA:33531 EMAPA:36154" @@ -15537,7 +15558,7 @@ "Any microtubule cytoskeleton organization that is involved in mitosis." "Any process that modulates the occurrence or rate of T cell death by apoptotic process." "The process whose specific outcome is the progression of the axial mesoderm over time, from its formation to the mature structure. The axial mesoderm includes the prechordal mesoderm and the chordamesoderm. It gives rise to the prechordal plate and to the notochord." - "Material anatomical entity in a gaseous, liquid, semisolid or solid state; produced by anatomical structures or derived from inhaled and ingested substances that have been modified by anatomical structures as they pass through the body." "NCIT:C13236 HAO:0000004 XAO:0004001 AEO:0000004 TAO:0001487 BILA:0000004 ZFA:0001487 AAO:0010839 CALOHA:TS-2101 VHOG:0001726 TGMA:0001824 SPD:0000008 MA:0002450 CARO:0000004 galen:BodySubstance FMA:9669 EHDAA2:0003004 EMAPA:35178" + "Material anatomical entity in a gaseous, liquid, semisolid or solid state; produced by anatomical structures or derived from inhaled and ingested substances that have been modified by anatomical structures as they pass through the body." "NCIT:C13236 HAO:0000004 XAO:0004001 AEO:0000004 TAO:0001487 BILA:0000004 FBbt:00007019 ZFA:0001487 AAO:0010839 CALOHA:TS-2101 VHOG:0001726 TGMA:0001824 SPD:0000008 MA:0002450 CARO:0000004 galen:BodySubstance FMA:9669 EHDAA2:0003004 EMAPA:35178" "Any process that stops, prevents, or reduces the frequency, rate or extent of the formation of cellular spores derived from the products of meiosis." "Small cavity surrounding the bones of the middle ear." "SCTID:362551002 Wikipedia:Tympanic_cavity EMAPA:37778 EHDAA2:0004119 FMA:56461 BTO:0002098" "Orifice of the olfactory system. The naris is the route by which odorants enter the olfactory system[MAH]." "MA:0000282 galen:Naris SCTID:272650008 EHDAA2:0001225 EHDAA:9083 VHOG:0000663 EMAPA:17847 AAO:0000311" @@ -15548,7 +15569,6 @@ "Any process that modulates the frequency, rate or extent of translational initiation." "Chondrocyte forming the hyaline cartilage found in joints." "CALOHA:TS-0056" "Any process that stops, prevents, or reduces the frequency, rate, or extent of an immunoglobulin mediated immune response." - "KUPO:0001036" "The process in which the anatomical structures of the internal genitalia are generated and organized. The internal genitalia are the internal sex organs such as the uterine tube, the uterus and the vagina in female mammals, and the testis, seminal vesicle, ejaculatory duct and prostate in male mammals." "PMID:11214319 PMID:12082125 PMID:12878460 GC_ID:1 PMID:15522813" "The aggregation, arrangement and bonding together of proteins and lipids to form a protein-lipid complex." @@ -15559,13 +15579,13 @@ "The differentiation of endothelial cells from progenitor cells during blood vessel development, and the de novo formation of blood vessels and tubes." "Wikipedia:Vasculogenesis" "The layer of glia and differentiating neurons that forms as a second layer around the germinal neuroepithium; as this develops it comes to lie between the ventricular and marginal layers and includes the basal and alar plates. Develops into neurons and glia forming a gray matter layer." "neuronames:1367 EMAPA:17148 EMAPA:35360" "Any process that activates or increases the frequency, rate or extent of odontoblast differentiation." + "Any process that stops, prevents or reduces the frequency, rate or extent of transcription regulatory region DNA binding." "The glandular mucous membrane lining of the uterine cavity that is hormonally responsive during the estrous/menstrual cycle and during pregnancy." "MAT:0000319 EFO:0000980 SCTID:278867007 GAID:377 EV:0100115 MESH:D004717 VHOG:0001285 EMAPA:29917 NCIT:C12313 Wikipedia:Endometrium CALOHA:TS-0276 BTO:0001422 MA:0000390 UMLS:C0014180 FMA:17742 MIAA:0000319" "A membranous sac that develops from the posterior part of the alimentary canal in the embryos of mammals, birds, and reptiles, and it is important in the formation of the umbilical cord and placenta in mammals[VHOG]." "NCIT:C34101 SCTID:308825007 RETIRED_EHDAA2:0000114 VHOG:0000738 EMAPA:16107 MESH:D000482 UMLS:C0002084 Wikipedia:Allantois BTO:0000474 EHDAA2:0001504 EMAPA_RETIRED:16084" - "A neuron projection bundle that connects the retina or its analog in the eye with the brain. This includes the vertebrate optic nerve (not truly a nerve) as well as analogous structures such as the Bolwig nerve in Drosophila." "EV:0100351 BTO:0000966 TADS:0000232" + "A neuron projection bundle that connects the retina or its analog in the eye with the brain. This includes the vertebrate optic nerve (not truly a nerve) as well as analogous structures such as the Bolwig nerve in Drosophila." "EV:0100351 BTO:0000966 TADS:0000232 FBbt:00001956" "A holocrine gland of the dermis that secretes sebum into hair follicles." "SCTID:115977007 MA:0000149" "A low affinity immunoglobulin gamma Fc region receptor II that is encoded in the genome of mouse." "UniProtKB:P08101" "A gland in which the principal secretory cells are serous secreting cells." "EMAPA:37950 BTO:0001837 Wikipedia:Serous_gland FMA:62889" - "The series of molecular signals initiated by activation of a receptor on the surface of a cell. The pathway begins with binding of an extracellular ligand to a cell surface receptor, or for receptors that signal in the absence of a ligand, by ligand-withdrawal or the activity of a constitutively active receptor. The pathway ends with regulation of a downstream cellular process, e.g. transcription." "Any process that activates or increases the frequency, rate or extent of testosterone secretion." "Any process that activates or increases the frequency, rate or extent of natural killer cell chemotaxis." "The process whose specific outcome is the formation of tooth enamel, occurring in two stages: secretory stage and maturation stage." @@ -15586,10 +15606,10 @@ "Any material entity that is located in the digestive tract. This includes undigested food and liquid as well as unexcreted waste products. It also includes other entities such as ingested stones used to aid digestion. Any microbial cells or cell populations are also included." "The process in which the sinus venosus is generated and organized. The sinus venosus is a heart chamber attached to the atrium on the venous side of the embryonic heart." "The directed killing of a target cell by a leukocyte." - "Enables the energy-independent passage of monoatomic cations across a lipid bilayer down a concentration gradient." "Reactome:R-HSA-426223 Reactome:R-HSA-9754616 Reactome:R-HSA-9706720 Reactome:R-HSA-4420052 Reactome:R-HSA-1296043 Reactome:R-HSA-2089943 Reactome:R-HSA-1168376 Reactome:R-HSA-169683 Reactome:R-HSA-9712190" + "Enables the energy-independent passage of monoatomic cations across a lipid bilayer down a concentration gradient." "Reactome:R-HSA-426223 Reactome:R-HSA-9754616 Reactome:R-HSA-9706720 Reactome:R-HSA-9837835 Reactome:R-HSA-4420052 Reactome:R-HSA-1296043 Reactome:R-HSA-2089943 Reactome:R-HSA-1168376 Reactome:R-HSA-169683 Reactome:R-HSA-9712190" "Any anatomical structure that is part of the reproductive system." "Simple columnar epithelium in which the luminal side of the cells bears cilia. Examples: epithelium of trachea, epithelium of uterine tube.[FMA]." "FMA:64798" - "A fibroblast-like cell that provides support at neuromuscular junctions in vertebrates and are localized outside the synaptic basal lamina." + "A fibroblast-like cell that provides support at neuromuscular junctions in vertebrates and are localized outside the synaptic basal lamina." "ZFA:0009296" "An anatomical space with no opening to another space or to the exterior." "AEO:0000222" "A cellular quality that arises by virtue of whether the bearer's disposition to differentiate into one or more mature cell types." "Combining with a protein hormone to initiate a change in cell activity." @@ -15618,14 +15638,14 @@ "Any process that activates or increases the frequency, rate or extent of neutrophil differentiation." "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an external biotic stimulus, an external stimulus caused by, or produced by living things." "A CD4-positive, alpha-beta T cell with the phenotype CCR7-negative, CD45RA-positive." - "A progenitor cell committed to the megakaryocyte and erythroid lineages." + "A progenitor cell committed to the megakaryocyte and erythroid lineages." "ZFA:0009022" "Any process that activates or increases the frequency, rate or extent of muscle cell differentiation." "The progression of the epithalamus over time from its initial formation until its mature state. The epithalamus is the small dorsomedial area of the thalamus including the habenular nuclei and associated fiber bundles, the pineal body, and the epithelial roof of the third ventricle." "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of collagen, any of a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals." "A femur endochondral element that is composed primarily of a pre-cartilage condensation." "EMAPA:17502 VHOG:0000951 EHDAA2:0000508" "The embryonic pancreas develops from two separate anlagen in the foregut epithelium, one dorsal and two ventral pancreatic buds[PMID]." "NCIT:C34242 TAO:0001390 ZFA:0001390 SCTID:360398004 EFO:0003470 UMLS:C1283285 Wikipedia:Pancreatic_bud EMAPA:35645" - "An epithelial cell of the intestine." + "An epithelial cell of the intestine." "ZFA:0009399" "The process resulting in the release of a polypeptide chain from the ribosome in the cytoplasm, usually in response to a termination codon." "EHDAA2:0000993" "Binding to serotonin (5-hydroxytryptamine), a monoamine neurotransmitter occurring in the peripheral and central nervous systems, also having hormonal properties." @@ -15682,6 +15702,7 @@ "A chromaffin cell of the adrenal medulla that produces norepinephrine." "FMA:69321" "An epithelial supporting cell located in the cochlea." "FMA:79796" "Any process that modulates the frequency, rate or extent of parathyroid hormone secretion." + "Any renal intercalated cell that is part of some papillary duct." "KUPO:0001136" "A channel containing perilymph passing through the temporal bone, connecting the scala tympani of the cochlea to the subarachnoid space." "EMAPA:35677 MA:0000248 Wikipedia:Perilymphatic_duct AAO:0000136 SCTID:368950002 FMA:77822 ZFA:0005461" "Any collection of muscles that is part of a manus [Automatically generated definition]." "FMA:42368" "The division of a vacuole within a cell to form two or more separate vacuoles." @@ -15701,11 +15722,11 @@ "The process in which a relatively unspecialized cell acquires the specialized structural and/or functional features of a Purkinje myocyte (also known as cardiac Purkinje fiber cell). These cells are specialized cardiomyocytes that receive signals from the bundle of His and innervate the ventricular cardiac muscle." "An epithelial sheet bent on a linear axis." "Receiving a signal and transmitting it in the cell to initiate a change in cell activity. A signal is a physical entity or change in state that is used to transfer information in order to trigger a response." + "Any cell that only exists in Eukaryota." "MESH:D005057" "Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane." "NIF_Subcellular:sao414196390" "An axon of a hippocampal granule cell, including dentate gyrus granule cell and CA3 granule cell, characterized by expansions (mossy fiber expansions) giving the fibers a mossy appearance. These unmyelinated axons were first described by Ramon y Cajal." "NIF_Subcellular:nlx_subcell_100312" "Enables the transmembrane transfer of a solute by a channel that opens when a specific ligand has been bound by the channel complex or one of its constituent parts." "Any process that modulates the frequency, rate or extent of response to water deprivation." - "BTO:0004402" "The region demarcating the renal medulla from the surrounding cortex; end-stage renal failure may be associated with loss of the normal corticomedullary boundary." "EMAPA:37886" "A contractility which is relatively normal or average." "A monostratified retinal ganglion cell that contains opsin." @@ -15716,7 +15737,6 @@ "Any chondrocyte that is part of the tracheobronchial tree." "A vertebral foramen that is part of a thoracic vertebra." "SCTID:280834002 FMA:9143" "An immune response taking place in an organ or tissues such as the liver, brain, mucosa, or nervous system tissues." - "The chemical reactions and pathways resulting in the formation of heterocyclic compounds, those with a cyclic molecular structure and at least two different atoms in the ring (or rings)." "In anatomy, the common hepatic artery is a short blood vessel that supplies oxygenated blood to the liver, pylorus (a part of the stomach), duodenum (a part of the small intestine) and pancreas. It arises from the celiac artery and has the following branches:." "SCTID:244263001 MA:0003094 galen:CommonHepaticArtery EHDAA2:0000308 EMAPA:37206 EHDAA:8570 FMA:14771 Wikipedia:Common_hepatic_artery" "A parathyroid chief cell that is actively secreting hormone. Have large Golgi complexes with numerous vesicles and small membrane-bound granules; secretory granules are rare, cytoplasmic glycogen sparse, much of the cytoplasm being occupied by flat sacs of granular endoplasmic reticulum in parallel arrays; in normal humans, inactive chief cells outnumber active chief cells in a ratio of 3-5:1" "FMA:69082" @@ -15729,6 +15749,7 @@ "A G protein-coupled receptor signaling pathway initiated by a neuropeptide binding to its receptor on the surface of a target cell, and ending with the regulation of a downstream cellular process." "A rib that is attached to a cervical vertebra." "EMAPA:37825" "A cell of mesodermal origin that is closely associated with the epithelium of an imaginal disc. It is a precursor of some of the insect's adult muscles." "FBbt:00003219" + "An interlaminar astrocyte type whose soma is part of the upper first layer of the neocortex and its processes extend to a pia surface." "FMA:14657" "A sensory neuron of the spinal nerve that senses body position and sends information about how much the muscle is stretched to the spinal cord." "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a peptide hormone stimulus. A peptide hormone is any of a class of peptides that are secreted into the blood stream and have endocrine functions in living animals." @@ -15747,6 +15768,7 @@ "Any process involved in the controlled movement of a sperm cell." "A capillary that is part of the anorectum." "A peritubular capillary that is part of a cortex of kidney." "EMAPA:37488 MA:0002590" + "Any process that stops, prevents or reduces the frequency, rate or extent of an amino acid biosynthetic process." "The series of events in which a light stimulus (in the form of photons) is received and converted into a molecular signal." "A protein that is a translation product of the human CD8B gene or a 1:1 ortholog thereof. CD8 is a transmembrane receptor that is a co-receptor for MHC class-I antigen/T-cell receptor interaction. The most common form of CD8 is composed of a CD8 alpha and a CD8 beta chain." "PIRSF:PIRSF002020" "A circular muscle layer of muscular coat that is part of a colon smooth muscle." @@ -15756,7 +15778,7 @@ "A substance that is secreted by a mammary gland. The substance may differ depending on phase, with colostrum produced during pregancy/early lactation, and milk produced afterwards." "EMAPA:36538 MA:0002505" "The process in which neuroepithelial cells in the ventral neural tube acquire specialized structural and/or functional features of motor neurons. Motor neurons innervate an effector (muscle or glandular) tissue and are responsible for transmission of motor impulses from the brain to the periphery. Differentiation includes the processes involved in commitment of a cell to a specific fate." "Any process that modulates the frequency, rate or extent of the directed movement of a protein into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." - "Anatomical structure which is a subdivision of a whole organism, consisting of components of multiple anatomical systems, largely surrounded by a contiguous region of integument." "TAO:0001308 XAO:0003013 AAO:0010053 BILA:0000032 MIAA:0000293 CARO:0000032 MA:0002433 MESH:D001829 UMLS:C0229962 galen:BodyPart TGMA:0001840 FMA:7153 AEO:0000032 CALOHA:TS-2084 HAO:0000032 VHOG:0001758 ZFA:0001308 EMAPA:36031 NCIT:C32221 MAT:0000293 Wikipedia:Body_part EFO:0000808 EHDAA2:0003032 BIRNLEX:7" + "Anatomical structure which is a subdivision of a whole organism, consisting of components of multiple anatomical systems, largely surrounded by a contiguous region of integument." "TAO:0001308 XAO:0003013 AAO:0010053 BILA:0000032 MIAA:0000293 CARO:0000032 MA:0002433 MESH:D001829 UMLS:C0229962 galen:BodyPart TGMA:0001840 FMA:7153 AEO:0000032 CALOHA:TS-2084 HAO:0000032 VHOG:0001758 FBbt:00007009 ZFA:0001308 EMAPA:36031 NCIT:C32221 MAT:0000293 Wikipedia:Body_part EFO:0000808 EHDAA2:0003032 BIRNLEX:7" "A lactotransferrin that is encoded in the genome of human." "UniProtKB:P02788" "An apical ectodermal ridge that is part of a pectoral appendage bud." "VHOG:0001064 EMAPA:16778 TAO:0000736 EHDAA2:0000138 TAO:0000085 EFO:0003487 ZFA:0000085" @@ -15776,7 +15798,7 @@ "Any protein complex that is part of a membrane." "Any process that activates or increases the frequency, rate or extent of embryonic camera-type eye development." "Any process that modulates the frequency, rate or extent of glomerular filtration. Glomerular filtration is the process in which blood is filtered by the glomerulus into the renal tubule." - "An erythrocyte having a nucleus." + "An erythrocyte having a nucleus." "ZFA:0009256" "The process in which an organic acid is transported across a membrane." "Brush cell of the epithelium in the trachea." "FMA:263224" "The increase in size or mass of an endochondral bone that contributes to the shaping of the bone." @@ -15802,7 +15824,7 @@ "An action potential that occurs in a ventricular cardiac muscle cell." "The part of the venous system that drains the general body tissues[Kardong]." "FMA:45626 Wikipedia:Systemic_venous_system" "Any process that activates or increases the frequency, rate or extent of mesenchymal cell apoptotic process involved in metanephros development." - "A bipolar neuron found in the retina and having connections with cone photoreceptor cells and neurons in the inner plexiform layer." + "A bipolar neuron found in the retina and having connections with cone photoreceptor cells and neurons in the inner plexiform layer." "ZFA:0009322" "A CNS neuron of the forebrain." "The process in which a relatively unspecialized cell acquires specialized features of a pacemaker cell. Pacemaker cells are specialized cardiomyocytes that are responsible for regulating the timing of heart contractions." "Any process that activates or increases the frequency, rate, or extent of smooth muscle cell chemotaxis." @@ -15832,7 +15854,7 @@ "Anatomical projection that protrudes from the skin. Examples: hair, nail, feather, claw, hoof, horn, wattle, spur, beak, antler, bristle and some scales." "CALOHA:TS-0051 SCTID:276160000 FMA:71012" "A capillary that is part of a kidney [Automatically generated definition]." "MA:0002586 EMAPA:31443 SCTID:275409003" "Any process that modulates the frequency, rate or extent of amino acid import into a cell." - "A cell that is usually found in a two-dimensional sheet with a free surface. The cell has a cytoskeleton that allows for tight cell to cell contact and for cell polarity where apical part is directed towards the lumen and the basal part to the basal lamina." "FBbt:00000124 FMA:66768 CALOHA:TS-2026 CARO:0000077 WBbt:0003672 BTO:0000414" + "A cell that is usually found in a two-dimensional sheet with a free surface. The cell has a cytoskeleton that allows for tight cell to cell contact and for cell polarity where apical part is directed towards the lumen and the basal part to the basal lamina." "ZFA:0009034 FBbt:00000124 FMA:66768 CALOHA:TS-2026 CARO:0000077 WBbt:0003672 BTO:0000414" "The process whose specific outcome is the progression of the chorionic trophoblast over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a specific fate." "The prostatic veins form a well-marked prostatic plexus which lies partly in the fascial sheath of the prostate and partly between the sheath and the prostatic capsule. It communicates with the pudendal and vesical plexuses." "SCTID:303052003 Wikipedia:Prostatic_venous_plexus FMA:29711" "The process in which a relatively unspecialized cell acquires the specialized structural and/or functional features of a cardiac endothelial cell." @@ -15840,16 +15862,15 @@ "The biological process whose specific outcome is the progression of a lobar bronchus epithelium from an initial condition to its mature state. This process begins with the formation of the lobar bronchus epithelium and ends with the mature structure. The lobar bronchus epithelium is the tissue made up of epithelial cells that lines the inside of the lobar bronchus." "GAID:767 SCTID:46920005 MESH:D036421 NCIT:C33835 FMA:5916 UMLS:C0501409" "Subdivision of urinary system which consists of the urinary bladder and the urethra." "FMA:45659 MA:0002636 galen:LowerUrinaryTract SCTID:181420004" - "A large sesamoid bone found in the distal femur/proximal tibial region of the hindlimb of tetrapods. The patella is the attachment site for proximal hindlimb tendons.[PHENOSCAPE:ad]." "EMAPA:35668 FMA:24485 SCTID:182083008 MA:0001374 MESH:D010329 UMLS:C0030647 NCIT:C33282 galen:Patella GAID:203 Wikipedia:Patella" + "A large sesamoid bone found in the distal femur/proximal tibial region of the hindlimb of tetrapods. The patella is the attachment site for proximal hindlimb tendons.[PHENOSCAPE:ad]." "EMAPA:35668 FMA:24485 SCTID:182083008 MESH:D010329 MA:0001374 UMLS:C0030647 NCIT:C33282 galen:Patella GAID:203 Wikipedia:Patella" "Any portion of cartilage tissue that is part of the sternum." "FMA:32567" - "Unilaminar epithelium, which consists of a single layer of columnar cells. Examples: ciliated columnar epithelium, gastric epithelium, microvillus columnar epithelium.[FMA]." "TAO:0001496 AAO:0010063 AEO:0000068 Wikipedia:Simple_columnar_epithelium ZFA:0001496 SCTID:32210007 NCIT:C33552 BILA:0000068 XAO:0004008 CARO:0000068 EHDAA2_RETIRED:0003068 FMA:45567 UMLS:C0836135 HAO:0000068" + "Unilaminar epithelium, which consists of a single layer of columnar cells. Examples: ciliated columnar epithelium, gastric epithelium, microvillus columnar epithelium.[FMA]." "TAO:0001496 AAO:0010063 AEO:0000068 Wikipedia:Simple_columnar_epithelium ZFA:0001496 SCTID:32210007 NCIT:C33552 BILA:0000068 XAO:0004008 CARO:0000068 FBbt:00007027 EHDAA2_RETIRED:0003068 FMA:45567 UMLS:C0836135 HAO:0000068" "Any process that stops, prevents or reduces the frequency, rate or extent of apoptotic process involved in outflow tract morphogenesis." - "Any process that modulates the frequency, rate or extent of the directed movement of the neurotransmitter epinephrine into a cell." "The hip region is located lateral to the gluteal region (i.e. the buttock), inferior to the iliac crest, and overlying the greater trochanter of the thigh bone. In adults, three of the bones of the pelvis have fused into the hip bone which forms part of the hip region. The hip joint, scientifically referred to as the acetabulofemoral joint (art. coxae), is the joint between the femur and acetabulum of the pelvis and its primary function is to support the weight of the body in both static (e.g. standing) and dynamic (e.g. walking or running) postures. [WP,modified]." "NCIT:C64193 UMLS:C0019552 EHDAA2:0000783 BTO:0001457 EHDAA:5153 VHOG:0000346 EMAPA:17490 MA:0000045 galen:Hip EFO:0001929 SCTID:302543008 EHDAA:6178 FMA:24964 MESH:D006615 CALOHA:TS-2226 Wikipedia:Hip GAID:47" - "A hemocyte that derives from the larval lymph gland." "FBbt:00005917" "The series of events in which an electrical stimulus is received by a cell and converted into a molecular signal as part of sensory perception." "The biological process whose specific outcome is the progression of a lobar bronchus from an initial condition to its mature state. This process begins with the formation of the lobar bronchus and ends with the mature structure. The lobar bronchus is the major airway within the respiratory tree that starts by division of the principal bronchi on both sides and ends at the point of its own subdivision into tertiary or segmental bronchi." "The process in which the S-shaped body is generated and organized. The S-shaped body is the successor of the comma-shaped body that contributes to the morphogenesis of the nephron." + "A hemocyte that derives from the larval lymph gland." "FBbt:00005917" "Any process that activates or increases the frequency, rate or extent of neuroinflammatory response." "A neuroendocrine cell that is part of respiratory epithelium of the lung and is involved in the sensory detection of environmental stimuli, including hypoxia, nicotine and air pressure. Ultrastructurally, this cell type is characterized by the presence of cytoplasmic dense core granules, which are considered the storage sites of amine and peptide hormones. Lung neuroendocrine cells are innervated and appear as solitary cells or as clustered masses, localized at airway bifurcation sites, called neuroepithelial bodies that can release serotonin in response to hypoxia and interact with sensory nerve terminals. Lung neuroendocrine cells also function as reserve stem cells that repair the surrounding epithelium after injury." "Any process that modulates the rate, frequency, or extent of prostate gland branching, the process in which the branching structure of the prostate gland is generated and organized. A branch is a division or offshoot from a main stem." @@ -15864,7 +15885,7 @@ "The epithelium that forms the surface of the tonsil dips into the underlying connective tissue in numerous places, forming crypts kown as tonsillar crypts. Stratified squamous epithelium, that may be heavily infiltrated by lymphocytes. Epithelial cells are present in the germinal as well as in the periphery of the nodule." "CALOHA:TS-2070" "The regionalization process in which specific areas of cell differentiation are determined along the anterior-posterior axis. The anterior-posterior axis is defined by a line that runs from the head or mouth of an organism to the tail or opposite end of the organism." "A C-type lectin domain family 4 member K that is encoded in the genome of human." "UniProtKB:Q9UJ71 Reactome:R-HSA-1216519 Reactome:R-HSA-1236762 Reactome:R-HSA-1236852" - "An interneuron (also called relay neuron, association neuron or local circuit neuron) is a multipolar neuron which connects afferent neurons and efferent neurons in neural pathways. Like motor neurons, interneuron cell bodies are always located in the central nervous system (CNS)." "FMA:84776" + "An interneuron (also called relay neuron, association neuron or local circuit neuron) is a multipolar neuron which connects afferent neurons and efferent neurons in neural pathways. Like motor neurons, interneuron cell bodies are always located in the central nervous system (CNS)." "ZFA:0009225 FMA:84776" "A double-positive thymocyte that is undergoing positive selection, has high expression of the alpha-beta T cell receptor, is CD69-positive, and is in the process of down regulating the CD4 co-receptor." "A vesicle-mediated transport process that results in the engulfment of external particulate material by phagocytes and their delivery to the lysosome. The particles are initially contained within phagocytic vacuoles (phagosomes), which then fuse with primary lysosomes to effect digestion of the particles." "Wikipedia:Phagocytosis" "Skeletal element that forms superficially in the organism, usually in association with the ectoderm[VSAO]." "VSAO:0000130 ZFA:0001590 Wikipedia:Dermal_bone TAO:0001590 XAO:0004015 AAO:0010769" @@ -15885,8 +15906,8 @@ "A nonmembrane-bound oligomeric protein complex that participates in bidirectional transport of molecules (cargo) along axonemal microtubules." "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of glucocorticoids." "An orbitosphenoid bone or its cartilage or pre-cartilage precursor." - "Directly binding to a specific protein and delivering it to a specific cellular location." "Reactome:R-HSA-9662818 Reactome:R-HSA-9662747" - "The organs associated with producing offspring in the gender that produces spermatozoa." "Wikipedia:Male_reproductive_system_(human) UMLS:C1963704 BTO:0000082 MESH:D005837 GAID:386 UMLS:C0017422 TGMA:0000634 MA:0000396 VHOG:0000725 EHDAA2:0001054 EFO:0000970 CALOHA:TS-1310 SCTID:361340001 NCIT:C12722 EHDAA:8136 FMA:45664 HAO:0000505 EV:0100101 XAO:0000155 EMAPA:17968" + "Directly binding to a specific protein and delivering it to a specific cellular location." "Reactome:R-HSA-2248891 Reactome:R-HSA-9662818 Reactome:R-HSA-9662747" + "The organs associated with producing offspring in the gender that produces spermatozoa." "FBbt:00004927 Wikipedia:Male_reproductive_system_(human) UMLS:C1963704 BTO:0000082 MESH:D005837 GAID:386 UMLS:C0017422 TGMA:0000634 MA:0000396 VHOG:0000725 EHDAA2:0001054 EFO:0000970 CALOHA:TS-1310 SCTID:361340001 NCIT:C12722 EHDAA:8136 FMA:45664 HAO:0000505 EV:0100101 XAO:0000155 EMAPA:17968" "Any process that modulates the frequency, rate or extent of the regulated release of serotonin." "A mature NK T cell that secretes interleukin-4 and enhances Th2 immune responses." "The process in which calcium ions sequestered in the endoplasmic reticulum, Golgi apparatus or mitochondria are released into the cytosolic compartment." @@ -15894,7 +15915,7 @@ "A smooth muscle tissue that is part of a umbilical cord." "BTO:0001847" "An epithelium that is part of a extrahepatic bile duct [Automatically generated definition]." "EHDAA2:0000742 MA:0002661 UMLS:C1711347 NCIT:C43618 EHDAA:3051" "A melanocyte of the retina. This cell type is distinct from pigmented retinal epithelium." - "Skeletogenic cell that secretes osteoid, is capable of producing mineralized (hydroxyapatite) matrix, is located adjacent to or within osteoid tissue, and arises from the transformation of a preosteoblast cell." "BTO:0001593 FMA:66780 CALOHA:TS-0720" + "Skeletogenic cell that secretes osteoid, is capable of producing mineralized (hydroxyapatite) matrix, is located adjacent to or within osteoid tissue, and arises from the transformation of a preosteoblast cell." "ZFA:0009031 BTO:0001593 FMA:66780 CALOHA:TS-0720" "The process in which vesicles are directed to specific destination membranes during transport to, from or within the Golgi apparatus; mediated by the addition of specific coat proteins, including COPI and COPII proteins and clathrin, to the membrane during vesicle formation." "Any process that modulates the rate or extent of the process whose specific outcome is the progression of an oocyte over time, from initial commitment of the cell to its specific fate, to the fully functional differentiated cell." "The deep nuclei of telencephalic origin found in the basal region of the forebrain." "UMLS:C0004781 EV:0100182 BAMS:BNC BAMS:BG BIRNLEX:1629 neuronames:224" @@ -15905,7 +15926,7 @@ "The process in which bones are generated and organized." "A KLRB1-like protein that is a translation product of the mouse Klrb1c gene or a 1:1 ortholog thereof." "The process that gives rise to ganglion. This process pertains to the initial formation of a structure from unspecified parts." - "Parasympathetic neurons are part of the parasympathetic nervous sysem and the cell bodies lie in the brain and sacral region of the spinal cord. The neurons are mainly cholinergic." + "Parasympathetic neurons are part of the parasympathetic nervous sysem and the cell bodies lie in the brain and sacral region of the spinal cord. The neurons are mainly cholinergic." "ZFA:0005776" "A cell of a fetus which is suspended in the amniotic fluid. Amniocytes are considered to arise from several tissues including fetal skin, the fetal urinary tract, umbilical cord, and the inner amniotic surface." "BTO:0000066" "Any process that modulates the extent to which blood vessels can be pervaded by fluid contributing to an acute inflammatory response." "A conductive airway that branches into terminal bronchioles." @@ -15919,9 +15940,8 @@ "A smooth muscle cell that is part of a placenta." "EFO:0010709" "The inner portion of the kidney consisting of the renal pyramids." "BTO:0001167 GAID:425 UMLS:C0022664 NCIT:C12740 CALOHA:TS-1157 MA:0000373 galen:MedullaOfKidney SCTID:30737000 Wikipedia:Renal_medulla MESH:D007679 EMAPA:19279" "Any process that stops, prevents, or reduces the frequency, rate or extent of asymmetric cell division." - "Interneuron of the vertebrate retina. They integrate, modulate, and interpose a temporal domain in the visual message presented to the retinal ganglion cells, with which they synapse in the inner plexiform layer. They lack large axons." "FMA:67766 BTO:0004044" + "Interneuron of the vertebrate retina. They integrate, modulate, and interpose a temporal domain in the visual message presented to the retinal ganglion cells, with which they synapse in the inner plexiform layer. They lack large axons." "ZFA:0009255 FMA:67766 BTO:0004044" "The process whose specific outcome is the progression of the inner ear over time, from its formation to the mature structure." - "An entity that has temporal parts and that happens, unfolds or develops through time."@en "Any process that modulates the rate, frequency or extent of branching involved in ureteric bud morphogenesis, the process in which the branching structure of the ureteric bud is generated and organized. The ureteric bud is an epithelial tube that grows out from the metanephric duct. The bud elongates and branches to give rise to the ureter and kidney collecting tubules." "A glomerular capillary that is part of a pronephros." "ZFA:0005309 TAO:0005309" "A zone of skin that is part of the face." "UMLS:C0222084 SCTID:361703006 EMAPA:36657 FMA:24758 NCIT:C33561" @@ -15942,11 +15962,13 @@ "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a bile acid stimulus." "The regulated exocytosis of secretory granules containing preformed mediators such as perforin and granzymes by a cytotoxic T cell." "Any process that activates or increases the frequency, rate or extent of aldosterone secretion." + "Binding specifically to a substance (cargo) to deliver it to a transport vesicle. Cargo receptors span membranes (for instance the plasma membrane or the endoplasmic reticulum membrane), binding simultaneously to cargo molecules and coat adaptors, to efficiently recruit the cargo molecules to nascent vesicles." "Reactome:R-HSA-9759202 Reactome:R-HSA-3000122 Reactome:R-HSA-3000137 Reactome:R-HSA-3000112 Reactome:R-HSA-9759209 Reactome:R-HSA-3000103 Reactome:R-HSA-350168" "A strand of hair that is part of a trunk." "FMA:54250" "A squamous epithelium that is part of a vagina." "EMAPA:37794 UMLS:C1711259 NCIT:C49314 MA:0001731" "Any microtubule in the cytoplasm of a cell." "A urothelial cell that is part of the urothelium of the urinary bladder." "NCIT:C32210 KUPO:0001121" "An epithelial ciliated cell that is part of the fallopian tube. This cell type is found mainly on the apex of the mucosal folds and contributes, together with peristaltic contractions, to the self-propulsion of spermatozoa, the transport of ovum during ovulation and the transport of the fertilized ovum to the intramural fallopian tube. A fallopian tube ciliated cell has a columnar shape and contains an oval or round nucleus, often located perpendicular or parallel to the long axis of the cell." + "Any secretory cell that is capable of some calcitonin secretion." "ZFA:0009206" "The regulated release of growth hormone from secretory granules into the blood." "A regulatory T cell present in the B cell follicles and germinal centers of lymphoid tissues. In humans, it is CXCR5+." "The developmental process pertaining to the initial formation of a left cardiac atrium from unspecified parts." @@ -15962,7 +15984,7 @@ "A stromal cell found in the lamina propria of the large intestine." "A cell morphology that inheres in neurons with only one process, a neurite, that extends from the cell body. The neurite then branches to form dendritic and axonal processes." "A nucleate quality inhering in a bearer by virtue of the bearer's having two nuclei." - "A cell that is commited to differentiating into a muscle cell. Embryonic myoblasts develop from the mesoderm. They undergo proliferation, migrate to their various sites, and then differentiate into the appropriate form of myocytes. Myoblasts also occur as transient populations of cells in muscles undergoing repair." "FBbt:00005083 VHOG:0001529 FMA:70335 CALOHA:TS-0650 BTO:0000222" + "A cell that is commited to differentiating into a muscle cell. Embryonic myoblasts develop from the mesoderm. They undergo proliferation, migrate to their various sites, and then differentiate into the appropriate form of myocytes. Myoblasts also occur as transient populations of cells in muscles undergoing repair." "ZFA:0009025 FBbt:00005083 VHOG:0001529 FMA:70335 CALOHA:TS-0650 BTO:0000222" "A biological process that directly contributes to the process of producing new individuals, involving another organism." "Any process that activates or increases the frequency, rate or extent of cardiac chamber formation." "The process whose specific outcome is the progression of the proximal convoluted tubule over time, from its formation to the mature structure. The proximal convoluted tubule is the most proximal portion of the proximal tubule and extends from the glomerular capsule to the proximal straight tubule." @@ -15975,6 +15997,7 @@ "The process of shaping a trabecula in the heart. A trabecula is a small, often microscopic, tissue element in the form of a small beam, strut or rod, which generally has a mechanical function. Trabecula are usually but not necessarily, composed of dense collagenous tissue." "The process whose specific outcome is the progression of a thyroid-stimulating hormone-secreting cell over time, from its formation to the mature structure. A thyroid-stimulating hormone-secreting cell is a basophil cell of the anterior pituitary that produces thyroid stimulating hormone, thyrotrophin." "Any region of a nephron tubule that is convoluted. Examples: distal convoluted tubule, proximal convoluted tuble." "Wikipedia:Convoluted_tubule SCTID:361333002 NCIT:C49479 UMLS:C1707510 MA:0001665 EMAPA:35725" + "Any neuron that has its soma located in some anterior lateral line ganglion." "Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane." "EHDAA2:0000996 EMAPA:17186 VHOG:0000449" "A secretion that is part of a esophagus [Automatically generated definition]." "MA:0002514 UMLS:C0227179 NCIT:C52555 FMA:79662" @@ -16000,7 +16023,7 @@ "The process whose specific outcome is the progression of a cardiac cell over time, from its formation to the mature state. A cardiac cell is a cell that will form part of the cardiac organ of an individual." "Any process that stops, prevents or reduces the frequency, rate or extent of chorionic trophoblast cell proliferation." "An anatomical wall that is part of an artery [Automatically generated definition]." "FMA:14155 BTO:0002009 galen:ArterialWall" - "Ectoderm destined to be nervous tissue." + "Ectoderm destined to be nervous tissue." "ZFA:0009080" "Any process that activates or increases the frequency, rate or extent of gamma-delta T cell activation." "A portion of connective tissue that is part of a thoracic cavity [Automatically generated definition]." "MA:0000555 EMAPA:37255" @@ -16032,7 +16055,7 @@ "Subdivision of skeleton consisting of all skeletal elements in an hindlimb region." "XAO:0003062 AAO:0000217 VHOG:0001255 FMA:24144 EMAPA:32633 VSAO:0000152 EHDAA2:0002226" "A phalanx that is part of a hindlimb autopod[Automatically generated definition]." "Wikipedia:Phalanges_of_the_foot MA:0000305 SCTID:302533005 ncithesaurus:Phalanx_of_the_Foot UMLS:C0584876 EMAPA:32941 AAO:0000930 FMA:24493 NCIT:C52772" "The radial migration of neuronal or glial precursor cells along radial glial cells during the development of the cerebral cortex." - "Sense organ embedded in the integument and consisting of one or a cluster of sensory neurons and associated sensory structures, support cells and glial cells forming a single organised unit with a largely bona-fide boundary.[FBbt]." "TGMA:0000540 HAO:0000933 MIAA:0000163 Wikipedia:Sensillum BTO:0001237 MAT:0000163 EFO:0000939" + "Sense organ embedded in the integument and consisting of one or a cluster of sensory neurons and associated sensory structures, support cells and glial cells forming a single organised unit with a largely bona-fide boundary.[FBbt]." "TGMA:0000540 HAO:0000933 MIAA:0000163 Wikipedia:Sensillum BTO:0001237 MAT:0000163 FBbt:00007152 EFO:0000939" "A section through the tube or network of tubes that connects the ovaries to the outside of the body." "FMA:18302" "Any joint connecting the acromonion of the scapula and clavicle." "Wikipedia:Acromioclavicular_joint FMA:25898 MESH:D000173 UMLS:C0001208 SCTID:182166001 NCIT:C32047 GAID:249" "A metaphysis that is part of a tibia." "EMAPA:37772 MA:0003106 FMA:33135" @@ -16068,6 +16091,7 @@ "A sialoadhesin that is encoded in the genome of human." "UniProtKB:Q9BZZ2" "Any process that modulates the frequency, rate or extent of apoptotic DNA fragmentation." "This gland can either be a discrete structure located bilaterally above each kidney, or a cluster of cells in the head kidney that perform the functions of the adrenal gland. In either case, this organ consists of two cells types, aminergic chromaffin cells and steroidogenic cortical cells[GO]." + "Any GABAergic interneuron that has its soma located in some cerebellar cortex." "The process whose specific outcome is the progression of smooth muscle in the ureter over time, from its formation to the mature structure." "The repeating unit of a myofibril in a muscle cell, composed of an array of overlapping thick and thin filaments between two adjacent Z discs." "Wikipedia:Sarcomere" "A fibrocyte of the cochlea that has specialized structural and molecular adaptions." @@ -16123,7 +16147,7 @@ "An ON-bipolar neuron found in the retina and having connections with cone photoreceptors cells and neurons in the inner half of the inner plexiform layer. The dendritic tree is wide and the dendritic convergence indicates cone selectivity. The axon terminal is sparsely branched and terminates in sublamina 5 of the inner plexiform layer." "Any process that stops, prevents, or reduces the frequency, rate, or extent of CD4-positive, alpha-beta T cell differentiation." "The vessels formed within the second pair of branchial arches in embryogenesis." "XAO:0000343 SCTID:308775002 EMAPA:16203 ZFA:0005006 TAO:0005006 AAO:0010418 EMAPA:16686 EHDAA2:0000051 Wikipedia:Aortic_arches#Arches_1_and_2 VHOG:0000148" - "Enables the transfer of calcium (Ca) ions from one side of a membrane to the other." "RHEA:29671 Reactome:R-HSA-2534359" + "Enables the transfer of calcium (Ca) ions from one side of a membrane to the other." "RHEA:29671 MetaCyc:TRANS-RXN-144 Reactome:R-HSA-2534359" "An epiphysis that is part of a metatarsal bone [Automatically generated definition]." "SCTID:313057002 FMA:33814" "The innermost layer of the leptomeninges, consisting of a delicate membrane closely covering the surface of the brain and spinal cord,and lying under the arachnoid membrane. The pia, unlike the arachnoid, extends into the sulci in gyrencephalic animals." "EHDAA:2685 Wikipedia:Pia_mater BTO:0001635 EHDAA:2833 UMLS:C0031869 RETIRED_EHDAA2:0001464 neuronames:1463 EHDAA:3692 SCTID:362305004 EHDAA:6566 MESH:D010841 EHDAA:3710 EHDAA:1367 EHDAA:2867 EHDAA2:0004318 GAID:693 FMA:9590 EHDAA:6583 EHDAA:2099 EHDAA:2001 NLXANAT:090209 EMAPA:32663 NCIT:C33321 EHDAA:1961 MA:0001116" "A protein complex composed of a subunit or subunits capable of binding the Fc portion of an immunoglobulin with additional signaling components. The complex functions as a receptor for immunoglobulin." diff --git a/src/ontology/reports/cl-edit.owl-obo-report.tsv b/src/ontology/reports/cl-edit.owl-obo-report.tsv index 95e437bf8..33c259e99 100644 --- a/src/ontology/reports/cl-edit.owl-obo-report.tsv +++ b/src/ontology/reports/cl-edit.owl-obo-report.tsv @@ -1,7 +1,5 @@ Level Rule Name Subject Property Value -WARN missing_definition CL:0000006 IAO:0000115 WARN missing_definition CL:0000028 IAO:0000115 -WARN missing_definition CL:0000029 IAO:0000115 WARN missing_definition CL:0000030 IAO:0000115 WARN missing_definition CL:0000036 IAO:0000115 WARN missing_definition CL:0000054 IAO:0000115 @@ -22,22 +20,10 @@ WARN missing_definition CL:0000131 IAO:0000115 WARN missing_definition CL:0000143 IAO:0000115 WARN missing_definition CL:0000146 IAO:0000115 WARN missing_definition CL:0000149 IAO:0000115 -WARN missing_definition CL:0000154 IAO:0000115 WARN missing_definition CL:0000159 IAO:0000115 -WARN missing_definition CL:0000167 IAO:0000115 -WARN missing_definition CL:0000168 IAO:0000115 -WARN missing_definition CL:0000172 IAO:0000115 -WARN missing_definition CL:0000174 IAO:0000115 -WARN missing_definition CL:0000176 IAO:0000115 -WARN missing_definition CL:0000177 IAO:0000115 -WARN missing_definition CL:0000179 IAO:0000115 -WARN missing_definition CL:0000200 IAO:0000115 -WARN missing_definition CL:0000203 IAO:0000115 WARN missing_definition CL:0000204 IAO:0000115 -WARN missing_definition CL:0000207 IAO:0000115 WARN missing_definition CL:0000208 IAO:0000115 WARN missing_definition CL:0000217 IAO:0000115 -WARN missing_definition CL:0000227 IAO:0000115 WARN missing_definition CL:0000237 IAO:0000115 WARN missing_definition CL:0000238 IAO:0000115 WARN missing_definition CL:0000239 IAO:0000115 @@ -47,26 +33,19 @@ WARN missing_definition CL:0000246 IAO:0000115 WARN missing_definition CL:0000249 IAO:0000115 WARN missing_definition CL:0000251 IAO:0000115 WARN missing_definition CL:0000253 IAO:0000115 -WARN missing_definition CL:0000255 IAO:0000115 WARN missing_definition CL:0000256 IAO:0000115 -WARN missing_definition CL:0000257 IAO:0000115 -WARN missing_definition CL:0000287 IAO:0000115 WARN missing_definition CL:0000306 IAO:0000115 WARN missing_definition CL:0000308 IAO:0000115 WARN missing_definition CL:0000309 IAO:0000115 WARN missing_definition CL:0000310 IAO:0000115 WARN missing_definition CL:0000311 IAO:0000115 WARN missing_definition CL:0000314 IAO:0000115 -WARN missing_definition CL:0000319 IAO:0000115 WARN missing_definition CL:0000323 IAO:0000115 WARN missing_definition CL:0000324 IAO:0000115 WARN missing_definition CL:0000326 IAO:0000115 WARN missing_definition CL:0000327 IAO:0000115 -WARN missing_definition CL:0000329 IAO:0000115 WARN missing_definition CL:0000334 IAO:0000115 WARN missing_definition CL:0000341 IAO:0000115 -WARN missing_definition CL:0000349 IAO:0000115 -WARN missing_definition CL:0000350 IAO:0000115 WARN missing_definition CL:0000354 IAO:0000115 WARN missing_definition CL:0000356 IAO:0000115 WARN missing_definition CL:0000357 IAO:0000115 @@ -80,9 +59,7 @@ WARN missing_definition CL:0000384 IAO:0000115 WARN missing_definition CL:0000386 IAO:0000115 WARN missing_definition CL:0000389 IAO:0000115 WARN missing_definition CL:0000390 IAO:0000115 -WARN missing_definition CL:0000397 IAO:0000115 WARN missing_definition CL:0000406 IAO:0000115 -WARN missing_definition CL:0000408 IAO:0000115 WARN missing_definition CL:0000410 IAO:0000115 WARN missing_definition CL:0000416 IAO:0000115 WARN missing_definition CL:0000417 IAO:0000115 @@ -91,25 +68,20 @@ WARN missing_definition CL:0000423 IAO:0000115 WARN missing_definition CL:0000428 IAO:0000115 WARN missing_definition CL:0000435 IAO:0000115 WARN missing_definition CL:0000436 IAO:0000115 -WARN missing_definition CL:0000443 IAO:0000115 WARN missing_definition CL:0000445 IAO:0000115 WARN missing_definition CL:0000447 IAO:0000115 WARN missing_definition CL:0000452 IAO:0000115 -WARN missing_definition CL:0000456 IAO:0000115 WARN missing_definition CL:0000457 IAO:0000115 -WARN missing_definition CL:0000460 IAO:0000115 WARN missing_definition CL:0000470 IAO:0000115 WARN missing_definition CL:0000489 IAO:0000115 WARN missing_definition CL:0000490 IAO:0000115 WARN missing_definition CL:0000520 IAO:0000115 -WARN missing_definition CL:0000521 IAO:0000115 WARN missing_definition CL:0000529 IAO:0000115 WARN missing_definition CL:0000532 IAO:0000115 WARN missing_definition CL:0000544 IAO:0000115 WARN missing_definition CL:0000551 IAO:0000115 WARN missing_definition CL:0000555 IAO:0000115 WARN missing_definition CL:0000567 IAO:0000115 -WARN missing_definition CL:0000611 IAO:0000115 WARN missing_definition CL:0000618 IAO:0000115 WARN missing_definition CL:0000619 IAO:0000115 WARN missing_definition CL:0000661 IAO:0000115 @@ -120,151 +92,41 @@ WARN missing_definition CL:0000678 IAO:0000115 WARN missing_definition CL:0000684 IAO:0000115 WARN missing_definition CL:0000687 IAO:0000115 WARN missing_definition CL:0000690 IAO:0000115 -WARN missing_definition CL:0000691 IAO:0000115 WARN missing_definition CL:0000694 IAO:0000115 WARN missing_definition CL:0000697 IAO:0000115 WARN missing_definition CL:0000702 IAO:0000115 WARN missing_definition CL:0000705 IAO:0000115 WARN missing_definition CL:0000707 IAO:0000115 WARN missing_definition CL:0000709 IAO:0000115 -WARN missing_definition CL:0000712 IAO:0000115 WARN missing_definition CL:0000713 IAO:0000115 WARN missing_definition CL:0000719 IAO:0000115 WARN missing_definition CL:0000720 IAO:0000115 WARN missing_definition CL:0000721 IAO:0000115 WARN missing_definition CL:0000722 IAO:0000115 -WARN missing_definition CL:0000725 IAO:0000115 WARN missing_definition CL:0000732 IAO:0000115 WARN missing_definition CL:0000995 IAO:0000115 WARN missing_definition CL:0001012 IAO:0000115 WARN missing_definition CL:0001019 IAO:0000115 WARN missing_definition CL:0001030 IAO:0000115 WARN missing_definition CL:0001658 IAO:0000115 -WARN missing_definition CL:0002551 IAO:0000115 -WARN missing_definition CL:0002552 IAO:0000115 -WARN missing_definition CL:0002598 IAO:0000115 -WARN missing_definition CL:0002602 IAO:0000115 -WARN missing_definition CL:0002621 IAO:0000115 -WARN missing_definition CL:0002631 IAO:0000115 -WARN missing_definition CL:0002632 IAO:0000115 WARN missing_definition CL:0007019 IAO:0000115 -WARN missing_definition CL:0008021 IAO:0000115 -WARN missing_definition CL:0008028 IAO:0000115 -WARN missing_definition CL:0008035 IAO:0000115 -WARN missing_definition CL:0010006 IAO:0000115 -WARN missing_definition CL:0010007 IAO:0000115 -WARN missing_definition CL:0010008 IAO:0000115 -WARN missing_definition CL:0010009 IAO:0000115 -WARN missing_definition CL:0010010 IAO:0000115 WARN missing_definition CL:0010013 IAO:0000115 WARN missing_definition CL:0010014 IAO:0000115 -WARN missing_definition CL:0010020 IAO:0000115 -WARN missing_definition CL:0010021 IAO:0000115 WARN missing_definition CL:0011025 IAO:0000115 WARN missing_definition CL:0011028 IAO:0000115 -WARN missing_definition CL:0013000 IAO:0000115 -WARN missing_definition CL:0017509 IAO:0000115 -WARN missing_definition CL:1000001 IAO:0000115 -WARN missing_definition CL:1000022 IAO:0000115 -WARN missing_definition CL:1000042 IAO:0000115 -WARN missing_definition CL:1000050 IAO:0000115 -WARN missing_definition CL:1000073 IAO:0000115 WARN missing_definition CL:1000082 IAO:0000115 WARN missing_definition CL:1000083 IAO:0000115 WARN missing_definition CL:1000085 IAO:0000115 -WARN missing_definition CL:1000090 IAO:0000115 -WARN missing_definition CL:1000123 IAO:0000115 -WARN missing_definition CL:1000143 IAO:0000115 -WARN missing_definition CL:1000182 IAO:0000115 -WARN missing_definition CL:1000217 IAO:0000115 -WARN missing_definition CL:1000222 IAO:0000115 -WARN missing_definition CL:1000236 IAO:0000115 -WARN missing_definition CL:1000239 IAO:0000115 -WARN missing_definition CL:1000245 IAO:0000115 -WARN missing_definition CL:1000271 IAO:0000115 -WARN missing_definition CL:1000272 IAO:0000115 WARN missing_definition CL:1000274 IAO:0000115 -WARN missing_definition CL:1000510 IAO:0000115 -WARN missing_definition CL:1000550 IAO:0000115 -WARN missing_definition CL:1000596 IAO:0000115 -WARN missing_definition CL:1000600 IAO:0000115 -WARN missing_definition CL:1000601 IAO:0000115 -WARN missing_definition CL:1000606 IAO:0000115 -WARN missing_definition CL:1000612 IAO:0000115 -WARN missing_definition CL:1000615 IAO:0000115 -WARN missing_definition CL:1000616 IAO:0000115 -WARN missing_definition CL:1000617 IAO:0000115 -WARN missing_definition CL:1000618 IAO:0000115 WARN missing_definition CL:1000691 IAO:0000115 WARN missing_definition CL:1000693 IAO:0000115 WARN missing_definition CL:1000695 IAO:0000115 WARN missing_definition CL:1000696 IAO:0000115 WARN missing_definition CL:1000697 IAO:0000115 -WARN missing_definition CL:1000702 IAO:0000115 -WARN missing_definition CL:1000703 IAO:0000115 -WARN missing_definition CL:1000706 IAO:0000115 -WARN missing_definition CL:1000708 IAO:0000115 -WARN missing_definition CL:1000714 IAO:0000115 -WARN missing_definition CL:1000715 IAO:0000115 -WARN missing_definition CL:1000718 IAO:0000115 -WARN missing_definition CL:1000719 IAO:0000115 -WARN missing_definition CL:1000720 IAO:0000115 -WARN missing_definition CL:1000721 IAO:0000115 -WARN missing_definition CL:1000746 IAO:0000115 -WARN missing_definition CL:1000768 IAO:0000115 -WARN missing_definition CL:1000838 IAO:0000115 -WARN missing_definition CL:1000839 IAO:0000115 -WARN missing_definition CL:1000849 IAO:0000115 -WARN missing_definition CL:1000850 IAO:0000115 -WARN missing_definition CL:1000891 IAO:0000115 -WARN missing_definition CL:1000892 IAO:0000115 -WARN missing_definition CL:1000893 IAO:0000115 -WARN missing_definition CL:1000909 IAO:0000115 -WARN missing_definition CL:1000979 IAO:0000115 -WARN missing_definition CL:1001005 IAO:0000115 -WARN missing_definition CL:1001006 IAO:0000115 -WARN missing_definition CL:1001009 IAO:0000115 -WARN missing_definition CL:1001016 IAO:0000115 -WARN missing_definition CL:1001021 IAO:0000115 -WARN missing_definition CL:1001045 IAO:0000115 -WARN missing_definition CL:1001052 IAO:0000115 WARN missing_definition CL:1001064 IAO:0000115 WARN missing_definition CL:1001066 IAO:0000115 WARN missing_definition CL:1001068 IAO:0000115 -WARN missing_definition CL:1001096 IAO:0000115 -WARN missing_definition CL:1001097 IAO:0000115 -WARN missing_definition CL:1001099 IAO:0000115 -WARN missing_definition CL:1001100 IAO:0000115 -WARN missing_definition CL:1001123 IAO:0000115 -WARN missing_definition CL:1001124 IAO:0000115 -WARN missing_definition CL:1001126 IAO:0000115 -WARN missing_definition CL:1001127 IAO:0000115 -WARN missing_definition CL:1001135 IAO:0000115 -WARN missing_definition CL:1001138 IAO:0000115 -WARN missing_definition CL:1001142 IAO:0000115 -WARN missing_definition CL:1001145 IAO:0000115 -WARN missing_definition CL:1001209 IAO:0000115 -WARN missing_definition CL:1001210 IAO:0000115 -WARN missing_definition CL:1001213 IAO:0000115 -WARN missing_definition CL:1001214 IAO:0000115 -WARN missing_definition CL:1001216 IAO:0000115 -WARN missing_definition CL:1001217 IAO:0000115 -WARN missing_definition CL:1001220 IAO:0000115 -WARN missing_definition CL:1001221 IAO:0000115 -WARN missing_definition CL:1001223 IAO:0000115 -WARN missing_definition CL:1001224 IAO:0000115 -WARN missing_definition CL:1001286 IAO:0000115 -WARN missing_definition CL:1001287 IAO:0000115 -WARN missing_definition CL:1001319 IAO:0000115 -WARN missing_definition CL:1001320 IAO:0000115 -WARN missing_definition CL:1001430 IAO:0000115 -WARN missing_definition CL:1001431 IAO:0000115 -WARN missing_definition CL:1001432 IAO:0000115 -WARN missing_definition CL:1001567 IAO:0000115 -WARN missing_definition CL:1001568 IAO:0000115 WARN missing_definition CL:4023032 IAO:0000115 -WARN missing_definition CL:4023039 IAO:0000115 -WARN missing_definition CL:4023057 IAO:0000115 WARN missing_definition CL:4030044 IAO:0000115 WARN missing_definition CL:4030045 IAO:0000115 WARN missing_definition CL:4030046 IAO:0000115 @@ -721,7 +583,6 @@ INFO missing_superclass CL:2000078 rdfs:subClassOf INFO missing_superclass CL:2000079 rdfs:subClassOf INFO missing_superclass CL:2000080 rdfs:subClassOf INFO missing_superclass CL:2000081 rdfs:subClassOf -INFO missing_superclass CL:2000082 rdfs:subClassOf INFO missing_superclass CL:2000083 rdfs:subClassOf INFO missing_superclass CL:2000084 rdfs:subClassOf INFO missing_superclass CL:2000085 rdfs:subClassOf diff --git a/src/ontology/subsets/blood_and_immune_upper_slim.json b/src/ontology/subsets/blood_and_immune_upper_slim.json index fe2c37d13..bb7421769 100644 --- a/src/ontology/subsets/blood_and_immune_upper_slim.json +++ b/src/ontology/subsets/blood_and_immune_upper_slim.json @@ -4,68 +4,11 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", - "val" : "2024-04-05" + "val" : "2024-05-15" } ], - "version" : "http://purl.obolibrary.org/obo/cl/releases/2024-04-05/subsets/blood_and_immune_upper_slim.owl" + "version" : "http://purl.obolibrary.org/obo/cl/releases/2024-05-15/subsets/blood_and_immune_upper_slim.owl" }, "nodes" : [ { - "id" : "http://purl.obolibrary.org/obo/BFO_0000002", - "lbl" : "continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000003", - "lbl" : "occurrent", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An entity that has temporal parts and that happens, unfolds or develops through time." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000004", - "lbl" : "independent continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" - }, - "comments" : [ "A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000015", - "lbl" : "process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" - }, - "comments" : [ "An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000020", - "lbl" : "specifically dependent continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" - }, - "comments" : [ "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000040", - "lbl" : "material entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." - } - } - }, { "id" : "http://purl.obolibrary.org/obo/BFO_0000050", "lbl" : "part_of", "type" : "PROPERTY", @@ -218,10 +161,6 @@ }, "comments" : [ "Paraphrase of definition: a relation between an independent continuant and a process, in which the process takes place entirely within the independent continuant" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000141", - "lbl" : "immaterial entity", - "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/CL_0000000", "lbl" : "cell", @@ -251,6 +190,8 @@ "val" : "WBbt:0004017" }, { "val" : "XAO:0003012" + }, { + "val" : "ZFA:0009000" } ] } }, { @@ -261,7 +202,10 @@ "definition" : { "val" : "A cell found in the embryo before the formation of all the gem layers is complete.", "xrefs" : [ "GOC:tfm" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009002" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000034", @@ -282,6 +226,8 @@ "val" : "CALOHA:TS-2086" }, { "val" : "FMA:63368" + }, { + "val" : "ZFA:0005957" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -323,6 +269,8 @@ "val" : "MESH:D006412" }, { "val" : "VHOG:0001485" + }, { + "val" : "ZFA:0009014" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -362,6 +310,8 @@ } ], "xrefs" : [ { "val" : "BTO:0004911" + }, { + "val" : "ZFA:0009015" } ] } }, { @@ -392,6 +342,8 @@ "val" : "CALOHA:TS-1195" }, { "val" : "FMA:83553" + }, { + "val" : "ZFA:0009017" } ] } }, { @@ -418,6 +370,8 @@ } ], "xrefs" : [ { "val" : "FMA:84789" + }, { + "val" : "ZFA:0009020" } ] } }, { @@ -468,6 +422,8 @@ } ], "xrefs" : [ { "val" : "BTO:0004730" + }, { + "val" : "ZFA:0009021" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -507,6 +463,9 @@ "pred" : "hasExactSynonym", "val" : "megakaryocyte/erythroid progenitor cell" } ], + "xrefs" : [ { + "val" : "ZFA:0009022" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -553,6 +512,9 @@ "pred" : "hasRelatedSynonym", "val" : "lymphopoietic stem cell" } ], + "xrefs" : [ { + "val" : "ZFA:0009023" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -575,6 +537,8 @@ "val" : "FMA:84790" }, { "val" : "MESH:D039901" + }, { + "val" : "ZFA:0009024" } ] } }, { @@ -617,6 +581,8 @@ "val" : "FMA:70335" }, { "val" : "VHOG:0001529" + }, { + "val" : "ZFA:0009025" } ] } }, { @@ -640,6 +606,8 @@ "val" : "NCIT:C12482" }, { "val" : "VHOG:0001482" + }, { + "val" : "ZFA:0009026" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -672,6 +640,8 @@ "val" : "FMA:66768" }, { "val" : "WBbt:0003672" + }, { + "val" : "ZFA:0009034" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -695,6 +665,9 @@ "pred" : "hasExactSynonym", "val" : "cuboidal endothelial cell of vascular tree" } ], + "xrefs" : [ { + "val" : "ZFA:0009036" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -708,6 +681,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "CALOHA:TS-1249" + }, { + "val" : "ZFA:0009039" } ] } }, { @@ -718,7 +693,10 @@ "definition" : { "val" : "A cell which moves among different tissues of the body, via blood, lymph, or other medium.", "xrefs" : [ "GOC:add" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009043" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000081", @@ -734,6 +712,8 @@ "val" : "FMA:62844" }, { "val" : "MESH:D001773" + }, { + "val" : "ZFA:0009044" } ] } }, { @@ -772,6 +752,8 @@ "val" : "MESH:D013601" }, { "val" : "VHOG:0001479" + }, { + "val" : "ZFA:0009046" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -801,6 +783,8 @@ "val" : "FMA:66781" }, { "val" : "MESH:D010010" + }, { + "val" : "ZFA:0009047" } ] } }, { @@ -831,6 +815,8 @@ "val" : "CALOHA:TS-0422" }, { "val" : "FMA:62854" + }, { + "val" : "ZFA:0009048" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -888,6 +874,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "xrefs" : [ { "val" : "BTO:0001433" + }, { + "val" : "ZFA:0009064" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -915,6 +903,8 @@ "val" : "CALOHA:TS-0278" }, { "val" : "FMA:66772" + }, { + "val" : "ZFA:0009065" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -933,6 +923,9 @@ "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "neurectoderm cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009080" } ] } }, { @@ -999,6 +992,8 @@ "val" : "BTO:0003298" }, { "val" : "FMA:70546" + }, { + "val" : "ZFA:0009081" } ], "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", @@ -1020,6 +1015,9 @@ "synonymType" : "http://purl.obolibrary.org/obo/OMO_0003000", "pred" : "hasRelatedSynonym", "val" : "APC" + } ], + "xrefs" : [ { + "val" : "ZFA:0009088" } ] } }, { @@ -1078,6 +1076,8 @@ "val" : "FMA:67328" }, { "val" : "WBbt:0003675" + }, { + "val" : "ZFA:0009114" } ], "basicPropertyValues" : [ { "pred" : "http://xmlns.com/foaf/0.1/depiction", @@ -1092,7 +1092,10 @@ "definition" : { "val" : "A cell whose function is determined by the generation or the reception of an electric signal.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009128" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000213", @@ -1106,6 +1109,9 @@ "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "boundary cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009130" } ] } }, { @@ -1116,7 +1122,10 @@ "definition" : { "val" : "A cell whose primary function is to prevent the transport of stuff across compartments.", "xrefs" : [ "JB:jb" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009132" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000219", @@ -1126,7 +1135,10 @@ "definition" : { "val" : "A cell that moves by its own activities.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009136" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000221", @@ -1143,6 +1155,8 @@ } ], "xrefs" : [ { "val" : "FMA:72549" + }, { + "val" : "ZFA:0009137" } ] } }, { @@ -1164,6 +1178,8 @@ } ], "xrefs" : [ { "val" : "FMA:72554" + }, { + "val" : "ZFA:0009138" } ] } }, { @@ -1181,6 +1197,8 @@ } ], "xrefs" : [ { "val" : "FMA:72555" + }, { + "val" : "ZFA:0009139" } ] } }, { @@ -1313,6 +1331,8 @@ "val" : "FMA:83806" }, { "val" : "MESH:D010586" + }, { + "val" : "ZFA:0009140" } ] } }, { @@ -1340,6 +1360,8 @@ "val" : "FMA:83585" }, { "val" : "MESH:D008264" + }, { + "val" : "ZFA:0009141" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1376,6 +1398,8 @@ "val" : "MESH:D001402" }, { "val" : "VHOG:0001480" + }, { + "val" : "ZFA:0009142" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1387,6 +1411,10 @@ "lbl" : "eukaryotic cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any cell that only exists in Eukaryota.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "MESH:D005057" @@ -1406,7 +1434,16 @@ }, { "id" : "http://purl.obolibrary.org/obo/CL_0000329", "lbl" : "oxygen accumulating cell", - "type" : "CLASS" + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any cell that is capable of some oxygen transport.", + "xrefs" : [ "FBC:Autogenerated" ] + }, + "xrefs" : [ { + "val" : "ZFA:0009164" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000333", "lbl" : "migratory neural crest cell", @@ -1418,6 +1455,8 @@ }, "xrefs" : [ { "val" : "FMA:86667" + }, { + "val" : "ZFA:0007086" } ] } }, { @@ -1428,7 +1467,10 @@ "definition" : { "val" : "A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors.", "xrefs" : [ "GOC:tfm", "PMID:5025404" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009166" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000352", @@ -1469,7 +1511,10 @@ "definition" : { "val" : "A cell whose function is determined by its response to an electric signal.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009190" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000404", @@ -1479,7 +1524,10 @@ "definition" : { "val" : "A cell that initiates an electrical signal and passes that signal to another cell.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009193" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000451", @@ -1506,6 +1554,8 @@ "val" : "FMA:83036" }, { "val" : "MESH:D003713" + }, { + "val" : "ZFA:0009209" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1515,7 +1565,12 @@ }, { "id" : "http://purl.obolibrary.org/obo/CL_0000457", "lbl" : "biogenic amine secreting cell", - "type" : "CLASS" + "type" : "CLASS", + "meta" : { + "xrefs" : [ { + "val" : "ZFA:0009212" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000458", "lbl" : "serotonin secreting cell", @@ -1531,6 +1586,9 @@ }, { "pred" : "hasExactSynonym", "val" : "5-Hydroxytryptamine secreting cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009213" } ] } }, { @@ -1580,6 +1638,8 @@ "val" : "VHOG:0001483" }, { "val" : "WBbt:0003679" + }, { + "val" : "ZFA:0009248" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1610,6 +1670,8 @@ "val" : "MESH:D008214" }, { "val" : "VHOG:0001535" + }, { + "val" : "ZFA:0009250" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1666,6 +1728,8 @@ } ], "xrefs" : [ { "val" : "FMA:83505" + }, { + "val" : "ZFA:0005236" } ] } }, { @@ -1704,6 +1768,8 @@ } ], "xrefs" : [ { "val" : "FMA:83506" + }, { + "val" : "ZFA:0005241" } ] } }, { @@ -1872,6 +1938,9 @@ "val" : "GMP", "xrefs" : [ "ISBN:0721601464", "PMCID:PMC2213186", "PMCID:PMC548021" ] } ], + "xrefs" : [ { + "val" : "ZFA:0009251" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -1893,6 +1962,8 @@ "val" : "CALOHA:TS-0864" }, { "val" : "MESH:D012156" + }, { + "val" : "ZFA:0009252" } ] } }, { @@ -1910,6 +1981,8 @@ "val" : "BTO:0004657" }, { "val" : "FMA:83551" + }, { + "val" : "ZFA:0009253" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1932,6 +2005,9 @@ }, { "pred" : "hasExactSynonym", "val" : "chondroplast" + } ], + "xrefs" : [ { + "val" : "ZFA:0009258" } ] } }, { @@ -1951,6 +2027,8 @@ "val" : "CALOHA:TS-0638" }, { "val" : "FMA:62864" + }, { + "val" : "ZFA:0009265" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2006,7 +2084,10 @@ "val" : "A non-terminally differentiated cell that is capable of developing into a muscle cell.", "xrefs" : [ "GOC:add" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], + "xrefs" : [ { + "val" : "ZFA:0009291" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000723", @@ -2021,6 +2102,8 @@ "val" : "CALOHA:TS-2086" }, { "val" : "MESH:D053687" + }, { + "val" : "ZFA:0009307" } ] } }, { @@ -2053,6 +2136,8 @@ "val" : "MESH:D007962" }, { "val" : "NCIT:C12529" + }, { + "val" : "ZFA:0009309" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2069,7 +2154,10 @@ "xrefs" : [ "GOC:add", "GOC:tfm", "PMID:16360205" ] }, "comments" : [ "Note that this is a non-mammalian cell type. Use platelet ; CL:0000233 for thrombocytes (platelets) in mammals." ], - "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim" ], + "xrefs" : [ { + "val" : "ZFA:0009323" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000763", @@ -2087,6 +2175,8 @@ "val" : "CALOHA:TS-0647" }, { "val" : "MESH:D022423" + }, { + "val" : "ZFA:0009324" } ] } }, { @@ -2110,6 +2200,8 @@ "val" : "FMA:62845" }, { "val" : "FMA:83516" + }, { + "val" : "ZFA:0009325" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2138,6 +2230,8 @@ "val" : "FMA:83504" }, { "val" : "MESH:D004900" + }, { + "val" : "ZFA:0005237" } ] } }, { @@ -2149,7 +2243,10 @@ "val" : "A cell of the monocyte, granulocyte, or mast cell lineage.", "xrefs" : [ "GOC:add" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], + "xrefs" : [ { + "val" : "ZFA:0009326" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000767", @@ -2286,6 +2383,8 @@ "val" : "FMA:62860" }, { "val" : "MESH:D009504" + }, { + "val" : "ZFA:0009327" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2386,6 +2485,9 @@ }, { "pred" : "hasExactSynonym", "val" : "mature B-lymphocyte" + } ], + "xrefs" : [ { + "val" : "ZFA:0009331" } ] } }, { @@ -2424,6 +2526,8 @@ "val" : "FMA:70574" }, { "val" : "MESH:D010950" + }, { + "val" : "ZFA:0009332" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2449,6 +2553,9 @@ }, { "pred" : "hasExactSynonym", "val" : "alpha-beta T-lymphocyte" + } ], + "xrefs" : [ { + "val" : "ZFA:0009335" } ] } }, { @@ -2479,6 +2586,9 @@ "pred" : "hasRelatedSynonym", "val" : "gd T cell" } ], + "xrefs" : [ { + "val" : "ZFA:0009336" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -2509,6 +2619,9 @@ "val" : "newly formed B cell", "xrefs" : [ "ISBN:781735149" ] } ], + "xrefs" : [ { + "val" : "ZFA:0009343" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -2532,6 +2645,8 @@ "val" : "BTO:0001133" }, { "val" : "CALOHA:TS-0819" + }, { + "val" : "ZFA:0009344" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2572,6 +2687,9 @@ "pred" : "hasNarrowSynonym", "val" : "T3 B cell" } ], + "xrefs" : [ { + "val" : "ZFA:0009345" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -2620,6 +2738,8 @@ } ], "xrefs" : [ { "val" : "BTO:0003104" + }, { + "val" : "ZFA:0009349" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2651,6 +2771,9 @@ }, { "pred" : "hasNarrowSynonym", "val" : "TN1 cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009350" } ] } }, { @@ -2662,7 +2785,10 @@ "val" : "A progenitor cell of the thrombocyte, a nucleated blood cell involved in coagulation typically seen in birds and other non-mammalian vertebrates.", "xrefs" : [ "GOC:add", "GOC:tfm", "PMID:7758949" ] }, - "comments" : [ "Note that this is a non-mammalian cell type." ] + "comments" : [ "Note that this is a non-mammalian cell type." ], + "xrefs" : [ { + "val" : "ZFA:0009351" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000831", @@ -2710,6 +2836,8 @@ "val" : "BTO:0000725" }, { "val" : "CALOHA:TS-0448" + }, { + "val" : "ZFA:0009354" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2737,6 +2865,8 @@ "val" : "CALOHA:TS-2025" }, { "val" : "FMA:70338" + }, { + "val" : "ZFA:0009355" } ] } }, { @@ -2760,6 +2890,8 @@ "val" : "CALOHA:TS-2099" }, { "val" : "FMA:70339" + }, { + "val" : "ZFA:0009356" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2789,6 +2921,8 @@ "val" : "CALOHA:TS-0768" }, { "val" : "FMA:86713" + }, { + "val" : "ZFA:0009357" } ] } }, { @@ -2922,6 +3056,8 @@ "val" : "FMA:70366" }, { "val" : "FMA:83598" + }, { + "val" : "ZFA:0005830" } ] } }, { @@ -3166,6 +3302,8 @@ }, "xrefs" : [ { "val" : "FMA:69074" + }, { + "val" : "ZFA:0009385" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -3190,6 +3328,8 @@ } ], "xrefs" : [ { "val" : "FMA:69076" + }, { + "val" : "ZFA:0009388" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -3400,6 +3540,8 @@ "val" : "FMA:63875" }, { "val" : "MESH:D003239" + }, { + "val" : "ZFA:0009392" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -3424,6 +3566,8 @@ "val" : "FMA:82840" }, { "val" : "WBbt:0007028" + }, { + "val" : "ZFA:0007089" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -3501,6 +3645,9 @@ "xrefs" : [ "GOC:tfm" ] }, "comments" : [ "See CL:0002619." ], + "xrefs" : [ { + "val" : "ZFA:0005773" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0003-1980-3228" @@ -3559,6 +3706,9 @@ "val" : "Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells.", "xrefs" : [ "UBERONREF:0000002" ] }, + "xrefs" : [ { + "val" : "ZFA:0007084" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0001-9114-8737" @@ -5904,7 +6054,7 @@ "xrefs" : [ "GOC:go_curators" ] }, "comments" : [ "Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "extracellular" @@ -6022,7 +6172,7 @@ "xrefs" : [ "ISBN:0198547684" ] }, "comments" : [ "Note that for multicellular organisms, the extracellular space refers to everything outside a cell, but still within the organism (excluding the extracellular matrix). Gene products from a multi-cellular organism that are secreted from a cell into the interstitial fluid or blood can therefore be annotated to this term." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "intercellular space" @@ -6083,7 +6233,7 @@ "val" : "A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell nucleus" @@ -6112,7 +6262,7 @@ "xrefs" : [ "ISBN:0198547684" ] }, "comments" : [ "Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "interphase chromosome" @@ -6160,7 +6310,7 @@ "val" : "The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.", "xrefs" : [ "ISBN:0198547684" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "xrefs" : [ { "val" : "Wikipedia:Cytoplasm" } ], @@ -6221,7 +6371,7 @@ "val" : "A closed structure, found only in eukaryotic cells, that is completely surrounded by unit membrane and contains liquid material. Cells contain one or several vacuoles, that may have different functions from each other. Vacuoles have a diverse array of functions. They can act as a storage organelle for nutrients or waste products, as a degradative compartment, as a cost-effective way of increasing cell size, and as a homeostatic regulator controlling both turgor pressure and pH of the cytosol.", "xrefs" : [ "GOC:mtg_sensu", "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "vacuolar carboxypeptidase Y" @@ -6244,7 +6394,7 @@ "xrefs" : [ "ISBN:0198506732" ] }, "comments" : [ "Note that the Golgi apparatus can be located in various places in the cytoplasm. In plants and lower animal cells, the Golgi apparatus exists as many copies of discrete stacks dispersed throughout the cytoplasm, while the Golgi apparatus of interphase mammalian cells is a juxtanuclear, often pericentriolar reticulum, where the discrete Golgi stacks are stitched together to form a compact and interconnected ribbon, sometimes called the Golgi ribbon." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "Golgi" @@ -6274,7 +6424,7 @@ "val" : "An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "free ribosome", @@ -6309,7 +6459,7 @@ "val" : "The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.", "xrefs" : [ "ISBN:0716731363" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "juxtamembrane" @@ -6399,7 +6549,7 @@ "val" : "Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "DNA metabolism" @@ -6424,7 +6574,7 @@ "val" : "Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Interchromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -6439,7 +6589,7 @@ "val" : "The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "protein anabolism" @@ -6578,7 +6728,7 @@ "xrefs" : [ "GOC:dos", "GOC:dph", "GOC:jl", "GOC:mah" ] }, "comments" : [ "Note that this term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term, for e.g. to transmembrane transport, to microtubule-based transport or to vesicle-mediated transport." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "single-organism transport" @@ -6955,7 +7105,7 @@ "xrefs" : [ "GOC:mah" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "response to abiotic stress" @@ -7047,7 +7197,8 @@ "val" : "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "organelle organisation" @@ -7064,6 +7215,9 @@ "val" : "single-organism organelle organization" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -7086,7 +7240,7 @@ "val" : "The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.", "xrefs" : [ "GOC:go_curators", "GOC:mtg_cell_cycle" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell-division cycle" @@ -7149,20 +7303,8 @@ "xrefs" : [ "GOC:go_curators", "GOC:mtg_signaling_feb11" ] }, "comments" : [ "Note that signal transduction is defined broadly to include a ligand interacting with a receptor, downstream signaling steps and a response being triggered. A change in form of the signal in every step is not necessary. Note that in many cases the end of this process is regulation of the initiation of transcription. Note that specific transcription factors may be annotated to this term, but core/general transcription machinery such as RNA polymerase should not." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by cis-phosphorylation" - }, { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by conformational transition" - }, { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by protein phosphorylation" - }, { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by trans-phosphorylation" - }, { "pred" : "hasNarrowSynonym", "val" : "signaling cascade" }, { @@ -7173,8 +7315,7 @@ "val" : "signaling pathway" }, { "pred" : "hasRelatedSynonym", - "val" : "signalling pathway", - "xrefs" : [ "GOC:mah" ] + "val" : "signalling pathway" } ], "xrefs" : [ { "val" : "Wikipedia:Signal_transduction" @@ -7539,7 +7680,7 @@ "xrefs" : [ "GOC:go_curators", "ISBN:0198547684" ] }, "comments" : [ "Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "metabolism" @@ -7560,6 +7701,9 @@ "val" : "Wikipedia:Metabolism" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/26424" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -7611,7 +7755,7 @@ "val" : "The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.", "xrefs" : [ "GOC:curators", "ISBN:0198547684" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "formation" @@ -7660,7 +7804,8 @@ "val" : "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "biopolymer biosynthetic process", @@ -7684,6 +7829,9 @@ }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/25418" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0043284" @@ -7702,7 +7850,7 @@ "xrefs" : [ "GOC:hb" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "response to environmental stimulus" @@ -7722,7 +7870,7 @@ "xrefs" : [ "GOC:hb" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "response to biotic stress" @@ -7789,7 +7937,7 @@ "val" : "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant.", "xrefs" : [ "GOC:go_curators", "GOC:isa_complete", "GOC:mtg_sensu" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "embryogenesis and morphogenesis" @@ -7989,7 +8137,7 @@ "xrefs" : [ "GOC:lr", "GOC:mtg_apoptosis" ] }, "comments" : [ "Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "regulated cell death" @@ -8151,7 +8299,7 @@ "val" : "A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component.", "xrefs" : [ "GOC:ai", "GOC:jl", "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell organisation" @@ -8235,7 +8383,7 @@ "val" : "A cellular transport process in which transported substances are moved in membrane-bounded vesicles; transported substances are enclosed in the vesicle lumen or located in the vesicle membrane. The process begins with a step that directs a substance to the forming vesicle, and includes vesicle budding and coating. Vesicles are then targeted to, and fuse with, an acceptor membrane.", "xrefs" : [ "GOC:ai", "GOC:mah", "ISBN:08789310662000" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_pombe" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_pombe" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "vesicle transport" @@ -8288,6 +8436,9 @@ "xrefs" : [ "GOC:ma" ] }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002161", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_4751" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -8400,7 +8551,8 @@ "val" : "The chemical reactions and pathways involving a protein. Includes protein modification.", "xrefs" : [ "GOC:ma" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular protein metabolic process" @@ -8426,6 +8578,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/23112" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0006411" @@ -8584,7 +8739,7 @@ "val" : "The cellular process that ensures successive accurate and complete genome replication and chromosome segregation.", "xrefs" : [ "GOC:isa_complete", "GOC:mtg_cell_cycle" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -8599,7 +8754,8 @@ "val" : "A cellular process that results in the breakdown of a cellular component.", "xrefs" : [ "GOC:isa_complete" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell structure disassembly" @@ -8608,6 +8764,9 @@ "val" : "cellular component disassembly at cellular level" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0071845" }, { @@ -8639,7 +8798,7 @@ "val" : "The aggregation, arrangement and bonding together of a cellular component.", "xrefs" : [ "GOC:isa_complete" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell structure assembly" @@ -8713,7 +8872,7 @@ "xrefs" : [ "GOC:mtg_signal", "GOC:mtg_signaling_feb11", "GOC:signaling" ] }, "comments" : [ "Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "biological signaling" @@ -8981,7 +9140,7 @@ "val" : "The cellular developmental process in which a relatively unspecialized cell, e.g. embryonic or regenerative cell, acquires specialized structural and/or functional features that characterize a specific cell. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "xrefs" : [ { "val" : "Wikipedia:Cellular_differentiation" } ], @@ -9414,7 +9573,7 @@ "val" : "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues.", "xrefs" : [ "GOC:BHF", "GOC:mah", "GOC:rph", "NIF_Subcellular:nlx_subcell_20090513", "PMID:21123617", "PMID:28089324" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "proteinaceous extracellular matrix" @@ -9692,7 +9851,7 @@ "xrefs" : [ "GOC:mah" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -9708,7 +9867,7 @@ "xrefs" : [ "GOC:mah" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "up regulation of response to external stimulus" @@ -9739,6 +9898,7 @@ "val" : "Any biological process, occurring at the level of a multicellular organism, pertinent to its function.", "xrefs" : [ "GOC:curators", "GOC:dph", "GOC:isa_complete", "GOC:tb" ] }, + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", @@ -9748,6 +9908,9 @@ "val" : "single-multicellular organism process" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://purl.obolibrary.org/obo/RO_0002161", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_2" }, { @@ -9913,7 +10076,7 @@ "xrefs" : [ "GOC:dos", "GOC:mah" ] }, "comments" : [ "A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "macromolecular complex" @@ -10167,7 +10330,7 @@ "val" : "Receiving a signal and transmitting it in the cell to initiate a change in cell activity. A signal is a physical entity or change in state that is used to transfer information in order to trigger a response.", "xrefs" : [ "GOC:bf", "GOC:signaling" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "receptor activity" @@ -10486,7 +10649,7 @@ "xrefs" : [ "GOC:jl" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "response to chemical stimulus", @@ -10581,14 +10744,17 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Primary lysosomal granule found in neutrophil granulocytes. Contains a wide range of hydrolytic enzymes and is released into the extracellular fluid.", - "xrefs" : [ "GOC:jl", "PMID:17152095" ] + "val" : "Primary lysosomal granule readily stainable with a Romanowsky stain.", + "xrefs" : [ "GOC:jl", "PMID:17152095", "PMID:28717070", "PMID:5914694", "WIKIPEDIA:Azurophilic_granule" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "primary granule" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27231" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] @@ -10674,7 +10840,7 @@ "val" : "A prolongation or process extending from a cell, e.g. a flagellum or axon.", "xrefs" : [ "GOC:jl", "http://www.cogsci.princeton.edu/~wn/" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "cell process" @@ -10785,7 +10951,7 @@ "val" : "Organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton, and prokaryotic structures such as anammoxosomes and pirellulosomes. Excludes the plasma membrane.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "xrefs" : [ { "val" : "NIF_Subcellular:sao1539965131" }, { @@ -11086,7 +11252,7 @@ "val" : "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism.", "xrefs" : [ "GOC:go_curators", "http://www.metacyc.org" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "primary metabolism" @@ -11108,6 +11274,8 @@ "val" : "The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells.", "xrefs" : [ "GOC:jl" ] }, + "comments" : [ "This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular anabolism" @@ -11122,6 +11290,9 @@ "val" : "cellular synthesis" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27052" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -11252,7 +11423,7 @@ "val" : "The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane.", "xrefs" : [ "GOC:aruk", "ISBN:0198506732", "PMID:24619342", "PMID:29383328", "PMID:31998110" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_synapse" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_synapse" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "synaptic junction" @@ -11659,7 +11830,7 @@ "xrefs" : [ "GOC:jid" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -11675,7 +11846,7 @@ "xrefs" : [ "GOC:jid" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "up regulation of response to stimulus" @@ -11707,7 +11878,7 @@ "xrefs" : [ "GOC:jid" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "down regulation of response to stimulus" @@ -11859,7 +12030,7 @@ "val" : "The biological process whose specific outcome is the progression of an anatomical structure from an initial condition to its mature state. This process begins with the formation of the structure and ends with the mature structure, whatever form that may be including its natural destruction. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome.", "xrefs" : [ "GO_REF:0000021" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "development of an anatomical structure" @@ -11895,7 +12066,7 @@ "val" : "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another.", "xrefs" : [ "GOC:dgh", "GOC:dph", "GOC:isa_complete", "GOC:mlg" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell locomotion" @@ -11909,6 +12080,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/19809" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002161", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_4890" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -12132,6 +12306,9 @@ "xrefs" : [ "GOC:ai" ] }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002161", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_4890" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -12189,7 +12366,7 @@ "xrefs" : [ "GOC:ai", "GOC:bf" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "physiological response to stimulus" @@ -12285,7 +12462,7 @@ "val" : "Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation.", "xrefs" : [ "GOC:ai", "GOC:dos" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "establishment and maintenance of localization" @@ -12314,6 +12491,9 @@ "val" : "single-organism localization" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27052" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -12521,7 +12701,7 @@ "xrefs" : [ "GOC:bf", "GOC:jl" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -12537,7 +12717,7 @@ "xrefs" : [ "GOC:dph", "GOC:jid" ] }, "comments" : [ "Transmembrane transport is the transport of a solute across a lipid bilayer. Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane and is not traversed. For transport through the nuclear pore, consider instead the term 'nucleocytoplasmic transport ; GO:0006913' and its children. Note also that this term is not intended for use in annotating lateral movement within membranes." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "membrane transport" @@ -12568,7 +12748,7 @@ "val" : "A compound molecular function in which an effector function is controlled by one or more regulatory components.", "xrefs" : [ "GOC:dos", "GOC:pdt" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" @@ -12969,7 +13149,7 @@ "xrefs" : [ "GOC:mah" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "mah" @@ -13192,7 +13372,8 @@ "val" : "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular component organisation or biogenesis", @@ -13206,6 +13387,9 @@ "val" : "cellular component organization or biogenesis at cellular level" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "mah" }, { @@ -13494,7 +13678,7 @@ "xrefs" : [ "GOC:dos" ] }, "comments" : [ "Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "region of plasma membrane" @@ -13666,7 +13850,7 @@ "xrefs" : [ "GOC:dos" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" @@ -14006,6 +14190,7 @@ "val" : "The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon.", "xrefs" : [ "GOC:TermGenie", "GOC:pr" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "organic molecular entity anabolism", @@ -14039,6 +14224,9 @@ "val" : "organic substance synthesis" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/26424" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "pr" }, { @@ -19350,38 +19538,6 @@ "val" : "protein" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/PR_000050567", - "lbl" : "protein-containing material entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A material entity that minimally consists of a protein.", - "xrefs" : [ "PRO:DAN" ] - }, - "comments" : [ "Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566)." ], - "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "protein", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein aggregate", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein complex", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein-containing complex", - "xrefs" : [ "PRO:DAN" ] - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "protein" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000052", "lbl" : "characteristic of", @@ -19455,20 +19611,6 @@ "val" : "has_participant" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000079", - "lbl" : "function of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000080", "lbl" : "quality of", @@ -19483,33 +19625,6 @@ "val" : "A quality inheres in its bearer at all times for which the quality exists." } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000081", - "lbl" : "role of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000085", - "lbl" : "has function", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000086", "lbl" : "has quality", @@ -19523,39 +19638,6 @@ "val" : "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000087", - "lbl" : "has role", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000091", - "lbl" : "has disposition", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000092", - "lbl" : "disposition of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "inverse of has disposition" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0001000", "lbl" : "derives from", @@ -19678,104 +19760,6 @@ "val" : "bounding_layer_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002013", - "lbl" : "has regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." - }, - "xrefs" : [ { - "val" : "RO:0002013" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:30:46Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "has_regulatory_component_activity" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002014", - "lbl" : "has negative regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." - }, - "comments" : [ "By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'." ], - "xrefs" : [ { - "val" : "RO:0002014" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:31:01Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "has_negative_regulatory_component_activity" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002015", - "lbl" : "has positive regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." - }, - "comments" : [ "By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:31:17Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002017", - "lbl" : "has component activity", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:44:33Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002018", - "lbl" : "has component process", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:49:21Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002021", "lbl" : "occurs across", @@ -19792,72 +19776,6 @@ "val" : "2017-07-20T17:19:37Z" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002022", - "lbl" : "directly regulated by", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:24Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002023", - "lbl" : "directly negatively regulated by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:38Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002024", - "lbl" : "directly positively regulated by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:47Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002025", - "lbl" : "has effector activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "comments" : [ "This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-22T14:14:36Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002081", "lbl" : "before or simultaneous with", @@ -21007,20 +20925,6 @@ "val" : "A relationship that holds between entities participating in some developmental process (GO:0032502)" } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002327", - "lbl" : "enables", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c enables p iff c is capable of p and c acts to execute p." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Enables" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002328", "lbl" : "functionally related to", @@ -21048,19 +20952,6 @@ "val" : "holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002331", - "lbl" : "involved in", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved_in p if and only if c enables some process p', and p' is part of p" - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Involved_in" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002332", "lbl" : "regulates levels of", @@ -21080,20 +20971,6 @@ "val" : "regulates_levels_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002333", - "lbl" : "enabled by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "inverse of enables" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Enabled_by" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002334", "lbl" : "regulated by", @@ -21489,48 +21366,6 @@ "val" : "causally_downstream_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002405", - "lbl" : "immediately causally downstream of", - "type" : "PROPERTY", - "meta" : { - "xrefs" : [ { - "val" : "RO:0002405" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "immediately_causally_downstream_of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002407", - "lbl" : "indirectly positively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Indirectly_positively_regulates" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002409", - "lbl" : "indirectly negatively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Indirectly_negatively_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002410", "lbl" : "causally related to", @@ -21565,25 +21400,6 @@ "val" : "causally_upstream_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002412", - "lbl" : "immediately causally upstream of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." - }, - "xrefs" : [ { - "val" : "RO:0002412" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "immediately_causally_upstream_of" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002418", "lbl" : "causally upstream of or within", @@ -21639,28 +21455,6 @@ "val" : "c involved in regulation of p if c is involved in some p' and p' regulates some p" } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002429", - "lbl" : "involved in positive regulation of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002430", - "lbl" : "involved in negative regulation of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002428" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002431", "lbl" : "involved in or involved in regulation of", @@ -21674,25 +21468,6 @@ "val" : "OWL does not allow defining object properties via a Union" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002432", - "lbl" : "is active in", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure.", - "xrefs" : [ "https://orcid.org/0000-0002-6601-2165", "https://orcid.org/0000-0002-7073-9172" ] - }, - "comments" : [ "" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "enables activity in" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Is_active_in" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002433", "lbl" : "contributes to morphology of", @@ -21702,96 +21477,6 @@ "val" : "p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002434", - "lbl" : "interacts with", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "in pairwise interaction with" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Considering relabeling as 'pairwise interacts with'" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002436", - "lbl" : "molecularly interacts with", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ECO_0000353" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002447", - "lbl" : "phosphorylates", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Axiomatization to GO to be added later" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002448", - "lbl" : "directly regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly controls" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002449", - "lbl" : "directly negatively regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly decreases activity of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002450", - "lbl" : "directly positively regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly increases activity of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002464", - "lbl" : "helper property (not for use in curation)", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002473", "lbl" : "composed primarily of", @@ -21812,10 +21497,6 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002481", - "lbl" : "is kinase activity", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002485", "lbl" : "receives input from", @@ -21968,16 +21649,6 @@ "val" : "http://purl.obolibrary.org/obo/BFO_0000169" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002506", - "lbl" : "causal relation between entities", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002551", "lbl" : "has skeleton", @@ -21987,27 +21658,6 @@ "val" : "A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002559", - "lbl" : "causally influenced by", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002563", - "lbl" : "interaction relation helper property", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002564", - "lbl" : "molecular interaction relation helper property", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002565", "lbl" : "results in movement of", @@ -22028,15 +21678,6 @@ "val" : "results_in_movement_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002566", - "lbl" : "causally influences", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." - } - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002567", "lbl" : "biomechanically related to", @@ -22105,26 +21746,6 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002578", - "lbl" : "directly regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly regulates q iff p is immediately causally upstream of q and p regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002578" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002584", "lbl" : "has part structure that is capable of", @@ -22254,55 +21875,6 @@ "val" : "process_has_causal_agent" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002629", - "lbl" : "directly positively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002629" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_positively_regulates" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Directly_positively_regulates" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002630", - "lbl" : "directly negatively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002630" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_negatively_regulates" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Directly_negatively_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0003000", "lbl" : "produces", @@ -22424,102 +21996,6 @@ "val" : "has_primary_input" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004031", - "lbl" : "enables subfunction", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-25T23:20:13Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004032", - "lbl" : "acts upstream of or within, positive effect", - "type" : "PROPERTY", - "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:49:30Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004033", - "lbl" : "acts upstream of or within, negative effect", - "type" : "PROPERTY", - "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:49:51Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004034", - "lbl" : "acts upstream of, positive effect", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:53:14Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004035", - "lbl" : "acts upstream of, negative effect", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:53:22Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0004046", "lbl" : "causally upstream of or within, negative effect", @@ -22568,15 +22044,6 @@ "val" : "2018-03-14T00:03:24Z" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0011002", - "lbl" : "regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." - } - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0012000", "lbl" : "has small molecule regulator", @@ -22702,38 +22169,6 @@ "val" : "results_in_fusion_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0012011", - "lbl" : "indirectly causally upstream of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0003-1813-6857" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2022-09-26T06:07:17Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0012012", - "lbl" : "indirectly regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0003-1813-6857" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2022-09-26T06:08:01Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0013001", "lbl" : "has synaptic IO in region", @@ -22873,75 +22308,15 @@ "pred" : "hasBroadSynonym", "val" : "utilizes" } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2021-11-08T12:00:00Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019000", - "lbl" : "regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019000" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "regulates_characteristic" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019001", - "lbl" : "positively regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019001" - } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" + "val" : "https://orcid.org/0000-0001-9625-1899" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "positively_regulates_characteristic" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019002", - "lbl" : "negatively regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019002" - } ], - "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" + "val" : "https://orcid.org/0000-0003-2620-0345" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "negatively_regulates_characteristic" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2021-11-08T12:00:00Z" } ] } }, { @@ -23103,6 +22478,8 @@ "val" : "EHDAA2:0003003" }, { "val" : "EMAPA:0" + }, { + "val" : "FBbt:00007001" }, { "val" : "FMA:305751" }, { @@ -23938,6 +23315,8 @@ "val" : "EHDAA:542" }, { "val" : "EMAPA:16262" + }, { + "val" : "FBbt:00003126" }, { "val" : "FMA:49184" }, { @@ -24263,6 +23642,8 @@ "val" : "EHDAA2:0003004" }, { "val" : "EMAPA:35178" + }, { + "val" : "FBbt:00007019" }, { "val" : "FMA:9669" }, { @@ -24335,6 +23716,8 @@ "val" : "CARO:0000005" }, { "val" : "EHDAA2:0003005" + }, { + "val" : "FBbt:00007017" }, { "val" : "FMA:5897" }, { @@ -24388,6 +23771,8 @@ "val" : "CARO:0000006" }, { "val" : "EHDAA2:0003006" + }, { + "val" : "FBbt:00007016" }, { "val" : "FMA:67165" }, { @@ -24438,6 +23823,8 @@ "val" : "CARO:0000007" }, { "val" : "EHDAA2:0003007" + }, { + "val" : "FBbt:00007015" }, { "val" : "FMA:67112" }, { @@ -24516,6 +23903,8 @@ "val" : "EMAPA:16103" }, { "val" : "EV:0100000" + }, { + "val" : "FBbt:00004856" }, { "val" : "FMA:7149" }, { @@ -24628,6 +24017,8 @@ "val" : "EMAPA:25765" }, { "val" : "EV:0100016" + }, { + "val" : "FBbt:00000001" }, { "val" : "FMA:256135" }, { @@ -24718,6 +24109,8 @@ "val" : "EHDAA2:0003032" }, { "val" : "EMAPA:36031" + }, { + "val" : "FBbt:00007009" }, { "val" : "FMA:7153" }, { @@ -24792,6 +24185,8 @@ "val" : "CARO:0000040" }, { "val" : "EHDAA2:0003040" + }, { + "val" : "FBbt:00007013" }, { "val" : "FMA:63863" }, { @@ -24830,6 +24225,8 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy", "http://purl.obolibrary.org/obo/uberon/core#upper_level" ], "xrefs" : [ { + "val" : "FBbt:00007277" + }, { "val" : "VHOG:0001737" } ], "basicPropertyValues" : [ { @@ -24886,6 +24283,8 @@ "val" : "EHDAA2:0003043" }, { "val" : "EMAPA:35868" + }, { + "val" : "FBbt:00007003" }, { "val" : "FMA:9637" }, { @@ -24956,6 +24355,8 @@ "val" : "CARO:0000055" }, { "val" : "EHDAA2:0003055" + }, { + "val" : "FBbt:00007010" }, { "val" : "HAO:0000055" }, { @@ -25020,6 +24421,8 @@ "val" : "EHDAA2:0003066" }, { "val" : "EMAPA:32738" + }, { + "val" : "FBbt:00007005" }, { "val" : "FMA:9639" }, { @@ -25253,6 +24656,8 @@ "val" : "EHDAA:38" }, { "val" : "EMAPA:16039" + }, { + "val" : "FBbt:00000052" }, { "val" : "FMA:69068" }, { @@ -25331,6 +24736,8 @@ "val" : "BTO:0000556" }, { "val" : "EMAPA:36033" + }, { + "val" : "FBbt:00000110" }, { "val" : "FMA:69069" }, { @@ -25392,6 +24799,8 @@ "val" : "EMAPA:16069" }, { "val" : "EV:0100003" + }, { + "val" : "FBbt:00000111" }, { "val" : "FMA:69070" }, { @@ -25461,6 +24870,8 @@ "val" : "EMAPA:16062" }, { "val" : "EV:0100005" + }, { + "val" : "FBbt:00000125" }, { "val" : "FMA:69071" }, { @@ -25543,6 +24954,8 @@ "val" : "EMAPA:16083" }, { "val" : "EV:0100006" + }, { + "val" : "FBbt:00000126" }, { "val" : "FMA:69072" }, { @@ -25632,6 +25045,8 @@ "val" : "EHDAA2:0001929" }, { "val" : "EMAPA:16263" + }, { + "val" : "FBbt:00000439" }, { "val" : "FMA:295846" }, { @@ -25870,6 +25285,8 @@ "val" : "CALOHA:TS-1293" }, { "val" : "EFO:0000793" + }, { + "val" : "FBbt:00005055" }, { "val" : "FMA:7152" }, { @@ -26073,6 +25490,8 @@ "val" : "EMAPA:16469" }, { "val" : "EV:0100162" + }, { + "val" : "FBbt:00005093" }, { "val" : "FMA:7157" }, { @@ -26175,6 +25594,8 @@ "val" : "EMAPA:16754" }, { "val" : "EV:0100163" + }, { + "val" : "FBbt:00005094" }, { "val" : "FMA:55675" }, { @@ -26252,6 +25673,8 @@ "val" : "EFO:0001652" }, { "val" : "EHDAA2:0003171" + }, { + "val" : "FBbt:00005495" }, { "val" : "FMA:86589" }, { @@ -26367,6 +25790,8 @@ "val" : "CARO:0000000" }, { "val" : "EHDAA2:0002229" + }, { + "val" : "FBbt:10000000" }, { "val" : "FMA:62955" }, { @@ -26591,6 +26016,8 @@ "val" : "EHDAA:518" }, { "val" : "EMAPA:16247" + }, { + "val" : "FBbt:00003125" }, { "val" : "FMA:45615" }, { @@ -26936,6 +26363,8 @@ "val" : "CALOHA:TS-2110" }, { "val" : "EFO:0000461" + }, { + "val" : "FBbt:00004208" }, { "val" : "FMA:69067" }, { @@ -27357,6 +26786,8 @@ "val" : "BTO:0001707" }, { "val" : "EHDAA2:0000267" + }, { + "val" : "FBbt:00005060" }, { "val" : "FMA:85006" }, { @@ -27670,6 +27101,8 @@ "val" : "EMAPA:16073" }, { "val" : "EV:0100004" + }, { + "val" : "FBbt:00001057" }, { "val" : "FMA:87657" }, { @@ -28820,6 +28253,8 @@ "val" : "AEO:0000114" }, { "val" : "EHDAA2:0003114" + }, { + "val" : "FBbt:00007474" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -29403,6 +28838,8 @@ "val" : "BILA:0000060" }, { "val" : "BTO:0001403" + }, { + "val" : "FBbt:00005317" }, { "val" : "FMA:293108" }, { @@ -29673,6 +29110,9 @@ "pred" : "hasNarrowSynonym", "val" : "joint" } ], + "xrefs" : [ { + "val" : "FBbt:00005811" + } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -29708,6 +29148,8 @@ "xrefs" : [ "FMA:71131" ] } ], "xrefs" : [ { + "val" : "FBbt:00100315" + }, { "val" : "FMA:71131" } ], "basicPropertyValues" : [ { @@ -30034,6 +29476,8 @@ "val" : "CALOHA:TS-2122" }, { "val" : "EHDAA2:0003125" + }, { + "val" : "FBbt:00007006" }, { "val" : "FMA:292313" }, { @@ -30944,6 +30388,8 @@ "val" : "EFO:0001649" }, { "val" : "EHDAA2:0003170" + }, { + "val" : "FBbt:00005426" }, { "val" : "Wikipedia:Anlage_(biology)" } ], @@ -31102,6 +30548,8 @@ } ], "xrefs" : [ { "val" : "CARO:0010000" + }, { + "val" : "FBbt:00100313" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -31311,6 +30759,8 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#upper_level" ], "xrefs" : [ { + "val" : "FBbt:00007330" + }, { "val" : "FMA:67509" }, { "val" : "SCTID:91690000" @@ -31679,6 +31129,8 @@ }, "xrefs" : [ { "val" : "AEO:0000093" + }, { + "val" : "FBbt:00007278" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -31910,6 +31362,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy" ], "xrefs" : [ { "val" : "CARO:0020000" + }, { + "val" : "FBbt:00007276" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -32447,26 +31901,6 @@ } } ], "edges" : [ { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000004", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000015", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000020", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000040", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000141", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000000", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" @@ -32590,10 +32024,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000040", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000040", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -32794,10 +32224,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000092", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000092", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -32848,10 +32274,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000094", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000094", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -32898,10 +32320,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000097", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0002274" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000097", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000097", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -33294,10 +32712,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000451", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000145" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000451", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000451", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -33378,10 +32792,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000542", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000842" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000542", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000542", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -33412,10 +32822,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000547", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0002242" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000547", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000547", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -33490,10 +32896,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000549", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000549", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -33516,10 +32918,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000550", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000550", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -33666,10 +33064,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000557", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_1001610" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000557", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000557", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -33708,10 +33102,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000558", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000558", "pred" : "http://purl.obolibrary.org/obo/CL_4030046", @@ -33782,10 +33172,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000559", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000559", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -33812,10 +33198,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000566", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0011026" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000566", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000566", "pred" : "http://purl.obolibrary.org/obo/RO_0002104", @@ -34370,10 +33752,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000826", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000826", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -34448,10 +33826,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000831", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000831", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -34556,10 +33930,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000837", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0008001" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000837", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000837", "pred" : "http://purl.obolibrary.org/obo/CL_4030046", @@ -34684,10 +34054,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000889", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000889", "pred" : "http://purl.obolibrary.org/obo/RO_0000053", @@ -34982,10 +34348,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0002028", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0002191" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0002028", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002028", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -36106,10 +35468,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0003013", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0003008" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0003674", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000015" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0004888", "pred" : "is_a", @@ -36122,10 +35480,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0004930", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/GO_0007186" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0005575", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005576", "pred" : "is_a", @@ -36246,8 +35600,8 @@ "obj" : "http://purl.obolibrary.org/obo/GO_0043232" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005840", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", + "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005840", "pred" : "http://purl.obolibrary.org/obo/RO_0002216", @@ -36267,7 +35621,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006259", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0043170" + "obj" : "http://purl.obolibrary.org/obo/GO_0008152" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006310", "pred" : "is_a", @@ -36620,10 +35974,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0008015", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0003013" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0008150", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000015" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0008152", "pred" : "is_a", @@ -37000,6 +36350,10 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0030097", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0048468" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0030097", + "pred" : "http://purl.obolibrary.org/obo/RO_0002160", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0030097", "pred" : "http://purl.obolibrary.org/obo/RO_0002296", @@ -37334,8 +36688,8 @@ "obj" : "http://purl.obolibrary.org/obo/GO_0005575" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0032991", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", + "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0032993", "pred" : "is_a", @@ -37516,10 +36870,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0042330", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/GO_0009605" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0042391", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0042391", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -37544,10 +36894,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0042582", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0030141" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0042582", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/CL_0000775" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0042592", "pred" : "is_a", @@ -38572,10 +37918,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0098644", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0099080" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0098644", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0098644", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -39020,10 +38362,6 @@ "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_9989", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_314147" - }, { - "sub" : "http://purl.obolibrary.org/obo/PATO_0000001", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000020" }, { "sub" : "http://purl.obolibrary.org/obo/PATO_0000051", "pred" : "is_a", @@ -39588,14 +38926,6 @@ "sub" : "http://purl.obolibrary.org/obo/PR_000040662", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_33208" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000050567", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000050567", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", - "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000025", "pred" : "is_a", @@ -39660,10 +38990,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000064", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000062" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", "pred" : "is_a", @@ -39680,10 +39006,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", "pred" : "http://purl.obolibrary.org/obo/BFO_0000063", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000071" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", "pred" : "is_a", @@ -39700,10 +39022,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", "pred" : "http://purl.obolibrary.org/obo/RO_0002082", "obj" : "http://purl.obolibrary.org/obo/GO_0009790" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000071", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000071", "pred" : "is_a", @@ -39734,10 +39052,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000075", "pred" : "http://purl.obolibrary.org/obo/RO_0002473", "obj" : "http://purl.obolibrary.org/obo/UBERON_0004765" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", "pred" : "is_a", @@ -39750,10 +39064,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", "pred" : "http://purl.obolibrary.org/obo/RO_0002082", "obj" : "http://purl.obolibrary.org/obo/GO_0009791" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", "pred" : "is_a", @@ -39774,10 +39084,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000105", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000104" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", "pred" : "is_a", @@ -39790,10 +39096,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", "pred" : "http://purl.obolibrary.org/obo/RO_0002223", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000104" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", "pred" : "is_a", @@ -39810,10 +39112,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", "pred" : "http://purl.obolibrary.org/obo/RO_0002087", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000106" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", "pred" : "is_a", @@ -39826,10 +39124,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", "pred" : "http://purl.obolibrary.org/obo/BFO_0000062", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000107" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", "pred" : "is_a", @@ -39856,10 +39150,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", "pred" : "is_a", @@ -39880,10 +39170,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000111", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000111", "pred" : "is_a", @@ -39912,10 +39198,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000165", "pred" : "http://purl.obolibrary.org/obo/RO_0002202", "obj" : "http://purl.obolibrary.org/obo/UBERON_0035804" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000178", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000178", "pred" : "is_a", @@ -40018,18 +39300,10 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000464", "pred" : "http://purl.obolibrary.org/obo/RO_0002219", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000465", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000465", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001062" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000466", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000141" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000466", "pred" : "is_a", @@ -40104,10 +39378,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000481", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000479" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000483", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000483", "pred" : "is_a", @@ -40537,10 +39807,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0001630", "pred" : "http://purl.obolibrary.org/obo/RO_0002473", "obj" : "http://purl.obolibrary.org/obo/UBERON_0002385" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0001969", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0001969", "pred" : "is_a", @@ -40557,10 +39823,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0001969", "pred" : "http://purl.obolibrary.org/obo/RO_0002221", "obj" : "http://purl.obolibrary.org/obo/CL_0000232" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0001981", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0001981", "pred" : "is_a", @@ -41535,10 +40797,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0004291", "pred" : "http://purl.obolibrary.org/obo/RO_0002202", "obj" : "http://purl.obolibrary.org/obo/UBERON_0004139" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0004535", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0004535", "pred" : "is_a", @@ -41555,10 +40813,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0004535", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001981" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0004537", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0004537", "pred" : "is_a", @@ -41885,10 +41139,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0005764", "pred" : "http://purl.obolibrary.org/obo/RO_0002007", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0005769", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0005769", "pred" : "is_a", @@ -42095,10 +41345,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0006914", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/CL_0000076" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0006965", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0006965", "pred" : "is_a", @@ -42412,10 +41658,6 @@ "val" : "CARO" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0010210", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0010210", "pred" : "is_a", @@ -42926,38 +42168,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0000052", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002314" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000079", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000080", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000052" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000081", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000085", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000086", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000087", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000091", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000092", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002000", "pred" : "subPropertyOf", @@ -42974,58 +42192,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002007", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000050" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002013", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002017" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002013", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002334" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002014", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002013" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002014", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002335" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002015", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002013" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002015", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002336" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002017", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002018" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002018", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002180" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002021", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002479" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002022", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002334" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002023", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002022" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002024", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002022" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002025", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002017" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002081", "pred" : "subPropertyOf", @@ -43398,34 +42568,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002315", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0040036" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002327", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002215" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002329", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002331", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000056" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002331", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002431" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002332", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002333", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000057" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002333", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002334", "pred" : "subPropertyOf", @@ -43578,30 +42728,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002404", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002427" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002087" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002404" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002407", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002213" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002407", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012012" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002409", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002212" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002409", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012012" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002411", "pred" : "subPropertyOf", @@ -43610,14 +42736,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002411", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002418" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002412", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002090" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002412", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002411" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002418", "pred" : "subPropertyOf", @@ -43634,14 +42752,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002428", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002431" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002429", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002428" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002430", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002428" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002431", "pred" : "subPropertyOf", @@ -43654,50 +42764,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002431", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002500" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002432", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002131" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002432", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002433", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002131" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002436", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002434" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002447", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002436" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002448", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002436" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002448", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0011002" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002449", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002448" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002450", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002448" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002473", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000051" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002481", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002564" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002485", "pred" : "subPropertyOf", @@ -43770,34 +42844,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002501", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002410" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002506", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002410" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002551", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000051" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002559", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002506" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002563", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002464" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002564", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002563" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002565", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0040036" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002566", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002506" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002567", "pred" : "subPropertyOf", @@ -43830,14 +42884,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002576", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000050" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002578", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002211" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002578", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002412" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002584", "pred" : "subPropertyOf", @@ -43894,22 +42940,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002608", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002410" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002629", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002213" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002629", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002630", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002212" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002630", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002578" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0004007", "pred" : "subPropertyOf", @@ -43930,34 +42960,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0004009", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0004007" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004031", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004032", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004033", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004034", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004034", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0004032" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004035", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004035", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0004033" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0004046", "pred" : "subPropertyOf", @@ -43966,10 +42968,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0004047", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002418" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0011002", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002566" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0012000", "pred" : "subPropertyOf", @@ -43998,18 +42996,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0012008", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002592" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0012011", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002411" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0012012", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002211" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0012012", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012011" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0013001", "pred" : "subPropertyOf", @@ -44034,18 +43020,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0015016", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002104" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0019000", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002410" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0019001", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0019000" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0019002", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0019000" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0040036", "pred" : "subPropertyOf", @@ -44114,22 +43088,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0000056", "pred" : "inverseOf", "obj" : 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"http://purl.obolibrary.org/obo/BFO_0000040" ] + "predicateId" : "http://purl.obolibrary.org/obo/RO_0002206", + "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000465" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002315", "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002571", - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] } ], "propertyChainAxioms" : [ { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002131", @@ -48205,24 +46941,9 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002226", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002207", "http://purl.obolibrary.org/obo/RO_0001025" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002211", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0002025" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019000", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0019000" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002213", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002212", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019002", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002212", "http://purl.obolibrary.org/obo/RO_0019001" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019001", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002213", "http://purl.obolibrary.org/obo/RO_0019001" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019002", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002213", "http://purl.obolibrary.org/obo/RO_0019002" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002162", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002215", "http://purl.obolibrary.org/obo/RO_0002162" ] @@ -48283,87 +47004,12 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002314", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002314", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002331", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002327", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000051" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004031", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000051" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002327", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002017" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002428", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002211" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002448", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002430", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002429", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002213" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004034", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002304" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004035", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002305" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002263", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002566", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411", "http://purl.obolibrary.org/obo/RO_0002233" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002566", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002264", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002418" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002450", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002449", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004033", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0004046" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004032", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0004047" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002331", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002428", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002211" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002430", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002429", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002213" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002338", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002338", "http://purl.obolibrary.org/obo/BFO_0000050" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002339", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002339", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002407", "http://purl.obolibrary.org/obo/RO_0002629" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002409", "http://purl.obolibrary.org/obo/RO_0002409" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002409", "http://purl.obolibrary.org/obo/RO_0002630" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002488", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002488", "http://purl.obolibrary.org/obo/BFO_0000050" ] @@ -48391,21 +47037,6 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/uberon/core#indirectly_supplies", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002569", "http://purl.obolibrary.org/obo/uberon/core#indirectly_supplies" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002211", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002578", "http://purl.obolibrary.org/obo/RO_0002578" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002407" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002629" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002409" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002630" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0013001", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0013001", "http://purl.obolibrary.org/obo/BFO_0000050" ] diff --git a/src/ontology/subsets/blood_and_immune_upper_slim.obo b/src/ontology/subsets/blood_and_immune_upper_slim.obo index 671299a14..5f0fdb066 100644 --- a/src/ontology/subsets/blood_and_immune_upper_slim.obo +++ b/src/ontology/subsets/blood_and_immune_upper_slim.obo @@ -1,5 +1,5 @@ format-version: 1.2 -data-version: cl/releases/2024-04-05/subsets/blood_and_immune_upper_slim.owl +data-version: cl/releases/2024-05-15/subsets/blood_and_immune_upper_slim.owl subsetdef: abnormal_slim "" subsetdef: added_for_HCA "" subsetdef: attribute_slim "" @@ -19,19 +19,21 @@ subsetdef: eye_upper_slim "a subset of general classes related to specific cell subsetdef: functional_classification "" subsetdef: general_cell_types_upper_slim "a subset of general classes of cell types in the cell ontology." subsetdef: gocheck_do_not_annotate "" -subsetdef: gocheck_do_not_manually_annotate "" subsetdef: goslim_agr "" subsetdef: goslim_candida "" subsetdef: goslim_chembl "" subsetdef: goslim_drosophila "" +subsetdef: goslim_euk_cellular_processes_ribbon "" subsetdef: goslim_flybase_ribbon "" subsetdef: goslim_generic "" subsetdef: goslim_metagenomics "" subsetdef: goslim_mouse "" subsetdef: goslim_pir "" subsetdef: goslim_plant "" +subsetdef: goslim_plant_ribbon "" subsetdef: goslim_pombe "" subsetdef: goslim_prokaryote "" +subsetdef: goslim_prokaryote_ribbon "" subsetdef: goslim_synapse "" subsetdef: goslim_yeast "" subsetdef: grouping_class "" @@ -88,56 +90,7 @@ synonymtypedef: synonym "" synonymtypedef: SYSTEMATIC "" synonymtypedef: systematic_synonym "" ontology: cl/subsets/blood_and_immune_upper_slim -property_value: owl:versionInfo "2024-04-05" xsd:string - -[Term] -id: BFO:0000002 -name: continuant -def: "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." [] -disjoint_from: BFO:0000003 ! occurrent -relationship: part_of BFO:0000002 {all_only="true"} ! continuant - -[Term] -id: BFO:0000003 -name: occurrent -def: "An entity that has temporal parts and that happens, unfolds or develops through time." [] -relationship: part_of BFO:0000003 {all_only="true"} ! occurrent - -[Term] -id: BFO:0000004 -name: independent continuant -def: "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" [] -comment: A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. -is_a: BFO:0000002 ! continuant -disjoint_from: BFO:0000020 ! specifically dependent continuant -relationship: part_of BFO:0000004 {all_only="true"} ! independent continuant - -[Term] -id: BFO:0000015 -name: process -def: "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" [] -comment: An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. -is_a: BFO:0000003 ! occurrent - -[Term] -id: BFO:0000020 -name: specifically dependent continuant -def: "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" [] -comment: A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. -is_a: BFO:0000002 ! continuant -relationship: part_of BFO:0000020 {all_only="true"} ! specifically dependent continuant - -[Term] -id: BFO:0000040 -name: material entity -def: "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." [] -is_a: BFO:0000004 ! independent continuant -disjoint_from: BFO:0000141 ! immaterial entity - -[Term] -id: BFO:0000141 -name: immaterial entity -is_a: BFO:0000004 ! independent continuant +property_value: owl:versionInfo "2024-05-15" xsd:string [Term] id: CL:0000000 @@ -147,7 +100,7 @@ comment: The definition of cell is intended to represent all cells, and thus a c subset: cellxgene_subset subset: ubprop:upper_level xref: CALOHA:TS-2035 -xref: FBbt:00007002 +xref: FBbt:00007002 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:68646 xref: GO:0005623 xref: KUPO:0000002 @@ -155,6 +108,7 @@ xref: MESH:D002477 xref: VHOG:0001533 xref: WBbt:0004017 xref: XAO:0003012 +xref: ZFA:0009000 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: UBERON:0000061 ! anatomical structure disjoint_from: GO:0031012 ! extracellular matrix disjoint_from: GO:0032991 ! protein-containing complex @@ -165,6 +119,7 @@ relationship: RO:0002160 NCBITaxon:131567 ! only in taxon cellular organisms id: CL:0000007 name: early embryonic cell (metazoa) def: "A cell found in the embryo before the formation of all the gem layers is complete." [GOC:tfm] +xref: ZFA:0009002 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) [Term] @@ -178,6 +133,7 @@ subset: human_reference_atlas synonym: "animal stem cell" EXACT [] xref: CALOHA:TS-2086 xref: FMA:63368 +xref: ZFA:0005957 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0011115 ! precursor cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0017145 ! stem cell division @@ -202,6 +158,7 @@ xref: CALOHA:TS-0448 xref: FMA:86475 xref: MESH:D006412 xref: VHOG:0001485 +xref: ZFA:0009014 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000723 ! somatic stem cell is_a: CL:0008001 ! hematopoietic precursor cell is_a: CL:0011026 ! progenitor cell @@ -249,6 +206,7 @@ synonym: "CFU-E" RELATED OMO:0003000 [] synonym: "colony forming unit erythroid" RELATED [] synonym: "erythroid stem cell" RELATED [] xref: BTO:0004911 +xref: ZFA:0009015 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000764 ! erythroid lineage cell is_a: CL:0000839 {is_inferred="true"} ! myeloid lineage restricted progenitor cell relationship: RO:0002202 CL:0000050 ! develops from megakaryocyte-erythroid progenitor cell @@ -264,9 +222,9 @@ synonym: "colony forming unit monocyte" RELATED [] synonym: "monocyte stem cell" RELATED [] xref: CALOHA:TS-1195 xref: FMA:83553 +xref: ZFA:0009017 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0002194 {is_inferred="true"} ! monopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002194 ! monopoietic cell intersection_of: capable_of GO:0030224 ! monocyte differentiation intersection_of: has_part CL:0017503 ! basophilic cytoplasm @@ -288,6 +246,7 @@ synonym: "multifate stem cell" EXACT [] synonym: "multipotent cell" EXACT [] synonym: "multipotent stem cell" EXACT [] xref: FMA:84789 +xref: ZFA:0009020 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000034 ! stem cell intersection_of: CL:0000000 ! cell intersection_of: bearer_of PATO:0001402 ! multipotent @@ -310,6 +269,7 @@ synonym: "multipotential myeloid stem cell" RELATED [ISBN:0878932437] synonym: "myeloid stem cell" RELATED [ISBN:0878932437] synonym: "pluripotent stem cell (bone marrow)" RELATED [ISBN:0878932437] xref: BTO:0004730 +xref: ZFA:0009021 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell disjoint_from: CL:0000050 ! megakaryocyte-erythroid progenitor cell disjoint_from: CL:0000051 ! common lymphoid progenitor @@ -330,6 +290,7 @@ synonym: "Meg/E progenitor" EXACT [] synonym: "megakaryocyte/erythrocyte progenitor" EXACT [] synonym: "megakaryocyte/erythroid progenitor cell" EXACT [] synonym: "MEP" EXACT [] +xref: ZFA:0009022 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell is_a: CL:0011026 ! progenitor cell @@ -358,6 +319,7 @@ synonym: "early lymphocyte progenitor" RELATED [] synonym: "ELP" RELATED OMO:0003000 [] synonym: "lymphoid stem cell" RELATED [] synonym: "lymphopoietic stem cell" RELATED [] +xref: ZFA:0009023 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0002032 ! hematopoietic oligopotent progenitor cell @@ -372,6 +334,7 @@ def: "A stem cell from which all cells of the body can form." [GOC:add, GOC:tfm] synonym: "totipotential stem cell" EXACT [] xref: FMA:84790 xref: MESH:D039901 +xref: ZFA:0009024 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000723 ! somatic stem cell [Term] @@ -391,9 +354,10 @@ name: myoblast def: "A cell that is commited to differentiating into a muscle cell. Embryonic myoblasts develop from the mesoderm. They undergo proliferation, migrate to their various sites, and then differentiate into the appropriate form of myocytes. Myoblasts also occur as transient populations of cells in muscles undergoing repair." [GOC:tfm, MESH:D032446, PMID:21849021] xref: BTO:0000222 xref: CALOHA:TS-0650 -xref: FBbt:00005083 +xref: FBbt:00005083 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:70335 xref: VHOG:0001529 +xref: ZFA:0009025 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000680 ! muscle precursor cell [Term] @@ -409,6 +373,7 @@ xref: CALOHA:TS-0362 xref: FMA:63877 xref: NCIT:C12482 xref: VHOG:0001482 +xref: ZFA:0009026 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002320 ! connective tissue cell relationship: RO:0002202 CL:0000134 ! develops from mesenchymal stem cell property_value: RO:0002175 NCBITaxon:9606 @@ -424,9 +389,10 @@ synonym: "epitheliocyte" EXACT [] xref: BTO:0000414 xref: CALOHA:TS-2026 xref: CARO:0000077 -xref: FBbt:00000124 +xref: FBbt:00000124 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:66768 xref: WBbt:0003672 +xref: ZFA:0009034 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell disjoint_from: CL:0000738 ! leukocyte relationship: part_of UBERON:0000483 ! epithelium @@ -440,6 +406,7 @@ def: "An endothelial cell that lines the vasculature." [GOC:tfm] subset: cellxgene_subset subset: human_reference_atlas synonym: "cuboidal endothelial cell of vascular tree" EXACT [] +xref: ZFA:0009036 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000076 {is_inferred="true"} ! squamous epithelial cell is_a: CL:0002139 ! endothelial cell of vascular tree intersection_of: CL:0000076 ! squamous epithelial cell @@ -453,12 +420,14 @@ id: CL:0000076 name: squamous epithelial cell subset: cellxgene_subset xref: CALOHA:TS-1249 +xref: ZFA:0009039 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell [Term] id: CL:0000080 name: circulating cell def: "A cell which moves among different tissues of the body, via blood, lymph, or other medium." [GOC:add] +xref: ZFA:0009043 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0000179 ! haemolymphatic fluid @@ -472,6 +441,7 @@ subset: cellxgene_subset subset: general_cell_types_upper_slim xref: FMA:62844 xref: MESH:D001773 +xref: ZFA:0009044 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: capable_of GO:0008015 ! blood circulation @@ -494,6 +464,7 @@ xref: CALOHA:TS-1001 xref: FMA:62870 xref: MESH:D013601 xref: VHOG:0001479 +xref: ZFA:0009046 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000542 {is_inferred="true"} ! lymphocyte intersection_of: CL:0000542 ! lymphocyte intersection_of: capable_of GO:0002456 ! T cell mediated immunity @@ -513,10 +484,10 @@ xref: BTO:0000968 xref: CALOHA:TS-0721 xref: FMA:66781 xref: MESH:D010010 +xref: ZFA:0009047 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000518 ! phagocyte (sensu Vertebrata) is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte is_a: CL:0001035 {is_inferred="true"} ! bone cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000766 ! myeloid leukocyte intersection_of: capable_of GO:0045453 ! bone resorption intersection_of: has_part PR:000001850 ! cathepsin K @@ -550,9 +521,9 @@ xref: BTO:0000539 xref: BTO:0001026 xref: CALOHA:TS-0422 xref: FMA:62854 +xref: ZFA:0009048 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000081 ! blood cell is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000766 ! myeloid leukocyte intersection_of: capable_of GO:0008015 ! blood circulation intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -590,7 +561,6 @@ xref: CALOHA:TS-0603 xref: FMA:66784 is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte is_a: CL:0002274 ! histamine secreting cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000766 ! myeloid leukocyte intersection_of: capable_of GO:0002349 ! histamine production involved in inflammatory response intersection_of: capable_of GO:0002539 ! prostaglandin production involved in inflammatory response @@ -626,6 +596,7 @@ def: "A vertebrate phagocyte with a single nucleus." [GOC:add, GOC:tfm, ISBN:078 subset: cellxgene_subset subset: human_reference_atlas xref: BTO:0001433 +xref: ZFA:0009064 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000518 {is_inferred="true"} ! phagocyte (sensu Vertebrata) is_a: CL:0000842 ! mononuclear cell intersection_of: CL:0000518 ! phagocyte (sensu Vertebrata) @@ -643,6 +614,7 @@ synonym: "endotheliocyte" EXACT [] xref: BTO:0001176 xref: CALOHA:TS-0278 xref: FMA:66772 +xref: ZFA:0009065 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000213 ! lining cell is_a: CL:0002078 ! meso-epithelial cell property_value: RO:0002175 NCBITaxon:9606 @@ -652,6 +624,7 @@ id: CL:0000133 name: neurectodermal cell def: "Ectoderm destined to be nervous tissue." [GOC:tfm, ISBN:068340007X] synonym: "neurectoderm cell" EXACT [] +xref: ZFA:0009080 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000221 ! ectodermal cell [Term] @@ -675,6 +648,7 @@ synonym: "stem cells, mesenchymal" RELATED OMO:0003004 [MESH:D044982] xref: BTO:0002625 xref: BTO:0003298 xref: FMA:70546 +xref: ZFA:0009081 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000048 ! multi fate stem cell is_a: CL:0002320 {is_inferred="true"} ! connective tissue cell property_value: seeAlso "https://github.com/obophenotype/cell-ontology/issues/474" xsd:string @@ -687,6 +661,7 @@ comment: Note change of name; nearly all somatic cells can present antigens to T subset: blood_and_immune_upper_slim subset: cellxgene_subset synonym: "APC" RELATED OMO:0003000 [] +xref: ZFA:0009088 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000738 ! leukocyte intersection_of: CL:0000738 ! leukocyte intersection_of: capable_of GO:0002504 ! antigen processing and presentation of peptide or polysaccharide antigen via MHC class II @@ -721,9 +696,10 @@ synonym: "myocyte" EXACT [] xref: BTO:0000888 xref: BTO:0000902 xref: CALOHA:TS-2032 -xref: FBbt:00005074 +xref: FBbt:00005074 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67328 xref: WBbt:0003675 +xref: ZFA:0009114 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000183 ! contractile cell is_a: CL:0000393 ! electrically responsive cell relationship: RO:0002202 CL:0000056 ! develops from myoblast @@ -733,6 +709,7 @@ property_value: http://xmlns.com/foaf/0.1/depiction "https://www.swissbiopics.or id: CL:0000211 name: electrically active cell def: "A cell whose function is determined by the generation or the reception of an electric signal." [FB:ma] +xref: ZFA:0009128 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -740,18 +717,21 @@ id: CL:0000213 name: lining cell def: "A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism." [JB:jb] synonym: "boundary cell" EXACT [] +xref: ZFA:0009130 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000215 ! barrier cell [Term] id: CL:0000215 name: barrier cell def: "A cell whose primary function is to prevent the transport of stuff across compartments." [JB:jb] +xref: ZFA:0009132 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] id: CL:0000219 name: motile cell def: "A cell that moves by its own activities." [FB:ma] +xref: ZFA:0009136 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0048870 ! cell motility @@ -763,6 +743,7 @@ name: ectodermal cell def: "A cell of the outer of the three germ layers of the embryo." [MESH:D004475] synonym: "ectoderm cell" EXACT [] xref: FMA:72549 +xref: ZFA:0009137 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000924 ! ectoderm @@ -774,6 +755,7 @@ subset: cellxgene_subset synonym: "mesoblast" EXACT [] synonym: "mesoderm cell" EXACT [] xref: FMA:72554 +xref: ZFA:0009138 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000926 ! mesoderm @@ -783,6 +765,7 @@ name: endodermal cell def: "A cell of the inner of the three germ layers of the embryo." [MESH:D004707] synonym: "endoderm cell" EXACT [] xref: FMA:72555 +xref: ZFA:0009139 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000925 ! endoderm @@ -879,6 +862,7 @@ subset: cellxgene_subset xref: BTO:0001044 xref: FMA:83806 xref: MESH:D010586 +xref: ZFA:0009140 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000219 ! motile cell is_a: CL:0000325 ! stuff accumulating cell is_a: CL:0000473 ! defensive cell @@ -901,6 +885,7 @@ xref: CALOHA:TS-0587 xref: FMA:63261 xref: FMA:83585 xref: MESH:D008264 +xref: ZFA:0009141 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000113 ! mononuclear phagocyte is_a: CL:0000145 ! professional antigen presenting cell is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte @@ -928,6 +913,7 @@ xref: CALOHA:TS-0068 xref: FMA:62869 xref: MESH:D001402 xref: VHOG:0001480 +xref: ZFA:0009142 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000945 {is_inferred="true"} ! lymphocyte of B lineage intersection_of: CL:0000945 ! lymphocyte of B lineage intersection_of: capable_of GO:0019724 ! B cell mediated immunity @@ -937,6 +923,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000255 name: eukaryotic cell +def: "Any cell that only exists in Eukaryota." [FBC:Autogenerated] subset: cellxgene_subset xref: MESH:D005057 is_a: CL:0000000 ! cell @@ -954,6 +941,8 @@ is_a: CL:0000000 ! cell [Term] id: CL:0000329 name: oxygen accumulating cell +def: "Any cell that is capable of some oxygen transport." [FBC:Autogenerated] +xref: ZFA:0009164 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0015671 ! oxygen transport @@ -964,6 +953,7 @@ id: CL:0000333 name: migratory neural crest cell def: "A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body." [doi:10.1016/j.stem.2015.02.017] xref: FMA:86667 +xref: ZFA:0007086 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000219 ! motile cell is_a: CL:0011012 ! neural crest cell is_a: CL:0011026 ! progenitor cell @@ -973,6 +963,7 @@ relationship: RO:0002202 CL:0007004 ! develops from premigratory neural crest ce id: CL:0000335 name: mesenchyme condensation cell def: "A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors." [GOC:tfm, PMID:5025404] +xref: ZFA:0009166 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008019 ! mesenchymal cell [Term] @@ -1000,12 +991,14 @@ relationship: RO:0002160 NCBITaxon:33208 ! only in taxon Metazoa id: CL:0000393 name: electrically responsive cell def: "A cell whose function is determined by its response to an electric signal." [FB:ma] +xref: ZFA:0009190 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000211 ! electrically active cell [Term] id: CL:0000404 name: electrically signaling cell def: "A cell that initiates an electrical signal and passes that signal to another cell." [FB:ma] +xref: ZFA:0009193 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000211 ! electrically active cell [Term] @@ -1021,9 +1014,9 @@ xref: BTO:0002042 xref: CALOHA:TS-0194 xref: FMA:83036 xref: MESH:D003713 +xref: ZFA:0009209 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000113 ! mononuclear phagocyte is_a: CL:0000145 ! professional antigen presenting cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000738 ! leukocyte intersection_of: bearer_of PATO:0001407 ! mononucleate intersection_of: capable_of GO:0001816 ! cytokine production @@ -1050,6 +1043,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000457 name: biogenic amine secreting cell +xref: ZFA:0009212 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell [Term] @@ -1058,6 +1052,7 @@ name: serotonin secreting cell def: "A cell type that secretes 5-Hydroxytryptamine (serotonin)." [GOC:tfm, PMID:19630576] synonym: "5-HT secreting cell" EXACT [] synonym: "5-Hydroxytryptamine secreting cell" EXACT [] +xref: ZFA:0009213 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000457 ! biogenic amine secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0001820 ! serotonin secretion @@ -1088,10 +1083,11 @@ subset: human_reference_atlas synonym: "nerve cell" EXACT [] xref: BTO:0000938 xref: CALOHA:TS-0683 -xref: FBbt:00005106 +xref: FBbt:00005106 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:54527 xref: VHOG:0001483 xref: WBbt:0003679 +xref: ZFA:0009248 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000393 ! electrically responsive cell is_a: CL:0000404 ! electrically signaling cell is_a: CL:0002319 ! neural cell @@ -1111,8 +1107,8 @@ xref: CALOHA:TS-0583 xref: FMA:62863 xref: MESH:D008214 xref: VHOG:0001535 +xref: ZFA:0009250 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000842 ! mononuclear cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000738 ! leukocyte intersection_of: bearer_of PATO:0001407 ! mononucleate intersection_of: bearer_of PATO:0040072 ! high nuclear/cytoplasmic ratio @@ -1136,7 +1132,6 @@ synonym: "rubriblast" EXACT [ISBN:0721601464] xref: FMA:83518 is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell is_a: CL:0002242 ! nucleate cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: bearer_of PATO:0002505 ! nucleated intersection_of: bearer_of PATO:0040072 ! high nuclear/cytoplasmic ratio @@ -1180,8 +1175,8 @@ synonym: "early erythroblast" EXACT [ISBN:0721601464] synonym: "early normoblast" EXACT [ISBN:0721601464] synonym: "prorubricyte" EXACT [ISBN:0721601464] xref: FMA:83505 +xref: ZFA:0005236 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000765 {is_inferred="true"} ! erythroblast -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000765 ! erythroblast intersection_of: has_part CL:0017503 ! basophilic cytoplasm intersection_of: has_part GO:0000792 ! heterochromatin @@ -1201,8 +1196,8 @@ synonym: "polychromatic normoblast" EXACT [ISBN:0721601464] synonym: "polychromatophilic normoblast" EXACT [ISBN:0721601464] synonym: "rubricyte" EXACT [ISBN:0721601464] xref: FMA:83506 +xref: ZFA:0005241 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000765 {is_inferred="true"} ! erythroblast -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000765 ! erythroblast intersection_of: has_part CL:0017504 ! polychromatophilic cytoplasm intersection_of: has_part GO:0000792 ! heterochromatin @@ -1319,11 +1314,11 @@ synonym: "GMP" RELATED OMO:0003000 [ISBN:0721601464, PMCID:PMC2213186, PMCID:PMC synonym: "granulocyte-macrophage progenitor" EXACT [ISBN:0721601464, PMCID:PMC2213186, PMCID:PMC548021] synonym: "granulocyte/monocyte precursor" EXACT [] synonym: "granulocyte/monocyte progenitor" EXACT [] +xref: ZFA:0009251 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0001012 ! CD7-negative lymphoid progenitor OR granulocyte monocyte progenitor is_a: CL:0011026 ! progenitor cell is_a: CL:1001610 ! bone marrow hematopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002032 ! hematopoietic oligopotent progenitor cell intersection_of: capable_of GO:0030225 ! macrophage differentiation intersection_of: capable_of GO:0030851 ! granulocyte differentiation @@ -1351,8 +1346,8 @@ subset: cellxgene_subset xref: BTO:0001173 xref: CALOHA:TS-0864 xref: MESH:D012156 +xref: ZFA:0009252 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: capable_of GO:0071971 ! extracellular exosome assembly intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -1391,9 +1386,9 @@ subset: cellxgene_subset subset: human_reference_atlas xref: BTO:0004657 xref: FMA:83551 +xref: ZFA:0009253 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0002194 {is_inferred="true"} ! monopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002194 ! monopoietic cell intersection_of: capable_of GO:0030224 ! monocyte differentiation intersection_of: has_part GO:0042582 ! azurophil granule @@ -1410,9 +1405,9 @@ def: "A mesenchymal stem cell capable of developing into blood vessel endotheliu comment: These cells are reportedly CD31-positive, CD34-positive, CD144-positive, CD309-positive, and TAL1-positive. synonym: "angioblast" EXACT [] synonym: "chondroplast" EXACT [] +xref: ZFA:0009258 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000134 {is_inferred="true"} ! mesenchymal stem cell is_a: CL:0011026 ! progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000134 ! mesenchymal stem cell intersection_of: RO:0002104 PR:000001444 ! has plasma membrane part cadherin-5 intersection_of: RO:0002104 PR:000002112 ! has plasma membrane part vascular endothelial growth factor receptor 2 @@ -1434,6 +1429,7 @@ subset: human_reference_atlas xref: BTO:0000876 xref: CALOHA:TS-0638 xref: FMA:62864 +xref: ZFA:0009265 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000113 ! mononuclear phagocyte is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte is_a: CL:0011026 ! progenitor cell @@ -1477,6 +1473,7 @@ id: CL:0000680 name: muscle precursor cell def: "A non-terminally differentiated cell that is capable of developing into a muscle cell." [GOC:add] subset: cellxgene_subset +xref: ZFA:0009291 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell intersection_of: CL:0011115 ! precursor cell intersection_of: RO:0002203 CL:0000187 ! develops into muscle cell @@ -1489,6 +1486,7 @@ name: somatic stem cell def: "A stem cell that can give rise to cell types of the body other than those of the germ-line." [GO:0048103] xref: CALOHA:TS-2086 xref: MESH:D053687 +xref: ZFA:0009307 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000034 ! stem cell intersection_of: CL:0000034 ! stem cell intersection_of: capable_of GO:0048103 ! somatic stem cell division @@ -1508,6 +1506,7 @@ xref: CALOHA:TS-0549 xref: FMA:62852 xref: MESH:D007962 xref: NCIT:C12529 +xref: ZFA:0009309 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000219 ! motile cell is_a: CL:0000255 ! eukaryotic cell is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell @@ -1527,6 +1526,7 @@ name: nucleated thrombocyte def: "A nucleated blood cell involved in coagulation, typically seen in birds and other non-mammalian vertebrates." [GOC:add, GOC:tfm, PMID:16360205] comment: Note that this is a non-mammalian cell type. Use platelet ; CL:0000233 for thrombocytes (platelets) in mammals. subset: blood_and_immune_upper_slim +xref: ZFA:0009323 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000226 ! single nucleate cell is_a: CL:0000763 {is_inferred="true"} ! myeloid cell intersection_of: CL:0000763 ! myeloid cell @@ -1543,6 +1543,7 @@ subset: cellxgene_subset xref: BTO:0001441 xref: CALOHA:TS-0647 xref: MESH:D022423 +xref: ZFA:0009324 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: RO:0002202 CL:0000049 ! develops from common myeloid progenitor @@ -1559,6 +1560,7 @@ synonym: "erythropoietic cell" EXACT [] xref: CALOHA:TS-0290 xref: FMA:62845 xref: FMA:83516 +xref: ZFA:0009325 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell property_value: RO:0002175 NCBITaxon:9606 @@ -1573,6 +1575,7 @@ xref: BTO:0001571 xref: CALOHA:TS-0289 xref: FMA:83504 xref: MESH:D004900 +xref: ZFA:0005237 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0000764 ! erythroid lineage cell @@ -1611,6 +1614,7 @@ id: CL:0000766 name: myeloid leukocyte def: "A cell of the monocyte, granulocyte, or mast cell lineage." [GOC:add] subset: cellxgene_subset +xref: ZFA:0009326 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000738 {is_inferred="true"} ! leukocyte is_a: CL:0000763 ! myeloid cell intersection_of: CL:0000738 ! leukocyte @@ -1700,6 +1704,7 @@ xref: BTO:0000130 xref: CALOHA:TS-0688 xref: FMA:62860 xref: MESH:D009504 +xref: ZFA:0009327 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000094 {is_inferred="true"} ! granulocyte intersection_of: CL:0000094 ! granulocyte intersection_of: RO:0002104 PR:000001479 ! has plasma membrane part low affinity immunoglobulin gamma Fc region receptor II @@ -1759,6 +1764,7 @@ subset: cellxgene_subset synonym: "mature B lymphocyte" EXACT [] synonym: "mature B-cell" EXACT [] synonym: "mature B-lymphocyte" EXACT [] +xref: ZFA:0009331 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000145 ! professional antigen presenting cell is_a: CL:0001201 {is_inferred="true"} ! B cell, CD19-positive intersection_of: CL:0001201 ! B cell, CD19-positive @@ -1789,6 +1795,7 @@ synonym: "plasmocyte" EXACT [] xref: BTO:0000392 xref: FMA:70574 xref: MESH:D010950 +xref: ZFA:0009332 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000946 {is_inferred="true"} ! antibody secreting cell intersection_of: CL:0000946 ! antibody secreting cell intersection_of: CL:4030046 GO:0019814 ! lacks_plasma_membrane_part immunoglobulin complex @@ -1815,6 +1822,7 @@ subset: cellxgene_subset synonym: "alpha-beta T lymphocyte" EXACT [] synonym: "alpha-beta T-cell" EXACT [] synonym: "alpha-beta T-lymphocyte" EXACT [] +xref: ZFA:0009335 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000084 {is_inferred="true"} ! T cell intersection_of: CL:0000084 ! T cell intersection_of: RO:0002104 GO:0042105 ! has plasma membrane part alpha-beta T cell receptor complex @@ -1834,6 +1842,7 @@ synonym: "gamma-delta T-cell" EXACT [] synonym: "gamma-delta T-lymphocyte" EXACT [] synonym: "gammadelta T cell" EXACT [] synonym: "gd T cell" RELATED OMO:0003000 [] +xref: ZFA:0009336 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000084 {is_inferred="true"} ! T cell intersection_of: CL:0000084 ! T cell intersection_of: RO:0002104 GO:0042106 ! has plasma membrane part gamma-delta T cell receptor complex @@ -1852,6 +1861,7 @@ synonym: "immature B lymphocyte" EXACT [] synonym: "immature B-cell" EXACT [] synonym: "immature B-lymphocyte" EXACT [] synonym: "newly formed B cell" EXACT [ISBN:781735149] +xref: ZFA:0009343 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0001201 ! B cell, CD19-positive intersection_of: CL:0001201 ! B cell, CD19-positive intersection_of: CL:4030044 GO:0045190 ! has_not_completed isotype switching @@ -1874,6 +1884,7 @@ subset: human_reference_atlas synonym: "pre-B cell" RELATED [] xref: BTO:0001133 xref: CALOHA:TS-0819 +xref: ZFA:0009344 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0001201 {is_inferred="true"} ! B cell, CD19-positive intersection_of: CL:0001201 ! B cell, CD19-positive intersection_of: CL:4030046 GO:0071753 ! lacks_plasma_membrane_part IgM immunoglobulin complex @@ -1897,6 +1908,7 @@ synonym: "transitional B cell" EXACT [PMID:22343568] synonym: "transitional stage B lymphocyte" EXACT [] synonym: "transitional stage B-cell" EXACT [] synonym: "transitional stage B-lymphocyte" EXACT [] +xref: ZFA:0009345 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0001201 {is_inferred="true"} ! B cell, CD19-positive intersection_of: CL:0001201 ! B cell, CD19-positive intersection_of: CL:4030044 GO:0002335 ! has_not_completed mature B cell differentiation @@ -1929,8 +1941,8 @@ synonym: "progenitor B lymphocyte" EXACT [] synonym: "progenitor B-cell" EXACT [] synonym: "progenitor B-lymphocyte" EXACT [] xref: BTO:0003104 +xref: ZFA:0009349 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000838 {is_inferred="true"} ! lymphoid lineage restricted progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000838 ! lymphoid lineage restricted progenitor cell intersection_of: has_part PR:000001903 ! paired box protein PAX-5 intersection_of: has_part PR:000006611 ! DNA nucleotidylexotransferase @@ -1951,6 +1963,7 @@ synonym: "DN1 thymocyte" NARROW [] synonym: "pro-T lymphocyte" EXACT [] synonym: "progenitor T cell" EXACT [] synonym: "TN1 cell" NARROW [] +xref: ZFA:0009350 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000838 {is_inferred="true"} ! lymphoid lineage restricted progenitor cell intersection_of: CL:0000838 ! lymphoid lineage restricted progenitor cell intersection_of: capable_of GO:0030217 ! T cell differentiation @@ -1962,6 +1975,7 @@ id: CL:0000828 name: thromboblast def: "A progenitor cell of the thrombocyte, a nucleated blood cell involved in coagulation typically seen in birds and other non-mammalian vertebrates." [GOC:add, GOC:tfm, PMID:7758949] comment: Note that this is a non-mammalian cell type. +xref: ZFA:0009351 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000226 ! single nucleate cell is_a: CL:0000763 ! myeloid cell is_a: CL:0000839 {is_inferred="true"} ! myeloid lineage restricted progenitor cell @@ -1982,7 +1996,6 @@ synonym: "colony forming unit mast cell" RELATED [] synonym: "MCP" EXACT [] is_a: CL:0000763 ! myeloid cell is_a: CL:0000839 {is_inferred="true"} ! myeloid lineage restricted progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000839 ! myeloid lineage restricted progenitor cell intersection_of: capable_of GO:0060374 ! mast cell differentiation intersection_of: CL:4030045 PR:000005307 ! lacks_part CCAAT/enhancer-binding protein alpha @@ -2046,8 +2059,8 @@ synonym: "hemopoietic progenitor cell" EXACT [] synonym: "MPP" EXACT [] xref: BTO:0000725 xref: CALOHA:TS-0448 +xref: ZFA:0009354 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008001 ! hematopoietic precursor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000988 ! hematopoietic cell intersection_of: bearer_of PATO:0001402 ! multipotent intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -2093,6 +2106,7 @@ synonym: "lymphoid progenitor cell" BROAD [] xref: BTO:0004731 xref: CALOHA:TS-2025 xref: FMA:70338 +xref: ZFA:0009355 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002031 {is_inferred="true"} ! hematopoietic lineage restricted progenitor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0002031 ! hematopoietic lineage restricted progenitor cell @@ -2111,6 +2125,7 @@ synonym: "myeloid progenitor cell" BROAD [] xref: BTO:0004730 xref: CALOHA:TS-2099 xref: FMA:70339 +xref: ZFA:0009356 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002031 {is_inferred="true"} ! hematopoietic lineage restricted progenitor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0002031 ! hematopoietic lineage restricted progenitor cell @@ -2129,6 +2144,7 @@ synonym: "peripheral blood mononuclear cell" NARROW [] xref: BTO:0000878 xref: CALOHA:TS-0768 xref: FMA:86713 +xref: ZFA:0009357 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000226 ! single nucleate cell is_a: CL:0000738 {is_inferred="true"} ! leukocyte intersection_of: CL:0000738 ! leukocyte @@ -2141,7 +2157,6 @@ def: "An immature myeloid leukocyte of heterogeneous phenotype found particularl comment: Markers: Mouse: CD11b+GR1+CD31+; Human: CD34+ CD33+CD15-CD13+. (According to some reports in humans these cells are iNOS+ARG1+IL13+IFNg+); location: In cancerous tissue; in the blood and lymphoid organs in sepsis. subset: blood_and_immune_upper_slim is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000766 ! myeloid leukocyte intersection_of: bearer_of PATO:0001501 ! immature intersection_of: capable_of GO:0050777 ! negative regulation of immune response @@ -2246,6 +2261,7 @@ xref: BTO:0000574 xref: CALOHA:TS-2017 xref: FMA:70366 xref: FMA:83598 +xref: ZFA:0005830 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -2403,7 +2419,6 @@ subset: cellxgene_subset synonym: "BMCP" EXACT [] is_a: CL:0000763 ! myeloid cell is_a: CL:0002191 ! granulocytopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000839 ! myeloid lineage restricted progenitor cell intersection_of: capable_of GO:0030221 ! basophil differentiation intersection_of: capable_of GO:0060374 ! mast cell differentiation @@ -2458,6 +2473,7 @@ id: CL:0002077 name: ecto-epithelial cell def: "An epithelial cell derived from ectoderm." [FMA:69074, GOC:tfm] xref: FMA:69074 +xref: ZFA:0009385 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: RO:0002202 CL:0000221 ! develops from ectodermal cell @@ -2471,6 +2487,7 @@ name: meso-epithelial cell def: "Epithelial cell derived from mesoderm or mesenchyme." [FMA:69076, GOC:tfm] synonym: "epithelial mesenchymal cell" EXACT [] xref: FMA:69076 +xref: ZFA:0009388 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: RO:0002202 CL:0000222 ! develops from mesodermal cell @@ -2593,6 +2610,7 @@ subset: cellxgene_subset xref: CALOHA:TS-2096 xref: FMA:63875 xref: MESH:D003239 +xref: ZFA:0009392 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0002384 ! connective tissue @@ -2607,6 +2625,7 @@ def: "A cell of the embryo." [FMA:0618947256] xref: CALOHA:TS-0263 xref: FMA:82840 xref: WBbt:0007028 +xref: ZFA:0007089 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 creation_date: 2010-09-15T03:39:21Z @@ -2649,6 +2668,7 @@ id: CL:0002546 name: embryonic blood vessel endothelial progenitor cell def: "An endothelial progenitor cell that participates in angiogenesis during development." [GOC:tfm] comment: See CL:0002619. +xref: ZFA:0005773 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000222 ! mesodermal cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 creation_date: 2011-02-28T04:20:39Z @@ -2697,6 +2717,7 @@ creation_date: 2012-06-15T02:51:27Z id: CL:0007004 name: premigratory neural crest cell def: "Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells." [UBERONREF:0000002] +xref: ZFA:0007084 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0011012 ! neural crest cell relationship: part_of UBERON:0002342 ! neural crest relationship: RO:0002202 CL:0000133 ! develops from neurectodermal cell @@ -3882,7 +3903,6 @@ subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "molecular function" EXACT [] -is_a: BFO:0000015 ! process disjoint_from: GO:0005575 ! cellular_component disjoint_from: GO:0008150 ! biological_process @@ -3951,7 +3971,6 @@ synonym: "cell or subcellular entity" EXACT [] synonym: "cellular component" EXACT [] synonym: "subcellular entity" RELATED [NIF_Subcellular:nlx_subcell_100315] xref: NIF_Subcellular:sao1337158144 -is_a: BFO:0000040 ! material entity disjoint_from: GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/17729" xsd:anyURI @@ -3964,13 +3983,16 @@ comment: Note that this term is intended to annotate gene products that are not subset: goslim_agr subset: goslim_candida subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "extracellular" EXACT [] xref: Wikipedia:Extracellular @@ -4030,7 +4052,6 @@ comment: Note that for multicellular organisms, the extracellular space refers t subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic -subset: goslim_prokaryote synonym: "intercellular space" RELATED [] xref: NIF_Subcellular:sao1425028079 is_a: GO:0110165 ! cellular anatomical entity @@ -4064,12 +4085,14 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "cell nucleus" EXACT [] synonym: "horsetail nucleus" NARROW [GOC:al, GOC:mah, GOC:vw, PMID:15030757] @@ -4095,6 +4118,7 @@ subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "chromatid" RELATED [] synonym: "interphase chromosome" NARROW [] @@ -4129,7 +4153,9 @@ subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast xref: Wikipedia:Cytoplasm is_a: GO:0110165 ! cellular anatomical entity @@ -4166,11 +4192,13 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "vacuolar carboxypeptidase Y" RELATED [] xref: Wikipedia:Vacuole @@ -4187,10 +4215,12 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "Golgi" BROAD [] synonym: "Golgi complex" EXACT [] @@ -4211,11 +4241,14 @@ alt_id: GO:0033279 def: "An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins." [ISBN:0198506732] subset: goslim_candida subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "free ribosome" NARROW [NIF_Subcellular:sao1139385046] synonym: "membrane bound ribosome" NARROW [NIF_Subcellular:sao1291545653] @@ -4223,8 +4256,8 @@ synonym: "ribosomal RNA" RELATED [] xref: NIF_Subcellular:sao1429207766 xref: Wikipedia:Ribosome is_a: GO:0043232 ! intracellular non-membrane-bounded organelle -is_a: PR:000050567 ! protein-containing material entity relationship: capable_of_part_of GO:0006412 ! translation +relationship: has_part PR:000000001 ! protein [Term] id: GO:0005886 @@ -4237,11 +4270,14 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "bacterial inner membrane" NARROW [] synonym: "cell membrane" EXACT [] @@ -4283,9 +4319,11 @@ subset: goslim_flybase_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon +subset: goslim_prokaryote_ribbon synonym: "cellular DNA metabolism" EXACT [] synonym: "DNA metabolism" EXACT [] -is_a: GO:0043170 ! macromolecule metabolic process +is_a: GO:0008152 ! metabolic process [Term] id: GO:0006310 @@ -4293,6 +4331,7 @@ name: DNA recombination namespace: biological_process def: "Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Interchromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction." [ISBN:0198506732] subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pombe subset: goslim_prokaryote @@ -4310,10 +4349,12 @@ def: "The cellular metabolic process in which a protein is formed, using the seq subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "protein anabolism" EXACT [] synonym: "protein biosynthesis" EXACT [] synonym: "protein biosynthetic process" EXACT [] @@ -4385,7 +4426,9 @@ subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "single-organism transport" RELATED [] is_a: GO:0051234 ! establishment of localization property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20292" xsd:anyURI @@ -4563,12 +4606,12 @@ name: response to stress namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation)." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_metagenomics subset: goslim_plant +subset: goslim_plant_ribbon synonym: "response to abiotic stress" RELATED [] synonym: "response to biotic stress" RELATED [] is_a: GO:0050896 ! response to stimulus @@ -4613,6 +4656,8 @@ name: organelle organization namespace: biological_process alt_id: GO:1902589 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_candida subset: goslim_pir synonym: "organelle organisation" EXACT [] @@ -4623,6 +4668,7 @@ is_a: GO:0016043 ! cellular component organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0043226 ! organelle relationship: results_in_organization_of GO:0043226 ! organelle +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2013-12-19T15:25:51Z @@ -4631,13 +4677,14 @@ id: GO:0007049 name: cell cycle namespace: biological_process def: "The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division." [GOC:go_curators, GOC:mtg_cell_cycle] -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cell-division cycle" EXACT [] xref: Wikipedia:Cell_cycle is_a: GO:0009987 ! cellular process @@ -4677,14 +4724,11 @@ subset: goslim_candida subset: goslim_chembl subset: goslim_metagenomics subset: goslim_plant -synonym: "signal transduction by cis-phosphorylation" NARROW [] -synonym: "signal transduction by conformational transition" NARROW [] -synonym: "signal transduction by protein phosphorylation" NARROW [] -synonym: "signal transduction by trans-phosphorylation" NARROW [] +subset: goslim_plant_ribbon synonym: "signaling cascade" NARROW [] synonym: "signaling pathway" RELATED [] synonym: "signalling cascade" NARROW [] -synonym: "signalling pathway" RELATED [GOC:mah] +synonym: "signalling pathway" RELATED [] xref: Wikipedia:Signal_transduction is_a: GO:0009987 ! cellular process is_a: GO:0050794 ! regulation of cellular process @@ -4873,7 +4917,6 @@ synonym: "physiological process" EXACT [] synonym: "single organism process" RELATED [] synonym: "single-organism process" RELATED [] xref: Wikipedia:Biological_process -is_a: BFO:0000015 ! process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24968" xsd:anyURI created_by: jl creation_date: 2012-09-19T15:05:24Z @@ -4886,11 +4929,13 @@ alt_id: GO:0044236 alt_id: GO:0044710 def: "The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation." [GOC:go_curators, ISBN:0198547684] comment: Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_prokaryote_ribbon synonym: "metabolic process resulting in cell growth" NARROW [] synonym: "metabolism" EXACT [] synonym: "metabolism resulting in cell growth" NARROW [] @@ -4899,6 +4944,7 @@ synonym: "single-organism metabolic process" RELATED [] xref: Wikipedia:Metabolism is_a: GO:0008150 ! biological_process disjoint_from: GO:0051179 ! localization +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI created_by: jl creation_date: 2012-10-17T15:46:40Z @@ -4924,6 +4970,7 @@ def: "The chemical reactions and pathways resulting in the formation of substanc subset: goslim_chembl subset: goslim_metagenomics subset: goslim_plant +subset: goslim_plant_ribbon synonym: "anabolism" EXACT [] synonym: "biosynthesis" EXACT [] synonym: "formation" BROAD [] @@ -4941,6 +4988,8 @@ name: macromolecule biosynthetic process namespace: biological_process alt_id: GO:0043284 def: "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "biopolymer biosynthetic process" EXACT [GOC:mtg_chebi_dec09] synonym: "macromolecule anabolism" EXACT [] @@ -4952,6 +5001,7 @@ is_a: GO:0044249 ! cellular biosynthetic process is_a: GO:1901576 ! organic substance biosynthetic process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/15249" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25418" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0009605 @@ -4959,7 +5009,7 @@ name: response to external stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an external stimulus." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_drosophila subset: goslim_plant synonym: "response to environmental stimulus" EXACT [] @@ -4971,7 +5021,7 @@ name: response to biotic stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a biotic stimulus, a stimulus caused or produced by a living organism." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_metagenomics subset: goslim_plant synonym: "response to biotic stress" NARROW [] @@ -5005,7 +5055,7 @@ name: embryo development namespace: biological_process alt_id: GO:0009795 def: "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant." [GOC:go_curators, GOC:isa_complete, GOC:mtg_sensu] -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_plant synonym: "embryogenesis" EXACT [] @@ -5108,9 +5158,11 @@ comment: Note that this term should be used to annotate gene products in the org subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote synonym: "caspase-independent apoptosis" RELATED [] synonym: "caspase-independent cell death" NARROW [] @@ -5200,10 +5252,12 @@ namespace: biological_process alt_id: GO:0044235 alt_id: GO:0071842 def: "A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:ai, GOC:jl, GOC:mah] +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cell organisation" EXACT [] synonym: "cell organization and biogenesis" RELATED [GOC:mah] synonym: "cellular component organisation at cellular level" EXACT [GOC:mah] @@ -5246,6 +5300,7 @@ def: "A cellular transport process in which transported substances are moved in subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pir subset: goslim_pombe @@ -5275,6 +5330,7 @@ name: somatic cell DNA recombination namespace: biological_process def: "Recombination occurring within or between DNA molecules in somatic cells." [GOC:ma] is_a: GO:0006310 ! DNA recombination +property_value: RO:0002161 NCBITaxon:4751 [Term] id: GO:0016445 @@ -5335,11 +5391,14 @@ alt_id: GO:0006411 alt_id: GO:0044267 alt_id: GO:0044268 def: "The chemical reactions and pathways involving a protein. Includes protein modification." [GOC:ma] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cellular protein metabolic process" EXACT [] synonym: "cellular protein metabolism" EXACT [] synonym: "multicellular organismal protein metabolic process" NARROW [] @@ -5352,6 +5411,7 @@ intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output PR:000000001 ! protein relationship: has_primary_input_or_output PR:000000001 ! protein property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23112" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0019724 @@ -5427,6 +5487,7 @@ name: cell cycle process namespace: biological_process def: "The cellular process that ensures successive accurate and complete genome replication and chromosome segregation." [GOC:isa_complete, GOC:mtg_cell_cycle] subset: gocheck_do_not_annotate +subset: goslim_euk_cellular_processes_ribbon is_a: GO:0009987 ! cellular process intersection_of: GO:0009987 ! cellular process intersection_of: part_of GO:0007049 ! cell cycle @@ -5438,6 +5499,8 @@ name: cellular component disassembly namespace: biological_process alt_id: GO:0071845 def: "A cellular process that results in the breakdown of a cellular component." [GOC:isa_complete] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "cell structure disassembly" EXACT [] synonym: "cellular component disassembly at cellular level" EXACT [] @@ -5446,6 +5509,7 @@ intersection_of: GO:0009987 ! cellular process intersection_of: results_in_disassembly_of GO:0005575 ! cellular_component disjoint_from: GO:0022607 ! cellular component assembly relationship: results_in_disassembly_of GO:0005575 ! cellular_component +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0022600 @@ -5465,6 +5529,7 @@ namespace: biological_process alt_id: GO:0071844 def: "The aggregation, arrangement and bonding together of a cellular component." [GOC:isa_complete] subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_pir synonym: "cell structure assembly" EXACT [] synonym: "cellular component assembly at cellular level" EXACT [] @@ -5508,11 +5573,13 @@ alt_id: GO:0044700 def: "The entirety of a process in which information is transmitted within a biological system. This process begins with an active signal and ends when a cellular response has been triggered." [GOC:mtg_signal, GOC:mtg_signaling_feb11, GOC:signaling] comment: Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change. subset: goslim_agr +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pombe subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "biological signaling" EXACT [] synonym: "signaling process" EXACT [] @@ -5589,6 +5656,8 @@ is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000988 ! hematopoietic cell relationship: results_in_development_of CL:0000988 ! hematopoietic cell +relationship: RO:0002160 NCBITaxon:6072 ! only in taxon Eumetazoa +relationship: RO:0002162 NCBITaxon:6072 {all_only="true"} ! in taxon Eumetazoa property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22178" xsd:anyURI [Term] @@ -5654,6 +5723,7 @@ subset: goslim_drosophila subset: goslim_generic subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon xref: Wikipedia:Cellular_differentiation is_a: GO:0048869 ! cellular developmental process intersection_of: GO:0048869 ! cellular developmental process @@ -5893,6 +5963,7 @@ alt_id: GO:0005578 def: "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues." [GOC:BHF, GOC:mah, GOC:rph, NIF_Subcellular:nlx_subcell_20090513, PMID:21123617, PMID:28089324] subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote @@ -6033,7 +6104,7 @@ name: regulation of response to external stimulus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a response to an external stimulus." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0048583 ! regulation of response to stimulus intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0009605 ! response to external stimulus @@ -6045,7 +6116,7 @@ name: positive regulation of response to external stimulus namespace: biological_process def: "Any process that activates, maintains or increases the rate of a response to an external stimulus." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "activation of response to external stimulus" NARROW [] synonym: "stimulation of response to external stimulus" NARROW [] synonym: "up regulation of response to external stimulus" EXACT [] @@ -6064,6 +6135,7 @@ namespace: biological_process alt_id: GO:0044707 alt_id: GO:0050874 def: "Any biological process, occurring at the level of a multicellular organism, pertinent to its function." [GOC:curators, GOC:dph, GOC:isa_complete, GOC:tb] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate subset: goslim_pir synonym: "organismal physiological process" EXACT [] @@ -6073,6 +6145,7 @@ property_value: RO:0002161 NCBITaxon:2 property_value: RO:0002161 NCBITaxon:2157 property_value: RO:0002161 NCBITaxon:4896 property_value: RO:0002161 NCBITaxon:4932 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2012-09-19T16:07:47Z @@ -6144,6 +6217,7 @@ def: "A stable assembly of two or more macromolecules, i.e. proteins, nucleic ac comment: A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole. subset: goslim_agr subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir @@ -6153,8 +6227,8 @@ synonym: "protein complex" NARROW [] synonym: "protein containing complex" EXACT [] synonym: "protein-protein complex" NARROW [] is_a: GO:0005575 ! cellular_component -is_a: PR:000050567 ! protein-containing material entity disjoint_from: GO:0110165 ! cellular anatomical entity +relationship: has_part PR:000000001 ! protein [Term] id: GO:0032993 @@ -6279,6 +6353,7 @@ subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "receptor activity" BROAD [] synonym: "receptor activity involved in signal transduction" EXACT [GOC:bf] synonym: "signalling receptor activity" EXACT [] @@ -6433,11 +6508,12 @@ name: response to chemical namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a chemical stimulus." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_candida subset: goslim_drosophila subset: goslim_metagenomics subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "response to chemical stimulus" EXACT [GOC:dos] synonym: "response to chemical substance" EXACT [] @@ -6470,7 +6546,6 @@ id: GO:0042391 name: regulation of membrane potential namespace: biological_process def: "Any process that modulates the establishment or extent of a membrane potential, the electric potential existing across any membrane arising from charges in the membrane itself and from the charges present in the media on either side of the membrane." [GOC:jl, GOC:mtg_cardio, GOC:tb, ISBN:0198506732] -is_a: BFO:0000003 ! occurrent relationship: has_part GO:0034220 ! monoatomic ion transmembrane transport [Term] @@ -6491,11 +6566,11 @@ relationship: part_of GO:0005615 ! extracellular space id: GO:0042582 name: azurophil granule namespace: cellular_component -def: "Primary lysosomal granule found in neutrophil granulocytes. Contains a wide range of hydrolytic enzymes and is released into the extracellular fluid." [GOC:jl, PMID:17152095] +def: "Primary lysosomal granule readily stainable with a Romanowsky stain." [GOC:jl, PMID:17152095, PMID:28717070, PMID:5914694, WIKIPEDIA:Azurophilic_granule] synonym: "primary granule" EXACT [] is_a: GO:0005766 ! primary lysosome is_a: GO:0030141 ! secretory granule -relationship: part_of CL:0000775 ! neutrophil +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27231" xsd:anyURI [Term] id: GO:0042592 @@ -6537,10 +6612,12 @@ name: cell projection namespace: cellular_component def: "A prolongation or process extending from a cell, e.g. a flagellum or axon." [GOC:jl, http://www.cogsci.princeton.edu/~wn/] subset: goslim_agr +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "cell process" BROAD [] synonym: "cellular process" BROAD [] synonym: "cellular projection" EXACT [] @@ -6603,6 +6680,7 @@ subset: goslim_chembl subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon xref: NIF_Subcellular:sao1539965131 xref: Wikipedia:Organelle is_a: GO:0110165 ! cellular anatomical entity @@ -6766,7 +6844,10 @@ name: primary metabolic process namespace: biological_process def: "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism." [GOC:go_curators, http://www.metacyc.org] subset: gocheck_do_not_annotate +subset: goslim_euk_cellular_processes_ribbon subset: goslim_pir +subset: goslim_plant_ribbon +subset: goslim_prokaryote_ribbon synonym: "primary metabolism" EXACT [] is_a: GO:0008152 ! metabolic process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI @@ -6776,12 +6857,15 @@ id: GO:0044249 name: cellular biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:jl] +comment: This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. +subset: gocheck_do_not_annotate synonym: "cellular anabolism" EXACT [] synonym: "cellular biosynthesis" EXACT [] synonym: "cellular formation" EXACT [] synonym: "cellular synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0044237 ! cellular metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27052" xsd:anyURI [Term] id: GO:0044419 @@ -6844,6 +6928,7 @@ namespace: cellular_component def: "The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane." [GOC:aruk, ISBN:0198506732, PMID:24619342, PMID:29383328, PMID:31998110] subset: goslim_agr subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir @@ -7081,7 +7166,7 @@ name: regulation of response to stimulus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus." [GOC:jid] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0050896 ! response to stimulus @@ -7093,7 +7178,7 @@ name: positive regulation of response to stimulus namespace: biological_process def: "Any process that activates, maintains or increases the rate of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus." [GOC:jid] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "activation of response to stimulus" NARROW [] synonym: "stimulation of response to stimulus" NARROW [] synonym: "up regulation of response to stimulus" EXACT [] @@ -7111,7 +7196,7 @@ name: negative regulation of response to stimulus namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus." [GOC:jid] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "down regulation of response to stimulus" EXACT [] synonym: "down-regulation of response to stimulus" EXACT [] synonym: "downregulation of response to stimulus" EXACT [] @@ -7206,6 +7291,7 @@ subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_generic subset: goslim_plant +subset: goslim_plant_ribbon synonym: "development of an anatomical structure" EXACT [] is_a: GO:0032502 ! developmental process intersection_of: GO:0032502 ! developmental process @@ -7228,12 +7314,14 @@ namespace: biological_process def: "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another." [GOC:dgh, GOC:dph, GOC:isa_complete, GOC:mlg] subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_prokaryote synonym: "cell locomotion" EXACT [] synonym: "cell movement" RELATED [] synonym: "movement of a cell" EXACT [] is_a: GO:0009987 ! cellular process +property_value: RO:0002161 NCBITaxon:4890 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19809" xsd:anyURI [Term] @@ -7367,6 +7455,7 @@ is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001775 ! cell activation relationship: regulates GO:0001775 ! cell activation +property_value: RO:0002161 NCBITaxon:4890 [Term] id: GO:0050877 @@ -7403,12 +7492,13 @@ namespace: biological_process alt_id: GO:0051869 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism." [GOC:ai, GOC:bf] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "physiological response to stimulus" EXACT [] is_a: GO:0008150 ! biological_process @@ -7464,6 +7554,7 @@ name: localization namespace: biological_process alt_id: GO:1902578 def: "Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation." [GOC:ai, GOC:dos] +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "establishment and maintenance of cellular component location" NARROW [] synonym: "establishment and maintenance of localization" EXACT [] @@ -7474,6 +7565,7 @@ synonym: "localisation" EXACT [GOC:mah] synonym: "single organism localization" RELATED [GOC:TermGenie] synonym: "single-organism localization" RELATED [] is_a: GO:0008150 ! biological_process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27052" xsd:anyURI created_by: jl creation_date: 2013-12-18T13:51:04Z @@ -7586,7 +7678,7 @@ name: cellular response to stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus by a cell and ends with a change in state or activity or the cell." [GOC:bf, GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0009987 ! cellular process is_a: GO:0050896 ! response to stimulus @@ -7599,6 +7691,7 @@ def: "The process in which a solute is transported across a lipid bilayer, from comment: Transmembrane transport is the transport of a solute across a lipid bilayer. Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane and is not traversed. For transport through the nuclear pore, consider instead the term 'nucleocytoplasmic transport ; GO:0006913' and its children. Note also that this term is not intended for use in annotating lateral movement within membranes. subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pombe subset: goslim_yeast @@ -7617,7 +7710,7 @@ id: GO:0060089 name: molecular transducer activity namespace: molecular_function def: "A compound molecular function in which an effector function is controlled by one or more regulatory components." [GOC:dos, GOC:pdt] -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote @@ -7848,7 +7941,7 @@ name: cellular response to chemical stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a chemical stimulus." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0042221 ! response to chemical is_a: GO:0051716 ! cellular response to stimulus created_by: mah @@ -7949,12 +8042,15 @@ name: cellular component organization or biogenesis namespace: biological_process alt_id: GO:0071841 def: "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_flybase_ribbon subset: goslim_metagenomics synonym: "cellular component organisation or biogenesis" EXACT [GOC:mah] synonym: "cellular component organisation or biogenesis at cellular level" EXACT [GOC:mah] synonym: "cellular component organization or biogenesis at cellular level" EXACT [] is_a: GO:0009987 ! cellular process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: mah creation_date: 2010-09-10T01:39:16Z @@ -8099,7 +8195,7 @@ name: plasma membrane region namespace: cellular_component def: "A membrane that is a (regional) part of the plasma membrane." [GOC:dos] comment: Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "region of plasma membrane" EXACT [] is_a: GO:0016020 ! membrane intersection_of: GO:0016020 ! membrane @@ -8126,7 +8222,6 @@ def: "A complex of collagen trimers such as a fibril or collagen network." [GOC: synonym: "Supramolecular aggregate of collagen" EXACT [PMID:19693541] synonym: "Supramolecular collagen assembly" EXACT [PMID:21421911] is_a: GO:0099080 ! supramolecular complex -is_a: PR:000050567 ! protein-containing material entity relationship: has_part GO:0005581 ! collagen trimer relationship: part_of GO:0062023 ! collagen-containing extracellular matrix @@ -8206,7 +8301,7 @@ name: plasma membrane signaling receptor complex namespace: cellular_component def: "Any protein complex that is part of the plasma membrane and which functions as a signaling receptor." [GOC:dos] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0043235 ! receptor complex is_a: GO:0098797 ! plasma membrane protein complex intersection_of: GO:0032991 ! protein-containing complex @@ -8414,6 +8509,7 @@ id: GO:1901576 name: organic substance biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon." [GOC:pr, GOC:TermGenie] +subset: gocheck_do_not_annotate synonym: "organic molecular entity anabolism" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthesis" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthetic process" EXACT [] @@ -8425,6 +8521,7 @@ synonym: "organic substance formation" EXACT [] synonym: "organic substance synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0071704 ! organic substance metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI created_by: pr creation_date: 2012-11-05T11:04:40Z @@ -8858,7 +8955,6 @@ name: quality namespace: quality alt_id: PATO:0000072 def: "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities" [PATOC:GVG] -is_a: BFO:0000020 ! specifically dependent continuant [Term] id: PATO:0000051 @@ -10552,21 +10648,6 @@ synonym: "fam:CTS" EXACT PRO-short-label [PRO:DNx] is_a: PR:000036194 ! eukaryotic protein relationship: RO:0002160 NCBITaxon:33208 ! only in taxon Metazoa -[Term] -id: PR:000050567 -name: protein-containing material entity -namespace: protein -def: "A material entity that minimally consists of a protein." [PRO:DAN] -comment: Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566). -synonym: "protein" NARROW [PRO:DAN] -synonym: "protein aggregate" NARROW [PRO:DAN] -synonym: "protein complex" NARROW [PRO:DAN] -synonym: "protein-containing complex" NARROW [PRO:DAN] -is_a: BFO:0000040 ! material entity -intersection_of: BFO:0000040 ! material entity -intersection_of: has_part PR:000000001 ! protein -relationship: has_part PR:000000001 ! protein - [Term] id: UBERON:0000000 name: processual entity @@ -10637,6 +10718,7 @@ xref: BILA:0000003 xref: CARO:0000003 xref: EHDAA2:0003003 xref: EMAPA:0 +xref: FBbt:00007001 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:305751 xref: FMA:67135 xref: GAID:781 @@ -10726,7 +10808,6 @@ xref: EFO:0001272 xref: FBdv:00005369 xref: WBls:0000041 xref: XtroDO:0000084 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000092 ! post-embryonic stage relationship: preceded_by UBERON:0000111 ! organogenesis stage @@ -10753,7 +10834,6 @@ xref: WBls:0000003 xref: WBls:0000092 xref: WBls:0000102 xref: XAO:1000012 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage disjoint_from: UBERON:0000092 ! post-embryonic stage relationship: precedes UBERON:0000066 ! fully formed stage @@ -10769,7 +10849,6 @@ subset: common_anatomy synonym: "death" RELATED [] xref: XAO:0000437 xref: XtroDO:0000085 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: RO:0002229 UBERON:0000104 ! ends life cycle property_value: RO:0002175 NCBITaxon:33090 @@ -10810,7 +10889,6 @@ xref: OGES:000024 xref: WBls:0000022 xref: WBls:0000093 xref: WBls:0000103 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: preceded_by UBERON:0000068 ! embryo stage relationship: RO:0002082 GO:0009791 ! simultaneous with post-embryonic development @@ -10832,7 +10910,6 @@ xref: HsapDv:0000001 xref: MmusDv:0000001 xref: ncithesaurus:Life xref: OGES:000011 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000000 ! processual entity relationship: ends_with UBERON:0000071 ! death stage relationship: has_part UBERON:0000105 ! life cycle stage @@ -10896,7 +10973,6 @@ xref: VHOG:0000745 xref: Wikipedia:Zygote xref: XAO:1000001 xref: ZFS:0000001 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: RO:0002223 UBERON:0000104 ! starts life cycle @@ -10920,7 +10996,6 @@ xref: PdumDv:0000200 xref: Wikipedia:Cleavage_(embryo) xref: XAO:1000004 xref: ZFS:0000046 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage intersection_of: UBERON:0000105 ! life cycle stage intersection_of: RO:0002082 GO:0040016 ! simultaneous with embryonic cleavage @@ -10946,7 +11021,6 @@ xref: WBls:0000005 xref: Wikipedia:Blastula xref: XAO:1000003 xref: ZFS:0000045 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000107 ! cleavage stage @@ -10976,7 +11050,6 @@ xref: OGES:000019 xref: WBls:0000010 xref: XAO:1000005 xref: ZFS:0000047 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000108 {source="BILS"} ! blastula stage @@ -10993,7 +11066,6 @@ xref: BILS:0000110 xref: HsapDv:0000012 xref: MmusDv:0000017 xref: XAO:1000006 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000109 ! gastrula stage @@ -11015,7 +11087,6 @@ xref: MmusDv:0000018 xref: OGES:000005 xref: OGES:000032 xref: Wikipedia:Organogenesis -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: RO:0002082 GO:0048513 ! simultaneous with animal organ development @@ -11055,6 +11126,7 @@ xref: EFO:0000825 xref: EHDAA2:0001326 xref: EHDAA:542 xref: EMAPA:16262 +xref: FBbt:00003126 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:49184 xref: GAID:75 xref: galen:Mouth @@ -11116,7 +11188,6 @@ xref: VHOG:0000224 xref: Wikipedia:Blood xref: XAO:0000124 xref: ZFA:0000007 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000179 ! haemolymphatic fluid relationship: has_part CL:0000232 {source="CL:tm"} ! erythrocyte relationship: has_part UBERON:0001969 ! blood plasma @@ -11221,6 +11292,7 @@ xref: CALOHA:TS-2101 xref: CARO:0000004 xref: EHDAA2:0003004 xref: EMAPA:35178 +xref: FBbt:00007019 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9669 xref: galen:BodySubstance xref: HAO:0000004 @@ -11255,6 +11327,7 @@ xref: AEO:0000005 xref: BILA:0000005 xref: CARO:0000005 xref: EHDAA2:0003005 +xref: FBbt:00007017 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:5897 xref: HAO:0000005 xref: NCIT:C94478 @@ -11282,12 +11355,12 @@ xref: AEO:0000006 xref: BILA:0000006 xref: CARO:0000006 xref: EHDAA2:0003006 +xref: FBbt:00007016 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67165 xref: HAO:0000006 xref: TAO:0001836 xref: TGMA:0001826 xref: VHOG:0001721 -is_a: BFO:0000040 ! material entity is_a: UBERON:0001062 ! anatomical entity disjoint_from: UBERON:0000466 ! immaterial anatomical entity property_value: RO:0002175 NCBITaxon:33090 @@ -11307,12 +11380,12 @@ xref: AEO:0000007 xref: BILA:0000007 xref: CARO:0000007 xref: EHDAA2:0003007 +xref: FBbt:00007015 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67112 xref: HAO:0000007 xref: TAO:0001835 xref: TGMA:0001827 xref: VHOG:0001727 -is_a: BFO:0000141 ! immaterial entity is_a: UBERON:0001062 ! anatomical entity property_value: RO:0002175 NCBITaxon:33090 property_value: RO:0002175 NCBITaxon:33208 @@ -11344,6 +11417,7 @@ xref: EHDAA2:0003011 xref: EHDAA:392 xref: EMAPA:16103 xref: EV:0100000 +xref: FBbt:00004856 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7149 xref: galen:AnatomicalSystem xref: HAO:0000011 @@ -11397,6 +11471,7 @@ xref: EHDAA2:0003191 xref: EHDAA:1 xref: EMAPA:25765 xref: EV:0100016 +xref: FBbt:00000001 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:256135 xref: galen:Organism xref: HAO:0000012 @@ -11440,6 +11515,7 @@ xref: CARO:0000032 xref: EFO:0000808 xref: EHDAA2:0003032 xref: EMAPA:36031 +xref: FBbt:00007009 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7153 xref: galen:BodyPart xref: HAO:0000032 @@ -11475,6 +11551,7 @@ xref: AEO:0000040 xref: BILA:0000040 xref: CARO:0000040 xref: EHDAA2:0003040 +xref: FBbt:00007013 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:63863 xref: HAO:0000040 xref: TAO:0000382 @@ -11494,6 +11571,7 @@ namespace: uberon def: "Anatomical group whose component anatomical structures lie in close proximity to each other." [FBbt:00007277] subset: common_anatomy subset: upper_level +xref: FBbt:00007277 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: VHOG:0001737 is_a: UBERON:0034923 ! disconnected anatomical group property_value: RO:0002175 NCBITaxon:33090 @@ -11520,6 +11598,7 @@ xref: CALOHA:TS-2090 xref: CARO:0000043 xref: EHDAA2:0003043 xref: EMAPA:35868 +xref: FBbt:00007003 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9637 xref: galen:Tissue xref: HAO:0000043 @@ -11554,6 +11633,7 @@ xref: AEO:0000055 xref: BILA:0000055 xref: CARO:0000055 xref: EHDAA2:0003055 +xref: FBbt:00007010 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: HAO:0000055 xref: TAO:0001488 xref: TGMA:0001847 @@ -11586,6 +11666,7 @@ xref: CALOHA:TS-0288 xref: CARO:0000066 xref: EHDAA2:0003066 xref: EMAPA:32738 +xref: FBbt:00007005 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9639 xref: GAID:402 xref: HAO:0000066 @@ -11599,7 +11680,6 @@ xref: VHOG:0000387 xref: Wikipedia:Epithelium xref: XAO:0003045 xref: ZFA:0001486 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000479 ! tissue intersection_of: UBERON:0000479 ! tissue intersection_of: RO:0002473 CL:0000066 ! composed primarily of epithelial cell @@ -11707,6 +11787,7 @@ xref: EHDAA2:0000002 xref: EHDAA2_RETIRED:0003236 xref: EHDAA:38 xref: EMAPA:16039 +xref: FBbt:00000052 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69068 xref: GAID:963 xref: http://neurolex.org/wiki/Category\:Embryonic_organism @@ -11747,6 +11828,7 @@ xref: AAO:0000480 xref: BILA:0000035 xref: BTO:0000556 xref: EMAPA:36033 +xref: FBbt:00000110 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69069 xref: GAID:1303 xref: MESH:D005855 @@ -11780,6 +11862,7 @@ xref: EFO:0000414 xref: EHDAA2:0000428 xref: EMAPA:16069 xref: EV:0100003 +xref: FBbt:00000111 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69070 xref: GAID:1304 xref: MAT:0000155 @@ -11817,6 +11900,7 @@ xref: EFO:0002545 xref: EHDAA2:0000436 xref: EMAPA:16062 xref: EV:0100005 +xref: FBbt:00000125 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69071 xref: GAID:1305 xref: MAT:0000175 @@ -11860,6 +11944,7 @@ xref: EHDAA:160 xref: EHDAA:183 xref: EMAPA:16083 xref: EV:0100006 +xref: FBbt:00000126 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69072 xref: GAID:522 xref: MAT:0000174 @@ -11899,6 +11984,7 @@ synonym: "stomodeal-hypophyseal primordium" BROAD [XAO:0000269] xref: BTO:0004224 xref: EHDAA2:0001929 xref: EMAPA:16263 +xref: FBbt:00000439 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:295846 xref: NCIT:C34306 xref: TAO:0001290 @@ -12033,6 +12119,7 @@ xref: BILA:0000082 xref: BTO:0000058 xref: CALOHA:TS-1293 xref: EFO:0000793 +xref: FBbt:00005055 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7152 xref: GAID:278 xref: galen:DigestiveSystem @@ -12147,6 +12234,7 @@ xref: EHDAA2:0001246 xref: EHDAA:826 xref: EMAPA:16469 xref: EV:0100162 +xref: FBbt:00005093 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7157 xref: GAID:466 xref: MA:0000016 @@ -12206,6 +12294,7 @@ xref: EHDAA:828 xref: EMAPA:16470 xref: EMAPA:16754 xref: EV:0100163 +xref: FBbt:00005094 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:55675 xref: GAID:570 xref: MA:0000167 @@ -12245,6 +12334,7 @@ xref: AEO:0000171 xref: BTO:0001886 xref: EFO:0001652 xref: EHDAA2:0003171 +xref: FBbt:00005495 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:86589 xref: MAT:0000482 xref: NCIT:C34275 @@ -12307,6 +12397,7 @@ xref: BILA:0000000 xref: BIRNLEX:6 xref: CARO:0000000 xref: EHDAA2:0002229 +xref: FBbt:10000000 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:62955 xref: HAO:0000000 xref: MA:0000001 @@ -12431,6 +12522,7 @@ xref: BTO:0000545 xref: EHDAA2:0000726 xref: EHDAA:518 xref: EMAPA:16247 +xref: FBbt:00003125 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45615 xref: galen:AlimentaryTract xref: MA:0000917 @@ -12503,7 +12595,6 @@ xref: MIAA:0000052 xref: NCIT:C13356 xref: UMLS:C0032105 {source="ncithesaurus:Plasma"} xref: Wikipedia:Blood_plasma -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000179 ! haemolymphatic fluid intersection_of: UBERON:0000463 ! organism substance intersection_of: has_part GO:0005577 ! fibrinogen complex @@ -12552,7 +12643,6 @@ xref: VHOG:0001250 xref: Wikipedia:Blood_vessel xref: XAO:0001011 xref: ZFA:0005314 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000055 ! vessel is_a: UBERON:0004120 ! mesoderm-derived structure relationship: capable_of_part_of GO:0008015 ! blood circulation @@ -12634,6 +12724,7 @@ xref: BILA:0000034 xref: BTO:0000174 xref: CALOHA:TS-2110 xref: EFO:0000461 +xref: FBbt:00004208 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69067 xref: GAID:407 xref: MESH:D004628 @@ -12850,6 +12941,7 @@ synonym: "ventral body cavity" NARROW [NCBITaxon:7742] xref: AEO:0000186 xref: BTO:0001707 xref: EHDAA2:0000267 +xref: FBbt:00005060 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:85006 xref: galen:BodyCavity xref: NCIT:C25444 @@ -13013,6 +13105,7 @@ xref: EHDAA:1498 xref: EHDAA:255 xref: EMAPA:16073 xref: EV:0100004 +xref: FBbt:00001057 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:87657 xref: MAT:0000176 xref: MIAA:0000176 @@ -13623,6 +13716,7 @@ def: "Epithelial tubes transport gases, liquids and cells from one site to anoth synonym: "epithelial or endothelial tube" EXACT [] xref: AEO:0000114 xref: EHDAA2:0003114 +xref: FBbt:00007474 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000025 ! tube is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium @@ -13831,7 +13925,6 @@ xref: WikipediaCategory:Cardiovascular_system xref: XAO:0000100 xref: XAO:0001010 xref: ZFA:0000010 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000467 ! anatomical system intersection_of: UBERON:0000467 ! anatomical system intersection_of: has_part UBERON:0000948 ! heart @@ -13855,7 +13948,6 @@ synonym: "blood vessels" RELATED [TAO:0001079] synonym: "set of blood vessels" EXACT [] xref: TAO:0001079 xref: ZFA:0001079 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: RO:0002473 UBERON:0001981 ! composed primarily of blood vessel @@ -13926,6 +14018,7 @@ synonym: "trilaminar disk" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar germ" RELATED [https://orcid.org/0000-0002-6601-2165] xref: BILA:0000060 xref: BTO:0001403 +xref: FBbt:00005317 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:293108 xref: GAID:1302 xref: MESH:D005775 @@ -14065,6 +14158,7 @@ namespace: uberon def: "Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "joint" NARROW [] +xref: FBbt:00005811 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0034921 ! multi organ part structure relationship: part_of UBERON:0004770 ! articular system @@ -14080,6 +14174,7 @@ synonym: "gut section" RELATED [FBbt:00100315] synonym: "intestinal tract" RELATED [] synonym: "segment of intestinal tract" RELATED [] synonym: "subdivision of alimentary system" RELATED [FMA:71131] +xref: FBbt:00100315 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:71131 is_a: UBERON:0013522 ! subdivision of tube intersection_of: UBERON:0013522 ! subdivision of tube @@ -14265,6 +14360,7 @@ synonym: "developmental tissue" RELATED [MIAA:0000019] xref: AEO:0000125 xref: CALOHA:TS-2122 xref: EHDAA2:0003125 +xref: FBbt:00007006 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:292313 xref: MIAA:0000019 is_a: UBERON:0000465 ! material anatomical entity @@ -14325,7 +14421,6 @@ xref: NCIT:C13191 xref: SCTID:68989006 xref: UMLS:C0004799 {source="ncithesaurus:Basement_Membrane"} xref: Wikipedia:Basement_membrane -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0005764 {source="FMA"} ! acellular membrane relationship: adjacent_to CL:0000066 ! epithelial cell relationship: has_part GO:0005587 ! collagen type IV trimer @@ -14544,7 +14639,6 @@ subset: efo_slim xref: EFO:0003709 xref: TAO:0005077 xref: ZFA:0005077 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0005423 ! developing anatomical structure relationship: has_part CL:0000115 ! endothelial cell relationship: has_part CL:0000566 ! angioblastic mesenchymal cell @@ -14771,6 +14865,7 @@ synonym: "organ field" RELATED [] xref: AEO:0000170 xref: EFO:0001649 xref: EHDAA2:0003170 +xref: FBbt:00005426 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: Wikipedia:Anlage_(biology) is_a: UBERON:0000479 {source="FBbt"} ! tissue is_a: UBERON:0005423 {source="AEO", source="FBbt"} ! developing anatomical structure @@ -14854,6 +14949,7 @@ subset: common_anatomy subset: upper_level synonym: "multicellular structure" EXACT [FBbt:00100313] xref: CARO:0010000 +xref: FBbt:00100313 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: RO:0000086 PATO:0001993 ! has quality multicellular @@ -14886,7 +14982,6 @@ synonym: "thrombus" EXACT [BTO:0000102] xref: BTO:0000102 xref: galen:BloodClot xref: Wikipedia:Thrombus -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000463 ! organism substance intersection_of: UBERON:0000463 ! organism substance intersection_of: output_of GO:0007596 ! blood coagulation @@ -14974,6 +15069,7 @@ def: "A subdivision of an anatomical system." [http://orcid.org/0000-0002-6601-2 subset: common_anatomy subset: human_reference_atlas subset: upper_level +xref: FBbt:00007330 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67509 xref: SCTID:91690000 is_a: UBERON:0010000 {source="FBbt"} ! multicellular anatomical structure @@ -15159,6 +15255,7 @@ name: non-connected functional system namespace: uberon def: "An anatomical group whose component structures share a common function." [AEO:0000093, AEO:JB, FBbt:00007278, FBC:DOS] xref: AEO:0000093 +xref: FBbt:00007278 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0034923 ! disconnected anatomical group [Term] @@ -15279,6 +15376,7 @@ namespace: uberon def: "Material anatomical entity consisting of multiple anatomical structures that are not connected to each other." [CARO:0020000] subset: common_anatomy xref: CARO:0020000 +xref: FBbt:00007276 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000465 {source="CARO"} ! material anatomical entity relationship: has_component UBERON:0000061 {minCardinality="2"} ! anatomical structure relationship: RO:0000086 PATO:0010001 ! has quality disconnected @@ -15352,15 +15450,6 @@ is_functional: true is_a: RO:0002314 ! characteristic of part of inverse_of: bearer_of ! bearer of -[Typedef] -id: RO:0000079 -name: function of -def: "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -property_value: IAO:0000116 "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." xsd:string -is_a: RO:0000052 ! characteristic of -inverse_of: RO:0000085 ! has function - [Typedef] id: RO:0000080 name: quality of @@ -15370,23 +15459,6 @@ property_value: IAO:0000116 "A quality inheres in its bearer at all times for wh is_a: RO:0000052 ! characteristic of inverse_of: RO:0000086 ! has quality -[Typedef] -id: RO:0000081 -name: role of -def: "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -property_value: IAO:0000116 "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." xsd:string -is_a: RO:0000052 ! characteristic of -inverse_of: RO:0000087 ! has role - -[Typedef] -id: RO:0000085 -name: has function -def: "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" [] -property_value: IAO:0000116 "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." xsd:string -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of - [Typedef] id: RO:0000086 name: has quality @@ -15394,30 +15466,6 @@ def: "a relation between an independent continuant (the bearer) and a quality, i property_value: IAO:0000116 "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." xsd:string is_a: bearer_of ! bearer of -[Typedef] -id: RO:0000087 -name: has role -def: "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" [] -property_value: IAO:0000116 "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." xsd:string -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of - -[Typedef] -id: RO:0000091 -name: has disposition -def: "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" [] -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of -inverse_of: RO:0000092 ! disposition of - -[Typedef] -id: RO:0000092 -name: disposition of -def: "inverse of has disposition" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -subset: RO:0002259 -is_a: RO:0000052 ! characteristic of - [Typedef] id: RO:0001000 name: derives from @@ -15449,8 +15497,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: IAO:0000116 "Location as a relation between instances: The primitive instance-level relation c located_in r at t reflects the fact that each continuant is at any given time associated with exactly one spatial region, namely its exact location. Following we can use this relation to define a further instance-level location relation - not between a continuant and the region which it exactly occupies, but rather between one continuant and another. c is located in c1, in this sense, whenever the spatial region occupied by c is part_of the spatial region occupied by c1. Note that this relation comprehends both the relation of exact location between one continuant and another which obtains when r and r1 are identical (for example, when a portion of fluid exactly fills a cavity), as well as those sorts of inexact location relations which obtain, for example, between brain and head or between ovum and uterus" xsd:string property_value: IAO:0000116 "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" xsd:string property_value: seeAlso "https://wiki.geneontology.org/Located_in" xsd:anyURI -domain: BFO:0000004 {IAO:0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant -range: BFO:0000004 {IAO:0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant is_transitive: true transitive_over: part_of ! part of @@ -15469,8 +15515,6 @@ name: has 2D boundary def: "a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity" [] property_value: IAO:0000116 "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." xsd:string property_value: IAO:0000116 "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." xsd:string -domain: BFO:0000040 ! material entity -range: BFO:0000141 ! immaterial entity is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -15485,34 +15529,6 @@ name: has synaptic terminal of is_a: overlaps ! overlaps inverse_of: RO:0002130 ! has synaptic terminal in -[Typedef] -id: RO:0002015 -name: has positive regulatory component activity -def: "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." [] -comment: By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'. -is_a: has_regulatory_component_activity ! has regulatory component activity -is_a: positively_regulated_by ! positively regulated by -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:31:17Z - -[Typedef] -id: RO:0002017 -name: has component activity -comment: A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B. -is_a: RO:0002018 ! has component process -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:44:33Z - -[Typedef] -id: RO:0002018 -name: has component process -def: "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." [] -domain: BFO:0000015 ! process -range: BFO:0000015 ! process -is_a: has_component ! has component -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:49:21Z - [Typedef] id: RO:0002021 name: occurs across @@ -15521,43 +15537,6 @@ is_a: RO:0002479 ! has part that occurs in created_by: https://orcid.org/0000-0002-7073-9172 creation_date: 2017-07-20T17:19:37Z -[Typedef] -id: RO:0002022 -name: directly regulated by -comment: Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. {xref="https://orcid.org/0000-0002-7073-9172"} -is_a: regulated_by ! regulated by -inverse_of: directly_regulates ! directly regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:24Z - -[Typedef] -id: RO:0002023 -name: directly negatively regulated by -def: "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1." [https://orcid.org/0000-0002-7073-9172] -is_a: RO:0002022 ! directly regulated by -inverse_of: directly_negatively_regulates ! directly negatively regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:38Z - -[Typedef] -id: RO:0002024 -name: directly positively regulated by -def: "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1." [https://orcid.org/0000-0002-7073-9172] -is_a: RO:0002022 ! directly regulated by -inverse_of: directly_positively_regulates ! directly positively regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:47Z - -[Typedef] -id: RO:0002025 -name: has effector activity -def: "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity." [https://orcid.org/0000-0002-7073-9172] -comment: This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations. -is_functional: true -is_a: RO:0002017 ! has component activity -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-22T14:14:36Z - [Typedef] id: RO:0002081 name: before or simultaneous with @@ -15681,8 +15660,6 @@ id: RO:0002150 name: continuous with def: "X continuous_with Y if and only if X and Y share a fiat boundary." [] property_value: seeAlso "FMA:85972" xsd:string -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_symmetric: true is_a: RO:0002323 ! mereotopologically related to @@ -15745,7 +15722,6 @@ name: connects def: "c connects a if and only if there exist some b such that a and b are similar parts of the same system, and c connects b, specifically, c connects a with b. When one structure connects two others it unites some aspect of the function or role they play within the system." [] property_value: seeAlso "https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern" xsd:anyURI property_value: seeAlso "https://github.com/obophenotype/uberon/wiki/Modeling-articulations-Design-Pattern" xsd:anyURI -domain: BFO:0000004 ! independent continuant is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -15776,8 +15752,6 @@ id: RO:0002202 name: develops from def: "x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y" [] comment: This is the transitive form of the develops from relation -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_transitive: true is_a: RO:0002254 ! has developmental contribution from is_a: RO:0002258 ! developmentally preceded by @@ -15797,7 +15771,6 @@ is_a: RO:0002388 ! has potential to directly develop into id: RO:0002206 name: expressed in def: "x expressed in y if and only if there is a gene expression process (GO:0010467) that occurs in y, and one of the following holds: (i) x is a gene, and x is transcribed into a transcript as part of the gene expression process (ii) x is a transcript, and the transcription of x is part of the gene expression process (iii) x is a mature gene product such as a protein, and x was translated or otherwise processes from a transcript that was transcribed as part of this gene expression process" [] -domain: BFO:0000002 ! continuant range: UBERON:0000465 ! material anatomical entity is_a: RO:0002330 ! genomically related to inverse_of: RO:0002292 ! expresses @@ -15838,8 +15811,6 @@ id: RO:0002222 name: temporally related to comment: A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. subset: ro-eco -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent [Typedef] id: RO:0002223 @@ -15931,8 +15902,6 @@ name: developmentally preceded by def: "Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p" [] comment: This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from property_value: IAO:0000116 "false" xsd:boolean -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant is_a: RO:0002324 ! developmentally related to inverse_of: RO:0002286 ! developmentally succeeded by @@ -15942,7 +15911,6 @@ name: acts upstream of def: "c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes." [] subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of -holds_over_chain: RO:0002327 causally_upstream_of is_a: RO:0002264 ! acts upstream of or within [Typedef] @@ -15952,7 +15920,6 @@ def: "c acts upstream of or within p if c is enables f, and f is causally upstre subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term synonym: "affects" RELATED [] property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of_or_within is_a: RO:0002500 ! causal agent in process [Typedef] @@ -16004,17 +15971,6 @@ id: RO:0002324 name: developmentally related to def: "A relationship that holds between entities participating in some developmental process (GO:0032502)" [] -[Typedef] -id: RO:0002327 -name: enables -def: "c enables p iff c is capable of p and c acts to execute p." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Enables" xsd:anyURI -is_a: capable_of ! capable of -inverse_of: RO:0002333 ! enabled by -transitive_over: has_part ! has part -transitive_over: RO:0002017 ! has component activity - [Typedef] id: RO:0002328 name: functionally related to @@ -16030,34 +15986,11 @@ is_a: RO:0002328 ! functionally related to id: RO:0002330 name: genomically related to def: "holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts." [] -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant - -[Typedef] -id: RO:0002331 -name: involved in -def: "c involved_in p if and only if c enables some process p', and p' is part of p" [] -property_value: seeAlso "https://wiki.geneontology.org/Involved_in" xsd:anyURI -holds_over_chain: RO:0002327 part_of -is_a: participates_in ! participates in -is_a: RO:0002431 ! involved in or involved in regulation of -transitive_over: part_of ! part of - -[Typedef] -id: RO:0002333 -name: enabled by -def: "inverse of enables" [] -subset: http://purl.obolibrary.org/obo/valid_for_gocam -property_value: seeAlso "https://wiki.geneontology.org/Enabled_by" xsd:anyURI -is_a: has_participant ! has participant -is_a: RO:0002328 ! functionally related to [Typedef] id: RO:0002337 name: related via localization to def: "A relationship that holds via some process of localization" [] -domain: BFO:0000015 ! process -range: BFO:0000002 ! continuant [Typedef] id: RO:0002350 @@ -16124,8 +16057,6 @@ name: in branching relationship with def: "A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network." [] property_value: seeAlso http://purl.obolibrary.org/obo/ro/docs/branching_part_of.png property_value: seeAlso "https://github.com/obophenotype/uberon/issues/170" xsd:anyURI -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -16187,31 +16118,6 @@ name: has potential to directly develop into def: "x has potential to directly develop into y iff x directly develops into y or x is capable of directly developing into y" [] is_a: RO:0002387 ! has potential to develop into -[Typedef] -id: RO:0002407 -name: indirectly positively regulates -def: "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." [] -property_value: seeAlso "https://wiki.geneontology.org/Indirectly_positively_regulates" xsd:anyURI -holds_over_chain: directly_positively_regulates directly_positively_regulates -holds_over_chain: directly_positively_regulates RO:0002407 -holds_over_chain: RO:0002409 RO:0002409 -is_transitive: true -is_a: positively_regulates ! positively regulates -is_a: RO:0012012 ! indirectly regulates -transitive_over: directly_positively_regulates ! directly positively regulates - -[Typedef] -id: RO:0002409 -name: indirectly negatively regulates -def: "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." [] -property_value: seeAlso "https://wiki.geneontology.org/Indirectly_negatively_regulates" xsd:anyURI -holds_over_chain: directly_negatively_regulates directly_negatively_regulates -holds_over_chain: directly_negatively_regulates RO:0002409 -is_transitive: true -is_a: negatively_regulates ! negatively regulates -is_a: RO:0012012 ! indirectly regulates -transitive_over: directly_negatively_regulates ! directly negatively regulates - [Typedef] id: RO:0002410 name: causally related to @@ -16222,28 +16128,9 @@ property_value: IAO:0000116 "This branch of the ontology deals with causal relat id: RO:0002428 name: involved in regulation of def: "c involved in regulation of p if c is involved in some p' and p' regulates some p" [] -holds_over_chain: RO:0002327 regulates -holds_over_chain: RO:0002331 regulates is_a: RO:0002263 ! acts upstream of is_a: RO:0002431 ! involved in or involved in regulation of -[Typedef] -id: RO:0002429 -name: involved in positive regulation of -def: "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" [] -holds_over_chain: RO:0002327 positively_regulates -holds_over_chain: RO:0002331 positively_regulates -is_a: RO:0002428 ! involved in regulation of - -[Typedef] -id: RO:0002430 -name: involved in negative regulation of -def: "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" [] -property_value: RO:0004050 RO:0002428 -holds_over_chain: RO:0002327 negatively_regulates -holds_over_chain: RO:0002331 negatively_regulates -is_a: RO:0002428 ! involved in regulation of - [Typedef] id: RO:0002431 name: involved in or involved in regulation of @@ -16253,87 +16140,17 @@ is_a: RO:0002264 ! acts upstream of or within is_a: RO:0002328 ! functionally related to is_a: RO:0002500 ! causal agent in process -[Typedef] -id: RO:0002432 -name: is active in -def: "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure." [https://orcid.org/0000-0002-6601-2165, https://orcid.org/0000-0002-7073-9172] -synonym: "enables activity in" EXACT [] -property_value: seeAlso "https://wiki.geneontology.org/Is_active_in" xsd:anyURI -is_a: overlaps ! overlaps -is_a: RO:0002328 ! functionally related to - [Typedef] id: RO:0002433 name: contributes to morphology of def: "p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm." [] is_a: overlaps ! overlaps -[Typedef] -id: RO:0002434 -name: interacts with -def: "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." [] -subset: ro-eco -synonym: "in pairwise interaction with" EXACT [] -property_value: IAO:0000116 "Considering relabeling as 'pairwise interacts with'" xsd:anyURI -property_value: IAO:0000116 "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." xsd:string -property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_symmetric: true - -[Typedef] -id: RO:0002436 -name: molecularly interacts with -def: "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." [] -property_value: seeAlso ECO:0000353 -is_symmetric: true -is_a: RO:0002434 ! interacts with - -[Typedef] -id: RO:0002447 -name: phosphorylates -property_value: IAO:0000116 "Axiomatization to GO to be added later" xsd:string -is_a: RO:0002436 ! molecularly interacts with - -[Typedef] -id: RO:0002448 -name: directly regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." [] -synonym: "molecularly controls" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002436 ! molecularly interacts with -is_a: RO:0011002 ! regulates activity of - -[Typedef] -id: RO:0002449 -name: directly negatively regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." [] -synonym: "molecularly decreases activity of" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002448 ! directly regulates activity of - -[Typedef] -id: RO:0002450 -name: directly positively regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." [] -synonym: "molecularly increases activity of" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002448 ! directly regulates activity of - -[Typedef] -id: RO:0002464 -name: helper property (not for use in curation) - [Typedef] id: RO:0002473 name: composed primarily of def: "x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y." [] subset: ro-eco -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: has_part ! has part [Typedef] @@ -16341,13 +16158,6 @@ id: RO:0002479 name: has part that occurs in def: "p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c." [] subset: ro-eco -domain: BFO:0000003 ! occurrent -range: BFO:0000004 ! independent continuant - -[Typedef] -id: RO:0002481 -name: is kinase activity -is_a: RO:0002564 ! molecular interaction relation helper property [Typedef] id: RO:0002485 @@ -16365,8 +16175,6 @@ is_a: RO:0002170 ! connected to [Typedef] id: RO:0002487 name: relation between physical entity and a process or stage -domain: BFO:0000004 ! independent continuant -range: BFO:0000003 ! occurrent [Typedef] id: RO:0002488 @@ -16463,8 +16271,6 @@ inverse_of: process_has_causal_agent ! process has causal agent id: RO:0002501 name: causal relation between processes def: "p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q." [] -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent is_a: RO:0002410 ! causally related to [Typedef] @@ -16472,14 +16278,6 @@ id: RO:0002502 name: depends on property_value: seeAlso BFO:0000169 -[Typedef] -id: RO:0002506 -name: causal relation between entities -property_value: IAO:0000116 "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" xsd:string -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant -is_a: RO:0002410 ! causally related to - [Typedef] id: RO:0002551 name: has skeleton @@ -16490,32 +16288,6 @@ is_a: has_part ! has part inverse_of: RO:0002576 ! skeleton of is_asymmetric: true -[Typedef] -id: RO:0002559 -name: causally influenced by -is_a: RO:0002506 ! causal relation between entities -inverse_of: RO:0002566 ! causally influences - -[Typedef] -id: RO:0002563 -name: interaction relation helper property -property_value: seeAlso http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29 -property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI -is_a: RO:0002464 ! helper property (not for use in curation) - -[Typedef] -id: RO:0002564 -name: molecular interaction relation helper property -is_a: RO:0002563 ! interaction relation helper property - -[Typedef] -id: RO:0002566 -name: causally influences -def: "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." [] -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant -is_a: RO:0002506 ! causal relation between entities - [Typedef] id: RO:0002567 name: biomechanically related to @@ -16545,8 +16317,6 @@ id: RO:0002570 name: conduit for def: "x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x." [] subset: ro-eco -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: overlaps ! overlaps [Typedef] @@ -16554,7 +16324,6 @@ id: RO:0002571 name: lumen of def: "x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull." [] subset: ro-eco -range: BFO:0000040 ! material entity is_a: part_of ! part of [Typedef] @@ -16562,7 +16331,6 @@ id: RO:0002572 name: luminal space of def: "s is luminal space of x iff s is lumen_of x and s is an immaterial entity" [] subset: ro-eco -domain: BFO:0000141 ! immaterial entity is_a: RO:0002571 ! lumen of [Typedef] @@ -16593,8 +16361,6 @@ id: RO:0002595 name: causal relation between material entity and a process def: "A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity." [] property_value: IAO:0000116 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string -domain: BFO:0000040 ! material entity -range: BFO:0000015 ! process is_a: RO:0002410 ! causally related to [Typedef] @@ -16618,61 +16384,6 @@ def: "Holds between c and p if and only if c is capable of some activity a, and holds_over_chain: capable_of positively_regulates is_a: RO:0002596 ! capable of regulating -[Typedef] -id: RO:0004031 -name: enables subfunction -def: "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." [] -holds_over_chain: RO:0002327 has_part -is_a: RO:0002328 ! functionally related to -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-25T23:20:13Z - -[Typedef] -id: RO:0004032 -name: acts upstream of or within, positive effect -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect" xsd:anyURI -holds_over_chain: RO:0002327 RO:0004047 -is_a: RO:0002264 ! acts upstream of or within -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:49:30Z - -[Typedef] -id: RO:0004033 -name: acts upstream of or within, negative effect -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: RO:0004050 RO:0002264 -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect" xsd:anyURI -holds_over_chain: RO:0002327 RO:0004046 -is_a: RO:0002264 ! acts upstream of or within -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:49:51Z - -[Typedef] -id: RO:0004034 -name: acts upstream of, positive effect -def: "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of,_positive_effect -is_a: RO:0002263 ! acts upstream of -is_a: RO:0004032 ! acts upstream of or within, positive effect -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:53:14Z - -[Typedef] -id: RO:0004035 -name: acts upstream of, negative effect -def: "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: RO:0004050 RO:0002263 -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of,_negative_effect -is_a: RO:0002263 ! acts upstream of -is_a: RO:0004033 ! acts upstream of or within, negative effect -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:53:22Z - [Typedef] id: RO:0004046 name: causally upstream of or within, negative effect @@ -16690,14 +16401,6 @@ is_a: causally_upstream_of_or_within ! causally upstream of or within created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-03-13T23:55:19Z -[Typedef] -id: RO:0011002 -name: regulates activity of -def: "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002566 ! causally influences - [Typedef] id: RO:0012000 name: has small molecule regulator @@ -16725,23 +16428,6 @@ is_a: RO:0012004 ! is small molecule regulator of created_by: https://orcid.org/0000-0003-1813-6857 creation_date: 2020-06-24T13:15:26Z -[Typedef] -id: RO:0012011 -name: indirectly causally upstream of -def: "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." [] -is_a: causally_upstream_of ! causally upstream of -created_by: https://orcid.org/0000-0003-1813-6857 -creation_date: 2022-09-26T06:07:17Z - -[Typedef] -id: RO:0012012 -name: indirectly regulates -def: "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." [] -is_a: regulates ! regulates -is_a: RO:0012011 ! indirectly causally upstream of -created_by: https://orcid.org/0000-0003-1813-6857 -creation_date: 2022-09-26T06:08:01Z - [Typedef] id: RO:0013001 name: has synaptic IO in region @@ -16822,6 +16508,8 @@ id: RO:0017001 name: device utilizes material def: "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y." [] synonym: "utilizes" BROAD [] +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-9625-1899 +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-2620-0345 holds_over_chain: capable_of has_input creation_date: 2021-11-08T12:00:00Z @@ -16848,8 +16536,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002220 property_value: IAO:0000116 "This relation acts as a join point with BSPO" xsd:string -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_a: RO:0002163 ! spatially disjoint from [Typedef] @@ -16868,7 +16554,6 @@ namespace: external def: "Inverse of characteristic_of" [] xref: RO:0000053 property_value: IAO:0000116 "A bearer can have many dependents, and its dependents can exist for different periods of time, but none of its dependents can exist when the bearer does not exist." xsd:string -range: BFO:0000020 ! specifically dependent continuant is_inverse_functional: true [Typedef] @@ -16879,7 +16564,6 @@ def: "X outer_layer_of Y iff:\n. X :continuant that bearer_of some PATO:laminar\ comment: A relationship that applies between a continuant and its outer, bounding layer. Examples include the relationship between a multicellular organism and its integument, between an animal cell and its plasma membrane, and between a membrane bound organelle and its outer/bounding membrane. subset: ro-eco xref: RO:0002007 -range: BFO:0000040 ! material entity is_a: part_of ! part of [Typedef] @@ -16889,8 +16573,6 @@ namespace: external def: "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. " [] subset: ro-eco xref: RO:0002215 -domain: BFO:0000004 ! independent continuant -range: BFO:0000015 ! process is_a: capable_of_part_of ! capable of part of [Typedef] @@ -16989,45 +16671,6 @@ id: channels_into name: channels_into namespace: uberon -[Typedef] -id: directly_negatively_regulates -name: directly negatively regulates -namespace: external -def: "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002630 -property_value: RO:0004050 RO:0002578 -property_value: seeAlso "https://wiki.geneontology.org/Directly_negatively_regulates" xsd:anyURI -is_a: directly_regulates ! directly regulates -is_a: negatively_regulates ! negatively regulates - -[Typedef] -id: directly_positively_regulates -name: directly positively regulates -namespace: external -def: "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002629 -property_value: seeAlso "https://wiki.geneontology.org/Directly_positively_regulates" xsd:anyURI -is_a: directly_regulates ! directly regulates -is_a: positively_regulates ! positively regulates - -[Typedef] -id: directly_regulates -name: directly regulates -namespace: external -def: "p directly regulates q iff p is immediately causally upstream of q and p regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002578 -is_a: immediately_causally_upstream_of ! immediately causally upstream of -is_a: regulates ! regulates - [Typedef] id: distally_connected_to name: distally connected to @@ -17079,8 +16722,6 @@ namespace: external def: "x 'has end location' y if and only if there exists some process z such that x 'ends with' z and z 'occurs in' y" [] subset: ro-eco xref: RO:0002232 -domain: BFO:0000015 ! process -range: BFO:0000004 ! independent continuant holds_over_chain: ends_with occurs_in is_a: RO:0002479 ! has part that occurs in @@ -17103,7 +16744,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_gocam subset: ro-eco xref: RO:0002233 property_value: seeAlso "https://wiki.geneontology.org/Has_input" xsd:anyURI -domain: BFO:0000015 ! process holds_over_chain: starts_with has_input is_a: has_participant ! has participant inverse_of: RO:0002352 ! input of @@ -17116,18 +16756,6 @@ property_value: term_tracker_item https://github.com/obophenotype/cell-ontology/ is_obsolete: true replaced_by: RO:0015016 -[Typedef] -id: has_negative_regulatory_component_activity -name: has negative regulatory component activity -namespace: external -def: "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." [] -comment: By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'. -xref: RO:0002014 -is_a: has_regulatory_component_activity ! has regulatory component activity -is_a: negatively_regulated_by ! negatively regulated by -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:31:01Z - [Typedef] id: has_ontology_root_term name: has ontology root term @@ -17176,8 +16804,6 @@ namespace: external def: "a relation between a process and a continuant, in which the continuant is somehow involved in the process" [] xref: RO:0000057 property_value: IAO:0000116 "Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time." xsd:string -domain: BFO:0000003 ! occurrent -range: BFO:0000002 ! continuant holds_over_chain: has_part has_participant [Typedef] @@ -17215,17 +16841,6 @@ is_a: has_primary_input_or_output ! has primary input or output created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-12-13T11:26:32Z -[Typedef] -id: has_regulatory_component_activity -name: has regulatory component activity -namespace: external -def: "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." [] -xref: RO:0002013 -is_a: regulated_by ! regulated by -is_a: RO:0002017 ! has component activity -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:30:46Z - [Typedef] id: has_small_molecule_activator name: has small molecule activator @@ -17244,8 +16859,6 @@ namespace: external def: "x 'has starts location' y if and only if there exists some process z such that x 'starts with' z and z 'occurs in' y" [] subset: ro-eco xref: RO:0002231 -domain: BFO:0000015 ! process -range: BFO:0000004 ! independent continuant holds_over_chain: starts_with occurs_in is_a: RO:0002479 ! has part that occurs in @@ -17273,24 +16886,6 @@ xref: RO:0002338 is_a: results_in_transport_to_from_or_in ! results in transport to from or in transitive_over: part_of ! part of -[Typedef] -id: immediately_causally_downstream_of -name: immediately causally downstream of -namespace: external -xref: RO:0002405 -is_a: causally_downstream_of ! causally downstream of -is_a: immediately_preceded_by ! immediately preceded by -inverse_of: immediately_causally_upstream_of ! immediately causally upstream of - -[Typedef] -id: immediately_causally_upstream_of -name: immediately causally upstream of -namespace: external -def: "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." [] -xref: RO:0002412 -is_a: causally_upstream_of ! causally upstream of -is_a: immediately_precedes ! immediately precedes - [Typedef] id: immediately_preceded_by name: immediately preceded by @@ -17349,17 +16944,6 @@ is_a: causally_upstream_of,_negative_effect ! causally upstream of, negative eff is_a: regulates ! regulates inverse_of: negatively_regulated_by ! negatively regulated by -[Typedef] -id: negatively_regulates_characteristic -name: negatively regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." [] -xref: RO:0019002 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -holds_over_chain: negatively_regulates positively_regulates_characteristic -holds_over_chain: positively_regulates negatively_regulates_characteristic -is_a: regulates_characteristic ! regulates characteristic - [Typedef] id: occurs_in name: occurs in @@ -17371,8 +16955,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: BFO:0000066 property_value: seeAlso "https://wiki.geneontology.org/Occurs_in" xsd:anyURI -domain: BFO:0000003 ! occurrent -range: BFO:0000004 ! independent continuant holds_over_chain: part_of occurs_in inverse_of: BFO:0000067 ! contains process transitive_over: part_of ! part of @@ -17433,8 +17015,6 @@ name: participates in namespace: external def: "a relation between a continuant and a process, in which the continuant is somehow involved in the process" [] xref: RO:0000056 -domain: BFO:0000002 ! continuant -range: BFO:0000003 ! occurrent inverse_of: has_participant ! has participant [Typedef] @@ -17462,16 +17042,6 @@ is_a: causally_upstream_of,_positive_effect ! causally upstream of, positive eff is_a: regulates ! regulates inverse_of: positively_regulated_by ! positively regulated by -[Typedef] -id: positively_regulates_characteristic -name: positively regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." [] -xref: RO:0019001 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -holds_over_chain: positively_regulates positively_regulates_characteristic -is_a: regulates_characteristic ! regulates characteristic - [Typedef] id: posteriorly_connected_to name: posteriorly connected to @@ -17487,8 +17057,6 @@ def: "x is preceded by y if and only if the time point at which y ends is before subset: ro-eco xref: BFO:0000062 property_value: IAO:0000116 "An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other." xsd:string -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent holds_over_chain: part_of preceded_by is_transitive: true is_a: RO:0002086 ! ends after @@ -17501,8 +17069,6 @@ namespace: external def: "x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." [] subset: ro-eco xref: BFO:0000063 -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent holds_over_chain: part_of precedes is_transitive: true is_a: RO:0002222 ! temporally related to @@ -17522,8 +17088,6 @@ namespace: external def: "a produced_by b iff some process that occurs_in b has_output a." [] subset: ro-eco xref: RO:0003001 -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity [Typedef] id: produces @@ -17533,8 +17097,6 @@ def: "a produces b if some process that occurs_in a has_output b, where a and b comment: Note that this definition doesn't quite distinguish the output of a transformation process from a production process, which is related to the identity/granularity issue. subset: ro-eco xref: RO:0003000 -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity inverse_of: produced_by ! produced by [Typedef] @@ -17557,8 +17119,6 @@ namespace: external def: "inverse of regulates" [] subset: RO:0002259 xref: RO:0002334 -domain: BFO:0000015 ! process -range: BFO:0000015 ! process is_transitive: true is_a: causally_downstream_of_or_within ! causally downstream of or within @@ -17571,26 +17131,10 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002211 -domain: BFO:0000015 ! process -range: BFO:0000015 ! process -holds_over_chain: directly_regulates directly_regulates holds_over_chain: ends_with regulates is_transitive: true is_a: causally_upstream_of ! causally upstream of inverse_of: regulated_by ! regulated by -transitive_over: RO:0002025 ! has effector activity - -[Typedef] -id: regulates_characteristic -name: regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." [] -xref: RO:0019000 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -domain: BFO:0000015 ! process -range: PATO:0000001 ! quality -holds_over_chain: regulates regulates_characteristic -is_a: RO:0002410 ! causally related to [Typedef] id: regulates_levels_of @@ -17598,8 +17142,6 @@ name: regulates levels of namespace: external def: "p regulates levels of c if p regulates some amount (PATO:0000070) of c" [] xref: RO:0002332 -domain: BFO:0000015 ! process -range: BFO:0000040 ! material entity is_a: RO:0002328 ! functionally related to [Typedef] diff --git a/src/ontology/subsets/blood_and_immune_upper_slim.owl b/src/ontology/subsets/blood_and_immune_upper_slim.owl index 75f5291d1..2a51bb253 100644 --- a/src/ontology/subsets/blood_and_immune_upper_slim.owl +++ b/src/ontology/subsets/blood_and_immune_upper_slim.owl @@ -14,8 +14,7 @@ xmlns:foaf="http://xmlns.com/foaf/0.1/" xmlns:pato="http://purl.obolibrary.org/obo/pato#" xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#" - xmlns:swrl="http://www.w3.org/2003/11/swrl#" - xmlns:swrlb="http://www.w3.org/2003/11/swrlb#" + xmlns:sssom="https://w3id.org/sssom/" xmlns:terms="http://purl.org/dc/terms/" xmlns:uberon="http://purl.obolibrary.org/obo/uberon#" xmlns:ubprop="http://purl.obolibrary.org/obo/ubprop#" @@ -23,8 +22,8 @@ xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#" xmlns:ncbitaxon="http://purl.obolibrary.org/obo/ncbitaxon#"> - - 2024-04-05 + + 2024-05-15 @@ -393,14 +392,6 @@ WHERE { - - - - - - - - @@ -433,6 +424,14 @@ WHERE { + + + + + + + + @@ -481,6 +480,14 @@ WHERE { + + + + + + + + @@ -497,6 +504,14 @@ WHERE { + + + + + + + + @@ -1029,12 +1044,6 @@ WHERE { - - - - - - @@ -1237,6 +1246,12 @@ WHERE { + + + + + + - - @@ -1515,19 +1519,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence - A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists. - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - function of - - - - @@ -1541,31 +1532,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence - A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists. - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - role of - - - - - - - - - - a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence - A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists. - has function - - - - @@ -1577,42 +1543,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence - A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists. - has role - - - - - - - - - - - a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence - has disposition - - - - - - - - - inverse of has disposition - - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - disposition of - - - - @@ -1652,8 +1582,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - @@ -1665,18 +1593,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. located in https://wiki.geneontology.org/Located_in - - - - - This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation. - - - - - - This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation. - @@ -1697,8 +1613,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts. Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape. @@ -1731,7 +1645,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - X outer_layer_of Y iff: . X :continuant that bearer_of some PATO:laminar . X part_of Y @@ -1753,81 +1666,6 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 - - - - - - A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B. - - 2017-05-24T09:30:46Z - RO:0002013 - external - has_regulatory_component_activity - has_regulatory_component_activity - has regulatory component activity - - - - - - - - - - A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B. - - 2017-05-24T09:31:01Z - RO:0002014 - external - has_negative_regulatory_component_activity - has_negative_regulatory_component_activity - By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'. - has negative regulatory component activity - - - - - - - - - - A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B. - - 2017-05-24T09:31:17Z - By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'. - has positive regulatory component activity - - - - - - - - - - 2017-05-24T09:44:33Z - A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B. - has component activity - - - - - - - - - - - w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type. - - 2017-05-24T09:49:21Z - has component process - - - - @@ -1840,83 +1678,6 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 - - - - - - - 2017-09-17T13:52:24Z - Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. - directly regulated by - - - - - Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. - - - - - - - - - - - Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1. - - 2017-09-17T13:52:38Z - directly negatively regulated by - - - - - Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1. - - - - - - - - - - - Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1. - - 2017-09-17T13:52:47Z - directly positively regulated by - - - - - Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1. - - - - - - - - - - - A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity. - - 2017-09-22T14:14:36Z - This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations. - has effector activity - - - - - A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity. - - - - - @@ -2235,8 +1996,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - X continuous_with Y if and only if X and Y share a fiat boundary. continuous with FMA:85972 @@ -2356,7 +2115,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - c connects a if and only if there exist some b such that a and b are similar parts of the same system, and c connects b, specifically, c connects a with b. When one structure connects two others it unites some aspect of the function or role they play within the system. connects https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern @@ -2425,8 +2183,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y This is the transitive form of the develops from relation develops from @@ -2453,7 +2209,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - @@ -2511,20 +2266,10 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - - - - - p regulates q iff p is causally upstream of q, the execution of p is not constant and varies according to specific conditions, and p influences the rate or magnitude of execution of q due to an effect either on some enabler of q or some enabler of a part of q. RO:0002211 external @@ -2597,8 +2342,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. RO:0002215 external @@ -2643,8 +2386,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - x adjacent to y if and only if x and y share a boundary. This relation acts as a join point with BSPO RO:0002220 @@ -2674,8 +2415,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. temporally related to @@ -2778,8 +2517,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - @@ -2800,8 +2537,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - @@ -2823,7 +2558,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - @@ -2955,8 +2689,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p false This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from @@ -2969,10 +2701,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes. acts upstream of @@ -2985,10 +2713,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - c acts upstream of or within p if c is enables f, and f is causally upstream of or within p. c is a material entity and p is an process. affects @@ -3238,27 +2962,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - - - - - - - - c enables p iff c is capable of p and c acts to execute p. - - enables - https://wiki.geneontology.org/Enables - - - - @@ -3281,40 +2984,16 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts. genomically related to - - - - - - - - - - - - - - c involved_in p if and only if c enables some process p', and p' is part of p - involved in - https://wiki.geneontology.org/Involved_in - - - - - - p regulates levels of c if p regulates some amount (PATO:0000070) of c RO:0002332 external @@ -3326,26 +3005,11 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - inverse of enables - - enabled by - https://wiki.geneontology.org/Enabled_by - - - - - - inverse of regulates RO:0002334 external @@ -3393,8 +3057,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relationship that holds via some process of localization related via localization to @@ -3521,7 +3183,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - has member is a mereological relation between a collection and an item. has member @@ -3632,8 +3293,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network. in branching relationship with @@ -3762,76 +3421,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - RO:0002405 - external - immediately_causally_downstream_of - immediately_causally_downstream_of - immediately causally downstream of - immediately causally downstream of - - - - - - - - - - - - - - - - - - - - - - - - - - - p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q. - indirectly positively regulates - https://wiki.geneontology.org/Indirectly_positively_regulates - - - - - - - - - - - - - - - - - - - - - - - p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q. - indirectly negatively regulates - https://wiki.geneontology.org/Indirectly_negatively_regulates - - - - @@ -3881,22 +3470,6 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q. - RO:0002412 - external - immediately_causally_upstream_of - immediately_causally_upstream_of - immediately causally upstream of - immediately causally upstream of - - - - @@ -3936,57 +3509,12 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - - - c involved in regulation of p if c is involved in some p' and p' regulates some p involved in regulation of - - - - - - - - - - - - - c involved in regulation of p if c is involved in some p' and p' positively regulates some p - involved in positive regulation of - - - - - - - - - - - - - - - - - c involved in regulation of p if c is involved in some p' and p' negatively regulates some p - - involved in negative regulation of - - - - @@ -4000,27 +3528,6 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure. - enables activity in - - is active in - https://wiki.geneontology.org/Is_active_in - - - - - c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure. - - - - - - @@ -4031,118 +3538,10 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - - A relationship that holds between two entities in which the processes executed by the two entities are causally connected. - This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact. - Considering relabeling as 'pairwise interacts with' - in pairwise interaction with - - interacts with - http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ - - - - - - - - - - An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other. - molecularly interacts with - - - - - - - - - - Axiomatization to GO to be added later - phosphorylates - - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B. - -A and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B. - molecularly controls - directly regulates activity of - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. -For example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B. - molecularly decreases activity of - directly negatively regulates activity of - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. -For example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B. - molecularly increases activity of - directly positively regulates activity of - - - - - - - - helper property (not for use in curation) - - - - - - x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y. composed primarily of @@ -4153,8 +3552,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c. has part that occurs in @@ -4162,15 +3559,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - is kinase activity - - - - @@ -4195,8 +3583,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - relation between physical entity and a process or stage @@ -4377,8 +3763,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q. causal relation between processes @@ -4394,25 +3778,12 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch - causal relation between entities - - - - - A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision. @@ -4427,36 +3798,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - causally influenced by - - - - - - - - - interaction relation helper property - - http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ - - - - - - - - - molecular interaction relation helper property - - - - @@ -4474,28 +3815,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size). - causally influences - - - - @@ -4536,8 +3855,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x. conduit for @@ -4549,7 +3866,6 @@ For example, A and B may be gene products and binding of B by A positively regul - x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull. lumen of @@ -4561,7 +3877,6 @@ For example, A and B may be gene products and binding of B by A positively regul - s is luminal space of x iff s is lumen_of x and s is an immaterial entity luminal space of @@ -4582,24 +3897,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - p directly regulates q iff p is immediately causally upstream of q and p regulates q. - RO:0002578 - external - directly_regulates - - - - directly_regulates - directly regulates - - - - @@ -4675,8 +3972,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity. Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect. causal relation between material entity and a process @@ -4740,51 +4035,10 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q. - RO:0002629 - external - directly_positively_regulates - - - - directly_positively_regulates - directly positively regulates - https://wiki.geneontology.org/Directly_positively_regulates - - - - - - - - - - p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q. - - RO:0002630 - external - directly_negatively_regulates - - - - directly_negatively_regulates - directly negatively regulates - https://wiki.geneontology.org/Directly_negatively_regulates - - - - - - @@ -4807,8 +4061,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - a produced_by b iff some process that occurs_in b has_output a. RO:0003001 external @@ -4894,96 +4146,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P. - - 2018-01-25T23:20:13Z - enables subfunction - - - - - - - - - - - - - - 2018-01-26T23:49:30Z - - acts upstream of or within, positive effect - https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect - - - - - - - - - - - - - - - 2018-01-26T23:49:51Z - - acts upstream of or within, negative effect - https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect - - - - - - - - - - - - - - c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive - - 2018-01-26T23:53:14Z - - acts upstream of, positive effect - https://wiki.geneontology.org/Acts_upstream_of,_positive_effect - - - - - - - - - - - - - - c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative - - - 2018-01-26T23:53:22Z - - acts upstream of, negative effect - https://wiki.geneontology.org/Acts_upstream_of,_negative_effect - - - - @@ -5009,18 +4171,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B. - regulates activity of - - - - @@ -5117,31 +4267,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q. - - 2022-09-26T06:07:17Z - indirectly causally upstream of - - - - - - - - - - p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q. - - 2022-09-26T06:08:01Z - indirectly regulates - - - - @@ -5303,6 +4428,8 @@ For example, A and B may be gene products and binding of B by A positively regul X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y. + + 2021-11-08T12:00:00Z utilizes device utilizes material @@ -5310,69 +4437,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C. - - RO:0019000 - gene_ontology - regulates_characteristic - regulates_characteristic - regulates characteristic - - - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C. - - RO:0019001 - gene_ontology - positively_regulates_characteristic - positively_regulates_characteristic - positively regulates characteristic - - - - - - - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C. - - RO:0019002 - gene_ontology - negatively_regulates_characteristic - negatively_regulates_characteristic - negatively regulates characteristic - - - - @@ -5687,127 +4751,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts. - continuant - - - - - - - - - - - - - - - - - - - - An entity that has temporal parts and that happens, unfolds or develops through time. - occurrent - - - - - - - - - - - - - - - - b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002]) - A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. - independent continuant - - - - - - - - - p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003]) - An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. - process - - - - - - - - - - - - - - - b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003]) - A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. - specifically dependent continuant - - - - - - - - - - - - - - - - An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time. - material entity - - - - - - - - - - - - - - - immaterial entity - - - - @@ -5831,6 +4774,7 @@ For example, A and B may be gene products and binding of B by A positively regul VHOG:0001533 WBbt:0004017 XAO:0003012 + ZFA:0009000 The definition of cell is intended to represent all cells, and thus a cell is defined as a material entity and not an anatomical structure, which implies that it is part of an organism (or the entirety of one). @@ -5842,6 +4786,18 @@ For example, A and B may be gene products and binding of B by A positively regul A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane. CARO:mah + + + + FBbt:00007002 + + + + + + ZFA:0009000 + + @@ -5850,6 +4806,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found in the embryo before the formation of all the gem layers is complete. + ZFA:0009002 early embryonic cell (metazoa) @@ -5858,6 +4815,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found in the embryo before the formation of all the gem layers is complete. GOC:tfm + + + + ZFA:0009002 + + @@ -5892,6 +4855,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-2086 FMA:63368 + ZFA:0005957 animal stem cell @@ -5906,6 +4870,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D013234 + + + + ZFA:0005957 + + @@ -6069,6 +5039,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:86475 MESH:D006412 VHOG:0001485 + ZFA:0009014 blood forming stem cell hemopoietic stem cell HSC @@ -6089,6 +5060,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:19022770 http://en.wikipedia.org/wiki/Hematopoietic_stem_cell + + + + ZFA:0009014 + + @@ -6111,6 +5088,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell committed to the erythroid lineage. BTO:0004911 + ZFA:0009015 BFU-E CFU-E blast forming unit erythroid @@ -6134,6 +5112,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0721601464 + + + + ZFA:0009015 + + @@ -6181,7 +5165,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -6215,6 +5198,7 @@ For example, A and B may be gene products and binding of B by A positively regul A myeloid progenitor cell committed to the monocyte lineage. This cell is CD11b-positive, has basophilic cytoplasm, euchromatin, and the presence of a nucleolus. CALOHA:TS-1195 FMA:83553 + ZFA:0009017 CFU-M colony forming unit macrophage colony forming unit monocyte @@ -6237,6 +5221,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://en.wikipedia.org/wiki/Monoblast http://www.copewithcytokines.de + + + + ZFA:0009017 + + @@ -6273,6 +5263,7 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to multiple lineages of cells. FMA:84789 + ZFA:0009020 multi-fate stem cell multifate stem cell multipotent cell @@ -6285,6 +5276,12 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to multiple lineages of cells. GOC:add + + + + ZFA:0009020 + + @@ -6298,6 +5295,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell committed to myeloid lineage, including the megakaryocyte and erythroid lineages. BTO:0004730 + ZFA:0009021 common myeloid precursor CFU-GEMM CFU-S @@ -6325,6 +5323,12 @@ For example, A and B may be gene products and binding of B by A positively regul ISBN:0878932437 MESH:D023461 + + + + ZFA:0009021 + + @@ -6410,6 +5414,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell committed to the megakaryocyte and erythroid lineages. + ZFA:0009022 CFU-EM CFU-MegE MEP @@ -6439,6 +5444,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:16647566 http://en.wikipedia.org/wiki/Megakaryocyte-erythroid_progenitor_cell + + + + ZFA:0009022 + + @@ -6466,6 +5477,7 @@ For example, A and B may be gene products and binding of B by A positively regul A oligopotent progenitor cell committed to the lymphoid lineage. + ZFA:0009023 common lymphocyte precursor common lymphocyte progenitor common lymphoid precursor @@ -6496,6 +5508,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:10407577 PMID:16551251 + + + + ZFA:0009023 + + @@ -6518,6 +5536,7 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell from which all cells of the body can form. FMA:84790 MESH:D039901 + ZFA:0009024 totipotential stem cell totipotent stem cell @@ -6528,6 +5547,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009024 + + @@ -6562,6 +5587,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005083 FMA:70335 VHOG:0001529 + ZFA:0009025 myoblast @@ -6572,6 +5598,18 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D032446 PMID:21849021 + + + + FBbt:00005083 + + + + + + ZFA:0009025 + + @@ -6592,6 +5630,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:63877 NCIT:C12482 VHOG:0001482 + ZFA:0009026 @@ -6606,6 +5645,12 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D005347 http://en.wikipedia.org/wiki/Fibroblast + + + + ZFA:0009026 + + @@ -6628,6 +5673,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00000124 FMA:66768 WBbt:0003672 + ZFA:0009034 epitheliocyte @@ -6643,6 +5689,18 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D004847 + + + + FBbt:00000124 + + + + + + ZFA:0009034 + + @@ -6676,6 +5734,7 @@ For example, A and B may be gene products and binding of B by A positively regul An endothelial cell that lines the vasculature. + ZFA:0009036 cuboidal endothelial cell of vascular tree @@ -6693,6 +5752,12 @@ For example, A and B may be gene products and binding of B by A positively regul An endothelial cell that lines the vasculature. GOC:tfm + + + + ZFA:0009036 + + @@ -6701,9 +5766,16 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-1249 + ZFA:0009039 squamous epithelial cell + + + + ZFA:0009039 + + @@ -6729,6 +5801,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell which moves among different tissues of the body, via blood, lymph, or other medium. + ZFA:0009043 circulating cell @@ -6737,6 +5810,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell which moves among different tissues of the body, via blood, lymph, or other medium. GOC:add + + + + ZFA:0009043 + + @@ -6764,6 +5843,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found predominately in the blood. FMA:62844 MESH:D001773 + ZFA:0009044 blood cell @@ -6781,6 +5861,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009044 + + @@ -6819,6 +5905,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62870 MESH:D013601 VHOG:0001479 + ZFA:0009046 T lymphocyte T-cell T-lymphocyte @@ -6843,6 +5930,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0781735149 + + + + ZFA:0009046 + + @@ -6895,7 +5988,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -6955,6 +6047,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0721 FMA:66781 MESH:D010010 + ZFA:0009047 chondroclast Morphology: Highly vesicular; markers: Surface: RANK, cFMS (MCSF receptor); Secreted: cathepsin K and TRAP (tartate resistant acid phosphatase); transcription factors: PU.1, cFOS, MITF, NFkB (p52); role or process: tissue remodelling: bone resorption; lineage: hematopoietic, myeloid. @@ -6984,6 +6077,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:15055519 PMID:17380158 + + + + ZFA:0009047 + + @@ -7035,7 +6134,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -7090,6 +6188,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001026 CALOHA:TS-0422 FMA:62854 + ZFA:0009048 granular leucocyte granular leukocyte polymorphonuclear leukocyte @@ -7112,6 +6211,12 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D006098 http://en.wikipedia.org/wiki/Granulocyte + + + + ZFA:0009048 + + @@ -7175,7 +6280,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -7332,6 +6436,7 @@ For example, A and B may be gene products and binding of B by A positively regul A vertebrate phagocyte with a single nucleus. BTO:0001433 + ZFA:0009064 mononuclear phagocyte @@ -7350,6 +6455,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0781735149 + + + + ZFA:0009064 + + @@ -7363,6 +6474,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001176 CALOHA:TS-0278 FMA:66772 + ZFA:0009065 endotheliocyte @@ -7379,6 +6491,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://en.wikipedia.org/wiki/Endothelial_cell https://sourceforge.net/tracker/?func=detail&atid=440764&aid=3364936&group_id=36855 + + + + ZFA:0009065 + + @@ -7387,6 +6505,7 @@ For example, A and B may be gene products and binding of B by A positively regul Ectoderm destined to be nervous tissue. + ZFA:0009080 neurectoderm cell neurectodermal cell @@ -7397,6 +6516,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:068340007X + + + + ZFA:0009080 + + @@ -7409,6 +6534,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0002625 BTO:0003298 FMA:70546 + ZFA:0009081 bone marrow stromal cells colony-forming unit-fibroblast marrow stromal cells @@ -7446,6 +6572,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://en.wikipedia.org/wiki/Mesenchymal_stem_cell http://www.copewithcytokines.de/cope.cgi?key=mesenchymal%20stem%20cells + + + + ZFA:0009081 + + @@ -7516,6 +6648,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell capable of processing and presenting lipid and protein antigens to T cells in order to initiate an immune response. + ZFA:0009088 APC @@ -7529,6 +6662,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0781735149 + + + + ZFA:0009088 + + @@ -7610,6 +6749,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005074 FMA:67328 WBbt:0003675 + ZFA:0009114 muscle fiber myocyte @@ -7622,6 +6762,18 @@ For example, A and B may be gene products and binding of B by A positively regul A mature contractile cell, commonly known as a myocyte. This cell has as part of its cytoplasm myofibrils organized in various patterns. MESH:D032342 + + + + FBbt:00005074 + + + + + + ZFA:0009114 + + @@ -7630,6 +6782,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by the generation or the reception of an electric signal. + ZFA:0009128 electrically active cell @@ -7638,6 +6791,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by the generation or the reception of an electric signal. FB:ma + + + + ZFA:0009128 + + @@ -7646,6 +6805,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism. + ZFA:0009130 boundary cell lining cell @@ -7655,6 +6815,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism. JB:jb + + + + ZFA:0009130 + + @@ -7663,6 +6829,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose primary function is to prevent the transport of stuff across compartments. + ZFA:0009132 barrier cell @@ -7671,6 +6838,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose primary function is to prevent the transport of stuff across compartments. JB:jb + + + + ZFA:0009132 + + @@ -7696,6 +6869,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that moves by its own activities. + ZFA:0009136 motile cell @@ -7704,6 +6878,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that moves by its own activities. FB:ma + + + + ZFA:0009136 + + @@ -7719,6 +6899,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the outer of the three germ layers of the embryo. FMA:72549 + ZFA:0009137 ectoderm cell ectodermal cell @@ -7728,6 +6909,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the outer of the three germ layers of the embryo. MESH:D004475 + + + + ZFA:0009137 + + @@ -7743,6 +6930,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the middle germ layer of the embryo. FMA:72554 + ZFA:0009138 mesoblast mesoderm cell @@ -7754,6 +6942,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the middle germ layer of the embryo. MESH:D008648 + + + + ZFA:0009138 + + @@ -7769,6 +6963,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the inner of the three germ layers of the embryo. FMA:72555 + ZFA:0009139 endoderm cell endodermal cell @@ -7778,6 +6973,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the inner of the three germ layers of the embryo. MESH:D004707 + + + + ZFA:0009139 + + @@ -8064,6 +7265,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001044 FMA:83806 MESH:D010586 + ZFA:0009140 phagocyte @@ -8074,6 +7276,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0721601464 + + + + ZFA:0009140 + + @@ -8121,6 +7329,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:63261 FMA:83585 MESH:D008264 + ZFA:0009141 histiocyte @@ -8145,6 +7354,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:16213494 PMID:1919437 + + + + ZFA:0009141 + + @@ -8176,6 +7391,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62869 MESH:D001402 VHOG:0001480 + ZFA:0009142 B lymphocyte B-cell B-lymphocyte @@ -8200,6 +7416,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO_REF:0000031 ISBN:0781735149 + + + + ZFA:0009142 + + @@ -8224,10 +7446,17 @@ For example, A and B may be gene products and binding of B by A positively regul + Any cell that only exists in Eukaryota. MESH:D005057 eukaryotic cell + + + + Any cell that only exists in Eukaryota. + FBC:Autogenerated + @@ -8269,8 +7498,22 @@ For example, A and B may be gene products and binding of B by A positively regul + Any cell that is capable of some oxygen transport. + ZFA:0009164 oxygen accumulating cell + + + + Any cell that is capable of some oxygen transport. + FBC:Autogenerated + + + + + ZFA:0009164 + + @@ -8288,6 +7531,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body. FMA:86667 + ZFA:0007086 migratory neural crest cell @@ -8296,6 +7540,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body. doi:10.1016/j.stem.2015.02.017 + + + + ZFA:0007086 + + @@ -8304,6 +7554,7 @@ For example, A and B may be gene products and binding of B by A positively regul A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors. + ZFA:0009166 mesenchyme condensation cell @@ -8313,6 +7564,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:5025404 + + + + ZFA:0009166 + + @@ -8377,6 +7634,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by its response to an electric signal. + ZFA:0009190 electrically responsive cell @@ -8385,6 +7643,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by its response to an electric signal. FB:ma + + + + ZFA:0009190 + + @@ -8393,6 +7657,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that initiates an electrical signal and passes that signal to another cell. + ZFA:0009193 electrically signaling cell @@ -8401,6 +7666,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that initiates an electrical signal and passes that signal to another cell. FB:ma + + + + ZFA:0009193 + + @@ -8460,7 +7731,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8516,6 +7786,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0194 FMA:83036 MESH:D003713 + ZFA:0009209 interdigitating cell veiled cell @@ -8530,6 +7801,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0781735149 + + + + ZFA:0009209 + + @@ -8537,8 +7814,15 @@ For example, A and B may be gene products and binding of B by A positively regul + ZFA:0009212 biogenic amine secreting cell + + + + ZFA:0009212 + + @@ -8564,6 +7848,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell type that secretes 5-Hydroxytryptamine (serotonin). + ZFA:0009213 5-HT secreting cell 5-Hydroxytryptamine secreting cell serotonin secreting cell @@ -8575,6 +7860,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:19630576 + + + + ZFA:0009213 + + @@ -8637,6 +7928,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:54527 VHOG:0001483 WBbt:0003679 + ZFA:0009248 nerve cell @@ -8652,6 +7944,18 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D009474 http://en.wikipedia.org/wiki/Neuron + + + + FBbt:00005106 + + + + + + ZFA:0009248 + + @@ -8682,7 +7986,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8715,6 +8018,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62863 MESH:D008214 VHOG:0001535 + ZFA:0009250 Editors note: consider adding taxon constraint to vertebrata (PMID:18025161) @@ -8728,6 +8032,12 @@ For example, A and B may be gene products and binding of B by A positively regul ISBN:0683073696 ISBN:0781735149 + + + + ZFA:0009250 + + @@ -8807,7 +8117,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8957,7 +8266,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8978,6 +8286,7 @@ For example, A and B may be gene products and binding of B by A positively regul A nucleated immature erythrocyte, having cytoplasm generally similar to that of the earlier proerythroblast but sometimes even more basophilic, and usually regular in outline. The nucleus is still relatively large, but the chromatin strands are thicker and more deeply staining, giving a coarser appearance; the nucleoli have disappeared. This cell is CD71-positive and lacks hematopoeitic lineage markers. FMA:83505 + ZFA:0005236 basophilic normoblast early erythroblast early normoblast @@ -8997,6 +8306,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721601464 + + + + ZFA:0005236 + + @@ -9047,7 +8362,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9074,6 +8388,7 @@ For example, A and B may be gene products and binding of B by A positively regul A nucleated, immature erythrocyte in which the nucleus occupies a relatively smaller part of the cell than in its precursor, the basophilic erythroblast. The cytoplasm is beginning to acquire hemoglobin and thus is no longer a purely basophilic, but takes on acidophilic aspects, which becomes progressively more marked as the cell matures. The chromatin of the nucleus is arranged in coarse, deeply staining clumps. This cell is CD71-positive and lacks hematopoeitic lineage markers. FMA:83506 + ZFA:0005241 intermediate erythroblast intermediate normoblast polychromatic erythroblast @@ -9094,6 +8409,12 @@ For example, A and B may be gene products and binding of B by A positively regul A nucleated, immature erythrocyte in which the nucleus occupies a relatively smaller part of the cell than in its precursor, the basophilic erythroblast. The cytoplasm is beginning to acquire hemoglobin and thus is no longer a purely basophilic, but takes on acidophilic aspects, which becomes progressively more marked as the cell matures. The chromatin of the nucleus is arranged in coarse, deeply staining clumps. This cell is CD71-positive and lacks hematopoeitic lineage markers. ISBN:0721601464 + + + + ZFA:0005241 + + @@ -9534,7 +8855,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9580,6 +8900,7 @@ For example, A and B may be gene products and binding of B by A positively regul A hematopoietic progenitor cell that is committed to the granulocyte and monocyte lineages. These cells are CD123-positive, and do not express Gata1 or Gata2 but do express C/EBPa, and Pu.1. CFU-C , Colony forming unit in culture + ZFA:0009251 colony forming unit granulocyte macrophage granulocyte-macrophage progenitor granulocyte/monocyte precursor @@ -9614,6 +8935,12 @@ For example, A and B may be gene products and binding of B by A positively regul CFU-C , Colony forming unit in culture http://www.copewithcytokines.de + + + + ZFA:0009251 + + @@ -9714,7 +9041,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9803,6 +9129,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001173 CALOHA:TS-0864 MESH:D012156 + ZFA:0009252 reticulocyte @@ -9822,6 +9149,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:15946868 PMID:2037622 + + + + ZFA:0009252 + + @@ -9849,7 +9182,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9872,6 +9204,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004657 FMA:83551 + ZFA:0009253 Morphology: Mononuclear cell, diameter 14-18 _M, fine azurophilic granules; markers: CD11b (shared with many other myeloid cells); location: Adult: bone marrow; Fetal: Liver, Yolk Sac; role or process: hematopoiesis, monocyte development; lineage: hematopoietic, myeloid. @@ -9890,6 +9223,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721601464 + + + + ZFA:0009253 + + @@ -9917,7 +9256,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9943,6 +9281,7 @@ For example, A and B may be gene products and binding of B by A positively regul A mesenchymal stem cell capable of developing into blood vessel endothelium. + ZFA:0009258 angioblast chondroplast These cells are reportedly CD31-positive, CD34-positive, CD144-positive, CD309-positive, and TAL1-positive. @@ -9962,6 +9301,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:12768659 + + + + ZFA:0009258 + + @@ -10023,6 +9368,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000876 CALOHA:TS-0638 FMA:62864 + ZFA:0009265 @@ -10043,6 +9389,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO_REF:0000031 MESH:D009000 + + + + ZFA:0009265 + + @@ -10182,6 +9534,7 @@ For example, A and B may be gene products and binding of B by A positively regul A non-terminally differentiated cell that is capable of developing into a muscle cell. + ZFA:0009291 muscle precursor cell @@ -10191,6 +9544,12 @@ For example, A and B may be gene products and binding of B by A positively regul A non-terminally differentiated cell that is capable of developing into a muscle cell. GOC:add + + + + ZFA:0009291 + + @@ -10218,8 +9577,15 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to cell types of the body other than those of the germ-line. CALOHA:TS-2086 MESH:D053687 + ZFA:0009307 somatic stem cell + + + + ZFA:0009307 + + @@ -10282,6 +9648,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62852 MESH:D007962 NCIT:C12529 + ZFA:0009309 leucocyte white blood cell immune cell @@ -10303,6 +9670,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:978-0-323-05290-0 + + + + ZFA:0009309 + + @@ -10339,6 +9712,7 @@ For example, A and B may be gene products and binding of B by A positively regul A nucleated blood cell involved in coagulation, typically seen in birds and other non-mammalian vertebrates. + ZFA:0009323 Note that this is a non-mammalian cell type. Use platelet ; CL:0000233 for thrombocytes (platelets) in mammals. nucleated thrombocyte @@ -10357,6 +9731,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:16360205 + + + + ZFA:0009323 + + @@ -10385,6 +9765,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001441 CALOHA:TS-0647 MESH:D022423 + ZFA:0009324 myeloid cell @@ -10400,6 +9781,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the monocyte, granulocyte, mast cell, megakaryocyte, or erythroid lineage. GOC:add + + + + ZFA:0009324 + + @@ -10412,6 +9799,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0290 FMA:62845 FMA:83516 + ZFA:0009325 erythropoietic cell @@ -10425,6 +9813,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009325 + + @@ -10591,6 +9985,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0289 FMA:83504 MESH:D004900 + ZFA:0005237 normoblast @@ -10610,6 +10005,12 @@ For example, A and B may be gene products and binding of B by A positively regul ISBN:0721601464 PMID:18174176 + + + + ZFA:0005237 + + @@ -10630,6 +10031,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the monocyte, granulocyte, or mast cell lineage. + ZFA:0009326 myeloid leukocyte @@ -10645,6 +10047,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the monocyte, granulocyte, or mast cell lineage. GOC:add + + + + ZFA:0009326 + + @@ -10894,6 +10302,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0688 FMA:62860 MESH:D009504 + ZFA:0009327 neutrocyte neutrophil leucocyte neutrophil leukocyte @@ -10919,6 +10328,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721601464 + + + + ZFA:0009327 + + @@ -11088,6 +10503,7 @@ For example, A and B may be gene products and binding of B by A positively regul A B cell that is mature, having left the bone marrow. Initially, these cells are IgM-positive and IgD-positive, and they can be activated by antigen. + ZFA:0009331 mature B lymphocyte mature B-cell mature B-lymphocyte @@ -11109,6 +10525,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:dsd ISBN:0781735149 + + + + ZFA:0009331 + + @@ -11194,6 +10616,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000392 FMA:70574 MESH:D010950 + ZFA:0009332 plasma B cell plasma B-cell plasmacyte @@ -11227,6 +10650,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:20951740 http://en.wikipedia.org/wiki/Plasma_cell + + + + ZFA:0009332 + + @@ -11253,6 +10682,7 @@ For example, A and B may be gene products and binding of B by A positively regul A T cell that expresses an alpha-beta T cell receptor complex. + ZFA:0009335 alpha-beta T lymphocyte alpha-beta T-cell alpha-beta T-lymphocyte @@ -11274,6 +10704,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0781735149 + + + + ZFA:0009335 + + @@ -11300,6 +10736,7 @@ For example, A and B may be gene products and binding of B by A positively regul A T cell that expresses a gamma-delta T cell receptor complex. + ZFA:0009336 gamma-delta T lymphocyte gamma-delta T-cell gamma-delta T-lymphocyte @@ -11325,6 +10762,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0781735149 + + + + ZFA:0009336 + + @@ -11393,6 +10836,7 @@ For example, A and B may be gene products and binding of B by A positively regul An immature B cell is a B cell that has the phenotype surface IgM-positive and surface IgD-negative, and have not undergone class immunoglobulin class switching or peripheral encounter with antigen and activation. + ZFA:0009343 immature B lymphocyte immature B-cell immature B-lymphocyte @@ -11416,6 +10860,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:20081059 PMID:20839338 + + + + ZFA:0009343 + + @@ -11461,6 +10911,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001133 CALOHA:TS-0819 + ZFA:0009344 pre-B cell @@ -11480,6 +10931,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm GO_REF:0000031 + + + + ZFA:0009344 + + @@ -11552,6 +11009,7 @@ For example, A and B may be gene products and binding of B by A positively regul An immature B cell of an intermediate stage between the pre-B cell stage and the mature naive stage with the phenotype surface IgM-positive and CD19-positive, and are subject to the process of B cell selection. A transitional B cell migrates from the bone marrow into the peripheral circulation, and then to the spleen. + ZFA:0009345 transitional B cell transitional stage B lymphocyte transitional stage B-cell @@ -11580,6 +11038,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:12810111 PMID:22343568 + + + + ZFA:0009345 + + @@ -11612,7 +11076,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -11641,6 +11104,7 @@ For example, A and B may be gene products and binding of B by A positively regul pre-pro B cell BTO:0003104 + ZFA:0009349 pro-B lymphocyte pro-B-cell pro-B-lymphocyte @@ -11677,6 +11141,12 @@ For example, A and B may be gene products and binding of B by A positively regul pre-pro B cell PMID:17582343 + + + + ZFA:0009349 + + @@ -11714,6 +11184,7 @@ For example, A and B may be gene products and binding of B by A positively regul A lymphoid progenitor cell of the T cell lineage, with some lineage specific marker expression, but not yet fully committed to the T cell lineage. + ZFA:0009350 pro-T lymphocyte progenitor T cell DN1 cell @@ -11735,6 +11206,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0781735149 + + + + ZFA:0009350 + + @@ -11772,6 +11249,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell of the thrombocyte, a nucleated blood cell involved in coagulation typically seen in birds and other non-mammalian vertebrates. + ZFA:0009351 Note that this is a non-mammalian cell type. thromboblast @@ -11789,6 +11267,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:7758949 + + + + ZFA:0009351 + + @@ -11900,7 +11384,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -12151,7 +11634,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -12253,6 +11735,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000725 CALOHA:TS-0448 + ZFA:0009354 MPP hemopoietic progenitor cell @@ -12269,6 +11752,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:19022770 + + + + ZFA:0009354 + + @@ -12300,6 +11789,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004731 CALOHA:TS-2025 FMA:70338 + ZFA:0009355 Note that this is a class of cell types, not an identified single cell type. lymphoid lineage restricted progenitor cell @@ -12317,6 +11807,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009355 + + @@ -12348,6 +11844,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004730 CALOHA:TS-2099 FMA:70339 + ZFA:0009356 Note that this is a class of cell types, not an identified single cell type. @@ -12367,6 +11864,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:19022770 + + + + ZFA:0009356 + + @@ -12390,6 +11893,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000878 CALOHA:TS-0768 FMA:86713 + ZFA:0009357 mononuclear leukocyte peripheral blood mononuclear cell @@ -12408,6 +11912,12 @@ For example, A and B may be gene products and binding of B by A positively regul A leukocyte with a single non-segmented nucleus in the mature form. GOC:add + + + + ZFA:0009357 + + @@ -12438,7 +11948,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -12822,6 +12331,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-2017 FMA:70366 FMA:83598 + ZFA:0005830 haematopoietic cell haemopoietic cell hemopoietic cell @@ -12835,6 +12345,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GO_REF:0000031 + + + + ZFA:0005830 + + @@ -13365,7 +12881,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -13554,6 +13069,7 @@ For example, A and B may be gene products and binding of B by A positively regul 2010-06-29T03:38:22Z FMA:69074 + ZFA:0009385 ecto-epithelial cell @@ -13563,6 +13079,12 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:69074 GOC:tfm + + + + ZFA:0009385 + + @@ -13591,6 +13113,7 @@ For example, A and B may be gene products and binding of B by A positively regul 2010-06-29T03:49:14Z FMA:69076 + ZFA:0009388 epithelial mesenchymal cell meso-epithelial cell @@ -13601,6 +13124,12 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:69076 GOC:tfm + + + + ZFA:0009388 + + @@ -13944,6 +13473,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-2096 FMA:63875 MESH:D003239 + ZFA:0009392 connective tissue cell @@ -13954,6 +13484,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0618947256 + + + + ZFA:0009392 + + @@ -13967,6 +13503,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0263 FMA:82840 WBbt:0007028 + ZFA:0007089 embryonic cell (metazoa) @@ -13975,6 +13512,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the embryo. FMA:0618947256 + + + + ZFA:0007089 + + @@ -14072,6 +13615,7 @@ For example, A and B may be gene products and binding of B by A positively regul An endothelial progenitor cell that participates in angiogenesis during development. 2011-02-28T04:20:39Z + ZFA:0005773 See CL:0002619. embryonic blood vessel endothelial progenitor cell @@ -14081,6 +13625,12 @@ For example, A and B may be gene products and binding of B by A positively regul An endothelial progenitor cell that participates in angiogenesis during development. GOC:tfm + + + + ZFA:0005773 + + @@ -14262,6 +13812,7 @@ For example, A and B may be gene products and binding of B by A positively regul Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells. 2012-06-27T08:27:35Z + ZFA:0007084 premigratory neural crest cell @@ -14270,6 +13821,12 @@ For example, A and B may be gene products and binding of B by A positively regul Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells. UBERONREF:0000002 + + + + ZFA:0007084 + + @@ -17651,7 +17208,6 @@ For example, A and B may be gene products and binding of B by A positively regul - A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. @@ -17801,7 +17357,6 @@ For example, A and B may be gene products and binding of B by A positively regul - A location, relative to cellular compartments and structures, occupied by a macromolecular machine. There are three types of cellular components described in the gene ontology: (1) the cellular anatomical entity where a gene product carries out a molecular function (e.g., plasma membrane, cytoskeleton) or membrane-enclosed compartments (e.g., mitochondrion); (2) virion components, where viral proteins act, and (3) the stable macromolecular complexes of which gene product are parts (e.g., the clathrin complex). https://github.com/geneontology/go-ontology/issues/17729 @@ -17848,13 +17403,16 @@ For example, A and B may be gene products and binding of B by A positively regul + + + Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'. extracellular region @@ -17900,32 +17458,32 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + A protein complex consisting of three collagen chains assembled into a left-handed triple helix. These trimers typically assemble into higher order structures. Wikipedia:Collagen cellular_component GO:0005581 collagen trimer - + - + - + PMID:12382326 - + PMID:12382326 @@ -18007,7 +17565,6 @@ For example, A and B may be gene products and binding of B by A positively regul - Note that for multicellular organisms, the extracellular space refers to everything outside a cell, but still within the organism (excluding the extracellular matrix). Gene products from a multi-cellular organism that are secreted from a cell into the interstitial fluid or blood can therefore be annotated to this term. extracellular space @@ -18101,12 +17658,14 @@ For example, A and B may be gene products and binding of B by A positively regul + + nucleus @@ -18148,6 +17707,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore. chromosome @@ -18214,7 +17774,9 @@ For example, A and B may be gene products and binding of B by A positively regul + + cytoplasm @@ -18291,11 +17853,13 @@ For example, A and B may be gene products and binding of B by A positively regul + + vacuole @@ -18349,10 +17913,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + Note that the Golgi apparatus can be located in various places in the cytoplasm. In plants and lower animal cells, the Golgi apparatus exists as many copies of discrete stacks dispersed throughout the cytoplasm, while the Golgi apparatus of interphase mammalian cells is a juxtanuclear, often pericentriolar reticulum, where the discrete Golgi stacks are stitched together to form a compact and interconnected ribbon, sometimes called the Golgi ribbon. Golgi apparatus @@ -18370,7 +17936,12 @@ For example, A and B may be gene products and binding of B by A positively regul - + + + + + + @@ -18388,11 +17959,14 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0005840 + + + ribosome @@ -18448,11 +18022,14 @@ For example, A and B may be gene products and binding of B by A positively regul + + + plasma membrane @@ -18515,7 +18092,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides. GO:0055132 DNA metabolism @@ -18529,6 +18106,8 @@ For example, A and B may be gene products and binding of B by A positively regul + + DNA metabolic process @@ -18548,6 +18127,7 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process GO:0006310 + @@ -18608,10 +18188,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + translation @@ -18739,7 +18321,9 @@ For example, A and B may be gene products and binding of B by A positively regul + + Note that this term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term, for e.g. to transmembrane transport, to microtubule-based transport or to vesicle-mediated transport. transport @@ -19189,12 +18773,12 @@ For example, A and B may be gene products and binding of B by A positively regul response to abiotic stress response to biotic stress GO:0006950 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. response to stress @@ -19308,6 +18892,7 @@ For example, A and B may be gene products and binding of B by A positively regul A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane. + https://github.com/geneontology/go-ontology/issues/27189 jl 2013-12-19T15:25:51Z GO:1902589 @@ -19317,8 +18902,10 @@ For example, A and B may be gene products and binding of B by A positively regul organelle organization and biogenesis single-organism organelle organization GO:0006996 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. organelle organization @@ -19353,13 +18940,14 @@ For example, A and B may be gene products and binding of B by A positively regul cell-division cycle biological_process GO:0007049 - + + cell cycle @@ -19446,10 +19034,6 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0023033 GO:0023045 Wikipedia:Signal_transduction - signal transduction by cis-phosphorylation - signal transduction by conformational transition - signal transduction by protein phosphorylation - signal transduction by trans-phosphorylation signaling cascade signalling cascade biological_process @@ -19460,6 +19044,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Note that signal transduction is defined broadly to include a ligand interacting with a receptor, downstream signaling steps and a response being triggered. A change in form of the signal in every step is not necessary. Note that in many cases the end of this process is regulation of the initiation of transcription. Note that specific transcription factors may be annotated to this term, but core/general transcription machinery such as RNA polymerase should not. signal transduction @@ -19470,12 +19055,6 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:go_curators GOC:mtg_signaling_feb11 - - - - signalling pathway - GOC:mah - @@ -19947,7 +19526,6 @@ For example, A and B may be gene products and binding of B by A positively regul - A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence. https://github.com/geneontology/go-ontology/issues/24968 jl @@ -19987,6 +19565,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation. + https://github.com/geneontology/go-ontology/issues/26424 jl 2012-10-17T15:46:40Z GO:0044236 @@ -19999,11 +19578,13 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process single-organism metabolic process GO:0008152 - + + + Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions. metabolic process @@ -20063,6 +19644,7 @@ For example, A and B may be gene products and binding of B by A positively regul + biosynthetic process @@ -20084,6 +19666,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass. https://github.com/geneontology/go-ontology/issues/15249 https://github.com/geneontology/go-ontology/issues/25418 + https://github.com/geneontology/go-ontology/issues/27189 GO:0043284 biopolymer biosynthetic process macromolecule anabolism @@ -20092,7 +19675,9 @@ For example, A and B may be gene products and binding of B by A positively regul macromolecule synthesis biological_process GO:0009059 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. macromolecule biosynthetic process @@ -20118,7 +19703,7 @@ For example, A and B may be gene products and binding of B by A positively regul response to environmental stimulus biological_process GO:0009605 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. @@ -20141,7 +19726,7 @@ For example, A and B may be gene products and binding of B by A positively regul response to biotic stress biological_process GO:0009607 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. @@ -20235,7 +19820,7 @@ For example, A and B may be gene products and binding of B by A positively regul embryonal development biological_process GO:0009790 - + embryo development @@ -20479,9 +20064,11 @@ For example, A and B may be gene products and binding of B by A positively regul + + Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children. programmed cell death @@ -20688,10 +20275,12 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process cell organization and biogenesis GO:0016043 + + cellular component organization @@ -20824,6 +20413,7 @@ For example, A and B may be gene products and binding of B by A positively regul + @@ -20870,6 +20460,7 @@ For example, A and B may be gene products and binding of B by A positively regul Recombination occurring within or between DNA molecules in somatic cells. + biological_process GO:0016444 somatic cell DNA recombination @@ -21061,6 +20652,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways involving a protein. Includes protein modification. https://github.com/geneontology/go-ontology/issues/23112 + https://github.com/geneontology/go-ontology/issues/27189 GO:0006411 GO:0044267 GO:0044268 @@ -21073,11 +20665,14 @@ For example, A and B may be gene products and binding of B by A positively regul multicellular organismal protein metabolic process biological_process GO:0019538 + + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. protein metabolic process @@ -21294,6 +20889,7 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process GO:0022402 + cell cycle process @@ -21329,12 +20925,15 @@ For example, A and B may be gene products and binding of B by A positively regul A cellular process that results in the breakdown of a cellular component. + https://github.com/geneontology/go-ontology/issues/27189 GO:0071845 cell structure disassembly cellular component disassembly at cellular level biological_process GO:0022411 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular component disassembly @@ -21418,6 +21017,7 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process GO:0022607 + cellular component assembly @@ -21526,11 +21126,13 @@ For example, A and B may be gene products and binding of B by A positively regul single organism signaling GO:0023052 + + Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change. signaling @@ -21739,12 +21341,24 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + The process whose specific outcome is the progression of the myeloid and lymphoid derived organ/tissue systems of the blood and other parts of the body over time, from formation to the mature structure. The site of hemopoiesis is variable during development, but occurs primarily in bone marrow or kidney in many adult vertebrates. https://github.com/geneontology/go-ontology/issues/22178 Wikipedia:Haematopoiesis @@ -21947,6 +21561,7 @@ For example, A and B may be gene products and binding of B by A positively regul + cell differentiation @@ -22642,6 +22257,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0031012 + @@ -23036,7 +22652,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process that modulates the frequency, rate or extent of a response to an external stimulus. biological_process GO:0032101 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. regulation of response to external stimulus @@ -23079,7 +22695,7 @@ For example, A and B may be gene products and binding of B by A positively regul stimulation of response to external stimulus biological_process GO:0032103 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. positive regulation of response to external stimulus @@ -23097,6 +22713,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any biological process, occurring at the level of a multicellular organism, pertinent to its function. + https://github.com/geneontology/go-ontology/issues/27189 @@ -23111,6 +22728,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0032501 + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. multicellular organismal process @@ -23255,7 +22873,12 @@ For example, A and B may be gene products and binding of B by A positively regul - + + + + + + A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together. GO:0043234 @@ -23268,6 +22891,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0032991 + @@ -23662,6 +23286,7 @@ For example, A and B may be gene products and binding of B by A positively regul + signaling receptor activity @@ -24075,11 +23700,12 @@ For example, A and B may be gene products and binding of B by A positively regul response to chemical substance biological_process GO:0042221 - + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. response to chemical @@ -24166,7 +23792,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -24246,13 +23871,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - Primary lysosomal granule found in neutrophil granulocytes. Contains a wide range of hydrolytic enzymes and is released into the extracellular fluid. + Primary lysosomal granule readily stainable with a Romanowsky stain. + https://github.com/geneontology/go-ontology/issues/27231 primary granule cellular_component GO:0042582 @@ -24261,9 +23881,12 @@ For example, A and B may be gene products and binding of B by A positively regul - Primary lysosomal granule found in neutrophil granulocytes. Contains a wide range of hydrolytic enzymes and is released into the extracellular fluid. + Primary lysosomal granule readily stainable with a Romanowsky stain. GOC:jl PMID:17152095 + PMID:28717070 + PMID:5914694 + WIKIPEDIA:Azurophilic_granule @@ -24360,10 +23983,12 @@ For example, A and B may be gene products and binding of B by A positively regul cellular_component GO:0042995 + + cell projection @@ -24511,6 +24136,7 @@ For example, A and B may be gene products and binding of B by A positively regul + organelle @@ -24939,7 +24565,10 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process GO:0044238 + + + primary metabolic process @@ -24958,12 +24587,15 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells. + https://github.com/geneontology/go-ontology/issues/27052 cellular anabolism cellular biosynthesis cellular formation cellular synthesis biological_process GO:0044249 + + This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. cellular biosynthetic process @@ -25119,6 +24751,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0045202 + @@ -25809,7 +25442,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process that modulates the frequency, rate or extent of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. biological_process GO:0048583 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. regulation of response to stimulus @@ -25852,7 +25485,7 @@ For example, A and B may be gene products and binding of B by A positively regul stimulation of response to stimulus biological_process GO:0048584 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. positive regulation of response to stimulus @@ -25894,7 +25527,7 @@ For example, A and B may be gene products and binding of B by A positively regul inhibition of response to stimulus biological_process GO:0048585 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. negative regulation of response to stimulus @@ -26193,6 +25826,7 @@ For example, A and B may be gene products and binding of B by A positively regul + anatomical structure development @@ -26229,6 +25863,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another. https://github.com/geneontology/go-ontology/issues/19809 + cell locomotion movement of a cell biological_process @@ -26236,6 +25871,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0048870 + cell motility @@ -26611,6 +26247,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process that modulates the frequency, rate or extent of cell activation, the change in the morphology or behavior of a cell resulting from exposure to an activating factor such as a cellular or soluble ligand. + biological_process GO:0050865 regulation of cell activation @@ -26710,12 +26347,13 @@ For example, A and B may be gene products and binding of B by A positively regul physiological response to stimulus biological_process GO:0050896 - + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. response to stimulus @@ -26870,6 +26508,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation. + https://github.com/geneontology/go-ontology/issues/27052 jl 2013-12-18T13:51:04Z GO:1902578 @@ -26883,6 +26522,7 @@ For example, A and B may be gene products and binding of B by A positively regul single organism localization single-organism localization GO:0051179 + localization @@ -27183,7 +26823,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus by a cell and ends with a change in state or activity or the cell. biological_process GO:0051716 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular response to stimulus @@ -27229,6 +26869,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0055085 + @@ -27252,7 +26893,7 @@ For example, A and B may be gene products and binding of B by A positively regul A compound molecular function in which an effector function is controlled by one or more regulatory components. molecular_function GO:0060089 - + @@ -27910,7 +27551,7 @@ For example, A and B may be gene products and binding of B by A positively regul 2009-08-27T04:41:45Z biological_process GO:0070887 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular response to chemical stimulus @@ -28182,6 +27823,7 @@ For example, A and B may be gene products and binding of B by A positively regul A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component. + https://github.com/geneontology/go-ontology/issues/27189 mah 2010-09-10T01:39:16Z GO:0071841 @@ -28190,8 +27832,10 @@ For example, A and B may be gene products and binding of B by A positively regul cellular component organization or biogenesis at cellular level biological_process GO:0071840 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular component organization or biogenesis @@ -28599,7 +28243,7 @@ For example, A and B may be gene products and binding of B by A positively regul region of plasma membrane cellular_component GO:0098590 - + Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass. plasma membrane region @@ -28651,7 +28295,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -28936,7 +28579,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any protein complex that is part of the plasma membrane and which functions as a signaling receptor. cellular_component GO:0098802 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. plasma membrane signaling receptor complex @@ -29520,6 +29163,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon. + https://github.com/geneontology/go-ontology/issues/26424 pr 2012-11-05T11:04:40Z organic molecular entity anabolism @@ -29533,6 +29177,7 @@ For example, A and B may be gene products and binding of B by A positively regul organic substance synthesis biological_process GO:1901576 + organic substance biosynthetic process @@ -30736,7 +30381,6 @@ For example, A and B may be gene products and binding of B by A positively regul - A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities PATO:0000072 quality @@ -34972,70 +34616,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - - - - - - A material entity that minimally consists of a protein. - protein - protein aggregate - protein complex - protein-containing complex - protein - PR:000050567 - Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566). - protein-containing material entity - - - - - A material entity that minimally consists of a protein. - PRO:DAN - - - - - protein - PRO:DAN - - - - - protein aggregate - PRO:DAN - - - - - protein complex - PRO:DAN - - - - - protein-containing complex - PRO:DAN - - - - @@ -35201,6 +34781,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000003 EHDAA2:0003003 EMAPA:0 + FBbt:00007001 FMA:305751 FMA:67135 GAID:781 @@ -35228,6 +34809,12 @@ For example, A and B may be gene products and binding of B by A positively regul Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome. CARO:0000003 + + + + FBbt:00007001 + + @@ -35367,7 +34954,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35415,7 +35001,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35468,7 +35053,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35564,7 +35148,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35606,7 +35189,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35699,7 +35281,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35786,7 +35367,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35837,7 +35417,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35883,7 +35462,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35891,7 +35469,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -35927,14 +35505,14 @@ For example, A and B may be gene products and binding of B by A positively regul gastrula stage - + - + BILS @@ -35985,7 +35563,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -36035,7 +35612,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -36104,6 +35680,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0001326 EHDAA:542 EMAPA:16262 + FBbt:00003126 FMA:49184 GAID:75 MA:0000341 @@ -36156,6 +35733,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Mouth https://github.com/obophenotype/uberon/wiki/The-digestive-tract + + + + FBbt:00003126 + + @@ -36238,7 +35821,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -36246,15 +35828,15 @@ For example, A and B may be gene products and binding of B by A positively regul - + - - + + A fluid that is composed of blood plasma and erythrocytes. AAO:0000046 @@ -36291,34 +35873,34 @@ For example, A and B may be gene products and binding of B by A positively regul blood - + - + - + - + CL:tm - + https://github.com/obophenotype/uberon/issues/1330 - + Bgee:AN @@ -36591,6 +36173,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000004 EHDAA2:0003004 EMAPA:35178 + FBbt:00007019 FMA:9669 HAO:0000004 MA:0002450 @@ -36620,6 +36203,12 @@ For example, A and B may be gene products and binding of B by A positively regul Material anatomical entity in a gaseous, liquid, semisolid or solid state; produced by anatomical structures or derived from inhaled and ingested substances that have been modified by anatomical structures as they pass through the body. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007019 + + @@ -36674,6 +36263,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000005 CARO:0000005 EHDAA2:0003005 + FBbt:00007017 FMA:5897 HAO:0000005 NCIT:C94478 @@ -36697,6 +36287,12 @@ For example, A and B may be gene products and binding of B by A positively regul Non-material anatomical entity of three dimensions, that is generated by morphogenetic or other physiologic processes; is surrounded by one or more anatomical structures; contains one or more organism substances or anatomical structures. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007017 + + @@ -36716,7 +36312,6 @@ For example, A and B may be gene products and binding of B by A positively regul - Anatomical entity that has mass. @@ -36728,6 +36323,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000006 CARO:0000006 EHDAA2:0003006 + FBbt:00007016 FMA:67165 HAO:0000006 TAO:0001836 @@ -36745,13 +36341,18 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical entity that has mass. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007016 + + - Anatomical entity that has no mass. @@ -36762,6 +36363,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000007 CARO:0000007 EHDAA2:0003007 + FBbt:00007015 FMA:67112 HAO:0000007 TAO:0001835 @@ -36780,6 +36382,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical entity that has no mass. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007015 + + @@ -36822,6 +36430,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:392 EMAPA:16103 EV:0100000 + FBbt:00004856 FMA:7149 HAO:0000011 MA:0000003 @@ -36863,6 +36472,12 @@ For example, A and B may be gene products and binding of B by A positively regul system GO:0048731 + + + + FBbt:00004856 + + @@ -36914,6 +36529,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:1 EMAPA:25765 EV:0100016 + FBbt:00000001 FMA:256135 HAO:0000012 NCIT:C13041 @@ -36958,6 +36574,12 @@ For example, A and B may be gene products and binding of B by A positively regul VHOG:0000671 WBbt:0007833 + + + + FBbt:00000001 + + @@ -37018,6 +36640,7 @@ For example, A and B may be gene products and binding of B by A positively regul EFO:0000808 EHDAA2:0003032 EMAPA:36031 + FBbt:00007009 FMA:7153 HAO:0000032 MA:0002433 @@ -37060,6 +36683,12 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:DOS http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007009 + + @@ -37101,6 +36730,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000040 CARO:0000040 EHDAA2:0003040 + FBbt:00007013 FMA:63863 HAO:0000040 TAO:0000382 @@ -37126,6 +36756,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical structure that consists of cell parts and cell substances and together does not constitute a cell or a tissue. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007013 + + @@ -37144,6 +36780,7 @@ For example, A and B may be gene products and binding of B by A positively regul + FBbt:00007277 VHOG:0001737 uberon UBERON:0000477 @@ -37157,6 +36794,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical group whose component anatomical structures lie in close proximity to each other. FBbt:00007277 + + + + FBbt:00007277 + + @@ -37190,6 +36833,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000043 EHDAA2:0003043 EMAPA:35868 + FBbt:00007003 FMA:9637 HAO:0000043 MA:0003002 @@ -37225,6 +36869,12 @@ For example, A and B may be gene products and binding of B by A positively regul Multicellular anatomical structure that consists of many cells of one or a few types, arranged in an extracellular matrix such that their long-range organisation is at least partly a repetition of their short-range organisation. CARO:0000043 + + + + FBbt:00007003 + + @@ -37265,6 +36915,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000055 CARO:0000055 EHDAA2:0003055 + FBbt:00007010 HAO:0000055 TAO:0001488 TGMA:0001847 @@ -37291,6 +36942,12 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000055 http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007010 + + @@ -37315,7 +36972,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -37329,7 +36985,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -37346,6 +37002,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000066 EHDAA2:0003066 EMAPA:32738 + FBbt:00007005 FMA:9639 GAID:402 HAO:0000066 @@ -37370,14 +37027,14 @@ For example, A and B may be gene products and binding of B by A positively regul epithelium https://upload.wikimedia.org/wikipedia/commons/8/8f/Illu_epithelium.jpg - + - + http://palaeos.com/metazoa/porifera/homoscleromorpha.html @@ -37387,6 +37044,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Epithelium http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007005 + + @@ -37629,6 +37292,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2_RETIRED:0003236 EHDAA:38 EMAPA:16039 + FBbt:00000052 FMA:69068 GAID:963 MAT:0000226 @@ -37666,6 +37330,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0009790 Wikipedia:Embryo + + + + FBbt:00000052 + + @@ -37703,6 +37373,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000035 BTO:0000556 EMAPA:36033 + FBbt:00000110 FMA:69069 GAID:1303 MESH:D005855 @@ -37739,6 +37410,12 @@ For example, A and B may be gene products and binding of B by A positively regul embryonic tissue FMA:69069 + + + + FBbt:00000110 + + @@ -37777,7 +37454,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue. AAO:0000137 BILA:0000036 @@ -37787,6 +37464,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000428 EMAPA:16069 EV:0100003 + FBbt:00000111 FMA:69070 GAID:1304 MAT:0000155 @@ -37811,14 +37489,14 @@ For example, A and B may be gene products and binding of B by A positively regul ectoderm http://upload.wikimedia.org/wikipedia/commons/1/19/Gray32.png - + - + Bgee:AN @@ -37827,6 +37505,12 @@ For example, A and B may be gene products and binding of B by A positively regul Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue. Wikipedia:Ectoderm + + + + FBbt:00000111 + + @@ -37852,7 +37536,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut. AAO:0000139 BILA:0000038 @@ -37862,6 +37546,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000436 EMAPA:16062 EV:0100005 + FBbt:00000125 FMA:69071 GAID:1305 MAT:0000175 @@ -37886,14 +37571,14 @@ For example, A and B may be gene products and binding of B by A positively regul http://upload.wikimedia.org/wikipedia/commons/c/c0/Endoderm2.png http://upload.wikimedia.org/wikipedia/commons/d/df/Gray10.png - + - + Bgee:AN @@ -37902,6 +37587,12 @@ For example, A and B may be gene products and binding of B by A positively regul Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut. Wikipedia:Endoderm + + + + FBbt:00000125 + + @@ -37928,7 +37619,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The middle germ layer of the embryo, between the endoderm and ectoderm. UBERON:0003263 @@ -37943,6 +37634,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:183 EMAPA:16083 EV:0100006 + FBbt:00000126 FMA:69072 GAID:522 MAT:0000174 @@ -37968,14 +37660,14 @@ For example, A and B may be gene products and binding of B by A positively regul mesoderm http://upload.wikimedia.org/wikipedia/commons/e/e8/Mesoderm.png - + - + Bgee:AN @@ -37984,6 +37676,12 @@ For example, A and B may be gene products and binding of B by A positively regul The middle germ layer of the embryo, between the endoderm and ectoderm. Wikipedia:Mesoderm + + + + FBbt:00000126 + + @@ -38034,6 +37732,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004224 EHDAA2:0001929 EMAPA:16263 + FBbt:00000439 FMA:295846 NCIT:C34306 TAO:0001290 @@ -38072,6 +37771,12 @@ For example, A and B may be gene products and binding of B by A positively regul stomodeal-hypophyseal primordium XAO:0000269 + + + + FBbt:00000439 + + @@ -38136,7 +37841,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -38208,14 +37913,14 @@ For example, A and B may be gene products and binding of B by A positively regul https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_F_Heart.glb https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_M_Heart.glb - + - + MA @@ -38389,6 +38094,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000058 CALOHA:TS-1293 EFO:0000793 + FBbt:00005055 FMA:7152 GAID:278 MA:0002431 @@ -38425,6 +38131,12 @@ For example, A and B may be gene products and binding of B by A positively regul NLM:alimentary+system Wikipedia:Digestive_system + + + + FBbt:00005055 + + @@ -38611,7 +38323,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -38629,6 +38341,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:826 EMAPA:16469 EV:0100162 + FBbt:00005093 FMA:7157 GAID:466 MA:0000016 @@ -38660,14 +38373,14 @@ For example, A and B may be gene products and binding of B by A positively regul http://upload.wikimedia.org/wikipedia/commons/b/b2/TE-Nervous_system_diagram.svg http://upload.wikimedia.org/wikipedia/commons/b/ba/Nervous_system_diagram.png - + - + Bgee:AN @@ -38682,6 +38395,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Nervous_system ZFIN:curator + + + + FBbt:00005093 + + @@ -38727,7 +38446,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the neural tube derivatives: the brain and spinal cord. In invertebrates it includes central ganglia plus nerve cord. @@ -38743,6 +38462,7 @@ For example, A and B may be gene products and binding of B by A positively regul EMAPA:16470 EMAPA:16754 EV:0100163 + FBbt:00005094 FMA:55675 GAID:570 MA:0000167 @@ -38771,7 +38491,7 @@ For example, A and B may be gene products and binding of B by A positively regul central nervous system - + @@ -38785,7 +38505,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Bgee:AN @@ -38802,6 +38522,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Acoelomorpha + + + + FBbt:00005094 + + @@ -38853,6 +38579,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001886 EFO:0001652 EHDAA2:0003171 + FBbt:00005495 FMA:86589 MAT:0000482 NCIT:C34275 @@ -38886,6 +38613,12 @@ For example, A and B may be gene products and binding of B by A positively regul FB:FBrf0089570 http://flybase.org/reports/FBrf0178740.html + + + + FBbt:00005495 + + @@ -38996,6 +38729,7 @@ For example, A and B may be gene products and binding of B by A positively regul BIRNLEX:6 CARO:0000000 EHDAA2:0002229 + FBbt:10000000 FMA:62955 HAO:0000000 MA:0000001 @@ -39019,6 +38753,12 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62955 http://orcid.org/0000-0001-9114-8737 + + + + FBbt:10000000 + + @@ -39153,7 +38893,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Skeletal element that is composed of bone tissue. @@ -39195,14 +38935,14 @@ For example, A and B may be gene products and binding of B by A positively regul bone element - + - + VSAO-modified @@ -39268,7 +39008,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A tube extending from the mouth to the anus. @@ -39281,6 +39021,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000726 EHDAA:518 EMAPA:16247 + FBbt:00003125 FMA:45615 MA:0000917 NCIT:C34082 @@ -39304,14 +39045,14 @@ For example, A and B may be gene products and binding of B by A positively regul digestive tract - + - + NCBIBook:NBK10107 @@ -39333,6 +39074,12 @@ For example, A and B may be gene products and binding of B by A positively regul DOI:10.1371/journal.pone.0016309 + + + + FBbt:00003125 + + @@ -39450,7 +39197,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -39525,7 +39271,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -39534,8 +39279,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + @@ -39548,7 +39293,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -39602,34 +39347,34 @@ For example, A and B may be gene products and binding of B by A positively regul blood vessel http://upload.wikimedia.org/wikipedia/commons/2/29/Circulatory_System_en.svg - + - + - + - + AEO - + EHDAA2 - + GO:0072360 @@ -39832,6 +39577,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000174 CALOHA:TS-2110 EFO:0000461 + FBbt:00004208 FMA:69067 GAID:407 MESH:D004628 @@ -39862,6 +39608,12 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000174 ZFIN:curator + + + + FBbt:00004208 + + @@ -40349,6 +40101,7 @@ For example, A and B may be gene products and binding of B by A positively regul AEO:0000186 BTO:0001707 EHDAA2:0000267 + FBbt:00005060 FMA:85006 NCIT:C25444 RETIRED_EHDAA2:0003186 @@ -40385,6 +40138,12 @@ For example, A and B may be gene products and binding of B by A positively regul body cavity BTO:0001707 + + + + FBbt:00005060 + + @@ -40449,9 +40208,9 @@ For example, A and B may be gene products and binding of B by A positively regul - - - + + + @@ -40499,15 +40258,15 @@ For example, A and B may be gene products and binding of B by A positively regul notochord http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + - + @@ -40526,19 +40285,19 @@ For example, A and B may be gene products and binding of B by A positively regul - + http://tolweb.org/Chordata/2499 - + ZFA - + EHDAA2 @@ -40578,8 +40337,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + Somites are spheres of epithelial cells that form sequentially along the anterior-posterior axis of the embryo through mesenchymal to epithelial transition of the presomitic mesoderm. mesodermal cluster @@ -40617,11 +40376,11 @@ For example, A and B may be gene products and binding of B by A positively regul somite http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + @@ -40634,13 +40393,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + GOTAX:0000352 - + ZFA @@ -40702,22 +40461,22 @@ For example, A and B may be gene products and binding of B by A positively regul - + - - + + - + A specialized region of ectoderm found between the neural ectoderm (neural plate) and non-neural ectoderm and composed of highly migratory pluripotent cells that delaminate in early embryonic development from the dorsal neural tube and give rise to an astounding variety of differentiated cell types[MP]. AAO:0010578 BTO:0001764 @@ -40750,45 +40509,45 @@ For example, A and B may be gene products and binding of B by A positively regul http://upload.wikimedia.org/wikipedia/commons/5/5f/Gray644.png https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png - + - + - + - + - + XAO https://github.com/obophenotype/uberon/wiki/The-neural-crest - + BTO - + PMID:11523831 - + PMID:11523831 @@ -40846,6 +40605,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:255 EMAPA:16073 EV:0100004 + FBbt:00001057 FMA:87657 MAT:0000176 MIAA:0000176 @@ -40874,6 +40634,12 @@ For example, A and B may be gene products and binding of B by A positively regul Embryonic ectoderm that gives rise to nervous tissue. Wikipedia:Neuroectoderm + + + + FBbt:00001057 + + @@ -40922,7 +40688,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -40978,14 +40744,14 @@ For example, A and B may be gene products and binding of B by A positively regul bone marrow http://upload.wikimedia.org/wikipedia/commons/7/74/Gray72-en.svg - + - + FMA MA @@ -41197,7 +40963,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -41250,14 +41016,14 @@ For example, A and B may be gene products and binding of B by A positively regul hematopoietic system - + - + FMA @@ -41570,7 +41336,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form. AAO:0011086 EFO:0001982 @@ -41593,14 +41359,14 @@ For example, A and B may be gene products and binding of B by A positively regul presomitic mesoderm - + - + Bgee:AN @@ -41754,9 +41520,9 @@ For example, A and B may be gene products and binding of B by A positively regul - - - + + + A region of embryonic ectodermal cells that lie directly above the notochord. During neurulation, they change shape and produce an infolding of the neural plate (the neural fold) that then seals to form the neural tube[XAO]. The earliest recognizable dorsal ectodermal primordium of the central nervous system present near the end of gastrulation before infolding to form the neural keel; consists of a thickened pseudostratified epithelium[ZFA]. AAO:0011072 BTO:0001765 @@ -41785,34 +41551,34 @@ For example, A and B may be gene products and binding of B by A positively regul neural plate https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png - + - + - + - + GOTAX:0000352 - + Wikipedia - + Bgee:AN @@ -41852,7 +41618,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The paraxial mesoderm is the mesoderm located bilaterally adjacent to the notochord and neural tube[GO]. AAO:0010568 EFO:0003515 @@ -41878,7 +41644,7 @@ For example, A and B may be gene products and binding of B by A positively regul paraxial mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + @@ -41891,7 +41657,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Bgee:AN @@ -41938,7 +41704,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -41978,7 +41744,7 @@ For example, A and B may be gene products and binding of B by A positively regul lateral plate mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + @@ -41991,7 +41757,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 VHOG @@ -42041,15 +41807,15 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + - + Bilateral groups of cells consisting of three rows: one row of endocardial precursors medially and two rows of myocardical precursors laterally. The two populations fuse at the midline to form the heart rudiment or cone. should probably be merged with heart rudiment. AAO:0011044 @@ -42066,15 +41832,15 @@ For example, A and B may be gene products and binding of B by A positively regul heart primordium - + - + - + @@ -42087,19 +41853,19 @@ For example, A and B may be gene products and binding of B by A positively regul - + ZFA - + ZFA - + XAO @@ -42128,8 +41894,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + Ventral somitic compartment that is a precursor of the axial skeleton[XAO]. Sclerotomes eventually differentiate into the vertebrae and most of the skull. The caudal (posterior) half of one sclerotome fuses with the rostral (anterior) half of the adjacent one to form each vertebra. From their initial location within the somite, the sclerotome cells migrate medially towards the notochord. These cells meet the sclerotome cells from the other side to form the vertebral body. From this vertebral body, sclerotome cells move dorsally and surround the developing spinal cord, forming the vertebral arch[WP]. AAO:0010571 AEO:0000212 @@ -42153,11 +41919,11 @@ For example, A and B may be gene products and binding of B by A positively regul sclerotome http://upload.wikimedia.org/wikipedia/commons/9/96/Gray65.png - + - + @@ -42176,13 +41942,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + VHOG:0000680 - + ZFA @@ -42401,7 +42167,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The part of the coelom in the embryo between the somatopleuric and splanchnopleuric mesoderm; the principal body cavities of the trunk (thoracic, abdominal, and pelvic) arise from this embryonic part of the coelom. consider merging with coelom. TODO - add spatial relationships to halves of LPM. Note the OG places XAO and ZFA coelem terms here. editor note: TODO check ZFA, which appears to be a structure present in adults EHDAA:251 @@ -42416,14 +42182,14 @@ For example, A and B may be gene products and binding of B by A positively regul intraembryonic coelom - + - + Wikipedia @@ -42467,6 +42233,7 @@ For example, A and B may be gene products and binding of B by A positively regul Epithelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues, with tube shape and organization varying from the single-celled excretory organ in Caenorhabditis elegans to the branching trees of the mammalian kidney and insect tracheal system. AEO:0000114 EHDAA2:0003114 + FBbt:00007474 epithelial or endothelial tube uberon UBERON:0003914 @@ -42479,6 +42246,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0060562 PMID:12526790 + + + + FBbt:00007474 + + @@ -42711,8 +42484,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + A specific region of the lateral mesoderm that will form the primary beating heart tube. In mammals the primary heart field gives rise to the left ventricle. XAO:0004185 first heart field @@ -42724,24 +42497,24 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0004140 primary heart field - + - + - + GO:0003128 - + https://orcid.org/0000-0003-3308-6245 @@ -42794,7 +42567,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + An epithelial tube that will give rise to the mature heart. AAO:0010411 EFO:0003526 @@ -42813,14 +42586,14 @@ For example, A and B may be gene products and binding of B by A positively regul heart tube - + - + ZFA-modified @@ -42997,7 +42770,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -43094,7 +42866,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -43282,6 +43053,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0007012 BILA:0000060 BTO:0001403 + FBbt:00005317 FMA:293108 GAID:1302 MESH:D005775 @@ -43313,6 +43085,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Gastrula Wikipedia:Trilaminar_blastocyst + + + + FBbt:00005317 + + @@ -43439,7 +43217,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Organ consisting of skeletal tissue. Encompasses whole bones, fused bones, cartilaginious elements, teeth, dermal denticles. AAO:0011129 TAO:0001890 @@ -43453,14 +43231,14 @@ For example, A and B may be gene products and binding of B by A positively regul skeletal element - + - + VSAO @@ -43487,7 +43265,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -43526,14 +43304,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0004770 articular system - + - + FMA @@ -43749,6 +43527,7 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts. + FBbt:00005811 joint uberon UBERON:0004905 @@ -43761,6 +43540,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005811 + + @@ -43793,6 +43578,7 @@ For example, A and B may be gene products and binding of B by A positively regul A proximal-distal subdivision of the digestive tract. + FBbt:00100315 FMA:71131 uberon alimentary system subdivision @@ -43811,6 +43597,12 @@ For example, A and B may be gene products and binding of B by A positively regul A proximal-distal subdivision of the digestive tract. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00100315 + + @@ -44233,7 +44025,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Mesenchyme that is part of a developing trunk. EFO:0003485 EHDAA2:0002092 @@ -44249,14 +44041,14 @@ For example, A and B may be gene products and binding of B by A positively regul trunk mesenchyme - + - + EHDAA2 @@ -44336,6 +44128,7 @@ For example, A and B may be gene products and binding of B by A positively regul AEO:0000125 CALOHA:TS-2122 EHDAA2:0003125 + FBbt:00007006 FMA:292313 MIAA:0000019 uberon @@ -44346,6 +44139,12 @@ For example, A and B may be gene products and binding of B by A positively regul developing anatomical structure + + + + FBbt:00007006 + + @@ -44366,7 +44165,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Multi-tissue structure that arises from the heart rudiment and will become the heart tube. EHDAA2:0001512 EHDAA:424 @@ -44384,14 +44183,14 @@ For example, A and B may be gene products and binding of B by A positively regul primitive heart tube - + - + ZFA @@ -44458,7 +44257,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -44558,7 +44356,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A delimited region of dense mesenchyme within looser mesenchyme. AEO:0000148 EHDAA2_RETIRED:0003148 @@ -44568,7 +44366,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0005856 developing mesenchymal condensation - + @@ -44587,7 +44385,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + AEO-modified-relation @@ -44681,7 +44479,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The notochordal plate is the dorsal part of the notochordal process when the ventral portion breaks down. It is continuous laterally with the endoderm that composes the roof of the primitive foregut and is in contact dorsally with the neural tube. The folding off of the notochordal plate gives rise to the notochord. TODO - check ordering; awaiting confirmation from JB EHDAA2:0001278 @@ -44695,7 +44493,7 @@ For example, A and B may be gene products and binding of B by A positively regul notochordal plate - + @@ -44708,7 +44506,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 @@ -44736,7 +44534,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A midline cellular cord formed from the migration of mesenchymal cells from the primitive knot. EHDAA2:0001279 EHDAA:224 @@ -44753,14 +44551,14 @@ For example, A and B may be gene products and binding of B by A positively regul The notochordal process grows cranially until it reaches the prechordal plate, the future site of the mouth. In this area the ectoderm is attached directly to the endoderm without intervening mesoderm. This area is known as the oropharyngeal membrane, and it will break down to become the mouth. At the other end of the primitive streak the ectoderm is also fused directly to the endoderm; this is known as the cloacal membrane (proctodeum), or primordial anus. notochordal process - + - + EHDAA2 @@ -45148,7 +44946,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -45650,7 +45447,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -45676,7 +45473,7 @@ For example, A and B may be gene products and binding of B by A positively regul presumptive paraxial mesoderm - + @@ -45692,7 +45489,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + https://github.com/obophenotype/uberon/issues/1277 @@ -45768,7 +45565,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Mesenchyme with little extracellular matrix. AEO:0000146 EHDAA2:0003146 @@ -45776,7 +45573,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0007524 dense mesenchyme tissue - + @@ -45789,7 +45586,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + AEO @@ -45849,6 +45646,7 @@ For example, A and B may be gene products and binding of B by A positively regul AEO:0000170 EFO:0001649 EHDAA2:0003170 + FBbt:00005426 Wikipedia:Anlage_(biology) developmental field uberon @@ -45878,6 +45676,12 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005426 http://flybase.org/reports/FBrf0178740.html + + + + FBbt:00005426 + + @@ -45885,7 +45689,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Anatomical system that consists of all blood and lymph vessels. consider merging with vasculature @@ -45902,14 +45706,14 @@ For example, A and B may be gene products and binding of B by A positively regul vascular system - + - + MA @@ -45937,7 +45741,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -45954,14 +45758,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0009142 entire embryonic mesenchyme - + - + EHDAA2 @@ -46017,7 +45821,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2:0002094 trunk and cervical paraxial mesenchyme uberon @@ -46025,14 +45829,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0009618 trunk paraxial mesoderm - + - + EHDAA2 @@ -46055,7 +45859,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EFO:0003704 TAO:0005041 ZFA:0005041 @@ -46065,14 +45869,14 @@ For example, A and B may be gene products and binding of B by A positively regul anterior lateral plate mesoderm - + - + ZFA @@ -46116,6 +45920,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0010000 + FBbt:00100313 multicellular structure uberon UBERON:0010000 @@ -46129,6 +45934,12 @@ For example, A and B may be gene products and binding of B by A positively regul An anatomical structure that has more than one cell as a part. CARO:0010000 + + + + FBbt:00100313 + + @@ -46179,7 +45990,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -46205,7 +46015,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -46225,14 +46035,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0010210 blood clot - + - + BTO @@ -46353,8 +46163,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + Anatomical cluster consisting of the skeletal elements (i.e. bone elements, cartilage elements, cartilage condensations) that are part of an individual subdivision of the organism. Excludes joints. FMA:23879 SCTID:129140006 @@ -46366,11 +46176,11 @@ For example, A and B may be gene products and binding of B by A positively regul subdivision of skeleton - + - + @@ -46383,13 +46193,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + UBERONREF:0000003 - + VSAO @@ -46450,7 +46260,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Subdivision of the skeletal system which consists of the postcranial axial skeleton plus associated joints. axial skeletal system FMA:302077 @@ -46460,7 +46270,7 @@ For example, A and B may be gene products and binding of B by A positively regul postcranial axial skeletal system http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton - + @@ -46473,7 +46283,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + cjm @@ -46507,6 +46317,7 @@ For example, A and B may be gene products and binding of B by A positively regul + FBbt:00007330 FMA:67509 SCTID:91690000 uberon @@ -46528,6 +46339,12 @@ For example, A and B may be gene products and binding of B by A positively regul A subdivision of an anatomical system. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00007330 + + @@ -46739,7 +46556,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -46760,7 +46577,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0012429 hematopoietic tissue - + @@ -46773,7 +46590,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + defitional @@ -47070,6 +46887,7 @@ For example, A and B may be gene products and binding of B by A positively regul An anatomical group whose component structures share a common function. AEO:0000093 + FBbt:00007278 uberon UBERON:0015203 non-connected functional system @@ -47083,6 +46901,12 @@ For example, A and B may be gene products and binding of B by A positively regul FBC:DOS FBbt:00007278 + + + + FBbt:00007278 + + @@ -47317,7 +47141,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -47340,7 +47164,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0016887 entire extraembryonic component - + @@ -47353,7 +47177,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + AEO @@ -47461,6 +47285,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0020000 + FBbt:00007276 uberon UBERON:0034923 @@ -47478,6 +47303,12 @@ For example, A and B may be gene products and binding of B by A positively regul Material anatomical entity consisting of multiple anatomical structures that are not connected to each other. CARO:0020000 + + + + FBbt:00007276 + + @@ -47866,840 +47697,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GP(X)-enables->MF(Y)-has_part->MF(Z) => GP(X) enables MF(Z), -e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase coupled transporter activity' has_part 'ATPase activity' then GP(X) enables 'ATPase activity' - enabling an MF enables its parts - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - If a molecular function (X) has a regulatory subfunction, then any gene product which is an input to that subfunction has an activity that directly_regulates X. Note: this is intended for cases where the regaultory subfunction is protein binding, so it could be tightened with an additional clause to specify this. - inferring direct reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - inferring direct neg reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - inferring direct positive reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - effector input is compound function input - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Input of effector is input of its parent MF - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly regulates X, its parent MF directly regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly positively regulates X, its parent MF directly positively regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly negatively regulates X, its parent MF directly negatively regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - diff --git a/src/ontology/subsets/blood_and_immune_upper_slim.tsv b/src/ontology/subsets/blood_and_immune_upper_slim.tsv index 19def9327..42e83f39e 100644 --- a/src/ontology/subsets/blood_and_immune_upper_slim.tsv +++ b/src/ontology/subsets/blood_and_immune_upper_slim.tsv @@ -1,396 +1,388 @@ ?x ?label -_:Bd3a92e4aX2D59e9X2D479fX2D9102X2D86cde55c1e05genid1015 -_:Bd3a92e4aX2D59e9X2D479fX2D9102X2D86cde55c1e05genid1022 -_:Bd3a92e4aX2D59e9X2D479fX2D9102X2D86cde55c1e05genid1028 -_:Bd3a92e4aX2D59e9X2D479fX2D9102X2D86cde55c1e05genid1040 -_:Bd3a92e4aX2D59e9X2D479fX2D9102X2D86cde55c1e05genid1050 -_:Bd3a92e4aX2D59e9X2D479fX2D9102X2D86cde55c1e05genid1058 -_:Bd3a92e4aX2D59e9X2D479fX2D9102X2D86cde55c1e05genid1105 -_:Bd3a92e4aX2D59e9X2D479fX2D9102X2D86cde55c1e05genid1111 -_:Bd3a92e4aX2D59e9X2D479fX2D9102X2D86cde55c1e05genid1130 -_:Bd3a92e4aX2D59e9X2D479fX2D9102X2D86cde55c1e05genid1149 -_:Bd3a92e4aX2D59e9X2D479fX2D9102X2D86cde55c1e05genid1159 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+_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid736 +_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid754 +_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid775 +_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid790 +_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid845 +_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid877 +_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid922 +_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid936 +_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid951 +_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid968 +_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid986 +_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid994 "cell" "early embryonic cell (metazoa)" "stem cell" @@ -1138,7 +1130,6 @@ _:Bd3a92e4aX2D59e9X2D479fX2D9102X2D86cde55c1e05genid997 "G-protein coupled receptor" "eukaryotic protein" "cathepsin-like protease" - "protein-containing material entity" "processual entity" "tube" "vessel" diff --git a/src/ontology/subsets/eye_upper_slim.json b/src/ontology/subsets/eye_upper_slim.json index 800e7810c..8ad22264c 100644 --- a/src/ontology/subsets/eye_upper_slim.json +++ b/src/ontology/subsets/eye_upper_slim.json @@ -4,68 +4,11 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", - "val" : "2024-04-05" + "val" : "2024-05-15" } ], - "version" : "http://purl.obolibrary.org/obo/cl/releases/2024-04-05/subsets/eye_upper_slim.owl" + "version" : "http://purl.obolibrary.org/obo/cl/releases/2024-05-15/subsets/eye_upper_slim.owl" }, "nodes" : [ { - "id" : "http://purl.obolibrary.org/obo/BFO_0000002", - "lbl" : "continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000003", - "lbl" : "occurrent", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An entity that has temporal parts and that happens, unfolds or develops through time." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000004", - "lbl" : "independent continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" - }, - "comments" : [ "A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000015", - "lbl" : "process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" - }, - "comments" : [ "An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000020", - "lbl" : "specifically dependent continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" - }, - "comments" : [ "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000040", - "lbl" : "material entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." - } - } - }, { "id" : "http://purl.obolibrary.org/obo/BFO_0000050", "lbl" : "part_of", "type" : "PROPERTY", @@ -218,10 +161,6 @@ }, "comments" : [ "Paraphrase of definition: a relation between an independent continuant and a process, in which the process takes place entirely within the independent continuant" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000141", - "lbl" : "immaterial entity", - "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/CL_0000000", "lbl" : "cell", @@ -251,6 +190,8 @@ "val" : "WBbt:0004017" }, { "val" : "XAO:0003012" + }, { + "val" : "ZFA:0009000" } ] } }, { @@ -272,10 +213,17 @@ "lbl" : "neuronal receptor cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any sensory receptor cell that is a(n) neuron and is capable of some detection of stimulus involved in sensory perception.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "neuronal receptor cell (sensu Animalia)" + } ], + "xrefs" : [ { + "val" : "ZFA:0009001" } ] } }, { @@ -286,7 +234,10 @@ "definition" : { "val" : "A cell found in the embryo before the formation of all the gem layers is complete.", "xrefs" : [ "GOC:tfm" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009002" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000008", @@ -296,14 +247,20 @@ "definition" : { "val" : "Cell that is part of the migratory cranial neural crest population. Migratory cranial neural crest cells develop from premigratory cranial neural crest cells and have undergone epithelial to mesenchymal transition and delamination.", "xrefs" : [ "ZFA:0007091", "https://orcid.org/0000-0001-5208-3432" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0007091" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000030", "lbl" : "glioblast", "type" : "CLASS", "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], + "xrefs" : [ { + "val" : "ZFA:0009010" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000031", @@ -323,6 +280,8 @@ "val" : "BTO:0000930" }, { "val" : "FMA:70563" + }, { + "val" : "ZFA:0009011" } ] } }, { @@ -344,6 +303,8 @@ "val" : "CALOHA:TS-2086" }, { "val" : "FMA:63368" + }, { + "val" : "ZFA:0005957" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -385,6 +346,8 @@ "val" : "MESH:D006412" }, { "val" : "VHOG:0001485" + }, { + "val" : "ZFA:0009014" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -424,6 +387,8 @@ } ], "xrefs" : [ { "val" : "BTO:0004911" + }, { + "val" : "ZFA:0009015" } ] } }, { @@ -450,6 +415,8 @@ } ], "xrefs" : [ { "val" : "FMA:84789" + }, { + "val" : "ZFA:0009020" } ] } }, { @@ -500,6 +467,8 @@ } ], "xrefs" : [ { "val" : "BTO:0004730" + }, { + "val" : "ZFA:0009021" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -539,6 +508,9 @@ "pred" : "hasExactSynonym", "val" : "megakaryocyte/erythroid progenitor cell" } ], + "xrefs" : [ { + "val" : "ZFA:0009022" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -561,6 +533,8 @@ "val" : "FMA:84790" }, { "val" : "MESH:D039901" + }, { + "val" : "ZFA:0009024" } ] } }, { @@ -603,6 +577,8 @@ "val" : "FMA:70335" }, { "val" : "VHOG:0001529" + }, { + "val" : "ZFA:0009025" } ] } }, { @@ -626,6 +602,8 @@ "val" : "NCIT:C12482" }, { "val" : "VHOG:0001482" + }, { + "val" : "ZFA:0009026" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -658,6 +636,8 @@ "val" : "FMA:66768" }, { "val" : "WBbt:0003672" + }, { + "val" : "ZFA:0009034" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -681,6 +661,9 @@ "pred" : "hasExactSynonym", "val" : "cuboidal endothelial cell of vascular tree" } ], + "xrefs" : [ { + "val" : "ZFA:0009036" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -696,6 +679,9 @@ "xrefs" : [ "GO:0002065", "https://orcid.org/0000-0001-5208-3432" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], + "xrefs" : [ { + "val" : "ZFA:0009038" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -709,6 +695,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "CALOHA:TS-1249" + }, { + "val" : "ZFA:0009039" } ] } }, { @@ -727,6 +715,8 @@ } ], "xrefs" : [ { "val" : "FMA:66773" + }, { + "val" : "ZFA:0009040" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -747,6 +737,8 @@ "val" : "FMA:62844" }, { "val" : "MESH:D001773" + }, { + "val" : "ZFA:0009044" } ] } }, { @@ -774,6 +766,8 @@ "val" : "FMA:67313" }, { "val" : "WBbt:0005113" + }, { + "val" : "ZFA:0009051" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -789,6 +783,7 @@ "val" : "Any neuron having a sensory function; an afferent neuron conveying sensory impulses.", "xrefs" : [ "ISBN:0721662544" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "xrefs" : [ { "val" : "BTO:0001037" }, { @@ -799,6 +794,12 @@ "val" : "MESH:D011984" }, { "val" : "WBbt:0005759" + }, { + "val" : "ZFA:0009053" + } ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" } ] } }, { @@ -813,6 +814,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#BDS_subset", "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "FMA:67282" + }, { + "val" : "ZFA:0009055" } ] } }, { @@ -836,6 +839,8 @@ "val" : "CALOHA:TS-0278" }, { "val" : "FMA:66772" + }, { + "val" : "ZFA:0009065" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -845,7 +850,12 @@ }, { "id" : "http://purl.obolibrary.org/obo/CL_0000117", "lbl" : "CNS neuron (sensu Vertebrata)", - "type" : "CLASS" + "type" : "CLASS", + "meta" : { + "xrefs" : [ { + "val" : "ZFA:0009067" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000123", "lbl" : "neuron associated cell (sensu Vertebrata)", @@ -863,7 +873,7 @@ "xrefs" : [ "MESH:D009457" ] }, "comments" : [ "Not all glial cells develop from glioblasts, with microglia developing from the mesoderm instead. See https://github.com/obophenotype/cell-ontology/issues/1571" ], - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "neuroglial cell" @@ -879,6 +889,12 @@ "val" : "FBbt:00005144" }, { "val" : "FMA:54536" + }, { + "val" : "ZFA:0009073" + } ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" } ] } }, { @@ -906,6 +922,8 @@ "val" : "CALOHA:TS-2027" }, { "val" : "FMA:54538" + }, { + "val" : "ZFA:0009074" } ] } }, { @@ -929,6 +947,8 @@ "val" : "CALOHA:TS-0060" }, { "val" : "FMA:54537" + }, { + "val" : "ZFA:0009075" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -949,6 +969,8 @@ "val" : "CALOHA:TS-0172" }, { "val" : "FMA:70614" + }, { + "val" : "ZFA:0009079" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -967,6 +989,9 @@ "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "neurectoderm cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009080" } ] } }, { @@ -1033,6 +1058,8 @@ "val" : "BTO:0003298" }, { "val" : "FMA:70546" + }, { + "val" : "ZFA:0009081" } ], "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", @@ -1057,6 +1084,8 @@ } ], "xrefs" : [ { "val" : "VHOG:0001678" + }, { + "val" : "ZFA:0009090" } ] } }, { @@ -1083,6 +1112,8 @@ "val" : "MESH:D008544" }, { "val" : "VHOG:0001679" + }, { + "val" : "ZFA:0009091" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1155,6 +1186,8 @@ "val" : "FMA:67328" }, { "val" : "WBbt:0003675" + }, { + "val" : "ZFA:0009114" } ], "basicPropertyValues" : [ { "pred" : "http://xmlns.com/foaf/0.1/depiction", @@ -1192,6 +1225,8 @@ "val" : "CALOHA:TS-2159" }, { "val" : "FMA:14072" + }, { + "val" : "ZFA:0009118" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1228,8 +1263,12 @@ "val" : "BTO:0001060" }, { "val" : "CALOHA:TS-0868" + }, { + "val" : "FBbt:00004211" }, { "val" : "FMA:86740" + }, { + "val" : "ZFA:0009127" } ], "basicPropertyValues" : [ { "pred" : "http://xmlns.com/foaf/0.1/depiction", @@ -1244,7 +1283,10 @@ "definition" : { "val" : "A cell whose function is determined by the generation or the reception of an electric signal.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009128" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000213", @@ -1258,6 +1300,9 @@ "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "boundary cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009130" } ] } }, { @@ -1268,7 +1313,10 @@ "definition" : { "val" : "A cell whose primary function is to prevent the transport of stuff across compartments.", "xrefs" : [ "JB:jb" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009132" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000219", @@ -1278,7 +1326,10 @@ "definition" : { "val" : "A cell that moves by its own activities.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009136" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000221", @@ -1295,6 +1346,8 @@ } ], "xrefs" : [ { "val" : "FMA:72549" + }, { + "val" : "ZFA:0009137" } ] } }, { @@ -1316,6 +1369,8 @@ } ], "xrefs" : [ { "val" : "FMA:72554" + }, { + "val" : "ZFA:0009138" } ] } }, { @@ -1333,6 +1388,8 @@ } ], "xrefs" : [ { "val" : "FMA:72555" + }, { + "val" : "ZFA:0009139" } ] } }, { @@ -1369,6 +1426,10 @@ "lbl" : "eukaryotic cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any cell that only exists in Eukaryota.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "MESH:D005057" @@ -1379,7 +1440,14 @@ "lbl" : "eye photoreceptor cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any photoreceptor cell that is part of some eye.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/cl#eye_upper_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], + "xrefs" : [ { + "val" : "ZFA:0009154" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -1393,7 +1461,10 @@ "definition" : { "val" : "A cell whose primary function is to provide structural support, to provide strength and physical integrity to the organism.", "xrefs" : [ "TAIR:sr" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0005745" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000306", @@ -1420,7 +1491,16 @@ }, { "id" : "http://purl.obolibrary.org/obo/CL_0000329", "lbl" : "oxygen accumulating cell", - "type" : "CLASS" + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any cell that is capable of some oxygen transport.", + "xrefs" : [ "FBC:Autogenerated" ] + }, + "xrefs" : [ { + "val" : "ZFA:0009164" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000333", "lbl" : "migratory neural crest cell", @@ -1432,6 +1512,8 @@ }, "xrefs" : [ { "val" : "FMA:86667" + }, { + "val" : "ZFA:0007086" } ] } }, { @@ -1442,7 +1524,10 @@ "definition" : { "val" : "A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors.", "xrefs" : [ "GOC:tfm", "PMID:5025404" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009166" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000339", @@ -1459,6 +1544,8 @@ } ], "xrefs" : [ { "val" : "FMA:70564" + }, { + "val" : "ZFA:0009169" } ] } }, { @@ -1469,7 +1556,10 @@ "definition" : { "val" : "Any animal cell containing pigment granules.", "xrefs" : [ "GOC:tfm", "ISBN:0721662544" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009170" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000347", @@ -1480,7 +1570,10 @@ "val" : "A cell of the sclera of the eye.", "xrefs" : [ "GOC:add" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#eye_upper_slim" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#eye_upper_slim" ], + "xrefs" : [ { + "val" : "ZFA:0009174" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000348", @@ -1491,7 +1584,10 @@ "val" : "A structural cell that is part of optic choroid.", "xrefs" : [ "GOC:add" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#eye_upper_slim" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#eye_upper_slim" ], + "xrefs" : [ { + "val" : "ZFA:0009175" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000352", @@ -1532,7 +1628,10 @@ "definition" : { "val" : "A cell whose function is determined by its response to an electric signal.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009190" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000402", @@ -1545,6 +1644,9 @@ }, "comments" : [ "Interneurons are commonly described as being only found in the central nervous system. However, in CL we define 'interneuron' more broadly as any neuron that is neither a motor neuron nor a sensory neuron, regardless of its location, so we need this term to refer strictly to interneurons of the central nervous system." ], "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], + "xrefs" : [ { + "val" : "ZFA:0009191" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -1558,7 +1660,10 @@ "definition" : { "val" : "A cell that initiates an electrical signal and passes that signal to another cell.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009193" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000514", @@ -1580,6 +1685,8 @@ } ], "xrefs" : [ { "val" : "FMA:84798" + }, { + "val" : "ZFA:0009235" } ] } }, { @@ -1598,6 +1705,8 @@ } ], "xrefs" : [ { "val" : "FMA:87653" + }, { + "val" : "ZFA:0009238" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1609,7 +1718,10 @@ "lbl" : "pigmented epithelial cell", "type" : "CLASS", "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], + "xrefs" : [ { + "val" : "ZFA:0009241" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000540", @@ -1638,6 +1750,8 @@ "val" : "VHOG:0001483" }, { "val" : "WBbt:0003679" + }, { + "val" : "ZFA:0009248" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1661,6 +1775,8 @@ "val" : "BTO:0003217" }, { "val" : "FMA:83377" + }, { + "val" : "ZFA:0009249" } ] } }, { @@ -1713,6 +1829,8 @@ } ], "xrefs" : [ { "val" : "FMA:83505" + }, { + "val" : "ZFA:0005236" } ] } }, { @@ -1751,6 +1869,8 @@ } ], "xrefs" : [ { "val" : "FMA:83506" + }, { + "val" : "ZFA:0005241" } ] } }, { @@ -1895,6 +2015,8 @@ "val" : "CALOHA:TS-0864" }, { "val" : "MESH:D012156" + }, { + "val" : "ZFA:0009252" } ] } }, { @@ -1925,6 +2047,8 @@ "val" : "BTO:0004044" }, { "val" : "FMA:67766" + }, { + "val" : "ZFA:0009255" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1947,6 +2071,9 @@ }, { "pred" : "hasExactSynonym", "val" : "chondroplast" + } ], + "xrefs" : [ { + "val" : "ZFA:0009258" } ] } }, { @@ -1970,6 +2097,8 @@ "val" : "CALOHA:TS-0866" }, { "val" : "FMA:67748" + }, { + "val" : "ZFA:0009262" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1997,6 +2126,8 @@ "val" : "CALOHA:TS-0173" }, { "val" : "FMA:70551" + }, { + "val" : "ZFA:0009264" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2024,6 +2155,8 @@ "val" : "CALOHA:TS-0870" }, { "val" : "FMA:67747" + }, { + "val" : "ZFA:0009275" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2054,6 +2187,8 @@ } ], "xrefs" : [ { "val" : "BTO:0003064" + }, { + "val" : "ZFA:0009280" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2073,6 +2208,8 @@ "val" : "FBbt:00100291" }, { "val" : "WBbt:0006829" + }, { + "val" : "ZFA:0009290" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2088,7 +2225,10 @@ "val" : "A non-terminally differentiated cell that is capable of developing into a muscle cell.", "xrefs" : [ "GOC:add" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], + "xrefs" : [ { + "val" : "ZFA:0009291" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000681", @@ -2104,6 +2244,9 @@ "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "forebrain radial glial cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009292" } ] } }, { @@ -2139,6 +2282,8 @@ "val" : "CALOHA:TS-2086" }, { "val" : "MESH:D053687" + }, { + "val" : "ZFA:0009307" } ] } }, { @@ -2174,6 +2319,8 @@ "val" : "FMA:67765" }, { "val" : "MESH:D012165" + }, { + "val" : "ZFA:0009310" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2206,6 +2353,8 @@ } ], "xrefs" : [ { "val" : "BTO:0004120" + }, { + "val" : "ZFA:0009315" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2238,6 +2387,9 @@ "val" : "BPs", "xrefs" : [ "GSE137537" ] } ], + "xrefs" : [ { + "val" : "ZFA:0009318" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -2259,6 +2411,8 @@ "val" : "CALOHA:TS-0647" }, { "val" : "MESH:D022423" + }, { + "val" : "ZFA:0009324" } ] } }, { @@ -2282,6 +2436,8 @@ "val" : "FMA:62845" }, { "val" : "FMA:83516" + }, { + "val" : "ZFA:0009325" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2310,6 +2466,8 @@ "val" : "FMA:83504" }, { "val" : "MESH:D004900" + }, { + "val" : "ZFA:0005237" } ] } }, { @@ -2334,6 +2492,8 @@ "val" : "BTO:0000725" }, { "val" : "CALOHA:TS-0448" + }, { + "val" : "ZFA:0009354" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2361,6 +2521,8 @@ "val" : "CALOHA:TS-2099" }, { "val" : "FMA:70339" + }, { + "val" : "ZFA:0009356" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2395,6 +2557,8 @@ "val" : "FMA:70366" }, { "val" : "FMA:83598" + }, { + "val" : "ZFA:0005830" } ] } }, { @@ -2445,6 +2609,8 @@ }, "xrefs" : [ { "val" : "FMA:69074" + }, { + "val" : "ZFA:0009385" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2469,6 +2635,8 @@ } ], "xrefs" : [ { "val" : "FMA:69076" + }, { + "val" : "ZFA:0009388" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2675,6 +2843,8 @@ "val" : "FMA:63875" }, { "val" : "MESH:D003239" + }, { + "val" : "ZFA:0009392" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2699,6 +2869,8 @@ "val" : "FMA:82840" }, { "val" : "WBbt:0007028" + }, { + "val" : "ZFA:0007089" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2795,6 +2967,9 @@ "xrefs" : [ "GOC:tfm" ] }, "comments" : [ "See CL:0002619." ], + "xrefs" : [ { + "val" : "ZFA:0005773" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0003-1980-3228" @@ -2897,7 +3072,10 @@ "val" : "A CNS interneuron located in the spinal cord.", "xrefs" : [ "CL:CVS" ] }, - "comments" : [ "Is_a interneuron, part_of UBERON:0002240." ] + "comments" : [ "Is_a interneuron, part_of UBERON:0002240." ], + "xrefs" : [ { + "val" : "ZFA:0000778" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0007004", @@ -2908,6 +3086,9 @@ "val" : "Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells.", "xrefs" : [ "UBERONREF:0000002" ] }, + "xrefs" : [ { + "val" : "ZFA:0007084" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0001-9114-8737" @@ -2973,6 +3154,10 @@ "lbl" : "visual system neuron", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any neuron that is capable of part of some visual perception.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0002-7073-9172" @@ -3000,6 +3185,10 @@ "lbl" : "camera-type eye photoreceptor cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any photoreceptor cell that is part of some camera-type eye.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "camera type eye photoreceptor cell" @@ -3785,7 +3974,7 @@ "xrefs" : [ "GOC:go_curators" ] }, "comments" : [ "Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "extracellular" @@ -3903,7 +4092,7 @@ "xrefs" : [ "ISBN:0198547684" ] }, "comments" : [ "Note that for multicellular organisms, the extracellular space refers to everything outside a cell, but still within the organism (excluding the extracellular matrix). Gene products from a multi-cellular organism that are secreted from a cell into the interstitial fluid or blood can therefore be annotated to this term." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "intercellular space" @@ -3964,7 +4153,7 @@ "val" : "A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell nucleus" @@ -3993,7 +4182,7 @@ "xrefs" : [ "ISBN:0198547684" ] }, "comments" : [ "Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "interphase chromosome" @@ -4041,7 +4230,7 @@ "val" : "The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.", "xrefs" : [ "ISBN:0198547684" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "xrefs" : [ { "val" : "Wikipedia:Cytoplasm" } ], @@ -4062,7 +4251,7 @@ "val" : "An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "free ribosome", @@ -4097,7 +4286,7 @@ "val" : "The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.", "xrefs" : [ "ISBN:0716731363" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "juxtamembrane" @@ -4187,7 +4376,7 @@ "val" : "The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "protein anabolism" @@ -4326,7 +4515,7 @@ "xrefs" : [ "GOC:dos", "GOC:dph", "GOC:jl", "GOC:mah" ] }, "comments" : [ "Note that this term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term, for e.g. to transmembrane transport, to microtubule-based transport or to vesicle-mediated transport." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "single-organism transport" @@ -4541,7 +4730,8 @@ "val" : "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "organelle organisation" @@ -4558,6 +4748,9 @@ "val" : "single-organism organelle organization" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -4580,7 +4773,7 @@ "val" : "The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.", "xrefs" : [ "GOC:go_curators", "GOC:mtg_cell_cycle" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell-division cycle" @@ -4643,20 +4836,8 @@ "xrefs" : [ "GOC:go_curators", "GOC:mtg_signaling_feb11" ] }, "comments" : [ "Note that signal transduction is defined broadly to include a ligand interacting with a receptor, downstream signaling steps and a response being triggered. A change in form of the signal in every step is not necessary. Note that in many cases the end of this process is regulation of the initiation of transcription. Note that specific transcription factors may be annotated to this term, but core/general transcription machinery such as RNA polymerase should not." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by cis-phosphorylation" - }, { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by conformational transition" - }, { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by protein phosphorylation" - }, { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by trans-phosphorylation" - }, { "pred" : "hasNarrowSynonym", "val" : "signaling cascade" }, { @@ -4667,8 +4848,7 @@ "val" : "signaling pathway" }, { "pred" : "hasRelatedSynonym", - "val" : "signalling pathway", - "xrefs" : [ "GOC:mah" ] + "val" : "signalling pathway" } ], "xrefs" : [ { "val" : "Wikipedia:Signal_transduction" @@ -4699,8 +4879,8 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The series of molecular signals initiated by activation of a receptor on the surface of a cell. The pathway begins with binding of an extracellular ligand to a cell surface receptor, or for receptors that signal in the absence of a ligand, by ligand-withdrawal or the activity of a constitutively active receptor. The pathway ends with regulation of a downstream cellular process, e.g. transcription.", - "xrefs" : [ "GOC:bf", "GOC:mah", "GOC:pr", "GOC:signaling" ] + "val" : "The series of molecular signals initiated by an extracellular ligand binding to a receptor located on the cell surface. The pathway ends with regulation of a downstream cellular process, e.g. transcription.", + "xrefs" : [ "GOC:signaling" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila" ], "synonyms" : [ { @@ -5078,7 +5258,7 @@ "xrefs" : [ "GOC:go_curators", "ISBN:0198547684" ] }, "comments" : [ "Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "metabolism" @@ -5099,6 +5279,9 @@ "val" : "Wikipedia:Metabolism" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/26424" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -5150,7 +5333,7 @@ "val" : "The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.", "xrefs" : [ "GOC:curators", "ISBN:0198547684" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "formation" @@ -5199,7 +5382,8 @@ "val" : "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "biopolymer biosynthetic process", @@ -5223,6 +5407,9 @@ }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/25418" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0043284" @@ -5353,7 +5540,7 @@ "xrefs" : [ "GOC:hb" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "response to environmental stimulus" @@ -5373,7 +5560,7 @@ "xrefs" : [ "GOC:hb" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "response to abiotic stress" @@ -5422,7 +5609,7 @@ "val" : "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant.", "xrefs" : [ "GOC:go_curators", "GOC:isa_complete", "GOC:mtg_sensu" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "embryogenesis and morphogenesis" @@ -5594,7 +5781,7 @@ "xrefs" : [ "GOC:lr", "GOC:mtg_apoptosis" ] }, "comments" : [ "Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "regulated cell death" @@ -5749,7 +5936,7 @@ "val" : "A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component.", "xrefs" : [ "GOC:ai", "GOC:jl", "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell organisation" @@ -5892,7 +6079,8 @@ "val" : "The chemical reactions and pathways involving a protein. Includes protein modification.", "xrefs" : [ "GOC:ma" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular protein metabolic process" @@ -5918,6 +6106,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/23112" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0006411" @@ -5955,7 +6146,7 @@ "val" : "The cellular process that ensures successive accurate and complete genome replication and chromosome segregation.", "xrefs" : [ "GOC:isa_complete", "GOC:mtg_cell_cycle" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -5970,7 +6161,8 @@ "val" : "A cellular process that results in the breakdown of a cellular component.", "xrefs" : [ "GOC:isa_complete" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell structure disassembly" @@ -5979,6 +6171,9 @@ "val" : "cellular component disassembly at cellular level" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0071845" }, { @@ -6010,7 +6205,7 @@ "val" : "The aggregation, arrangement and bonding together of a cellular component.", "xrefs" : [ "GOC:isa_complete" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell structure assembly" @@ -6084,7 +6279,7 @@ "xrefs" : [ "GOC:mtg_signal", "GOC:mtg_signaling_feb11", "GOC:signaling" ] }, "comments" : [ "Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "biological signaling" @@ -6270,7 +6465,7 @@ "val" : "The cellular developmental process in which a relatively unspecialized cell, e.g. embryonic or regenerative cell, acquires specialized structural and/or functional features that characterize a specific cell. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "xrefs" : [ { "val" : "Wikipedia:Cellular_differentiation" } ], @@ -6465,7 +6660,7 @@ "val" : "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues.", "xrefs" : [ "GOC:BHF", "GOC:mah", "GOC:rph", "NIF_Subcellular:nlx_subcell_20090513", "PMID:21123617", "PMID:28089324" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "proteinaceous extracellular matrix" @@ -6641,6 +6836,7 @@ "val" : "Any biological process, occurring at the level of a multicellular organism, pertinent to its function.", "xrefs" : [ "GOC:curators", "GOC:dph", "GOC:isa_complete", "GOC:tb" ] }, + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", @@ -6650,6 +6846,9 @@ "val" : "single-multicellular organism process" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://purl.obolibrary.org/obo/RO_0002161", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_2" }, { @@ -6779,7 +6978,7 @@ "xrefs" : [ "GOC:dos", "GOC:mah" ] }, "comments" : [ "A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "macromolecular complex" @@ -7090,7 +7289,7 @@ "val" : "A prolongation or process extending from a cell, e.g. a flagellum or axon.", "xrefs" : [ "GOC:jl", "http://www.cogsci.princeton.edu/~wn/" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "cell process" @@ -7270,7 +7469,7 @@ "val" : "Organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton, and prokaryotic structures such as anammoxosomes and pirellulosomes. Excludes the plasma membrane.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "xrefs" : [ { "val" : "NIF_Subcellular:sao1539965131" }, { @@ -7598,7 +7797,7 @@ "val" : "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism.", "xrefs" : [ "GOC:go_curators", "http://www.metacyc.org" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "primary metabolism" @@ -7620,6 +7819,8 @@ "val" : "The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells.", "xrefs" : [ "GOC:jl" ] }, + "comments" : [ "This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular anabolism" @@ -7634,6 +7835,9 @@ "val" : "cellular synthesis" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27052" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -7682,7 +7886,7 @@ "val" : "The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane.", "xrefs" : [ "GOC:aruk", "ISBN:0198506732", "PMID:24619342", "PMID:29383328", "PMID:31998110" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_synapse" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_synapse" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "synaptic junction" @@ -7931,7 +8135,7 @@ "val" : "The biological process whose specific outcome is the progression of an anatomical structure from an initial condition to its mature state. This process begins with the formation of the structure and ends with the mature structure, whatever form that may be including its natural destruction. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome.", "xrefs" : [ "GO_REF:0000021" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "development of an anatomical structure" @@ -7967,7 +8171,7 @@ "val" : "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another.", "xrefs" : [ "GOC:dgh", "GOC:dph", "GOC:isa_complete", "GOC:mlg" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell locomotion" @@ -7981,6 +8185,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/19809" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002161", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_4890" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -8107,7 +8314,7 @@ "xrefs" : [ "GOC:ai", "GOC:bf" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "physiological response to stimulus" @@ -8206,7 +8413,7 @@ "val" : "Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation.", "xrefs" : [ "GOC:ai", "GOC:dos" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "establishment and maintenance of localization" @@ -8235,6 +8442,9 @@ "val" : "single-organism localization" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27052" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -8388,7 +8598,8 @@ "val" : "A cellular localization process whereby a substance or cellular entity, such as a protein complex or organelle, is transported to, and/or maintained in, a specific location within a cell including the localization of substances or cellular entities to the cell membrane.", "xrefs" : [ "GOC:tb", "GOC:vw" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular localisation", @@ -8414,6 +8625,9 @@ "val" : "single-organism cellular localization" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -8469,7 +8683,7 @@ "xrefs" : [ "GOC:bf", "GOC:jl" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -8504,7 +8718,7 @@ "xrefs" : [ "GOC:dph", "GOC:jid" ] }, "comments" : [ "Transmembrane transport is the transport of a solute across a lipid bilayer. Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane and is not traversed. For transport through the nuclear pore, consider instead the term 'nucleocytoplasmic transport ; GO:0006913' and its children. Note also that this term is not intended for use in annotating lateral movement within membranes." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "membrane transport" @@ -8968,7 +9182,8 @@ "val" : "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular component organisation or biogenesis", @@ -8982,6 +9197,9 @@ "val" : "cellular component organization or biogenesis at cellular level" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "mah" }, { @@ -9241,7 +9459,7 @@ "xrefs" : [ "GOC:dos" ] }, "comments" : [ "Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "region of plasma membrane" @@ -9687,6 +9905,7 @@ "val" : "The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon.", "xrefs" : [ "GOC:TermGenie", "GOC:pr" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "organic molecular entity anabolism", @@ -9720,6 +9939,9 @@ "val" : "organic substance synthesis" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/26424" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "pr" }, { @@ -12964,38 +13186,6 @@ "val" : "protein" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/PR_000050567", - "lbl" : "protein-containing material entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A material entity that minimally consists of a protein.", - "xrefs" : [ "PRO:DAN" ] - }, - "comments" : [ "Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566)." ], - "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "protein", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein aggregate", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein complex", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein-containing complex", - "xrefs" : [ "PRO:DAN" ] - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "protein" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000052", "lbl" : "characteristic of", @@ -13069,20 +13259,6 @@ "val" : "has_participant" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000079", - "lbl" : "function of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000080", "lbl" : "quality of", @@ -13097,33 +13273,6 @@ "val" : "A quality inheres in its bearer at all times for which the quality exists." } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000081", - "lbl" : "role of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000085", - "lbl" : "has function", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000086", "lbl" : "has quality", @@ -13137,39 +13286,6 @@ "val" : "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000087", - "lbl" : "has role", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000091", - "lbl" : "has disposition", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000092", - "lbl" : "disposition of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "inverse of has disposition" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0001000", "lbl" : "derives from", @@ -13292,104 +13408,6 @@ "val" : "bounding_layer_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002013", - "lbl" : "has regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." - }, - "xrefs" : [ { - "val" : "RO:0002013" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:30:46Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "has_regulatory_component_activity" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002014", - "lbl" : "has negative regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." - }, - "comments" : [ "By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'." ], - "xrefs" : [ { - "val" : "RO:0002014" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:31:01Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "has_negative_regulatory_component_activity" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002015", - "lbl" : "has positive regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." - }, - "comments" : [ "By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:31:17Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002017", - "lbl" : "has component activity", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:44:33Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002018", - "lbl" : "has component process", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:49:21Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002021", "lbl" : "occurs across", @@ -13406,72 +13424,6 @@ "val" : "2017-07-20T17:19:37Z" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002022", - "lbl" : "directly regulated by", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:24Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002023", - "lbl" : "directly negatively regulated by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:38Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002024", - "lbl" : "directly positively regulated by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:47Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002025", - "lbl" : "has effector activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "comments" : [ "This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-22T14:14:36Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002081", "lbl" : "before or simultaneous with", @@ -14621,20 +14573,6 @@ "val" : "A relationship that holds between entities participating in some developmental process (GO:0032502)" } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002327", - "lbl" : "enables", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c enables p iff c is capable of p and c acts to execute p." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Enables" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002328", "lbl" : "functionally related to", @@ -14662,19 +14600,6 @@ "val" : "holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002331", - "lbl" : "involved in", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved_in p if and only if c enables some process p', and p' is part of p" - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Involved_in" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002332", "lbl" : "regulates levels of", @@ -14694,20 +14619,6 @@ "val" : "regulates_levels_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002333", - "lbl" : "enabled by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "inverse of enables" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Enabled_by" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002334", "lbl" : "regulated by", @@ -15103,48 +15014,6 @@ "val" : "causally_downstream_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002405", - "lbl" : "immediately causally downstream of", - "type" : "PROPERTY", - "meta" : { - "xrefs" : [ { - "val" : "RO:0002405" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "immediately_causally_downstream_of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002407", - "lbl" : "indirectly positively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Indirectly_positively_regulates" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002409", - "lbl" : "indirectly negatively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Indirectly_negatively_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002410", "lbl" : "causally related to", @@ -15179,25 +15048,6 @@ "val" : "causally_upstream_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002412", - "lbl" : "immediately causally upstream of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." - }, - "xrefs" : [ { - "val" : "RO:0002412" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "immediately_causally_upstream_of" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002418", "lbl" : "causally upstream of or within", @@ -15253,28 +15103,6 @@ "val" : "c involved in regulation of p if c is involved in some p' and p' regulates some p" } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002429", - "lbl" : "involved in positive regulation of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002430", - "lbl" : "involved in negative regulation of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002428" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002431", "lbl" : "involved in or involved in regulation of", @@ -15288,25 +15116,6 @@ "val" : "OWL does not allow defining object properties via a Union" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002432", - "lbl" : "is active in", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure.", - "xrefs" : [ "https://orcid.org/0000-0002-6601-2165", "https://orcid.org/0000-0002-7073-9172" ] - }, - "comments" : [ "" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "enables activity in" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Is_active_in" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002433", "lbl" : "contributes to morphology of", @@ -15316,96 +15125,6 @@ "val" : "p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002434", - "lbl" : "interacts with", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "in pairwise interaction with" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Considering relabeling as 'pairwise interacts with'" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002436", - "lbl" : "molecularly interacts with", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ECO_0000353" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002447", - "lbl" : "phosphorylates", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Axiomatization to GO to be added later" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002448", - "lbl" : "directly regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly controls" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002449", - "lbl" : "directly negatively regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly decreases activity of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002450", - "lbl" : "directly positively regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly increases activity of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002464", - "lbl" : "helper property (not for use in curation)", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002473", "lbl" : "composed primarily of", @@ -15426,10 +15145,6 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002481", - "lbl" : "is kinase activity", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002485", "lbl" : "receives input from", @@ -15582,16 +15297,6 @@ "val" : "http://purl.obolibrary.org/obo/BFO_0000169" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002506", - "lbl" : "causal relation between entities", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002551", "lbl" : "has skeleton", @@ -15601,27 +15306,6 @@ "val" : "A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002559", - "lbl" : "causally influenced by", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002563", - "lbl" : "interaction relation helper property", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002564", - "lbl" : "molecular interaction relation helper property", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002565", "lbl" : "results in movement of", @@ -15642,15 +15326,6 @@ "val" : "results_in_movement_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002566", - "lbl" : "causally influences", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." - } - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002567", "lbl" : "biomechanically related to", @@ -15719,26 +15394,6 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002578", - "lbl" : "directly regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly regulates q iff p is immediately causally upstream of q and p regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002578" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002584", "lbl" : "has part structure that is capable of", @@ -15868,55 +15523,6 @@ "val" : "process_has_causal_agent" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002629", - "lbl" : "directly positively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002629" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_positively_regulates" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Directly_positively_regulates" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002630", - "lbl" : "directly negatively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002630" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_negatively_regulates" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Directly_negatively_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0003000", "lbl" : "produces", @@ -16038,102 +15644,6 @@ "val" : "has_primary_input" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004031", - "lbl" : "enables subfunction", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-25T23:20:13Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004032", - "lbl" : "acts upstream of or within, positive effect", - "type" : "PROPERTY", - "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:49:30Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004033", - "lbl" : "acts upstream of or within, negative effect", - "type" : "PROPERTY", - "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:49:51Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004034", - "lbl" : "acts upstream of, positive effect", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:53:14Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004035", - "lbl" : "acts upstream of, negative effect", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:53:22Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0004046", "lbl" : "causally upstream of or within, negative effect", @@ -16182,15 +15692,6 @@ "val" : "2018-03-14T00:03:24Z" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0011002", - "lbl" : "regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." - } - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0012000", "lbl" : "has small molecule regulator", @@ -16316,38 +15817,6 @@ "val" : "results_in_fusion_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0012011", - "lbl" : "indirectly causally upstream of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0003-1813-6857" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2022-09-26T06:07:17Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0012012", - "lbl" : "indirectly regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0003-1813-6857" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2022-09-26T06:08:01Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0013001", "lbl" : "has synaptic IO in region", @@ -16487,75 +15956,15 @@ "pred" : "hasBroadSynonym", "val" : "utilizes" } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2021-11-08T12:00:00Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019000", - "lbl" : "regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019000" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "regulates_characteristic" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019001", - "lbl" : "positively regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019001" - } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" + "val" : "https://orcid.org/0000-0001-9625-1899" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "positively_regulates_characteristic" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019002", - "lbl" : "negatively regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019002" - } ], - "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" + "val" : "https://orcid.org/0000-0003-2620-0345" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "negatively_regulates_characteristic" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2021-11-08T12:00:00Z" } ] } }, { @@ -16750,6 +16159,8 @@ "val" : "EHDAA:500" }, { "val" : "EMAPA:35955" + }, { + "val" : "FBbt:00005155" }, { "val" : "GAID:63" }, { @@ -17042,6 +16453,8 @@ "val" : "EHDAA2:0003003" }, { "val" : "EMAPA:0" + }, { + "val" : "FBbt:00007001" }, { "val" : "FMA:305751" }, { @@ -17939,6 +17352,8 @@ } ], "xrefs" : [ { "val" : "CARO:0001001" + }, { + "val" : "FBbt:00005099" }, { "val" : "NLX:147821" } ], @@ -18053,6 +17468,8 @@ "val" : "EHDAA:542" }, { "val" : "EMAPA:16262" + }, { + "val" : "FBbt:00003126" }, { "val" : "FMA:49184" }, { @@ -18378,6 +17795,8 @@ "val" : "EHDAA2:0003004" }, { "val" : "EMAPA:35178" + }, { + "val" : "FBbt:00007019" }, { "val" : "FMA:9669" }, { @@ -18450,6 +17869,8 @@ "val" : "CARO:0000005" }, { "val" : "EHDAA2:0003005" + }, { + "val" : "FBbt:00007017" }, { "val" : "FMA:5897" }, { @@ -18503,6 +17924,8 @@ "val" : "CARO:0000006" }, { "val" : "EHDAA2:0003006" + }, { + "val" : "FBbt:00007016" }, { "val" : "FMA:67165" }, { @@ -18553,6 +17976,8 @@ "val" : "CARO:0000007" }, { "val" : "EHDAA2:0003007" + }, { + "val" : "FBbt:00007015" }, { "val" : "FMA:67112" }, { @@ -18631,6 +18056,8 @@ "val" : "EMAPA:16103" }, { "val" : "EV:0100000" + }, { + "val" : "FBbt:00004856" }, { "val" : "FMA:7149" }, { @@ -18743,6 +18170,8 @@ "val" : "EMAPA:25765" }, { "val" : "EV:0100016" + }, { + "val" : "FBbt:00000001" }, { "val" : "FMA:256135" }, { @@ -18833,6 +18262,8 @@ "val" : "EHDAA2:0003032" }, { "val" : "EMAPA:36031" + }, { + "val" : "FBbt:00007009" }, { "val" : "FMA:7153" }, { @@ -18907,6 +18338,8 @@ "val" : "CARO:0000040" }, { "val" : "EHDAA2:0003040" + }, { + "val" : "FBbt:00007013" }, { "val" : "FMA:63863" }, { @@ -18945,6 +18378,8 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy", "http://purl.obolibrary.org/obo/uberon/core#upper_level" ], "xrefs" : [ { + "val" : "FBbt:00007277" + }, { "val" : "VHOG:0001737" } ], "basicPropertyValues" : [ { @@ -19001,6 +18436,8 @@ "val" : "EHDAA2:0003043" }, { "val" : "EMAPA:35868" + }, { + "val" : "FBbt:00007003" }, { "val" : "FMA:9637" }, { @@ -19071,6 +18508,8 @@ "val" : "CARO:0000055" }, { "val" : "EHDAA2:0003055" + }, { + "val" : "FBbt:00007010" }, { "val" : "HAO:0000055" }, { @@ -19135,6 +18574,8 @@ "val" : "EHDAA2:0003066" }, { "val" : "EMAPA:32738" + }, { + "val" : "FBbt:00007005" }, { "val" : "FMA:9639" }, { @@ -19463,6 +18904,8 @@ "val" : "EHDAA:38" }, { "val" : "EMAPA:16039" + }, { + "val" : "FBbt:00000052" }, { "val" : "FMA:69068" }, { @@ -19541,6 +18984,8 @@ "val" : "BTO:0000556" }, { "val" : "EMAPA:36033" + }, { + "val" : "FBbt:00000110" }, { "val" : "FMA:69069" }, { @@ -19602,6 +19047,8 @@ "val" : "EMAPA:16069" }, { "val" : "EV:0100003" + }, { + "val" : "FBbt:00000111" }, { "val" : "FMA:69070" }, { @@ -19671,6 +19118,8 @@ "val" : "EMAPA:16062" }, { "val" : "EV:0100005" + }, { + "val" : "FBbt:00000125" }, { "val" : "FMA:69071" }, { @@ -19753,6 +19202,8 @@ "val" : "EMAPA:16083" }, { "val" : "EV:0100006" + }, { + "val" : "FBbt:00000126" }, { "val" : "FMA:69072" }, { @@ -19842,6 +19293,8 @@ "val" : "EHDAA2:0001929" }, { "val" : "EMAPA:16263" + }, { + "val" : "FBbt:00000439" }, { "val" : "FMA:295846" }, { @@ -20153,6 +19606,8 @@ "val" : "EMAPA:16894" }, { "val" : "EV:0100164" + }, { + "val" : "FBbt:00005095" }, { "val" : "FMA:50801" }, { @@ -20637,6 +20092,8 @@ "val" : "EFO:0000827" }, { "val" : "EV:0100336" + }, { + "val" : "FBbt:00005162" }, { "val" : "GAID:69" }, { @@ -20767,6 +20224,8 @@ "val" : "CALOHA:TS-1293" }, { "val" : "EFO:0000793" + }, { + "val" : "FBbt:00005055" }, { "val" : "FMA:7152" }, { @@ -20970,6 +20429,8 @@ "val" : "EMAPA:16469" }, { "val" : "EV:0100162" + }, { + "val" : "FBbt:00005093" }, { "val" : "FMA:7157" }, { @@ -21072,6 +20533,8 @@ "val" : "EMAPA:16754" }, { "val" : "EV:0100163" + }, { + "val" : "FBbt:00005094" }, { "val" : "FMA:55675" }, { @@ -21149,6 +20612,8 @@ "val" : "BIRNLEX:1649" }, { "val" : "EV:0100304" + }, { + "val" : "FBbt:00005100" }, { "val" : "FMA:83847" }, { @@ -21276,6 +20741,8 @@ "val" : "EHDAA2:0003094" }, { "val" : "EMAPA:16192" + }, { + "val" : "FBbt:00007692" }, { "val" : "FMA:75259" }, { @@ -21342,6 +20809,8 @@ "val" : "EFO:0001652" }, { "val" : "EHDAA2:0003171" + }, { + "val" : "FBbt:00005495" }, { "val" : "FMA:86589" }, { @@ -21457,6 +20926,8 @@ "val" : "CARO:0000000" }, { "val" : "EHDAA2:0002229" + }, { + "val" : "FBbt:10000000" }, { "val" : "FMA:62955" }, { @@ -21885,6 +21356,8 @@ "val" : "EHDAA:518" }, { "val" : "EMAPA:16247" + }, { + "val" : "FBbt:00003125" }, { "val" : "FMA:45615" }, { @@ -25155,6 +24628,8 @@ "val" : "CALOHA:TS-2110" }, { "val" : "EFO:0000461" + }, { + "val" : "FBbt:00004208" }, { "val" : "FMA:69067" }, { @@ -26054,6 +25529,8 @@ "val" : "BTO:0001707" }, { "val" : "EHDAA2:0000267" + }, { + "val" : "FBbt:00005060" }, { "val" : "FMA:85006" }, { @@ -26367,6 +25844,8 @@ "val" : "EMAPA:16073" }, { "val" : "EV:0100004" + }, { + "val" : "FBbt:00001057" }, { "val" : "FMA:87657" }, { @@ -28469,6 +27948,8 @@ "val" : "AEO:0000114" }, { "val" : "EHDAA2:0003114" + }, { + "val" : "FBbt:00007474" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -29606,6 +29087,8 @@ "val" : "BILA:0000060" }, { "val" : "BTO:0001403" + }, { + "val" : "FBbt:00005317" }, { "val" : "FMA:293108" }, { @@ -29848,6 +29331,9 @@ "pred" : "hasNarrowSynonym", "val" : "joint" } ], + "xrefs" : [ { + "val" : "FBbt:00005811" + } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -29883,6 +29369,8 @@ "xrefs" : [ "FMA:71131" ] } ], "xrefs" : [ { + "val" : "FBbt:00100315" + }, { "val" : "FMA:71131" } ], "basicPropertyValues" : [ { @@ -30102,6 +29590,8 @@ "val" : "AAO:0011000" }, { "val" : "CARO:0001000" + }, { + "val" : "FBbt:00007060" }, { "val" : "FMA:83115" } ], @@ -30381,6 +29871,9 @@ "pred" : "hasExactSynonym", "val" : "light-sensitive tissue" } ], + "xrefs" : [ { + "val" : "FBbt:00004200" + } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -30428,6 +29921,8 @@ "val" : "CALOHA:TS-2122" }, { "val" : "EHDAA2:0003125" + }, { + "val" : "FBbt:00007006" }, { "val" : "FMA:292313" }, { @@ -32270,6 +31765,8 @@ "val" : "EFO:0001649" }, { "val" : "EHDAA2:0003170" + }, { + "val" : "FBbt:00005426" }, { "val" : "Wikipedia:Anlage_(biology)" } ], @@ -32658,6 +32155,8 @@ } ], "xrefs" : [ { "val" : "CARO:0010000" + }, { + "val" : "FBbt:00100313" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -33107,6 +32606,8 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#upper_level" ], "xrefs" : [ { + "val" : "FBbt:00007330" + }, { "val" : "FMA:67509" }, { "val" : "SCTID:91690000" @@ -33684,6 +33185,8 @@ }, "xrefs" : [ { "val" : "AEO:0000093" + }, { + "val" : "FBbt:00007278" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -34123,6 +33626,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy" ], "xrefs" : [ { "val" : "CARO:0020000" + }, { + "val" : "FBbt:00007276" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -34780,26 +34285,6 @@ } } ], "edges" : [ { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000004", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000015", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000020", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000040", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000141", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000000", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" @@ -35549,10 +35034,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000547", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0002242" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000547", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000547", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -35627,10 +35108,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000549", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000549", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -35653,10 +35130,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000550", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000550", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -35797,10 +35270,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000558", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000558", "pred" : "http://purl.obolibrary.org/obo/CL_4030046", @@ -35891,10 +35360,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000566", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0011026" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000566", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000566", "pred" : "http://purl.obolibrary.org/obo/RO_0002104", @@ -36135,10 +35600,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000837", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0008001" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000837", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000837", "pred" : "http://purl.obolibrary.org/obo/CL_4030046", @@ -36817,10 +36278,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0003015", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0003013" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0005575", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005576", "pred" : "is_a", @@ -36909,8 +36366,8 @@ "obj" : "http://purl.obolibrary.org/obo/GO_0043232" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005840", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", + "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005840", "pred" : "http://purl.obolibrary.org/obo/RO_0002216", @@ -37195,10 +36652,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0008016", "pred" : "http://purl.obolibrary.org/obo/RO_0002211", "obj" : "http://purl.obolibrary.org/obo/GO_0060047" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0008150", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000015" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0008152", "pred" : "is_a", @@ -37531,6 +36984,10 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0030097", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0048468" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0030097", + "pred" : "http://purl.obolibrary.org/obo/RO_0002160", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0030097", "pred" : "http://purl.obolibrary.org/obo/RO_0002296", @@ -37689,8 +37146,8 @@ "obj" : "http://purl.obolibrary.org/obo/GO_0005575" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0032991", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", + "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0032993", "pred" : "is_a", @@ -37771,10 +37228,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0040016", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/GO_0009790" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0042391", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0042391", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -38511,10 +37964,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0098644", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0099080" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0098644", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0098644", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -38875,10 +38324,6 @@ "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_9989", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_314147" - }, { - "sub" : "http://purl.obolibrary.org/obo/PATO_0000001", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000020" }, { "sub" : "http://purl.obolibrary.org/obo/PATO_0000051", "pred" : "is_a", @@ -39247,14 +38692,6 @@ "sub" : "http://purl.obolibrary.org/obo/PR_000036194", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_2759" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000050567", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000050567", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", - "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000019", "pred" : "is_a", @@ -39327,10 +38764,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000033", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_33213" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000042", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000042", "pred" : "is_a", @@ -39411,10 +38844,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000064", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000062" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", "pred" : "is_a", @@ -39431,10 +38860,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", "pred" : "http://purl.obolibrary.org/obo/BFO_0000063", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000071" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", "pred" : "is_a", @@ -39451,10 +38876,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", "pred" : "http://purl.obolibrary.org/obo/RO_0002082", "obj" : "http://purl.obolibrary.org/obo/GO_0009790" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000071", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000071", "pred" : "is_a", @@ -39517,10 +38938,6 @@ "val" : "EHDAA2" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", "pred" : "is_a", @@ -39533,10 +38950,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", "pred" : "http://purl.obolibrary.org/obo/RO_0002082", "obj" : "http://purl.obolibrary.org/obo/GO_0009791" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", "pred" : "is_a", @@ -39557,10 +38970,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000105", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000104" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", "pred" : "is_a", @@ -39573,10 +38982,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", "pred" : "http://purl.obolibrary.org/obo/RO_0002223", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000104" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", "pred" : "is_a", @@ -39593,10 +38998,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", "pred" : "http://purl.obolibrary.org/obo/RO_0002087", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000106" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", "pred" : "is_a", @@ -39609,10 +39010,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", "pred" : "http://purl.obolibrary.org/obo/BFO_0000062", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000107" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", "pred" : "is_a", @@ -39639,10 +39036,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", "pred" : "is_a", @@ -39663,10 +39056,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000111", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000111", "pred" : "is_a", @@ -39723,10 +39112,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000165", "pred" : "http://purl.obolibrary.org/obo/RO_0002202", "obj" : "http://purl.obolibrary.org/obo/UBERON_0035804" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000178", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000178", "pred" : "is_a", @@ -39829,18 +39214,10 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000464", "pred" : "http://purl.obolibrary.org/obo/RO_0002219", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000465", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000465", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001062" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000466", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000141" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000466", "pred" : "is_a", @@ -39915,10 +39292,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000481", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000479" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000483", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000483", "pred" : "is_a", @@ -40219,10 +39592,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000959", "pred" : "http://purl.obolibrary.org/obo/uberon/core#extends_fibers_into", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001908" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000964", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000964", "pred" : "is_a", @@ -41682,10 +41051,6 @@ "val" : "ZFA" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0001969", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0001969", "pred" : "is_a", @@ -41702,10 +41067,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0001969", "pred" : "http://purl.obolibrary.org/obo/RO_0002221", "obj" : "http://purl.obolibrary.org/obo/CL_0000232" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0001981", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0001981", "pred" : "is_a", @@ -43543,10 +42904,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0004456", "pred" : "http://purl.obolibrary.org/obo/RO_0002492", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000066" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0004535", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0004535", "pred" : "is_a", @@ -43563,10 +42920,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0004535", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001981" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0004537", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0004537", "pred" : "is_a", @@ -44075,10 +43428,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0005764", "pred" : "http://purl.obolibrary.org/obo/RO_0002007", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0005769", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0005769", "pred" : "is_a", @@ -44139,10 +43488,6 @@ "val" : "AEO-modified-relation" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0005906", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0005906", "pred" : "is_a", @@ -44471,10 +43816,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0006914", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/CL_0000076" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0006965", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0006965", "pred" : "is_a", @@ -45450,10 +44791,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0012275", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0004120" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0012430", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0012430", "pred" : "is_a", @@ -45914,38 +45251,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0000052", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002314" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000079", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000080", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000052" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000081", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000085", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000086", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000087", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000091", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000092", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002000", "pred" : "subPropertyOf", @@ -45962,58 +45275,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002007", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000050" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002013", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002017" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002013", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002334" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002014", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002013" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002014", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002335" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002015", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002013" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002015", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002336" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002017", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002018" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002018", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002180" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002021", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002479" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002022", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002334" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002023", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002022" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002024", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002022" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002025", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002017" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002081", "pred" : "subPropertyOf", @@ -46386,34 +45651,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002315", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0040036" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002327", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002215" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002329", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002331", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000056" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002331", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002431" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002332", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002333", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000057" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002333", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002334", "pred" : "subPropertyOf", @@ -46566,30 +45811,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002404", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002427" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002087" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002404" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002407", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002213" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002407", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012012" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002409", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002212" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002409", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012012" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002411", "pred" : "subPropertyOf", @@ -46598,14 +45819,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002411", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002418" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002412", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002090" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002412", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002411" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002418", "pred" : "subPropertyOf", @@ -46622,14 +45835,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002428", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002431" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002429", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002428" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002430", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002428" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002431", "pred" : "subPropertyOf", @@ -46642,50 +45847,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002431", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002500" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002432", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002131" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002432", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002433", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002131" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002436", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002434" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002447", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002436" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002448", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002436" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002448", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0011002" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002449", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002448" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002450", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002448" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002473", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000051" - 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}, { "sub" : "http://purl.obolibrary.org/obo/RO_0004046", "pred" : "subPropertyOf", @@ -46954,10 +46051,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0004047", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002418" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0011002", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002566" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0012000", "pred" : "subPropertyOf", @@ -46986,18 +46079,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0012008", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002592" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0012011", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002411" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0012012", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002211" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0012012", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012011" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0013001", "pred" : "subPropertyOf", @@ -47022,18 +46103,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0015016", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002104" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0019000", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002410" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0019001", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0019000" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0019002", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0019000" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0040036", "pred" : "subPropertyOf", @@ -47102,22 +46171,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0000056", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000057" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000079", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000085" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000080", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000086" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000081", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000087" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000091", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000092" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0001000", "pred" : "inverseOf", @@ -47138,18 +46195,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002006", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002130" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002022", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002023", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002630" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002024", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002629" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002087", "pred" : "inverseOf", @@ -47230,10 +46275,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002297", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002354" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002327", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002333" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002350", "pred" : "inverseOf", @@ -47246,10 +46287,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002404", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002411" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002412" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002418", "pred" : 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"http://purl.obolibrary.org/obo/RO_0002100", "domainClassIds" : [ "http://purl.obolibrary.org/obo/CL_0000540" ], @@ -49980,55 +48950,13 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002134", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000122" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002150", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002176", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002177", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ], "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002202", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002206", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000465" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002211", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002215", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002220", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002222", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000003" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000003" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002226", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0001062" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002231", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002232", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002233", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002254", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0001062" ], @@ -50037,119 +48965,32 @@ "predicateId" : "http://purl.obolibrary.org/obo/RO_0002256", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000465" ], "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000465" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002258", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002295", "domainClassIds" : [ "http://purl.obolibrary.org/obo/GO_0008150" ], "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0001062" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002330", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002332", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002334", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002337", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002372", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002373", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002375", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002384", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0001062" ], "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0001062" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002434", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002448", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002449", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002450", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002473", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002479", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000003" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002487", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000003" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002501", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000003" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000003" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002506", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002551", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ], "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000465" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002566", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002567", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ], "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002570", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002572", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000141" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002576", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ], "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002595", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0003000", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0003001", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0011002", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0013007", "domainClassIds" : [ "http://purl.obolibrary.org/obo/CL_0000101" ] @@ -50172,21 +49013,11 @@ "predicateId" : "http://purl.obolibrary.org/obo/RO_0015016", "domainClassIds" : [ "http://purl.obolibrary.org/obo/CL_0000000" ] }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019000", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/PATO_0000001" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0000053", - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000020" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002007", - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] + "predicateId" : "http://purl.obolibrary.org/obo/RO_0002206", + "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000465" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002315", "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002571", - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] } ], "propertyChainAxioms" : [ { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002131", @@ -50272,24 +49103,9 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002226", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002207", "http://purl.obolibrary.org/obo/RO_0001025" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002211", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0002025" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019000", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0019000" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002213", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002212", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019002", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002212", "http://purl.obolibrary.org/obo/RO_0019001" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019001", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002213", "http://purl.obolibrary.org/obo/RO_0019001" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019002", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002213", "http://purl.obolibrary.org/obo/RO_0019002" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002162", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002215", "http://purl.obolibrary.org/obo/RO_0002162" ] @@ -50350,87 +49166,12 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002314", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002314", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002331", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002327", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000051" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004031", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000051" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002327", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002017" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002428", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002211" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002448", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002430", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002429", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002213" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004034", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002304" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004035", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002305" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002263", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002566", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411", "http://purl.obolibrary.org/obo/RO_0002233" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002566", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002264", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002418" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002450", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002449", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004033", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0004046" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004032", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0004047" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002331", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002428", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002211" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002430", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002429", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002213" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002338", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002338", "http://purl.obolibrary.org/obo/BFO_0000050" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002339", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002339", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002407", "http://purl.obolibrary.org/obo/RO_0002629" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002409", "http://purl.obolibrary.org/obo/RO_0002409" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002409", "http://purl.obolibrary.org/obo/RO_0002630" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002488", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002488", "http://purl.obolibrary.org/obo/BFO_0000050" ] @@ -50458,21 +49199,6 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/uberon/core#indirectly_supplies", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002569", "http://purl.obolibrary.org/obo/uberon/core#indirectly_supplies" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002211", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002578", "http://purl.obolibrary.org/obo/RO_0002578" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002407" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002629" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002409" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002630" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0013001", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0013001", "http://purl.obolibrary.org/obo/BFO_0000050" ] diff --git a/src/ontology/subsets/eye_upper_slim.obo b/src/ontology/subsets/eye_upper_slim.obo index d5390cbe7..b4002a747 100644 --- a/src/ontology/subsets/eye_upper_slim.obo +++ b/src/ontology/subsets/eye_upper_slim.obo @@ -1,5 +1,5 @@ format-version: 1.2 -data-version: cl/releases/2024-04-05/subsets/eye_upper_slim.owl +data-version: cl/releases/2024-05-15/subsets/eye_upper_slim.owl subsetdef: abnormal_slim "" subsetdef: added_for_HCA "" subsetdef: attribute_slim "" @@ -19,19 +19,21 @@ subsetdef: eye_upper_slim "a subset of general classes related to specific cell subsetdef: functional_classification "" subsetdef: general_cell_types_upper_slim "a subset of general classes of cell types in the cell ontology." subsetdef: gocheck_do_not_annotate "" -subsetdef: gocheck_do_not_manually_annotate "" subsetdef: goslim_agr "" subsetdef: goslim_candida "" subsetdef: goslim_chembl "" subsetdef: goslim_drosophila "" +subsetdef: goslim_euk_cellular_processes_ribbon "" subsetdef: goslim_flybase_ribbon "" subsetdef: goslim_generic "" subsetdef: goslim_metagenomics "" subsetdef: goslim_mouse "" subsetdef: goslim_pir "" subsetdef: goslim_plant "" +subsetdef: goslim_plant_ribbon "" subsetdef: goslim_pombe "" subsetdef: goslim_prokaryote "" +subsetdef: goslim_prokaryote_ribbon "" subsetdef: goslim_synapse "" subsetdef: goslim_yeast "" subsetdef: grouping_class "" @@ -88,56 +90,7 @@ synonymtypedef: synonym "" synonymtypedef: SYSTEMATIC "" synonymtypedef: systematic_synonym "" ontology: cl/subsets/eye_upper_slim -property_value: owl:versionInfo "2024-04-05" xsd:string - -[Term] -id: BFO:0000002 -name: continuant -def: "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." [] -disjoint_from: BFO:0000003 ! occurrent -relationship: part_of BFO:0000002 {all_only="true"} ! continuant - -[Term] -id: BFO:0000003 -name: occurrent -def: "An entity that has temporal parts and that happens, unfolds or develops through time." [] -relationship: part_of BFO:0000003 {all_only="true"} ! occurrent - -[Term] -id: BFO:0000004 -name: independent continuant -def: "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" [] -comment: A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. -is_a: BFO:0000002 ! continuant -disjoint_from: BFO:0000020 ! specifically dependent continuant -relationship: part_of BFO:0000004 {all_only="true"} ! independent continuant - -[Term] -id: BFO:0000015 -name: process -def: "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" [] -comment: An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. -is_a: BFO:0000003 ! occurrent - -[Term] -id: BFO:0000020 -name: specifically dependent continuant -def: "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" [] -comment: A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. -is_a: BFO:0000002 ! continuant -relationship: part_of BFO:0000020 {all_only="true"} ! specifically dependent continuant - -[Term] -id: BFO:0000040 -name: material entity -def: "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." [] -is_a: BFO:0000004 ! independent continuant -disjoint_from: BFO:0000141 ! immaterial entity - -[Term] -id: BFO:0000141 -name: immaterial entity -is_a: BFO:0000004 ! independent continuant +property_value: owl:versionInfo "2024-05-15" xsd:string [Term] id: CL:0000000 @@ -147,7 +100,7 @@ comment: The definition of cell is intended to represent all cells, and thus a c subset: cellxgene_subset subset: ubprop:upper_level xref: CALOHA:TS-2035 -xref: FBbt:00007002 +xref: FBbt:00007002 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:68646 xref: GO:0005623 xref: KUPO:0000002 @@ -155,6 +108,7 @@ xref: MESH:D002477 xref: VHOG:0001533 xref: WBbt:0004017 xref: XAO:0003012 +xref: ZFA:0009000 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: UBERON:0000061 ! anatomical structure disjoint_from: GO:0031012 ! extracellular matrix disjoint_from: GO:0032991 ! protein-containing complex @@ -174,8 +128,10 @@ relationship: RO:0002202 CL:0000008 ! develops from migratory cranial neural cre [Term] id: CL:0000006 name: neuronal receptor cell +def: "Any sensory receptor cell that is a(n) neuron and is capable of some detection of stimulus involved in sensory perception." [FBC:Autogenerated] subset: cellxgene_subset synonym: "neuronal receptor cell (sensu Animalia)" EXACT [] +xref: ZFA:0009001 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000101 ! sensory neuron is_a: CL:0000197 ! sensory receptor cell intersection_of: CL:0000197 ! sensory receptor cell @@ -186,18 +142,21 @@ intersection_of: capable_of GO:0050906 ! detection of stimulus involved in senso id: CL:0000007 name: early embryonic cell (metazoa) def: "A cell found in the embryo before the formation of all the gem layers is complete." [GOC:tfm] +xref: ZFA:0009002 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) [Term] id: CL:0000008 name: migratory cranial neural crest cell def: "Cell that is part of the migratory cranial neural crest population. Migratory cranial neural crest cells develop from premigratory cranial neural crest cells and have undergone epithelial to mesenchymal transition and delamination." [https://orcid.org/0000-0001-5208-3432, ZFA:0007091] +xref: ZFA:0007091 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000333 ! migratory neural crest cell [Term] id: CL:0000030 name: glioblast subset: cellxgene_subset +xref: ZFA:0009010 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell relationship: RO:0002202 CL:0000133 ! develops from neurectodermal cell @@ -209,6 +168,7 @@ subset: cellxgene_subset synonym: "neuroblast" EXACT [] xref: BTO:0000930 xref: FMA:70563 +xref: ZFA:0009011 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0000255 ! eukaryotic cell relationship: RO:0002160 NCBITaxon:7742 ! only in taxon Vertebrata @@ -224,6 +184,7 @@ subset: human_reference_atlas synonym: "animal stem cell" EXACT [] xref: CALOHA:TS-2086 xref: FMA:63368 +xref: ZFA:0005957 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0011115 ! precursor cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0017145 ! stem cell division @@ -248,6 +209,7 @@ xref: CALOHA:TS-0448 xref: FMA:86475 xref: MESH:D006412 xref: VHOG:0001485 +xref: ZFA:0009014 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000723 ! somatic stem cell is_a: CL:0008001 ! hematopoietic precursor cell is_a: CL:0011026 ! progenitor cell @@ -295,6 +257,7 @@ synonym: "CFU-E" RELATED OMO:0003000 [] synonym: "colony forming unit erythroid" RELATED [] synonym: "erythroid stem cell" RELATED [] xref: BTO:0004911 +xref: ZFA:0009015 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000764 ! erythroid lineage cell is_a: CL:0000839 {is_inferred="true"} ! myeloid lineage restricted progenitor cell relationship: RO:0002202 CL:0000050 ! develops from megakaryocyte-erythroid progenitor cell @@ -308,6 +271,7 @@ synonym: "multifate stem cell" EXACT [] synonym: "multipotent cell" EXACT [] synonym: "multipotent stem cell" EXACT [] xref: FMA:84789 +xref: ZFA:0009020 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000034 ! stem cell intersection_of: CL:0000000 ! cell intersection_of: bearer_of PATO:0001402 ! multipotent @@ -330,6 +294,7 @@ synonym: "multipotential myeloid stem cell" RELATED [ISBN:0878932437] synonym: "myeloid stem cell" RELATED [ISBN:0878932437] synonym: "pluripotent stem cell (bone marrow)" RELATED [ISBN:0878932437] xref: BTO:0004730 +xref: ZFA:0009021 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell disjoint_from: CL:0000050 ! megakaryocyte-erythroid progenitor cell property_value: RO:0002175 NCBITaxon:9606 @@ -348,6 +313,7 @@ synonym: "Meg/E progenitor" EXACT [] synonym: "megakaryocyte/erythrocyte progenitor" EXACT [] synonym: "megakaryocyte/erythroid progenitor cell" EXACT [] synonym: "MEP" EXACT [] +xref: ZFA:0009022 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell is_a: CL:0011026 ! progenitor cell @@ -365,6 +331,7 @@ def: "A stem cell from which all cells of the body can form." [GOC:add, GOC:tfm] synonym: "totipotential stem cell" EXACT [] xref: FMA:84790 xref: MESH:D039901 +xref: ZFA:0009024 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000723 ! somatic stem cell [Term] @@ -384,9 +351,10 @@ name: myoblast def: "A cell that is commited to differentiating into a muscle cell. Embryonic myoblasts develop from the mesoderm. They undergo proliferation, migrate to their various sites, and then differentiate into the appropriate form of myocytes. Myoblasts also occur as transient populations of cells in muscles undergoing repair." [GOC:tfm, MESH:D032446, PMID:21849021] xref: BTO:0000222 xref: CALOHA:TS-0650 -xref: FBbt:00005083 +xref: FBbt:00005083 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:70335 xref: VHOG:0001529 +xref: ZFA:0009025 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000680 ! muscle precursor cell [Term] @@ -402,6 +370,7 @@ xref: CALOHA:TS-0362 xref: FMA:63877 xref: NCIT:C12482 xref: VHOG:0001482 +xref: ZFA:0009026 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002320 ! connective tissue cell relationship: RO:0002202 CL:0000134 ! develops from mesenchymal stem cell property_value: RO:0002175 NCBITaxon:9606 @@ -417,9 +386,10 @@ synonym: "epitheliocyte" EXACT [] xref: BTO:0000414 xref: CALOHA:TS-2026 xref: CARO:0000077 -xref: FBbt:00000124 +xref: FBbt:00000124 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:66768 xref: WBbt:0003672 +xref: ZFA:0009034 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell relationship: part_of UBERON:0000483 ! epithelium property_value: http://xmlns.com/foaf/0.1/depiction "https://www.swissbiopics.org/api/image/Epithelial_cells.svg" xsd:anyURI @@ -432,6 +402,7 @@ def: "An endothelial cell that lines the vasculature." [GOC:tfm] subset: cellxgene_subset subset: human_reference_atlas synonym: "cuboidal endothelial cell of vascular tree" EXACT [] +xref: ZFA:0009036 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000076 {is_inferred="true"} ! squamous epithelial cell is_a: CL:0002139 ! endothelial cell of vascular tree intersection_of: CL:0000076 ! squamous epithelial cell @@ -446,6 +417,7 @@ name: columnar/cuboidal epithelial cell def: "A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube." [GO:0002065, https://orcid.org/0000-0001-5208-3432] subset: cellxgene_subset subset: human_reference_atlas +xref: ZFA:0009038 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell property_value: RO:0002175 NCBITaxon:9606 @@ -454,6 +426,7 @@ id: CL:0000076 name: squamous epithelial cell subset: cellxgene_subset xref: CALOHA:TS-1249 +xref: ZFA:0009039 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell [Term] @@ -464,6 +437,7 @@ subset: cellxgene_subset subset: human_reference_atlas synonym: "mesotheliocyte" EXACT [] xref: FMA:66773 +xref: ZFA:0009040 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000076 ! squamous epithelial cell is_a: CL:0000213 ! lining cell is_a: CL:0002078 ! meso-epithelial cell @@ -477,6 +451,7 @@ subset: cellxgene_subset subset: general_cell_types_upper_slim xref: FMA:62844 xref: MESH:D001773 +xref: ZFA:0009044 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: capable_of GO:0008015 ! blood circulation @@ -496,9 +471,10 @@ def: "Most generally any neuron which is not motor or sensory. Interneurons may subset: cellxgene_subset subset: human_reference_atlas xref: BTO:0003811 -xref: FBbt:00005125 +xref: FBbt:00005125 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67313 xref: WBbt:0005113 +xref: ZFA:0009051 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000540 ! neuron property_value: RO:0002175 NCBITaxon:9606 @@ -506,15 +482,18 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000101 name: sensory neuron def: "Any neuron having a sensory function; an afferent neuron conveying sensory impulses." [ISBN:0721662544] +subset: human_reference_atlas xref: BTO:0001037 -xref: FBbt:00005124 +xref: FBbt:00005124 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:84649 xref: MESH:D011984 xref: WBbt:0005759 +xref: ZFA:0009053 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000526 ! afferent neuron intersection_of: CL:0000540 ! neuron intersection_of: capable_of GO:0050906 ! detection of stimulus involved in sensory perception relationship: capable_of GO:0050906 ! detection of stimulus involved in sensory perception +property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000103 @@ -523,6 +502,7 @@ def: "A type of interneuron that has two neurites, usually an axon and a dendrit subset: BDS_subset subset: cellxgene_subset xref: FMA:67282 +xref: ZFA:0009055 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000099 ! interneuron intersection_of: CL:0000099 ! interneuron intersection_of: bearer_of PATO:0070006 ! cortical bipolar morphology @@ -539,6 +519,7 @@ synonym: "endotheliocyte" EXACT [] xref: BTO:0001176 xref: CALOHA:TS-0278 xref: FMA:66772 +xref: ZFA:0009065 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000213 ! lining cell is_a: CL:0002078 ! meso-epithelial cell property_value: RO:0002175 NCBITaxon:9606 @@ -546,6 +527,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000117 name: CNS neuron (sensu Vertebrata) +xref: ZFA:0009067 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000540 ! neuron relationship: part_of UBERON:0001017 ! central nervous system relationship: RO:0002202 CL:0000031 ! develops from neuroblast (sensu Vertebrata) @@ -566,13 +548,16 @@ def: "A non-neuronal cell of the nervous system. They not only provide physical comment: Not all glial cells develop from glioblasts, with microglia developing from the mesoderm instead. See https://github.com/obophenotype/cell-ontology/issues/1571 subset: cellxgene_subset subset: general_cell_types_upper_slim +subset: human_reference_atlas synonym: "neuroglia" RELATED [] synonym: "neuroglial cell" EXACT [] xref: BTO:0002606 xref: CALOHA:TS-0415 -xref: FBbt:00005144 +xref: FBbt:00005144 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:54536 +xref: ZFA:0009073 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000095 ! neuron associated cell +property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000126 @@ -584,6 +569,7 @@ synonym: "macrogliocyte" EXACT [] xref: BTO:0000771 xref: CALOHA:TS-2027 xref: FMA:54538 +xref: ZFA:0009074 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000125 ! glial cell relationship: RO:0002202 CL:0000339 ! develops from glioblast (sensu Vertebrata) @@ -598,6 +584,7 @@ synonym: "astrocytic glia" EXACT [] xref: BTO:0000099 xref: CALOHA:TS-0060 xref: FMA:54537 +xref: ZFA:0009075 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000126 ! macroglial cell property_value: RO:0002175 NCBITaxon:9606 @@ -610,6 +597,7 @@ subset: eye_upper_slim subset: human_reference_atlas xref: CALOHA:TS-0172 xref: FMA:70614 +xref: ZFA:0009079 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000115 ! endothelial cell is_a: CL:0000710 ! neurecto-epithelial cell relationship: part_of UBERON:0001985 ! corneal endothelium @@ -621,6 +609,7 @@ id: CL:0000133 name: neurectodermal cell def: "Ectoderm destined to be nervous tissue." [GOC:tfm, ISBN:068340007X] synonym: "neurectoderm cell" EXACT [] +xref: ZFA:0009080 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000221 ! ectodermal cell [Term] @@ -644,6 +633,7 @@ synonym: "stem cells, mesenchymal" RELATED OMO:0003004 [MESH:D044982] xref: BTO:0002625 xref: BTO:0003298 xref: FMA:70546 +xref: ZFA:0009081 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000048 ! multi fate stem cell is_a: CL:0002320 {is_inferred="true"} ! connective tissue cell property_value: seeAlso "https://github.com/obophenotype/cell-ontology/issues/474" xsd:string @@ -655,6 +645,7 @@ def: "A pigment cell is a cell that contains pigment granules." [GOC:tfm] synonym: "chromatocyte" EXACT [] synonym: "chromatophore" EXACT [] xref: VHOG:0001678 +xref: ZFA:0009090 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000325 ! stuff accumulating cell [Term] @@ -670,6 +661,7 @@ xref: CALOHA:TS-0613 xref: FMA:70545 xref: MESH:D008544 xref: VHOG:0001679 +xref: ZFA:0009091 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000147 ! pigment cell intersection_of: CL:0000147 ! pigment cell intersection_of: has_part GO:0042470 ! melanosome @@ -713,9 +705,10 @@ synonym: "myocyte" EXACT [] xref: BTO:0000888 xref: BTO:0000902 xref: CALOHA:TS-2032 -xref: FBbt:00005074 +xref: FBbt:00005074 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67328 xref: WBbt:0003675 +xref: ZFA:0009114 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000183 ! contractile cell is_a: CL:0000393 ! electrically responsive cell relationship: RO:0002202 CL:0000056 ! develops from myoblast @@ -735,6 +728,7 @@ synonym: "smooth muscle fiber" EXACT [] xref: BTO:0004576 xref: CALOHA:TS-2159 xref: FMA:14072 +xref: ZFA:0009118 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008000 ! non-striated muscle cell is_a: CL:0008007 ! visceral muscle cell relationship: RO:0002202 CL:0000514 ! develops from smooth muscle myoblast @@ -760,7 +754,9 @@ def: "A cell specialized to detect and transduce light." [MESH:D010786] subset: cellxgene_subset xref: BTO:0001060 xref: CALOHA:TS-0868 +xref: FBbt:00004211 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:86740 +xref: ZFA:0009127 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000006 {is_inferred="true"} ! neuronal receptor cell intersection_of: CL:0000540 ! neuron intersection_of: capable_of GO:0050962 ! detection of light stimulus involved in sensory perception @@ -771,6 +767,7 @@ property_value: http://xmlns.com/foaf/0.1/depiction "https://www.swissbiopics.or id: CL:0000211 name: electrically active cell def: "A cell whose function is determined by the generation or the reception of an electric signal." [FB:ma] +xref: ZFA:0009128 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -778,18 +775,21 @@ id: CL:0000213 name: lining cell def: "A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism." [JB:jb] synonym: "boundary cell" EXACT [] +xref: ZFA:0009130 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000215 ! barrier cell [Term] id: CL:0000215 name: barrier cell def: "A cell whose primary function is to prevent the transport of stuff across compartments." [JB:jb] +xref: ZFA:0009132 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] id: CL:0000219 name: motile cell def: "A cell that moves by its own activities." [FB:ma] +xref: ZFA:0009136 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0048870 ! cell motility @@ -801,6 +801,7 @@ name: ectodermal cell def: "A cell of the outer of the three germ layers of the embryo." [MESH:D004475] synonym: "ectoderm cell" EXACT [] xref: FMA:72549 +xref: ZFA:0009137 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000924 ! ectoderm @@ -812,6 +813,7 @@ subset: cellxgene_subset synonym: "mesoblast" EXACT [] synonym: "mesoderm cell" EXACT [] xref: FMA:72554 +xref: ZFA:0009138 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000926 ! mesoderm @@ -821,6 +823,7 @@ name: endodermal cell def: "A cell of the inner of the three germ layers of the embryo." [MESH:D004707] synonym: "endoderm cell" EXACT [] xref: FMA:72555 +xref: ZFA:0009139 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000925 ! endoderm @@ -854,6 +857,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000255 name: eukaryotic cell +def: "Any cell that only exists in Eukaryota." [FBC:Autogenerated] subset: cellxgene_subset xref: MESH:D005057 is_a: CL:0000000 ! cell @@ -864,9 +868,11 @@ relationship: RO:0002160 NCBITaxon:2759 ! only in taxon Eukaryota [Term] id: CL:0000287 name: eye photoreceptor cell +def: "Any photoreceptor cell that is part of some eye." [FBC:Autogenerated] subset: cellxgene_subset subset: eye_upper_slim subset: human_reference_atlas +xref: ZFA:0009154 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000210 ! photoreceptor cell intersection_of: CL:0000210 ! photoreceptor cell intersection_of: part_of UBERON:0000970 ! eye @@ -877,6 +883,7 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000293 name: structural cell def: "A cell whose primary function is to provide structural support, to provide strength and physical integrity to the organism." [TAIR:sr] +xref: ZFA:0005745 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -896,6 +903,8 @@ is_a: CL:0000000 ! cell [Term] id: CL:0000329 name: oxygen accumulating cell +def: "Any cell that is capable of some oxygen transport." [FBC:Autogenerated] +xref: ZFA:0009164 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0015671 ! oxygen transport @@ -906,6 +915,7 @@ id: CL:0000333 name: migratory neural crest cell def: "A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body." [doi:10.1016/j.stem.2015.02.017] xref: FMA:86667 +xref: ZFA:0007086 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000219 ! motile cell is_a: CL:0011012 ! neural crest cell is_a: CL:0011026 ! progenitor cell @@ -915,6 +925,7 @@ relationship: RO:0002202 CL:0007004 ! develops from premigratory neural crest ce id: CL:0000335 name: mesenchyme condensation cell def: "A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors." [GOC:tfm, PMID:5025404] +xref: ZFA:0009166 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008019 ! mesenchymal cell [Term] @@ -923,6 +934,7 @@ name: glioblast (sensu Vertebrata) def: "An early neural cell developing from the early ependymal cell of the neural tube." [GOC:tfm, ISBN:0618947256] synonym: "spongioblast" EXACT [] xref: FMA:70564 +xref: ZFA:0009169 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000030 ! glioblast is_a: CL:0000123 ! neuron associated cell (sensu Vertebrata) is_a: CL:0011026 ! progenitor cell @@ -931,6 +943,7 @@ is_a: CL:0011026 ! progenitor cell id: CL:0000342 name: pigment cell (sensu Vertebrata) def: "Any animal cell containing pigment granules." [GOC:tfm, ISBN:0721662544] +xref: ZFA:0009170 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000147 ! pigment cell is_a: CL:0000255 ! eukaryotic cell relationship: RO:0002160 NCBITaxon:7742 ! only in taxon Vertebrata @@ -940,6 +953,7 @@ id: CL:0000347 name: scleral cell def: "A cell of the sclera of the eye." [GOC:add] subset: eye_upper_slim +xref: ZFA:0009174 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000293 ! structural cell intersection_of: CL:0000293 ! structural cell intersection_of: part_of UBERON:0001773 ! sclera @@ -951,6 +965,7 @@ id: CL:0000348 name: choroidal cell of the eye def: "A structural cell that is part of optic choroid." [GOC:add] subset: eye_upper_slim +xref: ZFA:0009175 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000293 ! structural cell intersection_of: CL:0000293 ! structural cell intersection_of: part_of UBERON:0001776 ! optic choroid @@ -982,6 +997,7 @@ relationship: RO:0002160 NCBITaxon:33208 ! only in taxon Metazoa id: CL:0000393 name: electrically responsive cell def: "A cell whose function is determined by its response to an electric signal." [FB:ma] +xref: ZFA:0009190 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000211 ! electrically active cell [Term] @@ -990,6 +1006,7 @@ name: CNS interneuron def: "An interneuron that has its cell body in a central nervous system." [doi:10.1016/B978-0-12-817424-1.00001-X] comment: Interneurons are commonly described as being only found in the central nervous system. However, in CL we define 'interneuron' more broadly as any neuron that is neither a motor neuron nor a sensory neuron, regardless of its location, so we need this term to refer strictly to interneurons of the central nervous system. subset: human_reference_atlas +xref: ZFA:0009191 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000099 ! interneuron is_a: CL:2000029 ! central nervous system neuron intersection_of: CL:0000099 ! interneuron @@ -1000,6 +1017,7 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000404 name: electrically signaling cell def: "A cell that initiates an electrical signal and passes that signal to another cell." [FB:ma] +xref: ZFA:0009193 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000211 ! electrically active cell [Term] @@ -1010,6 +1028,7 @@ subset: cellxgene_subset synonym: "myoblast, smooth muscle" EXACT [MESH:D032390] synonym: "satellite cell" RELATED [] xref: FMA:84798 +xref: ZFA:0009235 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000056 ! myoblast intersection_of: CL:0000056 ! myoblast intersection_of: RO:0002203 CL:0000192 ! develops into smooth muscle cell @@ -1022,6 +1041,7 @@ def: "A neuron which conveys sensory information centrally from the periphery." subset: human_reference_atlas synonym: "input neuron" EXACT [] xref: FMA:87653 +xref: ZFA:0009238 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000540 ! neuron property_value: RO:0002175 NCBITaxon:9606 @@ -1029,6 +1049,7 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000529 name: pigmented epithelial cell subset: cellxgene_subset +xref: ZFA:0009241 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000710 ! neurecto-epithelial cell [Term] @@ -1042,10 +1063,11 @@ subset: human_reference_atlas synonym: "nerve cell" EXACT [] xref: BTO:0000938 xref: CALOHA:TS-0683 -xref: FBbt:00005106 +xref: FBbt:00005106 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:54527 xref: VHOG:0001483 xref: WBbt:0003679 +xref: ZFA:0009248 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000393 ! electrically responsive cell is_a: CL:0000404 ! electrically signaling cell is_a: CL:0002319 ! neural cell @@ -1060,6 +1082,7 @@ def: "A cell that originates from the neural crest and differentiates into a pig comment: Derived from UBERON:0002342 neural crest. xref: BTO:0003217 xref: FMA:83377 +xref: ZFA:0009249 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0011026 ! progenitor cell relationship: RO:0002202 CL:0000333 ! develops from migratory neural crest cell @@ -1075,7 +1098,6 @@ synonym: "rubriblast" EXACT [ISBN:0721601464] xref: FMA:83518 is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell is_a: CL:0002242 ! nucleate cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: bearer_of PATO:0002505 ! nucleated intersection_of: bearer_of PATO:0040072 ! high nuclear/cytoplasmic ratio @@ -1119,8 +1141,8 @@ synonym: "early erythroblast" EXACT [ISBN:0721601464] synonym: "early normoblast" EXACT [ISBN:0721601464] synonym: "prorubricyte" EXACT [ISBN:0721601464] xref: FMA:83505 +xref: ZFA:0005236 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000765 {is_inferred="true"} ! erythroblast -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000765 ! erythroblast intersection_of: has_part CL:0017503 ! basophilic cytoplasm intersection_of: has_part GO:0000792 ! heterochromatin @@ -1140,8 +1162,8 @@ synonym: "polychromatic normoblast" EXACT [ISBN:0721601464] synonym: "polychromatophilic normoblast" EXACT [ISBN:0721601464] synonym: "rubricyte" EXACT [ISBN:0721601464] xref: FMA:83506 +xref: ZFA:0005241 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000765 {is_inferred="true"} ! erythroblast -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000765 ! erythroblast intersection_of: has_part CL:0017504 ! polychromatophilic cytoplasm intersection_of: has_part GO:0000792 ! heterochromatin @@ -1253,8 +1275,8 @@ subset: cellxgene_subset xref: BTO:0001173 xref: CALOHA:TS-0864 xref: MESH:D012156 +xref: ZFA:0009252 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: capable_of GO:0071971 ! extracellular exosome assembly intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -1296,6 +1318,7 @@ synonym: "ACs" RELATED OMO:0003004 [doi:10.1038/s41598-020-66092-9] synonym: "amacrine neuron" EXACT [] xref: BTO:0004044 xref: FMA:67766 +xref: ZFA:0009255 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000099 ! interneuron is_a: CL:0009004 ! retinal cell relationship: part_of UBERON:0000966 ! retina @@ -1310,9 +1333,9 @@ def: "A mesenchymal stem cell capable of developing into blood vessel endotheliu comment: These cells are reportedly CD31-positive, CD34-positive, CD144-positive, CD309-positive, and TAL1-positive. synonym: "angioblast" EXACT [] synonym: "chondroplast" EXACT [] +xref: ZFA:0009258 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000134 {is_inferred="true"} ! mesenchymal stem cell is_a: CL:0011026 ! progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000134 ! mesenchymal stem cell intersection_of: RO:0002104 PR:000001444 ! has plasma membrane part cadherin-5 intersection_of: RO:0002104 PR:000002112 ! has plasma membrane part vascular endothelial growth factor receptor 2 @@ -1332,6 +1355,7 @@ synonym: "cone" RELATED [doi:10.1038/s41598-020-66092-9] xref: BTO:0001036 xref: CALOHA:TS-0866 xref: FMA:67748 +xref: ZFA:0009262 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0010009 ! camera-type eye photoreceptor cell relationship: RO:0002202 CL:0002672 ! develops from retinal progenitor cell property_value: RO:0002175 NCBITaxon:9606 @@ -1347,6 +1371,7 @@ synonym: "epithelial cell of cornea" EXACT [FMA:70551] xref: BTO:0004298 xref: CALOHA:TS-0173 xref: FMA:70551 +xref: ZFA:0009264 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000076 ! squamous epithelial cell is_a: CL:0002159 ! general ecto-epithelial cell intersection_of: CL:0000076 ! squamous epithelial cell @@ -1364,6 +1389,7 @@ synonym: "rod" RELATED [doi:10.1038/s41598-020-66092-9] xref: BTO:0001024 xref: CALOHA:TS-0870 xref: FMA:67747 +xref: ZFA:0009275 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0010009 ! camera-type eye photoreceptor cell relationship: RO:0002202 CL:0002672 ! develops from retinal progenitor cell property_value: RO:0002175 NCBITaxon:9606 @@ -1379,6 +1405,7 @@ synonym: "Muller cell" EXACT MISSPELLING [doi:10.21769/BioProtoc.4179] synonym: "Muller glia" EXACT [] synonym: "Müller cell" EXACT [] xref: BTO:0003064 +xref: ZFA:0009280 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000681 ! radial glial cell is_a: CL:0009004 ! retinal cell relationship: part_of UBERON:0000966 ! retina @@ -1390,8 +1417,9 @@ name: glutamatergic neuron def: "A neuron that is capable of some neurotansmission by glutamate secretion." [] subset: cellxgene_subset subset: human_reference_atlas -xref: FBbt:00100291 +xref: FBbt:00100291 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: WBbt:0006829 +xref: ZFA:0009290 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell is_a: CL:0000540 ! neuron intersection_of: CL:0000540 ! neuron @@ -1404,6 +1432,7 @@ id: CL:0000680 name: muscle precursor cell def: "A non-terminally differentiated cell that is capable of developing into a muscle cell." [GOC:add] subset: cellxgene_subset +xref: ZFA:0009291 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell intersection_of: CL:0011115 ! precursor cell intersection_of: RO:0002203 CL:0000187 ! develops into muscle cell @@ -1417,6 +1446,7 @@ def: "A cell present in the developing CNS. Functions as both a precursor cell a comment: Unlike that of mammals, the brain of adult teleost fish exhibits an intense and widespread neurogenic activity as a result of the persistence of\nradial glial cells acting as neural progenitors throughout life. subset: cellxgene_subset synonym: "forebrain radial glial cell" NARROW [] +xref: ZFA:0009292 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000125 ! glial cell relationship: RO:0002202 CL:0000710 ! develops from neurecto-epithelial cell @@ -1440,6 +1470,7 @@ name: somatic stem cell def: "A stem cell that can give rise to cell types of the body other than those of the germ-line." [GO:0048103] xref: CALOHA:TS-2086 xref: MESH:D053687 +xref: ZFA:0009307 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000034 ! stem cell intersection_of: CL:0000034 ! stem cell intersection_of: capable_of GO:0048103 ! somatic stem cell division @@ -1459,6 +1490,7 @@ synonym: "RGCs" RELATED OMO:0003004 [doi:10.1038/s41598-020-66092-9] xref: BTO:0001800 xref: FMA:67765 xref: MESH:D012165 +xref: ZFA:0009310 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) relationship: RO:0002100 UBERON:0000966 ! has soma location retina property_value: RO:0002175 NCBITaxon:9606 @@ -1474,6 +1506,7 @@ synonym: "HC" RELATED OMO:0003000 [doi:10.1038/s41598-020-66092-9] synonym: "HCs" RELATED OMO:0003004 [doi:10.1038/s41598-020-66092-9] synonym: "horizontal cell" EXACT [] xref: BTO:0004120 +xref: ZFA:0009315 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000099 ! interneuron relationship: RO:0002100 UBERON:0003902 ! has soma location retinal neural layer property_value: RO:0002175 NCBITaxon:9606 @@ -1488,6 +1521,7 @@ subset: human_reference_atlas synonym: "BC" RELATED OMO:0003000 [doi:10.1038/s41598-020-66092-9] synonym: "BCs" RELATED OMO:0003004 [doi:10.1038/s41598-020-66092-9] synonym: "BPs" RELATED OMO:0003004 [GSE137537] +xref: ZFA:0009318 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000103 ! bipolar neuron is_a: CL:0000679 ! glutamatergic neuron is_a: CL:0008028 ! visual system neuron @@ -1505,6 +1539,7 @@ subset: cellxgene_subset xref: BTO:0001441 xref: CALOHA:TS-0647 xref: MESH:D022423 +xref: ZFA:0009324 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: RO:0002202 CL:0000049 ! develops from common myeloid progenitor @@ -1521,6 +1556,7 @@ synonym: "erythropoietic cell" EXACT [] xref: CALOHA:TS-0290 xref: FMA:62845 xref: FMA:83516 +xref: ZFA:0009325 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell property_value: RO:0002175 NCBITaxon:9606 @@ -1535,6 +1571,7 @@ xref: BTO:0001571 xref: CALOHA:TS-0289 xref: FMA:83504 xref: MESH:D004900 +xref: ZFA:0005237 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0000764 ! erythroid lineage cell @@ -1580,8 +1617,8 @@ synonym: "hemopoietic progenitor cell" EXACT [] synonym: "MPP" EXACT [] xref: BTO:0000725 xref: CALOHA:TS-0448 +xref: ZFA:0009354 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008001 ! hematopoietic precursor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000988 ! hematopoietic cell intersection_of: bearer_of PATO:0001402 ! multipotent intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -1628,6 +1665,7 @@ synonym: "myeloid progenitor cell" BROAD [] xref: BTO:0004730 xref: CALOHA:TS-2099 xref: FMA:70339 +xref: ZFA:0009356 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002031 {is_inferred="true"} ! hematopoietic lineage restricted progenitor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0002031 ! hematopoietic lineage restricted progenitor cell @@ -1647,6 +1685,7 @@ xref: BTO:0000574 xref: CALOHA:TS-2017 xref: FMA:70366 xref: FMA:83598 +xref: ZFA:0005830 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -1682,6 +1721,7 @@ id: CL:0002077 name: ecto-epithelial cell def: "An epithelial cell derived from ectoderm." [FMA:69074, GOC:tfm] xref: FMA:69074 +xref: ZFA:0009385 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: RO:0002202 CL:0000221 ! develops from ectodermal cell @@ -1695,6 +1735,7 @@ name: meso-epithelial cell def: "Epithelial cell derived from mesoderm or mesenchyme." [FMA:69076, GOC:tfm] synonym: "epithelial mesenchymal cell" EXACT [] xref: FMA:69076 +xref: ZFA:0009388 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: RO:0002202 CL:0000222 ! develops from mesodermal cell @@ -1805,6 +1846,7 @@ subset: cellxgene_subset xref: CALOHA:TS-2096 xref: FMA:63875 xref: MESH:D003239 +xref: ZFA:0009392 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0002384 ! connective tissue @@ -1819,6 +1861,7 @@ def: "A cell of the embryo." [FMA:0618947256] xref: CALOHA:TS-0263 xref: FMA:82840 xref: WBbt:0007028 +xref: ZFA:0007089 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 creation_date: 2010-09-15T03:39:21Z @@ -1875,6 +1918,7 @@ id: CL:0002546 name: embryonic blood vessel endothelial progenitor cell def: "An endothelial progenitor cell that participates in angiogenesis during development." [GOC:tfm] comment: See CL:0002619. +xref: ZFA:0005773 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000222 ! mesodermal cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 creation_date: 2011-02-28T04:20:39Z @@ -1944,6 +1988,7 @@ id: CL:0005000 name: spinal cord interneuron def: "A CNS interneuron located in the spinal cord." [CL:CVS] comment: Is_a interneuron, part_of UBERON:0002240. +xref: ZFA:0000778 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000402 {is_inferred="true"} ! CNS interneuron intersection_of: CL:0000099 ! interneuron intersection_of: RO:0002100 UBERON:0002240 ! has soma location spinal cord @@ -1953,6 +1998,7 @@ relationship: RO:0002100 UBERON:0002240 ! has soma location spinal cord id: CL:0007004 name: premigratory neural crest cell def: "Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells." [UBERONREF:0000002] +xref: ZFA:0007084 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0011012 ! neural crest cell relationship: part_of UBERON:0002342 ! neural crest relationship: RO:0002202 CL:0000133 ! develops from neurectodermal cell @@ -1976,7 +2022,7 @@ is_a: CL:0000988 ! hematopoietic cell id: CL:0008007 name: visceral muscle cell def: "A muscle cell that is part of some visceral muscle." [GOC:dos] -xref: FBbt:00005070 +xref: FBbt:00005070 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000187 ! muscle cell intersection_of: CL:0000187 ! muscle cell intersection_of: part_of UBERON:8600004 ! visceral muscle tissue @@ -1997,6 +2043,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0008028 name: visual system neuron +def: "Any neuron that is capable of part of some visual perception." [FBC:Autogenerated] is_a: CL:0000540 ! neuron intersection_of: CL:0000540 ! neuron intersection_of: capable_of_part_of GO:0007601 ! visual perception @@ -2018,6 +2065,7 @@ relationship: part_of UBERON:0005388 ! photoreceptor array [Term] id: CL:0010009 name: camera-type eye photoreceptor cell +def: "Any photoreceptor cell that is part of some camera-type eye." [FBC:Autogenerated] synonym: "camera type eye photoreceptor cell" EXACT [] is_a: CL:0000287 ! eye photoreceptor cell is_a: CL:0009004 ! retinal cell @@ -2447,7 +2495,6 @@ synonym: "cell or subcellular entity" EXACT [] synonym: "cellular component" EXACT [] synonym: "subcellular entity" RELATED [NIF_Subcellular:nlx_subcell_100315] xref: NIF_Subcellular:sao1337158144 -is_a: BFO:0000040 ! material entity disjoint_from: GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/17729" xsd:anyURI @@ -2460,13 +2507,16 @@ comment: Note that this term is intended to annotate gene products that are not subset: goslim_agr subset: goslim_candida subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "extracellular" EXACT [] xref: Wikipedia:Extracellular @@ -2526,7 +2576,6 @@ comment: Note that for multicellular organisms, the extracellular space refers t subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic -subset: goslim_prokaryote synonym: "intercellular space" RELATED [] xref: NIF_Subcellular:sao1425028079 is_a: GO:0110165 ! cellular anatomical entity @@ -2560,12 +2609,14 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "cell nucleus" EXACT [] synonym: "horsetail nucleus" NARROW [GOC:al, GOC:mah, GOC:vw, PMID:15030757] @@ -2591,6 +2642,7 @@ subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "chromatid" RELATED [] synonym: "interphase chromosome" NARROW [] @@ -2625,7 +2677,9 @@ subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast xref: Wikipedia:Cytoplasm is_a: GO:0110165 ! cellular anatomical entity @@ -2640,11 +2694,14 @@ alt_id: GO:0033279 def: "An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins." [ISBN:0198506732] subset: goslim_candida subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "free ribosome" NARROW [NIF_Subcellular:sao1139385046] synonym: "membrane bound ribosome" NARROW [NIF_Subcellular:sao1291545653] @@ -2652,8 +2709,8 @@ synonym: "ribosomal RNA" RELATED [] xref: NIF_Subcellular:sao1429207766 xref: Wikipedia:Ribosome is_a: GO:0043232 ! intracellular non-membrane-bounded organelle -is_a: PR:000050567 ! protein-containing material entity relationship: capable_of_part_of GO:0006412 ! translation +relationship: has_part PR:000000001 ! protein [Term] id: GO:0005886 @@ -2666,11 +2723,14 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "bacterial inner membrane" NARROW [] synonym: "cell membrane" EXACT [] @@ -2710,10 +2770,12 @@ def: "The cellular metabolic process in which a protein is formed, using the seq subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "protein anabolism" EXACT [] synonym: "protein biosynthesis" EXACT [] synonym: "protein biosynthetic process" EXACT [] @@ -2785,7 +2847,9 @@ subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "single-organism transport" RELATED [] is_a: GO:0051234 ! establishment of localization property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20292" xsd:anyURI @@ -2885,6 +2949,8 @@ name: organelle organization namespace: biological_process alt_id: GO:1902589 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_candida subset: goslim_pir synonym: "organelle organisation" EXACT [] @@ -2895,6 +2961,7 @@ is_a: GO:0016043 ! cellular component organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0043226 ! organelle relationship: results_in_organization_of GO:0043226 ! organelle +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2013-12-19T15:25:51Z @@ -2903,13 +2970,14 @@ id: GO:0007049 name: cell cycle namespace: biological_process def: "The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division." [GOC:go_curators, GOC:mtg_cell_cycle] -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cell-division cycle" EXACT [] xref: Wikipedia:Cell_cycle is_a: GO:0009987 ! cellular process @@ -2949,14 +3017,11 @@ subset: goslim_candida subset: goslim_chembl subset: goslim_metagenomics subset: goslim_plant -synonym: "signal transduction by cis-phosphorylation" NARROW [] -synonym: "signal transduction by conformational transition" NARROW [] -synonym: "signal transduction by protein phosphorylation" NARROW [] -synonym: "signal transduction by trans-phosphorylation" NARROW [] +subset: goslim_plant_ribbon synonym: "signaling cascade" NARROW [] synonym: "signaling pathway" RELATED [] synonym: "signalling cascade" NARROW [] -synonym: "signalling pathway" RELATED [GOC:mah] +synonym: "signalling pathway" RELATED [] xref: Wikipedia:Signal_transduction is_a: GO:0009987 ! cellular process is_a: GO:0050794 ! regulation of cellular process @@ -2968,7 +3033,7 @@ relationship: part_of GO:0051716 ! cellular response to stimulus id: GO:0007166 name: cell surface receptor signaling pathway namespace: biological_process -def: "The series of molecular signals initiated by activation of a receptor on the surface of a cell. The pathway begins with binding of an extracellular ligand to a cell surface receptor, or for receptors that signal in the absence of a ligand, by ligand-withdrawal or the activity of a constitutively active receptor. The pathway ends with regulation of a downstream cellular process, e.g. transcription." [GOC:bf, GOC:mah, GOC:pr, GOC:signaling] +def: "The series of molecular signals initiated by an extracellular ligand binding to a receptor located on the cell surface. The pathway ends with regulation of a downstream cellular process, e.g. transcription." [GOC:signaling] subset: goslim_drosophila synonym: "cell surface receptor linked signal transduction" EXACT [] synonym: "cell surface receptor linked signaling pathway" EXACT [GOC:bf] @@ -3167,7 +3232,6 @@ synonym: "physiological process" EXACT [] synonym: "single organism process" RELATED [] synonym: "single-organism process" RELATED [] xref: Wikipedia:Biological_process -is_a: BFO:0000015 ! process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24968" xsd:anyURI created_by: jl creation_date: 2012-09-19T15:05:24Z @@ -3180,11 +3244,13 @@ alt_id: GO:0044236 alt_id: GO:0044710 def: "The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation." [GOC:go_curators, ISBN:0198547684] comment: Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_prokaryote_ribbon synonym: "metabolic process resulting in cell growth" NARROW [] synonym: "metabolism" EXACT [] synonym: "metabolism resulting in cell growth" NARROW [] @@ -3193,6 +3259,7 @@ synonym: "single-organism metabolic process" RELATED [] xref: Wikipedia:Metabolism is_a: GO:0008150 ! biological_process disjoint_from: GO:0051179 ! localization +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI created_by: jl creation_date: 2012-10-17T15:46:40Z @@ -3218,6 +3285,7 @@ def: "The chemical reactions and pathways resulting in the formation of substanc subset: goslim_chembl subset: goslim_metagenomics subset: goslim_plant +subset: goslim_plant_ribbon synonym: "anabolism" EXACT [] synonym: "biosynthesis" EXACT [] synonym: "formation" BROAD [] @@ -3235,6 +3303,8 @@ name: macromolecule biosynthetic process namespace: biological_process alt_id: GO:0043284 def: "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "biopolymer biosynthetic process" EXACT [GOC:mtg_chebi_dec09] synonym: "macromolecule anabolism" EXACT [] @@ -3246,6 +3316,7 @@ is_a: GO:0044249 ! cellular biosynthetic process is_a: GO:1901576 ! organic substance biosynthetic process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/15249" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25418" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0009314 @@ -3308,7 +3379,7 @@ name: response to external stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an external stimulus." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_drosophila subset: goslim_plant synonym: "response to environmental stimulus" EXACT [] @@ -3320,7 +3391,7 @@ name: response to abiotic stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an abiotic (not derived from living organisms) stimulus." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_metagenomics subset: goslim_plant synonym: "response to abiotic stress" NARROW [] @@ -3346,7 +3417,7 @@ name: embryo development namespace: biological_process alt_id: GO:0009795 def: "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant." [GOC:go_curators, GOC:isa_complete, GOC:mtg_sensu] -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_plant synonym: "embryogenesis" EXACT [] @@ -3437,9 +3508,11 @@ comment: Note that this term should be used to annotate gene products in the org subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote synonym: "caspase-independent apoptosis" RELATED [] synonym: "caspase-independent cell death" NARROW [] @@ -3519,10 +3592,12 @@ namespace: biological_process alt_id: GO:0044235 alt_id: GO:0071842 def: "A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:ai, GOC:jl, GOC:mah] +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cell organisation" EXACT [] synonym: "cell organization and biogenesis" RELATED [GOC:mah] synonym: "cellular component organisation at cellular level" EXACT [GOC:mah] @@ -3597,11 +3672,14 @@ alt_id: GO:0006411 alt_id: GO:0044267 alt_id: GO:0044268 def: "The chemical reactions and pathways involving a protein. Includes protein modification." [GOC:ma] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cellular protein metabolic process" EXACT [] synonym: "cellular protein metabolism" EXACT [] synonym: "multicellular organismal protein metabolic process" NARROW [] @@ -3614,6 +3692,7 @@ intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output PR:000000001 ! protein relationship: has_primary_input_or_output PR:000000001 ! protein property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23112" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0021915 @@ -3634,6 +3713,7 @@ name: cell cycle process namespace: biological_process def: "The cellular process that ensures successive accurate and complete genome replication and chromosome segregation." [GOC:isa_complete, GOC:mtg_cell_cycle] subset: gocheck_do_not_annotate +subset: goslim_euk_cellular_processes_ribbon is_a: GO:0009987 ! cellular process intersection_of: GO:0009987 ! cellular process intersection_of: part_of GO:0007049 ! cell cycle @@ -3645,6 +3725,8 @@ name: cellular component disassembly namespace: biological_process alt_id: GO:0071845 def: "A cellular process that results in the breakdown of a cellular component." [GOC:isa_complete] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "cell structure disassembly" EXACT [] synonym: "cellular component disassembly at cellular level" EXACT [] @@ -3653,6 +3735,7 @@ intersection_of: GO:0009987 ! cellular process intersection_of: results_in_disassembly_of GO:0005575 ! cellular_component disjoint_from: GO:0022607 ! cellular component assembly relationship: results_in_disassembly_of GO:0005575 ! cellular_component +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0022600 @@ -3672,6 +3755,7 @@ namespace: biological_process alt_id: GO:0071844 def: "The aggregation, arrangement and bonding together of a cellular component." [GOC:isa_complete] subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_pir synonym: "cell structure assembly" EXACT [] synonym: "cellular component assembly at cellular level" EXACT [] @@ -3715,11 +3799,13 @@ alt_id: GO:0044700 def: "The entirety of a process in which information is transmitted within a biological system. This process begins with an active signal and ends when a cellular response has been triggered." [GOC:mtg_signal, GOC:mtg_signaling_feb11, GOC:signaling] comment: Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change. subset: goslim_agr +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pombe subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "biological signaling" EXACT [] synonym: "signaling process" EXACT [] @@ -3796,6 +3882,8 @@ is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000988 ! hematopoietic cell relationship: results_in_development_of CL:0000988 ! hematopoietic cell +relationship: RO:0002160 NCBITaxon:6072 ! only in taxon Eumetazoa +relationship: RO:0002162 NCBITaxon:6072 {all_only="true"} ! in taxon Eumetazoa property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22178" xsd:anyURI [Term] @@ -3820,6 +3908,7 @@ subset: goslim_drosophila subset: goslim_generic subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon xref: Wikipedia:Cellular_differentiation is_a: GO:0048869 ! cellular developmental process intersection_of: GO:0048869 ! cellular developmental process @@ -3925,6 +4014,7 @@ alt_id: GO:0005578 def: "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues." [GOC:BHF, GOC:mah, GOC:rph, NIF_Subcellular:nlx_subcell_20090513, PMID:21123617, PMID:28089324] subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote @@ -4018,6 +4108,7 @@ namespace: biological_process alt_id: GO:0044707 alt_id: GO:0050874 def: "Any biological process, occurring at the level of a multicellular organism, pertinent to its function." [GOC:curators, GOC:dph, GOC:isa_complete, GOC:tb] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate subset: goslim_pir synonym: "organismal physiological process" EXACT [] @@ -4027,6 +4118,7 @@ property_value: RO:0002161 NCBITaxon:2 property_value: RO:0002161 NCBITaxon:2157 property_value: RO:0002161 NCBITaxon:4896 property_value: RO:0002161 NCBITaxon:4932 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2012-09-19T16:07:47Z @@ -4083,6 +4175,7 @@ def: "A stable assembly of two or more macromolecules, i.e. proteins, nucleic ac comment: A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole. subset: goslim_agr subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir @@ -4092,8 +4185,8 @@ synonym: "protein complex" NARROW [] synonym: "protein containing complex" EXACT [] synonym: "protein-protein complex" NARROW [] is_a: GO:0005575 ! cellular_component -is_a: PR:000050567 ! protein-containing material entity disjoint_from: GO:0110165 ! cellular anatomical entity +relationship: has_part PR:000000001 ! protein [Term] id: GO:0032993 @@ -4207,7 +4300,6 @@ id: GO:0042391 name: regulation of membrane potential namespace: biological_process def: "Any process that modulates the establishment or extent of a membrane potential, the electric potential existing across any membrane arising from charges in the membrane itself and from the charges present in the media on either side of the membrane." [GOC:jl, GOC:mtg_cardio, GOC:tb, ISBN:0198506732] -is_a: BFO:0000003 ! occurrent relationship: has_part GO:0034220 ! monoatomic ion transmembrane transport [Term] @@ -4248,10 +4340,12 @@ name: cell projection namespace: cellular_component def: "A prolongation or process extending from a cell, e.g. a flagellum or axon." [GOC:jl, http://www.cogsci.princeton.edu/~wn/] subset: goslim_agr +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "cell process" BROAD [] synonym: "cellular process" BROAD [] synonym: "cellular projection" EXACT [] @@ -4343,6 +4437,7 @@ subset: goslim_chembl subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon xref: NIF_Subcellular:sao1539965131 xref: Wikipedia:Organelle is_a: GO:0110165 ! cellular anatomical entity @@ -4525,7 +4620,10 @@ name: primary metabolic process namespace: biological_process def: "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism." [GOC:go_curators, http://www.metacyc.org] subset: gocheck_do_not_annotate +subset: goslim_euk_cellular_processes_ribbon subset: goslim_pir +subset: goslim_plant_ribbon +subset: goslim_prokaryote_ribbon synonym: "primary metabolism" EXACT [] is_a: GO:0008152 ! metabolic process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI @@ -4535,12 +4633,15 @@ id: GO:0044249 name: cellular biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:jl] +comment: This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. +subset: gocheck_do_not_annotate synonym: "cellular anabolism" EXACT [] synonym: "cellular biosynthesis" EXACT [] synonym: "cellular formation" EXACT [] synonym: "cellular synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0044237 ! cellular metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27052" xsd:anyURI [Term] id: GO:0044297 @@ -4565,6 +4666,7 @@ namespace: cellular_component def: "The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane." [GOC:aruk, ISBN:0198506732, PMID:24619342, PMID:29383328, PMID:31998110] subset: goslim_agr subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir @@ -4718,6 +4820,7 @@ subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_generic subset: goslim_plant +subset: goslim_plant_ribbon synonym: "development of an anatomical structure" EXACT [] is_a: GO:0032502 ! developmental process intersection_of: GO:0032502 ! developmental process @@ -4740,12 +4843,14 @@ namespace: biological_process def: "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another." [GOC:dgh, GOC:dph, GOC:isa_complete, GOC:mlg] subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_prokaryote synonym: "cell locomotion" EXACT [] synonym: "cell movement" RELATED [] synonym: "movement of a cell" EXACT [] is_a: GO:0009987 ! cellular process +property_value: RO:0002161 NCBITaxon:4890 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19809" xsd:anyURI [Term] @@ -4822,12 +4927,13 @@ namespace: biological_process alt_id: GO:0051869 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism." [GOC:ai, GOC:bf] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "physiological response to stimulus" EXACT [] is_a: GO:0008150 ! biological_process @@ -4876,6 +4982,7 @@ name: localization namespace: biological_process alt_id: GO:1902578 def: "Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation." [GOC:ai, GOC:dos] +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "establishment and maintenance of cellular component location" NARROW [] synonym: "establishment and maintenance of localization" EXACT [] @@ -4886,6 +4993,7 @@ synonym: "localisation" EXACT [GOC:mah] synonym: "single organism localization" RELATED [GOC:TermGenie] synonym: "single-organism localization" RELATED [] is_a: GO:0008150 ! biological_process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27052" xsd:anyURI created_by: jl creation_date: 2013-12-18T13:51:04Z @@ -4966,6 +5074,8 @@ name: cellular localization namespace: biological_process alt_id: GO:1902580 def: "A cellular localization process whereby a substance or cellular entity, such as a protein complex or organelle, is transported to, and/or maintained in, a specific location within a cell including the localization of substances or cellular entities to the cell membrane." [GOC:tb, GOC:vw] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "cellular localisation" EXACT [GOC:mah] synonym: "establishment and maintenance of cellular localization" EXACT [] @@ -4976,6 +5086,7 @@ synonym: "single organism cellular localization" EXACT [GOC:TermGenie] synonym: "single-organism cellular localization" RELATED [] is_a: GO:0009987 ! cellular process is_a: GO:0051179 ! localization +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2013-12-18T14:04:32Z @@ -5003,7 +5114,7 @@ name: cellular response to stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus by a cell and ends with a change in state or activity or the cell." [GOC:bf, GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0009987 ! cellular process is_a: GO:0050896 ! response to stimulus @@ -5024,6 +5135,7 @@ def: "The process in which a solute is transported across a lipid bilayer, from comment: Transmembrane transport is the transport of a solute across a lipid bilayer. Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane and is not traversed. For transport through the nuclear pore, consider instead the term 'nucleocytoplasmic transport ; GO:0006913' and its children. Note also that this term is not intended for use in annotating lateral movement within membranes. subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pombe subset: goslim_yeast @@ -5270,12 +5382,15 @@ name: cellular component organization or biogenesis namespace: biological_process alt_id: GO:0071841 def: "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_flybase_ribbon subset: goslim_metagenomics synonym: "cellular component organisation or biogenesis" EXACT [GOC:mah] synonym: "cellular component organisation or biogenesis at cellular level" EXACT [GOC:mah] synonym: "cellular component organization or biogenesis at cellular level" EXACT [] is_a: GO:0009987 ! cellular process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: mah creation_date: 2010-09-10T01:39:16Z @@ -5401,7 +5516,7 @@ name: plasma membrane region namespace: cellular_component def: "A membrane that is a (regional) part of the plasma membrane." [GOC:dos] comment: Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "region of plasma membrane" EXACT [] is_a: GO:0016020 ! membrane intersection_of: GO:0016020 ! membrane @@ -5428,7 +5543,6 @@ def: "A complex of collagen trimers such as a fibril or collagen network." [GOC: synonym: "Supramolecular aggregate of collagen" EXACT [PMID:19693541] synonym: "Supramolecular collagen assembly" EXACT [PMID:21421911] is_a: GO:0099080 ! supramolecular complex -is_a: PR:000050567 ! protein-containing material entity relationship: has_part GO:0005581 ! collagen trimer relationship: part_of GO:0062023 ! collagen-containing extracellular matrix @@ -5677,6 +5791,7 @@ id: GO:1901576 name: organic substance biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon." [GOC:pr, GOC:TermGenie] +subset: gocheck_do_not_annotate synonym: "organic molecular entity anabolism" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthesis" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthetic process" EXACT [] @@ -5688,6 +5803,7 @@ synonym: "organic substance formation" EXACT [] synonym: "organic substance synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0071704 ! organic substance metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI created_by: pr creation_date: 2012-11-05T11:04:40Z @@ -6043,7 +6159,6 @@ name: quality namespace: quality alt_id: PATO:0000072 def: "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities" [PATOC:GVG] -is_a: BFO:0000020 ! specifically dependent continuant [Term] id: PATO:0000051 @@ -7014,21 +7129,6 @@ intersection_of: PR:000000001 ! protein intersection_of: RO:0002160 NCBITaxon:2759 ! only in taxon Eukaryota relationship: RO:0002160 NCBITaxon:2759 ! only in taxon Eukaryota -[Term] -id: PR:000050567 -name: protein-containing material entity -namespace: protein -def: "A material entity that minimally consists of a protein." [PRO:DAN] -comment: Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566). -synonym: "protein" NARROW [PRO:DAN] -synonym: "protein aggregate" NARROW [PRO:DAN] -synonym: "protein complex" NARROW [PRO:DAN] -synonym: "protein-containing complex" NARROW [PRO:DAN] -is_a: BFO:0000040 ! material entity -intersection_of: BFO:0000040 ! material entity -intersection_of: has_part PR:000000001 ! protein -relationship: has_part PR:000000001 ! protein - [Term] id: UBERON:0000000 name: processual entity @@ -7106,6 +7206,7 @@ xref: CALOHA:TS-2043 xref: EHDAA2:0001824 xref: EHDAA:500 xref: EMAPA:35955 +xref: FBbt:00005155 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: GAID:63 xref: HAO:0000930 xref: MA:0000017 @@ -7199,7 +7300,6 @@ xref: TAO:0005425 xref: UMLS:C0036760 {source="ncithesaurus:Serosa"} xref: Wikipedia:Serous_membrane xref: ZFA:0005425 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: has_part UBERON:0001136 ! mesothelium @@ -7262,6 +7362,7 @@ xref: BILA:0000003 xref: CARO:0000003 xref: EHDAA2:0003003 xref: EMAPA:0 +xref: FBbt:00007001 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:305751 xref: FMA:67135 xref: GAID:781 @@ -7364,7 +7465,6 @@ xref: EFO:0001272 xref: FBdv:00005369 xref: WBls:0000041 xref: XtroDO:0000084 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000092 ! post-embryonic stage relationship: preceded_by UBERON:0000111 ! organogenesis stage @@ -7391,7 +7491,6 @@ xref: WBls:0000003 xref: WBls:0000092 xref: WBls:0000102 xref: XAO:1000012 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage disjoint_from: UBERON:0000092 ! post-embryonic stage relationship: precedes UBERON:0000066 ! fully formed stage @@ -7407,7 +7506,6 @@ subset: common_anatomy synonym: "death" RELATED [] xref: XAO:0000437 xref: XtroDO:0000085 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: RO:0002229 UBERON:0000104 ! ends life cycle property_value: RO:0002175 NCBITaxon:33090 @@ -7493,7 +7591,6 @@ xref: OGES:000024 xref: WBls:0000022 xref: WBls:0000093 xref: WBls:0000103 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: preceded_by UBERON:0000068 ! embryo stage relationship: RO:0002082 GO:0009791 ! simultaneous with post-embryonic development @@ -7515,7 +7612,6 @@ xref: HsapDv:0000001 xref: MmusDv:0000001 xref: ncithesaurus:Life xref: OGES:000011 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000000 ! processual entity relationship: ends_with UBERON:0000071 ! death stage relationship: has_part UBERON:0000105 ! life cycle stage @@ -7579,7 +7675,6 @@ xref: VHOG:0000745 xref: Wikipedia:Zygote xref: XAO:1000001 xref: ZFS:0000001 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: RO:0002223 UBERON:0000104 ! starts life cycle @@ -7603,7 +7698,6 @@ xref: PdumDv:0000200 xref: Wikipedia:Cleavage_(embryo) xref: XAO:1000004 xref: ZFS:0000046 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage intersection_of: UBERON:0000105 ! life cycle stage intersection_of: RO:0002082 GO:0040016 ! simultaneous with embryonic cleavage @@ -7629,7 +7723,6 @@ xref: WBls:0000005 xref: Wikipedia:Blastula xref: XAO:1000003 xref: ZFS:0000045 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000107 ! cleavage stage @@ -7659,7 +7752,6 @@ xref: OGES:000019 xref: WBls:0000010 xref: XAO:1000005 xref: ZFS:0000047 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000108 {source="BILS"} ! blastula stage @@ -7676,7 +7768,6 @@ xref: BILS:0000110 xref: HsapDv:0000012 xref: MmusDv:0000017 xref: XAO:1000006 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000109 ! gastrula stage @@ -7698,7 +7789,6 @@ xref: MmusDv:0000018 xref: OGES:000005 xref: OGES:000032 xref: Wikipedia:Organogenesis -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: RO:0002082 GO:0048513 ! simultaneous with animal organ development @@ -7716,6 +7806,7 @@ synonym: "funiculus" EXACT [] synonym: "nerve fiber bundle" EXACT [FBbt:00005099] synonym: "neural fiber bundle" EXACT [] xref: CARO:0001001 +xref: FBbt:00005099 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: NLX:147821 is_a: UBERON:0005162 ! multi cell part structure relationship: has_part GO:0043005 ! neuron projection @@ -7768,6 +7859,7 @@ xref: EFO:0000825 xref: EHDAA2:0001326 xref: EHDAA:542 xref: EMAPA:16262 +xref: FBbt:00003126 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:49184 xref: GAID:75 xref: galen:Mouth @@ -7829,7 +7921,6 @@ xref: VHOG:0000224 xref: Wikipedia:Blood xref: XAO:0000124 xref: ZFA:0000007 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000179 ! haemolymphatic fluid relationship: has_part CL:0000232 {source="CL:tm"} ! erythrocyte relationship: has_part UBERON:0001969 ! blood plasma @@ -7934,6 +8025,7 @@ xref: CALOHA:TS-2101 xref: CARO:0000004 xref: EHDAA2:0003004 xref: EMAPA:35178 +xref: FBbt:00007019 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9669 xref: galen:BodySubstance xref: HAO:0000004 @@ -7968,6 +8060,7 @@ xref: AEO:0000005 xref: BILA:0000005 xref: CARO:0000005 xref: EHDAA2:0003005 +xref: FBbt:00007017 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:5897 xref: HAO:0000005 xref: NCIT:C94478 @@ -7995,12 +8088,12 @@ xref: AEO:0000006 xref: BILA:0000006 xref: CARO:0000006 xref: EHDAA2:0003006 +xref: FBbt:00007016 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67165 xref: HAO:0000006 xref: TAO:0001836 xref: TGMA:0001826 xref: VHOG:0001721 -is_a: BFO:0000040 ! material entity is_a: UBERON:0001062 ! anatomical entity disjoint_from: UBERON:0000466 ! immaterial anatomical entity property_value: RO:0002175 NCBITaxon:33090 @@ -8020,12 +8113,12 @@ xref: AEO:0000007 xref: BILA:0000007 xref: CARO:0000007 xref: EHDAA2:0003007 +xref: FBbt:00007015 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67112 xref: HAO:0000007 xref: TAO:0001835 xref: TGMA:0001827 xref: VHOG:0001727 -is_a: BFO:0000141 ! immaterial entity is_a: UBERON:0001062 ! anatomical entity property_value: RO:0002175 NCBITaxon:33090 property_value: RO:0002175 NCBITaxon:33208 @@ -8057,6 +8150,7 @@ xref: EHDAA2:0003011 xref: EHDAA:392 xref: EMAPA:16103 xref: EV:0100000 +xref: FBbt:00004856 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7149 xref: galen:AnatomicalSystem xref: HAO:0000011 @@ -8110,6 +8204,7 @@ xref: EHDAA2:0003191 xref: EHDAA:1 xref: EMAPA:25765 xref: EV:0100016 +xref: FBbt:00000001 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:256135 xref: galen:Organism xref: HAO:0000012 @@ -8153,6 +8248,7 @@ xref: CARO:0000032 xref: EFO:0000808 xref: EHDAA2:0003032 xref: EMAPA:36031 +xref: FBbt:00007009 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7153 xref: galen:BodyPart xref: HAO:0000032 @@ -8188,6 +8284,7 @@ xref: AEO:0000040 xref: BILA:0000040 xref: CARO:0000040 xref: EHDAA2:0003040 +xref: FBbt:00007013 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:63863 xref: HAO:0000040 xref: TAO:0000382 @@ -8207,6 +8304,7 @@ namespace: uberon def: "Anatomical group whose component anatomical structures lie in close proximity to each other." [FBbt:00007277] subset: common_anatomy subset: upper_level +xref: FBbt:00007277 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: VHOG:0001737 is_a: UBERON:0034923 ! disconnected anatomical group property_value: RO:0002175 NCBITaxon:33090 @@ -8233,6 +8331,7 @@ xref: CALOHA:TS-2090 xref: CARO:0000043 xref: EHDAA2:0003043 xref: EMAPA:35868 +xref: FBbt:00007003 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9637 xref: galen:Tissue xref: HAO:0000043 @@ -8267,6 +8366,7 @@ xref: AEO:0000055 xref: BILA:0000055 xref: CARO:0000055 xref: EHDAA2:0003055 +xref: FBbt:00007010 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: HAO:0000055 xref: TAO:0001488 xref: TGMA:0001847 @@ -8299,6 +8399,7 @@ xref: CALOHA:TS-0288 xref: CARO:0000066 xref: EHDAA2:0003066 xref: EMAPA:32738 +xref: FBbt:00007005 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9639 xref: GAID:402 xref: HAO:0000066 @@ -8312,7 +8413,6 @@ xref: VHOG:0000387 xref: Wikipedia:Epithelium xref: XAO:0003045 xref: ZFA:0001486 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000479 ! tissue intersection_of: UBERON:0000479 ! tissue intersection_of: RO:0002473 CL:0000066 ! composed primarily of epithelial cell @@ -8466,6 +8566,7 @@ xref: EHDAA2:0000002 xref: EHDAA2_RETIRED:0003236 xref: EHDAA:38 xref: EMAPA:16039 +xref: FBbt:00000052 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69068 xref: GAID:963 xref: http://neurolex.org/wiki/Category\:Embryonic_organism @@ -8506,6 +8607,7 @@ xref: AAO:0000480 xref: BILA:0000035 xref: BTO:0000556 xref: EMAPA:36033 +xref: FBbt:00000110 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69069 xref: GAID:1303 xref: MESH:D005855 @@ -8539,6 +8641,7 @@ xref: EFO:0000414 xref: EHDAA2:0000428 xref: EMAPA:16069 xref: EV:0100003 +xref: FBbt:00000111 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69070 xref: GAID:1304 xref: MAT:0000155 @@ -8576,6 +8679,7 @@ xref: EFO:0002545 xref: EHDAA2:0000436 xref: EMAPA:16062 xref: EV:0100005 +xref: FBbt:00000125 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69071 xref: GAID:1305 xref: MAT:0000175 @@ -8619,6 +8723,7 @@ xref: EHDAA:160 xref: EHDAA:183 xref: EMAPA:16083 xref: EV:0100006 +xref: FBbt:00000126 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69072 xref: GAID:522 xref: MAT:0000174 @@ -8658,6 +8763,7 @@ synonym: "stomodeal-hypophyseal primordium" BROAD [XAO:0000269] xref: BTO:0004224 xref: EHDAA2:0001929 xref: EMAPA:16263 +xref: FBbt:00000439 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:295846 xref: NCIT:C34306 xref: TAO:0001290 @@ -8824,6 +8930,7 @@ xref: EHDAA:2641 xref: EHDAA:6485 xref: EMAPA:16894 xref: EV:0100164 +xref: FBbt:00005095 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:50801 xref: GAID:571 xref: galen:Brain @@ -8957,7 +9064,6 @@ xref: VHOG:0000164 xref: Wikipedia:Cornea xref: XAO:0000180 xref: ZFA:0000640 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0010000 ! multicellular anatomical structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: has_part UBERON:0001772 ! corneal epithelium @@ -9093,6 +9199,7 @@ xref: BTO:0000439 xref: CALOHA:TS-0309 xref: EFO:0000827 xref: EV:0100336 +xref: FBbt:00005162 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: GAID:69 xref: MAT:0000140 xref: MESH:D005123 @@ -9164,6 +9271,7 @@ xref: BILA:0000082 xref: BTO:0000058 xref: CALOHA:TS-1293 xref: EFO:0000793 +xref: FBbt:00005055 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7152 xref: GAID:278 xref: galen:DigestiveSystem @@ -9278,6 +9386,7 @@ xref: EHDAA2:0001246 xref: EHDAA:826 xref: EMAPA:16469 xref: EV:0100162 +xref: FBbt:00005093 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7157 xref: GAID:466 xref: MA:0000016 @@ -9337,6 +9446,7 @@ xref: EHDAA:828 xref: EMAPA:16470 xref: EMAPA:16754 xref: EV:0100163 +xref: FBbt:00005094 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:55675 xref: GAID:570 xref: MA:0000167 @@ -9375,6 +9485,7 @@ synonym: "tract" RELATED [] synonym: "tract of neuraxis" EXACT [FMA:83847] xref: BIRNLEX:1649 xref: EV:0100304 +xref: FBbt:00005100 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:83847 xref: NLX:147822 is_a: UBERON:0000122 ! neuron projection bundle @@ -9426,6 +9537,7 @@ xref: BILA:0000099 xref: EFO:0000805 xref: EHDAA2:0003094 xref: EMAPA:16192 +xref: FBbt:00007692 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:75259 xref: MA:0002442 xref: MAT:0000031 @@ -9459,6 +9571,7 @@ xref: AEO:0000171 xref: BTO:0001886 xref: EFO:0001652 xref: EHDAA2:0003171 +xref: FBbt:00005495 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:86589 xref: MAT:0000482 xref: NCIT:C34275 @@ -9521,6 +9634,7 @@ xref: BILA:0000000 xref: BIRNLEX:6 xref: CARO:0000000 xref: EHDAA2:0002229 +xref: FBbt:10000000 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:62955 xref: HAO:0000000 xref: MA:0000001 @@ -9743,6 +9857,7 @@ xref: BTO:0000545 xref: EHDAA2:0000726 xref: EHDAA:518 xref: EMAPA:16247 +xref: FBbt:00003125 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45615 xref: galen:AlimentaryTract xref: MA:0000917 @@ -11148,7 +11263,6 @@ xref: MIAA:0000052 xref: NCIT:C13356 xref: UMLS:C0032105 {source="ncithesaurus:Plasma"} xref: Wikipedia:Blood_plasma -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000179 ! haemolymphatic fluid intersection_of: UBERON:0000463 ! organism substance intersection_of: has_part GO:0005577 ! fibrinogen complex @@ -11197,7 +11311,6 @@ xref: VHOG:0001250 xref: Wikipedia:Blood_vessel xref: XAO:0001011 xref: ZFA:0005314 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000055 ! vessel is_a: UBERON:0004120 ! mesoderm-derived structure relationship: capable_of_part_of GO:0008015 ! blood circulation @@ -11397,6 +11510,7 @@ xref: BILA:0000034 xref: BTO:0000174 xref: CALOHA:TS-2110 xref: EFO:0000461 +xref: FBbt:00004208 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69067 xref: GAID:407 xref: MESH:D004628 @@ -11840,6 +11954,7 @@ synonym: "ventral body cavity" NARROW [NCBITaxon:7742] xref: AEO:0000186 xref: BTO:0001707 xref: EHDAA2:0000267 +xref: FBbt:00005060 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:85006 xref: galen:BodyCavity xref: NCIT:C25444 @@ -12003,6 +12118,7 @@ xref: EHDAA:1498 xref: EHDAA:255 xref: EMAPA:16073 xref: EV:0100004 +xref: FBbt:00001057 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:87657 xref: MAT:0000176 xref: MIAA:0000176 @@ -13087,6 +13203,7 @@ def: "Epithelial tubes transport gases, liquids and cells from one site to anoth synonym: "epithelial or endothelial tube" EXACT [] xref: AEO:0000114 xref: EHDAA2:0003114 +xref: FBbt:00007474 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000025 ! tube is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium @@ -13553,7 +13670,6 @@ xref: WikipediaCategory:Cardiovascular_system xref: XAO:0000100 xref: XAO:0001010 xref: ZFA:0000010 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000467 ! anatomical system intersection_of: UBERON:0000467 ! anatomical system intersection_of: has_part UBERON:0000948 ! heart @@ -13577,7 +13693,6 @@ synonym: "blood vessels" RELATED [TAO:0001079] synonym: "set of blood vessels" EXACT [] xref: TAO:0001079 xref: ZFA:0001079 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: RO:0002473 UBERON:0001981 ! composed primarily of blood vessel @@ -13676,6 +13791,7 @@ synonym: "trilaminar disk" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar germ" RELATED [https://orcid.org/0000-0002-6601-2165] xref: BILA:0000060 xref: BTO:0001403 +xref: FBbt:00005317 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:293108 xref: GAID:1302 xref: MESH:D005775 @@ -13799,6 +13915,7 @@ namespace: uberon def: "Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "joint" NARROW [] +xref: FBbt:00005811 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0034921 ! multi organ part structure relationship: part_of UBERON:0004770 ! articular system @@ -13814,6 +13931,7 @@ synonym: "gut section" RELATED [FBbt:00100315] synonym: "intestinal tract" RELATED [] synonym: "segment of intestinal tract" RELATED [] synonym: "subdivision of alimentary system" RELATED [FMA:71131] +xref: FBbt:00100315 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:71131 is_a: UBERON:0013522 ! subdivision of tube intersection_of: UBERON:0013522 ! subdivision of tube @@ -13928,6 +14046,7 @@ synonym: "multi-cell-component structure" EXACT [CARO:0001000] synonym: "multi-cell-part structure" EXACT [CARO:0001000] xref: AAO:0011000 xref: CARO:0001000 +xref: FBbt:00007060 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:83115 is_a: UBERON:0000061 ! anatomical structure relationship: RO:0002473 GO:0005575 ! composed primarily of cellular_component @@ -14085,6 +14204,7 @@ name: photoreceptor array namespace: uberon def: "An array of photoreceptors and any supporting cells found in an eye." [https://orcid.org/0000-0002-6601-2165] synonym: "light-sensitive tissue" EXACT [] +xref: FBbt:00004200 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: part_of UBERON:0000970 ! eye @@ -14115,6 +14235,7 @@ synonym: "developmental tissue" RELATED [MIAA:0000019] xref: AEO:0000125 xref: CALOHA:TS-2122 xref: EHDAA2:0003125 +xref: FBbt:00007006 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:292313 xref: MIAA:0000019 is_a: UBERON:0000465 ! material anatomical entity @@ -14279,7 +14400,6 @@ xref: NCIT:C13191 xref: SCTID:68989006 xref: UMLS:C0004799 {source="ncithesaurus:Basement_Membrane"} xref: Wikipedia:Basement_membrane -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0005764 {source="FMA"} ! acellular membrane relationship: adjacent_to CL:0000066 ! epithelial cell relationship: has_part GO:0005587 ! collagen type IV trimer @@ -14309,7 +14429,6 @@ def: "Organ with organ cavity, which has as parts a serous membrane and a serous comment: See notes for serous membrane xref: FMA:9689 xref: SCTID:362890006 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000062 ! organ relationship: has_part UBERON:0000042 ! serous membrane relationship: has_part UBERON:0002553 ! anatomical cavity @@ -14730,7 +14849,6 @@ subset: efo_slim xref: EFO:0003709 xref: TAO:0005077 xref: ZFA:0005077 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0005423 ! developing anatomical structure relationship: has_part CL:0000115 ! endothelial cell relationship: has_part CL:0000566 ! angioblastic mesenchymal cell @@ -15099,6 +15217,7 @@ synonym: "organ field" RELATED [] xref: AEO:0000170 xref: EFO:0001649 xref: EHDAA2:0003170 +xref: FBbt:00005426 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: Wikipedia:Anlage_(biology) is_a: UBERON:0000479 {source="FBbt"} ! tissue is_a: UBERON:0005423 {source="AEO", source="FBbt"} ! developing anatomical structure @@ -15301,6 +15420,7 @@ subset: common_anatomy subset: upper_level synonym: "multicellular structure" EXACT [FBbt:00100313] xref: CARO:0010000 +xref: FBbt:00100313 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: RO:0000086 PATO:0001993 ! has quality multicellular @@ -15538,6 +15658,7 @@ def: "A subdivision of an anatomical system." [http://orcid.org/0000-0002-6601-2 subset: common_anatomy subset: human_reference_atlas subset: upper_level +xref: FBbt:00007330 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67509 xref: SCTID:91690000 is_a: UBERON:0010000 {source="FBbt"} ! multicellular anatomical structure @@ -15706,7 +15827,6 @@ synonym: "tunica fibrosa" BROAD [] xref: FMA:58102 xref: SCTID:361318005 xref: Wikipedia:Fibrous_tunic_of_eyeball -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004923 {source="FMA"} ! organ component layer is_a: UBERON:0010314 ! structure with developmental contribution from neural crest @@ -15828,6 +15948,7 @@ name: non-connected functional system namespace: uberon def: "An anatomical group whose component structures share a common function." [AEO:0000093, AEO:JB, FBbt:00007278, FBC:DOS] xref: AEO:0000093 +xref: FBbt:00007278 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0034923 ! disconnected anatomical group [Term] @@ -16064,6 +16185,7 @@ namespace: uberon def: "Material anatomical entity consisting of multiple anatomical structures that are not connected to each other." [CARO:0020000] subset: common_anatomy xref: CARO:0020000 +xref: FBbt:00007276 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000465 {source="CARO"} ! material anatomical entity relationship: has_component UBERON:0000061 {minCardinality="2"} ! anatomical structure relationship: RO:0000086 PATO:0010001 ! has quality disconnected @@ -16186,15 +16308,6 @@ is_functional: true is_a: RO:0002314 ! characteristic of part of inverse_of: bearer_of ! bearer of -[Typedef] -id: RO:0000079 -name: function of -def: "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -property_value: IAO:0000116 "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." xsd:string -is_a: RO:0000052 ! characteristic of -inverse_of: RO:0000085 ! has function - [Typedef] id: RO:0000080 name: quality of @@ -16204,23 +16317,6 @@ property_value: IAO:0000116 "A quality inheres in its bearer at all times for wh is_a: RO:0000052 ! characteristic of inverse_of: RO:0000086 ! has quality -[Typedef] -id: RO:0000081 -name: role of -def: "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -property_value: IAO:0000116 "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." xsd:string -is_a: RO:0000052 ! characteristic of -inverse_of: RO:0000087 ! has role - -[Typedef] -id: RO:0000085 -name: has function -def: "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" [] -property_value: IAO:0000116 "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." xsd:string -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of - [Typedef] id: RO:0000086 name: has quality @@ -16228,30 +16324,6 @@ def: "a relation between an independent continuant (the bearer) and a quality, i property_value: IAO:0000116 "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." xsd:string is_a: bearer_of ! bearer of -[Typedef] -id: RO:0000087 -name: has role -def: "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" [] -property_value: IAO:0000116 "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." xsd:string -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of - -[Typedef] -id: RO:0000091 -name: has disposition -def: "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" [] -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of -inverse_of: RO:0000092 ! disposition of - -[Typedef] -id: RO:0000092 -name: disposition of -def: "inverse of has disposition" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -subset: RO:0002259 -is_a: RO:0000052 ! characteristic of - [Typedef] id: RO:0001000 name: derives from @@ -16283,8 +16355,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: IAO:0000116 "Location as a relation between instances: The primitive instance-level relation c located_in r at t reflects the fact that each continuant is at any given time associated with exactly one spatial region, namely its exact location. Following we can use this relation to define a further instance-level location relation - not between a continuant and the region which it exactly occupies, but rather between one continuant and another. c is located in c1, in this sense, whenever the spatial region occupied by c is part_of the spatial region occupied by c1. Note that this relation comprehends both the relation of exact location between one continuant and another which obtains when r and r1 are identical (for example, when a portion of fluid exactly fills a cavity), as well as those sorts of inexact location relations which obtain, for example, between brain and head or between ovum and uterus" xsd:string property_value: IAO:0000116 "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" xsd:string property_value: seeAlso "https://wiki.geneontology.org/Located_in" xsd:anyURI -domain: BFO:0000004 {IAO:0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant -range: BFO:0000004 {IAO:0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant is_transitive: true transitive_over: part_of ! part of @@ -16303,8 +16373,6 @@ name: has 2D boundary def: "a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity" [] property_value: IAO:0000116 "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." xsd:string property_value: IAO:0000116 "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." xsd:string -domain: BFO:0000040 ! material entity -range: BFO:0000141 ! immaterial entity is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -16320,34 +16388,6 @@ name: has synaptic terminal of is_a: overlaps ! overlaps inverse_of: RO:0002130 ! has synaptic terminal in -[Typedef] -id: RO:0002015 -name: has positive regulatory component activity -def: "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." [] -comment: By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'. -is_a: has_regulatory_component_activity ! has regulatory component activity -is_a: positively_regulated_by ! positively regulated by -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:31:17Z - -[Typedef] -id: RO:0002017 -name: has component activity -comment: A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B. -is_a: RO:0002018 ! has component process -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:44:33Z - -[Typedef] -id: RO:0002018 -name: has component process -def: "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." [] -domain: BFO:0000015 ! process -range: BFO:0000015 ! process -is_a: has_component ! has component -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:49:21Z - [Typedef] id: RO:0002021 name: occurs across @@ -16356,43 +16396,6 @@ is_a: RO:0002479 ! has part that occurs in created_by: https://orcid.org/0000-0002-7073-9172 creation_date: 2017-07-20T17:19:37Z -[Typedef] -id: RO:0002022 -name: directly regulated by -comment: Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. {xref="https://orcid.org/0000-0002-7073-9172"} -is_a: regulated_by ! regulated by -inverse_of: directly_regulates ! directly regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:24Z - -[Typedef] -id: RO:0002023 -name: directly negatively regulated by -def: "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1." [https://orcid.org/0000-0002-7073-9172] -is_a: RO:0002022 ! directly regulated by -inverse_of: directly_negatively_regulates ! directly negatively regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:38Z - -[Typedef] -id: RO:0002024 -name: directly positively regulated by -def: "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1." [https://orcid.org/0000-0002-7073-9172] -is_a: RO:0002022 ! directly regulated by -inverse_of: directly_positively_regulates ! directly positively regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:47Z - -[Typedef] -id: RO:0002025 -name: has effector activity -def: "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity." [https://orcid.org/0000-0002-7073-9172] -comment: This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations. -is_functional: true -is_a: RO:0002017 ! has component activity -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-22T14:14:36Z - [Typedef] id: RO:0002081 name: before or simultaneous with @@ -16519,8 +16522,6 @@ id: RO:0002150 name: continuous with def: "X continuous_with Y if and only if X and Y share a fiat boundary." [] property_value: seeAlso "FMA:85972" xsd:string -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_symmetric: true is_a: RO:0002323 ! mereotopologically related to @@ -16583,7 +16584,6 @@ name: connects def: "c connects a if and only if there exist some b such that a and b are similar parts of the same system, and c connects b, specifically, c connects a with b. When one structure connects two others it unites some aspect of the function or role they play within the system." [] property_value: seeAlso "https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern" xsd:anyURI property_value: seeAlso "https://github.com/obophenotype/uberon/wiki/Modeling-articulations-Design-Pattern" xsd:anyURI -domain: BFO:0000004 ! independent continuant is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -16614,8 +16614,6 @@ id: RO:0002202 name: develops from def: "x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y" [] comment: This is the transitive form of the develops from relation -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_transitive: true is_a: RO:0002254 ! has developmental contribution from is_a: RO:0002258 ! developmentally preceded by @@ -16635,7 +16633,6 @@ is_a: RO:0002388 ! has potential to directly develop into id: RO:0002206 name: expressed in def: "x expressed in y if and only if there is a gene expression process (GO:0010467) that occurs in y, and one of the following holds: (i) x is a gene, and x is transcribed into a transcript as part of the gene expression process (ii) x is a transcript, and the transcription of x is part of the gene expression process (iii) x is a mature gene product such as a protein, and x was translated or otherwise processes from a transcript that was transcribed as part of this gene expression process" [] -domain: BFO:0000002 ! continuant range: UBERON:0000465 ! material anatomical entity is_a: RO:0002330 ! genomically related to inverse_of: RO:0002292 ! expresses @@ -16676,8 +16673,6 @@ id: RO:0002222 name: temporally related to comment: A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. subset: ro-eco -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent [Typedef] id: RO:0002223 @@ -16769,8 +16764,6 @@ name: developmentally preceded by def: "Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p" [] comment: This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from property_value: IAO:0000116 "false" xsd:boolean -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant is_a: RO:0002324 ! developmentally related to inverse_of: RO:0002286 ! developmentally succeeded by @@ -16780,7 +16773,6 @@ name: acts upstream of def: "c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes." [] subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of -holds_over_chain: RO:0002327 causally_upstream_of is_a: RO:0002264 ! acts upstream of or within [Typedef] @@ -16790,7 +16782,6 @@ def: "c acts upstream of or within p if c is enables f, and f is causally upstre subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term synonym: "affects" RELATED [] property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of_or_within is_a: RO:0002500 ! causal agent in process [Typedef] @@ -16842,17 +16833,6 @@ id: RO:0002324 name: developmentally related to def: "A relationship that holds between entities participating in some developmental process (GO:0032502)" [] -[Typedef] -id: RO:0002327 -name: enables -def: "c enables p iff c is capable of p and c acts to execute p." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Enables" xsd:anyURI -is_a: capable_of ! capable of -inverse_of: RO:0002333 ! enabled by -transitive_over: has_part ! has part -transitive_over: RO:0002017 ! has component activity - [Typedef] id: RO:0002328 name: functionally related to @@ -16868,34 +16848,11 @@ is_a: RO:0002328 ! functionally related to id: RO:0002330 name: genomically related to def: "holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts." [] -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant - -[Typedef] -id: RO:0002331 -name: involved in -def: "c involved_in p if and only if c enables some process p', and p' is part of p" [] -property_value: seeAlso "https://wiki.geneontology.org/Involved_in" xsd:anyURI -holds_over_chain: RO:0002327 part_of -is_a: participates_in ! participates in -is_a: RO:0002431 ! involved in or involved in regulation of -transitive_over: part_of ! part of - -[Typedef] -id: RO:0002333 -name: enabled by -def: "inverse of enables" [] -subset: http://purl.obolibrary.org/obo/valid_for_gocam -property_value: seeAlso "https://wiki.geneontology.org/Enabled_by" xsd:anyURI -is_a: has_participant ! has participant -is_a: RO:0002328 ! functionally related to [Typedef] id: RO:0002337 name: related via localization to def: "A relationship that holds via some process of localization" [] -domain: BFO:0000015 ! process -range: BFO:0000002 ! continuant [Typedef] id: RO:0002350 @@ -16962,8 +16919,6 @@ name: in branching relationship with def: "A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network." [] property_value: seeAlso http://purl.obolibrary.org/obo/ro/docs/branching_part_of.png property_value: seeAlso "https://github.com/obophenotype/uberon/issues/170" xsd:anyURI -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -17025,31 +16980,6 @@ name: has potential to directly develop into def: "x has potential to directly develop into y iff x directly develops into y or x is capable of directly developing into y" [] is_a: RO:0002387 ! has potential to develop into -[Typedef] -id: RO:0002407 -name: indirectly positively regulates -def: "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." [] -property_value: seeAlso "https://wiki.geneontology.org/Indirectly_positively_regulates" xsd:anyURI -holds_over_chain: directly_positively_regulates directly_positively_regulates -holds_over_chain: directly_positively_regulates RO:0002407 -holds_over_chain: RO:0002409 RO:0002409 -is_transitive: true -is_a: positively_regulates ! positively regulates -is_a: RO:0012012 ! indirectly regulates -transitive_over: directly_positively_regulates ! directly positively regulates - -[Typedef] -id: RO:0002409 -name: indirectly negatively regulates -def: "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." [] -property_value: seeAlso "https://wiki.geneontology.org/Indirectly_negatively_regulates" xsd:anyURI -holds_over_chain: directly_negatively_regulates directly_negatively_regulates -holds_over_chain: directly_negatively_regulates RO:0002409 -is_transitive: true -is_a: negatively_regulates ! negatively regulates -is_a: RO:0012012 ! indirectly regulates -transitive_over: directly_negatively_regulates ! directly negatively regulates - [Typedef] id: RO:0002410 name: causally related to @@ -17060,28 +16990,9 @@ property_value: IAO:0000116 "This branch of the ontology deals with causal relat id: RO:0002428 name: involved in regulation of def: "c involved in regulation of p if c is involved in some p' and p' regulates some p" [] -holds_over_chain: RO:0002327 regulates -holds_over_chain: RO:0002331 regulates is_a: RO:0002263 ! acts upstream of is_a: RO:0002431 ! involved in or involved in regulation of -[Typedef] -id: RO:0002429 -name: involved in positive regulation of -def: "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" [] -holds_over_chain: RO:0002327 positively_regulates -holds_over_chain: RO:0002331 positively_regulates -is_a: RO:0002428 ! involved in regulation of - -[Typedef] -id: RO:0002430 -name: involved in negative regulation of -def: "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" [] -property_value: RO:0004050 RO:0002428 -holds_over_chain: RO:0002327 negatively_regulates -holds_over_chain: RO:0002331 negatively_regulates -is_a: RO:0002428 ! involved in regulation of - [Typedef] id: RO:0002431 name: involved in or involved in regulation of @@ -17091,87 +17002,17 @@ is_a: RO:0002264 ! acts upstream of or within is_a: RO:0002328 ! functionally related to is_a: RO:0002500 ! causal agent in process -[Typedef] -id: RO:0002432 -name: is active in -def: "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure." [https://orcid.org/0000-0002-6601-2165, https://orcid.org/0000-0002-7073-9172] -synonym: "enables activity in" EXACT [] -property_value: seeAlso "https://wiki.geneontology.org/Is_active_in" xsd:anyURI -is_a: overlaps ! overlaps -is_a: RO:0002328 ! functionally related to - [Typedef] id: RO:0002433 name: contributes to morphology of def: "p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm." [] is_a: overlaps ! overlaps -[Typedef] -id: RO:0002434 -name: interacts with -def: "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." [] -subset: ro-eco -synonym: "in pairwise interaction with" EXACT [] -property_value: IAO:0000116 "Considering relabeling as 'pairwise interacts with'" xsd:anyURI -property_value: IAO:0000116 "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." xsd:string -property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_symmetric: true - -[Typedef] -id: RO:0002436 -name: molecularly interacts with -def: "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." [] -property_value: seeAlso ECO:0000353 -is_symmetric: true -is_a: RO:0002434 ! interacts with - -[Typedef] -id: RO:0002447 -name: phosphorylates -property_value: IAO:0000116 "Axiomatization to GO to be added later" xsd:string -is_a: RO:0002436 ! molecularly interacts with - -[Typedef] -id: RO:0002448 -name: directly regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." [] -synonym: "molecularly controls" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002436 ! molecularly interacts with -is_a: RO:0011002 ! regulates activity of - -[Typedef] -id: RO:0002449 -name: directly negatively regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." [] -synonym: "molecularly decreases activity of" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002448 ! directly regulates activity of - -[Typedef] -id: RO:0002450 -name: directly positively regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." [] -synonym: "molecularly increases activity of" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002448 ! directly regulates activity of - -[Typedef] -id: RO:0002464 -name: helper property (not for use in curation) - [Typedef] id: RO:0002473 name: composed primarily of def: "x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y." [] subset: ro-eco -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: has_part ! has part [Typedef] @@ -17179,13 +17020,6 @@ id: RO:0002479 name: has part that occurs in def: "p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c." [] subset: ro-eco -domain: BFO:0000003 ! occurrent -range: BFO:0000004 ! independent continuant - -[Typedef] -id: RO:0002481 -name: is kinase activity -is_a: RO:0002564 ! molecular interaction relation helper property [Typedef] id: RO:0002485 @@ -17203,8 +17037,6 @@ is_a: RO:0002170 ! connected to [Typedef] id: RO:0002487 name: relation between physical entity and a process or stage -domain: BFO:0000004 ! independent continuant -range: BFO:0000003 ! occurrent [Typedef] id: RO:0002488 @@ -17301,8 +17133,6 @@ inverse_of: process_has_causal_agent ! process has causal agent id: RO:0002501 name: causal relation between processes def: "p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q." [] -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent is_a: RO:0002410 ! causally related to [Typedef] @@ -17310,14 +17140,6 @@ id: RO:0002502 name: depends on property_value: seeAlso BFO:0000169 -[Typedef] -id: RO:0002506 -name: causal relation between entities -property_value: IAO:0000116 "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" xsd:string -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant -is_a: RO:0002410 ! causally related to - [Typedef] id: RO:0002551 name: has skeleton @@ -17328,32 +17150,6 @@ is_a: has_part ! has part inverse_of: RO:0002576 ! skeleton of is_asymmetric: true -[Typedef] -id: RO:0002559 -name: causally influenced by -is_a: RO:0002506 ! causal relation between entities -inverse_of: RO:0002566 ! causally influences - -[Typedef] -id: RO:0002563 -name: interaction relation helper property -property_value: seeAlso http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29 -property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI -is_a: RO:0002464 ! helper property (not for use in curation) - -[Typedef] -id: RO:0002564 -name: molecular interaction relation helper property -is_a: RO:0002563 ! interaction relation helper property - -[Typedef] -id: RO:0002566 -name: causally influences -def: "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." [] -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant -is_a: RO:0002506 ! causal relation between entities - [Typedef] id: RO:0002567 name: biomechanically related to @@ -17383,8 +17179,6 @@ id: RO:0002570 name: conduit for def: "x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x." [] subset: ro-eco -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: overlaps ! overlaps [Typedef] @@ -17392,7 +17186,6 @@ id: RO:0002571 name: lumen of def: "x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull." [] subset: ro-eco -range: BFO:0000040 ! material entity is_a: part_of ! part of [Typedef] @@ -17400,7 +17193,6 @@ id: RO:0002572 name: luminal space of def: "s is luminal space of x iff s is lumen_of x and s is an immaterial entity" [] subset: ro-eco -domain: BFO:0000141 ! immaterial entity is_a: RO:0002571 ! lumen of [Typedef] @@ -17431,8 +17223,6 @@ id: RO:0002595 name: causal relation between material entity and a process def: "A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity." [] property_value: IAO:0000116 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string -domain: BFO:0000040 ! material entity -range: BFO:0000015 ! process is_a: RO:0002410 ! causally related to [Typedef] @@ -17456,61 +17246,6 @@ def: "Holds between c and p if and only if c is capable of some activity a, and holds_over_chain: capable_of positively_regulates is_a: RO:0002596 ! capable of regulating -[Typedef] -id: RO:0004031 -name: enables subfunction -def: "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." [] -holds_over_chain: RO:0002327 has_part -is_a: RO:0002328 ! functionally related to -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-25T23:20:13Z - -[Typedef] -id: RO:0004032 -name: acts upstream of or within, positive effect -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect" xsd:anyURI -holds_over_chain: RO:0002327 RO:0004047 -is_a: RO:0002264 ! acts upstream of or within -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:49:30Z - -[Typedef] -id: RO:0004033 -name: acts upstream of or within, negative effect -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: RO:0004050 RO:0002264 -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect" xsd:anyURI -holds_over_chain: RO:0002327 RO:0004046 -is_a: RO:0002264 ! acts upstream of or within -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:49:51Z - -[Typedef] -id: RO:0004034 -name: acts upstream of, positive effect -def: "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of,_positive_effect -is_a: RO:0002263 ! acts upstream of -is_a: RO:0004032 ! acts upstream of or within, positive effect -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:53:14Z - -[Typedef] -id: RO:0004035 -name: acts upstream of, negative effect -def: "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: RO:0004050 RO:0002263 -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of,_negative_effect -is_a: RO:0002263 ! acts upstream of -is_a: RO:0004033 ! acts upstream of or within, negative effect -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:53:22Z - [Typedef] id: RO:0004046 name: causally upstream of or within, negative effect @@ -17528,14 +17263,6 @@ is_a: causally_upstream_of_or_within ! causally upstream of or within created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-03-13T23:55:19Z -[Typedef] -id: RO:0011002 -name: regulates activity of -def: "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002566 ! causally influences - [Typedef] id: RO:0012000 name: has small molecule regulator @@ -17563,23 +17290,6 @@ is_a: RO:0012004 ! is small molecule regulator of created_by: https://orcid.org/0000-0003-1813-6857 creation_date: 2020-06-24T13:15:26Z -[Typedef] -id: RO:0012011 -name: indirectly causally upstream of -def: "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." [] -is_a: causally_upstream_of ! causally upstream of -created_by: https://orcid.org/0000-0003-1813-6857 -creation_date: 2022-09-26T06:07:17Z - -[Typedef] -id: RO:0012012 -name: indirectly regulates -def: "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." [] -is_a: regulates ! regulates -is_a: RO:0012011 ! indirectly causally upstream of -created_by: https://orcid.org/0000-0003-1813-6857 -creation_date: 2022-09-26T06:08:01Z - [Typedef] id: RO:0013001 name: has synaptic IO in region @@ -17661,6 +17371,8 @@ id: RO:0017001 name: device utilizes material def: "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y." [] synonym: "utilizes" BROAD [] +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-9625-1899 +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-2620-0345 holds_over_chain: capable_of has_input creation_date: 2021-11-08T12:00:00Z @@ -17687,8 +17399,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002220 property_value: IAO:0000116 "This relation acts as a join point with BSPO" xsd:string -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_a: RO:0002163 ! spatially disjoint from [Typedef] @@ -17707,7 +17417,6 @@ namespace: external def: "Inverse of characteristic_of" [] xref: RO:0000053 property_value: IAO:0000116 "A bearer can have many dependents, and its dependents can exist for different periods of time, but none of its dependents can exist when the bearer does not exist." xsd:string -range: BFO:0000020 ! specifically dependent continuant is_inverse_functional: true [Typedef] @@ -17718,7 +17427,6 @@ def: "X outer_layer_of Y iff:\n. X :continuant that bearer_of some PATO:laminar\ comment: A relationship that applies between a continuant and its outer, bounding layer. Examples include the relationship between a multicellular organism and its integument, between an animal cell and its plasma membrane, and between a membrane bound organelle and its outer/bounding membrane. subset: ro-eco xref: RO:0002007 -range: BFO:0000040 ! material entity is_a: part_of ! part of [Typedef] @@ -17728,8 +17436,6 @@ namespace: external def: "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. " [] subset: ro-eco xref: RO:0002215 -domain: BFO:0000004 ! independent continuant -range: BFO:0000015 ! process is_a: capable_of_part_of ! capable of part of [Typedef] @@ -17828,45 +17534,6 @@ id: channels_into name: channels_into namespace: uberon -[Typedef] -id: directly_negatively_regulates -name: directly negatively regulates -namespace: external -def: "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002630 -property_value: RO:0004050 RO:0002578 -property_value: seeAlso "https://wiki.geneontology.org/Directly_negatively_regulates" xsd:anyURI -is_a: directly_regulates ! directly regulates -is_a: negatively_regulates ! negatively regulates - -[Typedef] -id: directly_positively_regulates -name: directly positively regulates -namespace: external -def: "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002629 -property_value: seeAlso "https://wiki.geneontology.org/Directly_positively_regulates" xsd:anyURI -is_a: directly_regulates ! directly regulates -is_a: positively_regulates ! positively regulates - -[Typedef] -id: directly_regulates -name: directly regulates -namespace: external -def: "p directly regulates q iff p is immediately causally upstream of q and p regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002578 -is_a: immediately_causally_upstream_of ! immediately causally upstream of -is_a: regulates ! regulates - [Typedef] id: distally_connected_to name: distally connected to @@ -17918,8 +17585,6 @@ namespace: external def: "x 'has end location' y if and only if there exists some process z such that x 'ends with' z and z 'occurs in' y" [] subset: ro-eco xref: RO:0002232 -domain: BFO:0000015 ! process -range: BFO:0000004 ! independent continuant holds_over_chain: ends_with occurs_in is_a: RO:0002479 ! has part that occurs in @@ -17942,7 +17607,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_gocam subset: ro-eco xref: RO:0002233 property_value: seeAlso "https://wiki.geneontology.org/Has_input" xsd:anyURI -domain: BFO:0000015 ! process holds_over_chain: starts_with has_input is_a: has_participant ! has participant inverse_of: RO:0002352 ! input of @@ -17955,18 +17619,6 @@ property_value: term_tracker_item https://github.com/obophenotype/cell-ontology/ is_obsolete: true replaced_by: RO:0015016 -[Typedef] -id: has_negative_regulatory_component_activity -name: has negative regulatory component activity -namespace: external -def: "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." [] -comment: By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'. -xref: RO:0002014 -is_a: has_regulatory_component_activity ! has regulatory component activity -is_a: negatively_regulated_by ! negatively regulated by -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:31:01Z - [Typedef] id: has_ontology_root_term name: has ontology root term @@ -18015,8 +17667,6 @@ namespace: external def: "a relation between a process and a continuant, in which the continuant is somehow involved in the process" [] xref: RO:0000057 property_value: IAO:0000116 "Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time." xsd:string -domain: BFO:0000003 ! occurrent -range: BFO:0000002 ! continuant holds_over_chain: has_part has_participant [Typedef] @@ -18054,17 +17704,6 @@ is_a: has_primary_input_or_output ! has primary input or output created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-12-13T11:26:32Z -[Typedef] -id: has_regulatory_component_activity -name: has regulatory component activity -namespace: external -def: "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." [] -xref: RO:0002013 -is_a: regulated_by ! regulated by -is_a: RO:0002017 ! has component activity -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:30:46Z - [Typedef] id: has_small_molecule_activator name: has small molecule activator @@ -18083,8 +17722,6 @@ namespace: external def: "x 'has starts location' y if and only if there exists some process z such that x 'starts with' z and z 'occurs in' y" [] subset: ro-eco xref: RO:0002231 -domain: BFO:0000015 ! process -range: BFO:0000004 ! independent continuant holds_over_chain: starts_with occurs_in is_a: RO:0002479 ! has part that occurs in @@ -18112,24 +17749,6 @@ xref: RO:0002338 is_a: results_in_transport_to_from_or_in ! results in transport to from or in transitive_over: part_of ! part of -[Typedef] -id: immediately_causally_downstream_of -name: immediately causally downstream of -namespace: external -xref: RO:0002405 -is_a: causally_downstream_of ! causally downstream of -is_a: immediately_preceded_by ! immediately preceded by -inverse_of: immediately_causally_upstream_of ! immediately causally upstream of - -[Typedef] -id: immediately_causally_upstream_of -name: immediately causally upstream of -namespace: external -def: "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." [] -xref: RO:0002412 -is_a: causally_upstream_of ! causally upstream of -is_a: immediately_precedes ! immediately precedes - [Typedef] id: immediately_preceded_by name: immediately preceded by @@ -18188,17 +17807,6 @@ is_a: causally_upstream_of,_negative_effect ! causally upstream of, negative eff is_a: regulates ! regulates inverse_of: negatively_regulated_by ! negatively regulated by -[Typedef] -id: negatively_regulates_characteristic -name: negatively regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." [] -xref: RO:0019002 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -holds_over_chain: negatively_regulates positively_regulates_characteristic -holds_over_chain: positively_regulates negatively_regulates_characteristic -is_a: regulates_characteristic ! regulates characteristic - [Typedef] id: occurs_in name: occurs in @@ -18210,8 +17818,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: BFO:0000066 property_value: seeAlso "https://wiki.geneontology.org/Occurs_in" xsd:anyURI -domain: BFO:0000003 ! occurrent -range: BFO:0000004 ! independent continuant holds_over_chain: part_of occurs_in inverse_of: BFO:0000067 ! contains process transitive_over: part_of ! part of @@ -18272,8 +17878,6 @@ name: participates in namespace: external def: "a relation between a continuant and a process, in which the continuant is somehow involved in the process" [] xref: RO:0000056 -domain: BFO:0000002 ! continuant -range: BFO:0000003 ! occurrent inverse_of: has_participant ! has participant [Typedef] @@ -18301,16 +17905,6 @@ is_a: causally_upstream_of,_positive_effect ! causally upstream of, positive eff is_a: regulates ! regulates inverse_of: positively_regulated_by ! positively regulated by -[Typedef] -id: positively_regulates_characteristic -name: positively regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." [] -xref: RO:0019001 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -holds_over_chain: positively_regulates positively_regulates_characteristic -is_a: regulates_characteristic ! regulates characteristic - [Typedef] id: posteriorly_connected_to name: posteriorly connected to @@ -18326,8 +17920,6 @@ def: "x is preceded by y if and only if the time point at which y ends is before subset: ro-eco xref: BFO:0000062 property_value: IAO:0000116 "An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other." xsd:string -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent holds_over_chain: part_of preceded_by is_transitive: true is_a: RO:0002086 ! ends after @@ -18340,8 +17932,6 @@ namespace: external def: "x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." [] subset: ro-eco xref: BFO:0000063 -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent holds_over_chain: part_of precedes is_transitive: true is_a: RO:0002222 ! temporally related to @@ -18361,8 +17951,6 @@ namespace: external def: "a produced_by b iff some process that occurs_in b has_output a." [] subset: ro-eco xref: RO:0003001 -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity [Typedef] id: produces @@ -18372,8 +17960,6 @@ def: "a produces b if some process that occurs_in a has_output b, where a and b comment: Note that this definition doesn't quite distinguish the output of a transformation process from a production process, which is related to the identity/granularity issue. subset: ro-eco xref: RO:0003000 -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity inverse_of: produced_by ! produced by [Typedef] @@ -18396,8 +17982,6 @@ namespace: external def: "inverse of regulates" [] subset: RO:0002259 xref: RO:0002334 -domain: BFO:0000015 ! process -range: BFO:0000015 ! process is_transitive: true is_a: causally_downstream_of_or_within ! causally downstream of or within @@ -18410,26 +17994,10 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002211 -domain: BFO:0000015 ! process -range: BFO:0000015 ! process -holds_over_chain: directly_regulates directly_regulates holds_over_chain: ends_with regulates is_transitive: true is_a: causally_upstream_of ! causally upstream of inverse_of: regulated_by ! regulated by -transitive_over: RO:0002025 ! has effector activity - -[Typedef] -id: regulates_characteristic -name: regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." [] -xref: RO:0019000 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -domain: BFO:0000015 ! process -range: PATO:0000001 ! quality -holds_over_chain: regulates regulates_characteristic -is_a: RO:0002410 ! causally related to [Typedef] id: regulates_levels_of @@ -18437,8 +18005,6 @@ name: regulates levels of namespace: external def: "p regulates levels of c if p regulates some amount (PATO:0000070) of c" [] xref: RO:0002332 -domain: BFO:0000015 ! process -range: BFO:0000040 ! material entity is_a: RO:0002328 ! functionally related to [Typedef] diff --git a/src/ontology/subsets/eye_upper_slim.owl b/src/ontology/subsets/eye_upper_slim.owl index d878a3456..a35d2da8e 100644 --- a/src/ontology/subsets/eye_upper_slim.owl +++ b/src/ontology/subsets/eye_upper_slim.owl @@ -14,8 +14,7 @@ xmlns:foaf="http://xmlns.com/foaf/0.1/" xmlns:pato="http://purl.obolibrary.org/obo/pato#" xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#" - xmlns:swrl="http://www.w3.org/2003/11/swrl#" - xmlns:swrlb="http://www.w3.org/2003/11/swrlb#" + xmlns:sssom="https://w3id.org/sssom/" xmlns:terms="http://purl.org/dc/terms/" xmlns:uberon="http://purl.obolibrary.org/obo/uberon#" xmlns:ubprop="http://purl.obolibrary.org/obo/ubprop#" @@ -23,8 +22,8 @@ xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#" xmlns:ncbitaxon="http://purl.obolibrary.org/obo/ncbitaxon#"> - - 2024-04-05 + + 2024-05-15 @@ -393,14 +392,6 @@ WHERE { - - - - - - - - @@ -433,6 +424,14 @@ WHERE { + + + + + + + + @@ -481,6 +480,14 @@ WHERE { + + + + + + + + @@ -497,6 +504,14 @@ WHERE { + + + + + + + + @@ -1029,12 +1044,6 @@ WHERE { - - - - - - @@ -1237,6 +1246,12 @@ WHERE { + + + + + + - - @@ -1515,19 +1519,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence - A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists. - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - function of - - - - @@ -1541,31 +1532,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence - A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists. - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - role of - - - - - - - - - - a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence - A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists. - has function - - - - @@ -1577,42 +1543,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence - A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists. - has role - - - - - - - - - - - a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence - has disposition - - - - - - - - - inverse of has disposition - - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - disposition of - - - - @@ -1652,8 +1582,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - @@ -1665,18 +1593,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. located in https://wiki.geneontology.org/Located_in - - - - - This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation. - - - - - - This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation. - @@ -1697,8 +1613,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts. Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape. @@ -1732,18 +1646,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - - - - - - - X outer_layer_of Y iff: . X :continuant that bearer_of some PATO:laminar . X part_of Y @@ -1765,81 +1667,6 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 - - - - - - A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B. - - 2017-05-24T09:30:46Z - RO:0002013 - external - has_regulatory_component_activity - has_regulatory_component_activity - has regulatory component activity - - - - - - - - - - A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B. - - 2017-05-24T09:31:01Z - RO:0002014 - external - has_negative_regulatory_component_activity - has_negative_regulatory_component_activity - By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'. - has negative regulatory component activity - - - - - - - - - - A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B. - - 2017-05-24T09:31:17Z - By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'. - has positive regulatory component activity - - - - - - - - - - 2017-05-24T09:44:33Z - A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B. - has component activity - - - - - - - - - - - w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type. - - 2017-05-24T09:49:21Z - has component process - - - - @@ -1852,83 +1679,6 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 - - - - - - - 2017-09-17T13:52:24Z - Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. - directly regulated by - - - - - Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. - - - - - - - - - - - Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1. - - 2017-09-17T13:52:38Z - directly negatively regulated by - - - - - Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1. - - - - - - - - - - - Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1. - - 2017-09-17T13:52:47Z - directly positively regulated by - - - - - Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1. - - - - - - - - - - - A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity. - - 2017-09-22T14:14:36Z - This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations. - has effector activity - - - - - A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity. - - - - - @@ -2250,8 +2000,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - X continuous_with Y if and only if X and Y share a fiat boundary. continuous with FMA:85972 @@ -2371,7 +2119,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - c connects a if and only if there exist some b such that a and b are similar parts of the same system, and c connects b, specifically, c connects a with b. When one structure connects two others it unites some aspect of the function or role they play within the system. connects https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern @@ -2440,8 +2187,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y This is the transitive form of the develops from relation develops from @@ -2468,7 +2213,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - @@ -2526,20 +2270,10 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - - - - - p regulates q iff p is causally upstream of q, the execution of p is not constant and varies according to specific conditions, and p influences the rate or magnitude of execution of q due to an effect either on some enabler of q or some enabler of a part of q. RO:0002211 external @@ -2612,8 +2346,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. RO:0002215 external @@ -2658,8 +2390,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - x adjacent to y if and only if x and y share a boundary. This relation acts as a join point with BSPO RO:0002220 @@ -2689,8 +2419,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. temporally related to @@ -2793,8 +2521,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - @@ -2815,8 +2541,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - @@ -2838,7 +2562,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - @@ -2970,8 +2693,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p false This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from @@ -2984,10 +2705,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes. acts upstream of @@ -3000,10 +2717,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - c acts upstream of or within p if c is enables f, and f is causally upstream of or within p. c is a material entity and p is an process. affects @@ -3253,27 +2966,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - - - - - - - - c enables p iff c is capable of p and c acts to execute p. - - enables - https://wiki.geneontology.org/Enables - - - - @@ -3296,40 +2988,16 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts. genomically related to - - - - - - - - - - - - - - c involved_in p if and only if c enables some process p', and p' is part of p - involved in - https://wiki.geneontology.org/Involved_in - - - - - - p regulates levels of c if p regulates some amount (PATO:0000070) of c RO:0002332 external @@ -3341,26 +3009,11 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - inverse of enables - - enabled by - https://wiki.geneontology.org/Enabled_by - - - - - - inverse of regulates RO:0002334 external @@ -3408,8 +3061,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relationship that holds via some process of localization related via localization to @@ -3536,7 +3187,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - has member is a mereological relation between a collection and an item. has member @@ -3647,8 +3297,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network. in branching relationship with @@ -3777,76 +3425,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - RO:0002405 - external - immediately_causally_downstream_of - immediately_causally_downstream_of - immediately causally downstream of - immediately causally downstream of - - - - - - - - - - - - - - - - - - - - - - - - - - - p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q. - indirectly positively regulates - https://wiki.geneontology.org/Indirectly_positively_regulates - - - - - - - - - - - - - - - - - - - - - - - p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q. - indirectly negatively regulates - https://wiki.geneontology.org/Indirectly_negatively_regulates - - - - @@ -3896,22 +3474,6 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q. - RO:0002412 - external - immediately_causally_upstream_of - immediately_causally_upstream_of - immediately causally upstream of - immediately causally upstream of - - - - @@ -3951,57 +3513,12 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - - - c involved in regulation of p if c is involved in some p' and p' regulates some p involved in regulation of - - - - - - - - - - - - - c involved in regulation of p if c is involved in some p' and p' positively regulates some p - involved in positive regulation of - - - - - - - - - - - - - - - - - c involved in regulation of p if c is involved in some p' and p' negatively regulates some p - - involved in negative regulation of - - - - @@ -4015,27 +3532,6 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure. - enables activity in - - is active in - https://wiki.geneontology.org/Is_active_in - - - - - c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure. - - - - - - @@ -4046,118 +3542,10 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - - A relationship that holds between two entities in which the processes executed by the two entities are causally connected. - This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact. - Considering relabeling as 'pairwise interacts with' - in pairwise interaction with - - interacts with - http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ - - - - - - - - - - An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other. - molecularly interacts with - - - - - - - - - - Axiomatization to GO to be added later - phosphorylates - - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B. - -A and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B. - molecularly controls - directly regulates activity of - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. -For example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B. - molecularly decreases activity of - directly negatively regulates activity of - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. -For example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B. - molecularly increases activity of - directly positively regulates activity of - - - - - - - - helper property (not for use in curation) - - - - - - x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y. composed primarily of @@ -4168,8 +3556,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c. has part that occurs in @@ -4177,15 +3563,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - is kinase activity - - - - @@ -4210,8 +3587,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - relation between physical entity and a process or stage @@ -4392,8 +3767,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q. causal relation between processes @@ -4409,25 +3782,12 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch - causal relation between entities - - - - - A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision. @@ -4442,36 +3802,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - causally influenced by - - - - - - - - - interaction relation helper property - - http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ - - - - - - - - - molecular interaction relation helper property - - - - @@ -4489,28 +3819,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size). - causally influences - - - - @@ -4551,8 +3859,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x. conduit for @@ -4564,7 +3870,6 @@ For example, A and B may be gene products and binding of B by A positively regul - x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull. lumen of @@ -4576,7 +3881,6 @@ For example, A and B may be gene products and binding of B by A positively regul - s is luminal space of x iff s is lumen_of x and s is an immaterial entity luminal space of @@ -4597,24 +3901,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - p directly regulates q iff p is immediately causally upstream of q and p regulates q. - RO:0002578 - external - directly_regulates - - - - directly_regulates - directly regulates - - - - @@ -4690,8 +3976,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity. Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect. causal relation between material entity and a process @@ -4755,51 +4039,10 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q. - RO:0002629 - external - directly_positively_regulates - - - - directly_positively_regulates - directly positively regulates - https://wiki.geneontology.org/Directly_positively_regulates - - - - - - - - - - p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q. - - RO:0002630 - external - directly_negatively_regulates - - - - directly_negatively_regulates - directly negatively regulates - https://wiki.geneontology.org/Directly_negatively_regulates - - - - - - @@ -4822,8 +4065,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - a produced_by b iff some process that occurs_in b has_output a. RO:0003001 external @@ -4909,96 +4150,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P. - - 2018-01-25T23:20:13Z - enables subfunction - - - - - - - - - - - - - - 2018-01-26T23:49:30Z - - acts upstream of or within, positive effect - https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect - - - - - - - - - - - - - - - 2018-01-26T23:49:51Z - - acts upstream of or within, negative effect - https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect - - - - - - - - - - - - - - c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive - - 2018-01-26T23:53:14Z - - acts upstream of, positive effect - https://wiki.geneontology.org/Acts_upstream_of,_positive_effect - - - - - - - - - - - - - - c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative - - - 2018-01-26T23:53:22Z - - acts upstream of, negative effect - https://wiki.geneontology.org/Acts_upstream_of,_negative_effect - - - - @@ -5024,18 +4175,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B. - regulates activity of - - - - @@ -5132,31 +4271,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q. - - 2022-09-26T06:07:17Z - indirectly causally upstream of - - - - - - - - - - p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q. - - 2022-09-26T06:08:01Z - indirectly regulates - - - - @@ -5319,6 +4433,8 @@ For example, A and B may be gene products and binding of B by A positively regul X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y. + + 2021-11-08T12:00:00Z utilizes device utilizes material @@ -5326,69 +4442,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C. - - RO:0019000 - gene_ontology - regulates_characteristic - regulates_characteristic - regulates characteristic - - - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C. - - RO:0019001 - gene_ontology - positively_regulates_characteristic - positively_regulates_characteristic - positively regulates characteristic - - - - - - - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C. - - RO:0019002 - gene_ontology - negatively_regulates_characteristic - negatively_regulates_characteristic - negatively regulates characteristic - - - - @@ -5703,127 +4756,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts. - continuant - - - - - - - - - - - - - - - - - - - - An entity that has temporal parts and that happens, unfolds or develops through time. - occurrent - - - - - - - - - - - - - - - - b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002]) - A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. - independent continuant - - - - - - - - - p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003]) - An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. - process - - - - - - - - - - - - - - - b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003]) - A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. - specifically dependent continuant - - - - - - - - - - - - - - - - An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time. - material entity - - - - - - - - - - - - - - - immaterial entity - - - - @@ -5847,6 +4779,7 @@ For example, A and B may be gene products and binding of B by A positively regul VHOG:0001533 WBbt:0004017 XAO:0003012 + ZFA:0009000 The definition of cell is intended to represent all cells, and thus a cell is defined as a material entity and not an anatomical structure, which implies that it is part of an organism (or the entirety of one). @@ -5858,6 +4791,18 @@ For example, A and B may be gene products and binding of B by A positively regul A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane. CARO:mah + + + + FBbt:00007002 + + + + + + ZFA:0009000 + + @@ -5912,10 +4857,24 @@ For example, A and B may be gene products and binding of B by A positively regul + Any sensory receptor cell that is a(n) neuron and is capable of some detection of stimulus involved in sensory perception. + ZFA:0009001 neuronal receptor cell (sensu Animalia) neuronal receptor cell + + + + Any sensory receptor cell that is a(n) neuron and is capable of some detection of stimulus involved in sensory perception. + FBC:Autogenerated + + + + + ZFA:0009001 + + @@ -5924,6 +4883,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found in the embryo before the formation of all the gem layers is complete. + ZFA:0009002 early embryonic cell (metazoa) @@ -5932,6 +4892,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found in the embryo before the formation of all the gem layers is complete. GOC:tfm + + + + ZFA:0009002 + + @@ -5940,6 +4906,7 @@ For example, A and B may be gene products and binding of B by A positively regul Cell that is part of the migratory cranial neural crest population. Migratory cranial neural crest cells develop from premigratory cranial neural crest cells and have undergone epithelial to mesenchymal transition and delamination. + ZFA:0007091 migratory cranial neural crest cell @@ -5949,6 +4916,12 @@ For example, A and B may be gene products and binding of B by A positively regul ZFA:0007091 https://orcid.org/0000-0001-5208-3432 + + + + ZFA:0007091 + + @@ -5962,9 +4935,16 @@ For example, A and B may be gene products and binding of B by A positively regul + ZFA:0009010 glioblast + + + + ZFA:0009010 + + @@ -5982,6 +4962,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that will develop into a neuron often after a migration phase. BTO:0000930 FMA:70563 + ZFA:0009011 neuroblast neuroblast (sensu Vertebrata) @@ -5993,6 +4974,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:NV http://en.wikipedia.org/wiki/Neuroblast + + + + ZFA:0009011 + + @@ -6027,6 +5014,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-2086 FMA:63368 + ZFA:0005957 animal stem cell @@ -6041,6 +5029,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D013234 + + + + ZFA:0005957 + + @@ -6204,6 +5198,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:86475 MESH:D006412 VHOG:0001485 + ZFA:0009014 blood forming stem cell hemopoietic stem cell HSC @@ -6224,6 +5219,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:19022770 http://en.wikipedia.org/wiki/Hematopoietic_stem_cell + + + + ZFA:0009014 + + @@ -6246,6 +5247,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell committed to the erythroid lineage. BTO:0004911 + ZFA:0009015 BFU-E CFU-E blast forming unit erythroid @@ -6269,6 +5271,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0721601464 + + + + ZFA:0009015 + + @@ -6311,6 +5319,7 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to multiple lineages of cells. FMA:84789 + ZFA:0009020 multi-fate stem cell multifate stem cell multipotent cell @@ -6323,6 +5332,12 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to multiple lineages of cells. GOC:add + + + + ZFA:0009020 + + @@ -6334,6 +5349,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell committed to myeloid lineage, including the megakaryocyte and erythroid lineages. BTO:0004730 + ZFA:0009021 common myeloid precursor CFU-GEMM CFU-S @@ -6361,6 +5377,12 @@ For example, A and B may be gene products and binding of B by A positively regul ISBN:0878932437 MESH:D023461 + + + + ZFA:0009021 + + @@ -6444,6 +5466,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell committed to the megakaryocyte and erythroid lineages. + ZFA:0009022 CFU-EM CFU-MegE MEP @@ -6473,6 +5496,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:16647566 http://en.wikipedia.org/wiki/Megakaryocyte-erythroid_progenitor_cell + + + + ZFA:0009022 + + @@ -6483,6 +5512,7 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell from which all cells of the body can form. FMA:84790 MESH:D039901 + ZFA:0009024 totipotential stem cell totipotent stem cell @@ -6493,6 +5523,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009024 + + @@ -6527,6 +5563,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005083 FMA:70335 VHOG:0001529 + ZFA:0009025 myoblast @@ -6537,6 +5574,18 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D032446 PMID:21849021 + + + + FBbt:00005083 + + + + + + ZFA:0009025 + + @@ -6557,6 +5606,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:63877 NCIT:C12482 VHOG:0001482 + ZFA:0009026 @@ -6571,6 +5621,12 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D005347 http://en.wikipedia.org/wiki/Fibroblast + + + + ZFA:0009026 + + @@ -6592,6 +5648,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00000124 FMA:66768 WBbt:0003672 + ZFA:0009034 epitheliocyte @@ -6607,6 +5664,18 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D004847 + + + + FBbt:00000124 + + + + + + ZFA:0009034 + + @@ -6640,6 +5709,7 @@ For example, A and B may be gene products and binding of B by A positively regul An endothelial cell that lines the vasculature. + ZFA:0009036 cuboidal endothelial cell of vascular tree @@ -6657,6 +5727,12 @@ For example, A and B may be gene products and binding of B by A positively regul An endothelial cell that lines the vasculature. GOC:tfm + + + + ZFA:0009036 + + @@ -6666,6 +5742,7 @@ For example, A and B may be gene products and binding of B by A positively regul A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube. + ZFA:0009038 columnar/cuboidal epithelial cell @@ -6677,6 +5754,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0002065 https://orcid.org/0000-0001-5208-3432 + + + + ZFA:0009038 + + @@ -6685,9 +5768,16 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-1249 + ZFA:0009039 squamous epithelial cell + + + + ZFA:0009039 + + @@ -6700,6 +5790,7 @@ For example, A and B may be gene products and binding of B by A positively regul A flattened epithelial cell of mesenchymal origin that lines the serous cavity. FMA:66773 + ZFA:0009040 mesotheliocyte @@ -6712,6 +5803,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721662544 + + + + ZFA:0009040 + + @@ -6739,6 +5836,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found predominately in the blood. FMA:62844 MESH:D001773 + ZFA:0009044 blood cell @@ -6756,6 +5854,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009044 + + @@ -6785,6 +5889,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005125 FMA:67313 WBbt:0005113 + ZFA:0009051 interneuron @@ -6796,6 +5901,18 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D007395 + + + + FBbt:00005125 + + + + + + ZFA:0009051 + + @@ -6821,11 +5938,14 @@ For example, A and B may be gene products and binding of B by A positively regul Any neuron having a sensory function; an afferent neuron conveying sensory impulses. + BTO:0001037 FBbt:00005124 FMA:84649 MESH:D011984 WBbt:0005759 + ZFA:0009053 + sensory neuron @@ -6834,6 +5954,18 @@ For example, A and B may be gene products and binding of B by A positively regul Any neuron having a sensory function; an afferent neuron conveying sensory impulses. ISBN:0721662544 + + + + FBbt:00005124 + + + + + + ZFA:0009053 + + @@ -6860,6 +5992,7 @@ For example, A and B may be gene products and binding of B by A positively regul A type of interneuron that has two neurites, usually an axon and a dendrite, extending from opposite poles of an ovoid cell body. FMA:67282 + ZFA:0009055 bipolar neuron @@ -6871,6 +6004,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0444009442 + + + + ZFA:0009055 + + @@ -6884,6 +6023,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001176 CALOHA:TS-0278 FMA:66772 + ZFA:0009065 endotheliocyte @@ -6900,6 +6040,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://en.wikipedia.org/wiki/Endothelial_cell https://sourceforge.net/tracker/?func=detail&atid=440764&aid=3364936&group_id=36855 + + + + ZFA:0009065 + + @@ -6919,8 +6065,15 @@ For example, A and B may be gene products and binding of B by A positively regul + ZFA:0009067 CNS neuron (sensu Vertebrata) + + + + ZFA:0009067 + + @@ -6952,14 +6105,17 @@ For example, A and B may be gene products and binding of B by A positively regul A non-neuronal cell of the nervous system. They not only provide physical support, but also respond to injury, regulate the ionic and chemical composition of the extracellular milieu. Guide neuronal migration during development, and exchange metabolites with neurons. + BTO:0002606 CALOHA:TS-0415 FBbt:00005144 FMA:54536 + ZFA:0009073 neuroglial cell neuroglia + Not all glial cells develop from glioblasts, with microglia developing from the mesoderm instead. See https://github.com/obophenotype/cell-ontology/issues/1571 glial cell @@ -6969,6 +6125,18 @@ For example, A and B may be gene products and binding of B by A positively regul A non-neuronal cell of the nervous system. They not only provide physical support, but also respond to injury, regulate the ionic and chemical composition of the extracellular milieu. Guide neuronal migration during development, and exchange metabolites with neurons. MESH:D009457 + + + + FBbt:00005144 + + + + + + ZFA:0009073 + + @@ -6986,6 +6154,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000771 CALOHA:TS-2027 FMA:54538 + ZFA:0009074 macrogliocyte macroglia @@ -6998,6 +6167,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721662544 + + + + ZFA:0009074 + + @@ -7017,6 +6192,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000099 CALOHA:TS-0060 FMA:54537 + ZFA:0009075 astrocytic glia @@ -7036,6 +6212,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:20942978 http://en.wikipedia.org/wiki/Astrocyte + + + + ZFA:0009075 + + @@ -7060,6 +6242,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0172 FMA:70614 + ZFA:0009079 @@ -7075,6 +6258,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:34741068 PMID:36769303 + + + + ZFA:0009079 + + @@ -7083,6 +6272,7 @@ For example, A and B may be gene products and binding of B by A positively regul Ectoderm destined to be nervous tissue. + ZFA:0009080 neurectoderm cell neurectodermal cell @@ -7093,6 +6283,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:068340007X + + + + ZFA:0009080 + + @@ -7105,6 +6301,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0002625 BTO:0003298 FMA:70546 + ZFA:0009081 bone marrow stromal cells colony-forming unit-fibroblast marrow stromal cells @@ -7142,6 +6339,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://en.wikipedia.org/wiki/Mesenchymal_stem_cell http://www.copewithcytokines.de/cope.cgi?key=mesenchymal%20stem%20cells + + + + ZFA:0009081 + + @@ -7196,6 +6399,7 @@ For example, A and B may be gene products and binding of B by A positively regul A pigment cell is a cell that contains pigment granules. VHOG:0001678 + ZFA:0009090 chromatocyte chromatophore pigment cell @@ -7206,6 +6410,12 @@ For example, A and B may be gene products and binding of B by A positively regul A pigment cell is a cell that contains pigment granules. GOC:tfm + + + + ZFA:0009090 + + @@ -7247,6 +6457,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:70545 MESH:D008544 VHOG:0001679 + ZFA:0009091 melanophore @@ -7259,6 +6470,12 @@ For example, A and B may be gene products and binding of B by A positively regul A pigment cell derived from the neural crest. Contains melanin-filled pigment granules, which gives a brown to black appearance. SANBI:mhl + + + + ZFA:0009091 + + @@ -7344,6 +6561,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005074 FMA:67328 WBbt:0003675 + ZFA:0009114 muscle fiber myocyte @@ -7356,6 +6574,18 @@ For example, A and B may be gene products and binding of B by A positively regul A mature contractile cell, commonly known as a myocyte. This cell has as part of its cytoplasm myofibrils organized in various patterns. MESH:D032342 + + + + FBbt:00005074 + + + + + + ZFA:0009114 + + @@ -7376,6 +6606,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004576 CALOHA:TS-2159 FMA:14072 + ZFA:0009118 SMCs myocytes, smooth muscle smooth muscle fiber @@ -7392,6 +6623,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:9315361 http://en.wikipedia.org/wiki/Smooth_muscle_cell + + + + ZFA:0009118 + + @@ -7470,7 +6707,9 @@ For example, A and B may be gene products and binding of B by A positively regul A cell specialized to detect and transduce light. BTO:0001060 CALOHA:TS-0868 + FBbt:00004211 FMA:86740 + ZFA:0009127 photoreceptor cell https://www.swissbiopics.org/api/image/Photoreceptor_cell.svg @@ -7487,6 +6726,18 @@ For example, A and B may be gene products and binding of B by A positively regul A cell specialized to detect and transduce light. MESH:D010786 + + + + FBbt:00004211 + + + + + + ZFA:0009127 + + @@ -7495,6 +6746,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by the generation or the reception of an electric signal. + ZFA:0009128 electrically active cell @@ -7503,6 +6755,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by the generation or the reception of an electric signal. FB:ma + + + + ZFA:0009128 + + @@ -7511,6 +6769,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism. + ZFA:0009130 boundary cell lining cell @@ -7520,6 +6779,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism. JB:jb + + + + ZFA:0009130 + + @@ -7528,6 +6793,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose primary function is to prevent the transport of stuff across compartments. + ZFA:0009132 barrier cell @@ -7536,6 +6802,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose primary function is to prevent the transport of stuff across compartments. JB:jb + + + + ZFA:0009132 + + @@ -7561,6 +6833,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that moves by its own activities. + ZFA:0009136 motile cell @@ -7569,6 +6842,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that moves by its own activities. FB:ma + + + + ZFA:0009136 + + @@ -7584,6 +6863,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the outer of the three germ layers of the embryo. FMA:72549 + ZFA:0009137 ectoderm cell ectodermal cell @@ -7593,6 +6873,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the outer of the three germ layers of the embryo. MESH:D004475 + + + + ZFA:0009137 + + @@ -7608,6 +6894,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the middle germ layer of the embryo. FMA:72554 + ZFA:0009138 mesoblast mesoderm cell @@ -7619,6 +6906,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the middle germ layer of the embryo. MESH:D008648 + + + + ZFA:0009138 + + @@ -7634,6 +6927,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the inner of the three germ layers of the embryo. FMA:72555 + ZFA:0009139 endoderm cell endodermal cell @@ -7643,6 +6937,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the inner of the three germ layers of the embryo. MESH:D004707 + + + + ZFA:0009139 + + @@ -7752,10 +7052,17 @@ For example, A and B may be gene products and binding of B by A positively regul + Any cell that only exists in Eukaryota. MESH:D005057 eukaryotic cell + + + + Any cell that only exists in Eukaryota. + FBC:Autogenerated + @@ -7780,12 +7087,26 @@ For example, A and B may be gene products and binding of B by A positively regul + Any photoreceptor cell that is part of some eye. + ZFA:0009154 eye photoreceptor cell + + + + Any photoreceptor cell that is part of some eye. + FBC:Autogenerated + + + + + ZFA:0009154 + + @@ -7794,6 +7115,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose primary function is to provide structural support, to provide strength and physical integrity to the organism. + ZFA:0005745 structural cell @@ -7802,6 +7124,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose primary function is to provide structural support, to provide strength and physical integrity to the organism. TAIR:sr + + + + ZFA:0005745 + + @@ -7854,8 +7182,22 @@ For example, A and B may be gene products and binding of B by A positively regul + Any cell that is capable of some oxygen transport. + ZFA:0009164 oxygen accumulating cell + + + + Any cell that is capable of some oxygen transport. + FBC:Autogenerated + + + + + ZFA:0009164 + + @@ -7873,6 +7215,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body. FMA:86667 + ZFA:0007086 migratory neural crest cell @@ -7881,6 +7224,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body. doi:10.1016/j.stem.2015.02.017 + + + + ZFA:0007086 + + @@ -7889,6 +7238,7 @@ For example, A and B may be gene products and binding of B by A positively regul A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors. + ZFA:0009166 mesenchyme condensation cell @@ -7898,6 +7248,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:5025404 + + + + ZFA:0009166 + + @@ -7909,6 +7265,7 @@ For example, A and B may be gene products and binding of B by A positively regul An early neural cell developing from the early ependymal cell of the neural tube. FMA:70564 + ZFA:0009169 spongioblast glioblast (sensu Vertebrata) @@ -7919,6 +7276,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0618947256 + + + + ZFA:0009169 + + @@ -7934,6 +7297,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any animal cell containing pigment granules. + ZFA:0009170 pigment cell (sensu Vertebrata) @@ -7943,6 +7307,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721662544 + + + + ZFA:0009170 + + @@ -7974,6 +7344,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the sclera of the eye. + ZFA:0009174 scleral cell @@ -7983,6 +7354,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the sclera of the eye. GOC:add + + + + ZFA:0009174 + + @@ -8014,6 +7391,7 @@ For example, A and B may be gene products and binding of B by A positively regul A structural cell that is part of optic choroid. + ZFA:0009175 choroidal cell of the eye @@ -8023,6 +7401,12 @@ For example, A and B may be gene products and binding of B by A positively regul A structural cell that is part of optic choroid. GOC:add + + + + ZFA:0009175 + + @@ -8087,6 +7471,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by its response to an electric signal. + ZFA:0009190 electrically responsive cell @@ -8095,6 +7480,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by its response to an electric signal. FB:ma + + + + ZFA:0009190 + + @@ -8116,6 +7507,7 @@ For example, A and B may be gene products and binding of B by A positively regul An interneuron that has its cell body in a central nervous system. + ZFA:0009191 Interneurons are commonly described as being only found in the central nervous system. However, in CL we define 'interneuron' more broadly as any neuron that is neither a motor neuron nor a sensory neuron, regardless of its location, so we need this term to refer strictly to interneurons of the central nervous system. CNS interneuron @@ -8126,6 +7518,12 @@ For example, A and B may be gene products and binding of B by A positively regul An interneuron that has its cell body in a central nervous system. doi:10.1016/B978-0-12-817424-1.00001-X + + + + ZFA:0009191 + + @@ -8134,6 +7532,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that initiates an electrical signal and passes that signal to another cell. + ZFA:0009193 electrically signaling cell @@ -8142,6 +7541,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that initiates an electrical signal and passes that signal to another cell. FB:ma + + + + ZFA:0009193 + + @@ -8168,6 +7573,7 @@ For example, A and B may be gene products and binding of B by A positively regul A precursor cell destined to differentiate into smooth muscle myocytes. FMA:84798 + ZFA:0009235 myoblast, smooth muscle satellite cell @@ -8180,6 +7586,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D032390 + + + + ZFA:0009235 + + @@ -8196,6 +7608,7 @@ For example, A and B may be gene products and binding of B by A positively regul A neuron which conveys sensory information centrally from the periphery. FMA:87653 + ZFA:0009238 input neuron afferent neuron @@ -8207,6 +7620,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D009475 + + + + ZFA:0009238 + + @@ -8214,9 +7633,16 @@ For example, A and B may be gene products and binding of B by A positively regul + ZFA:0009241 pigmented epithelial cell + + + + ZFA:0009241 + + @@ -8240,6 +7666,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:54527 VHOG:0001483 WBbt:0003679 + ZFA:0009248 nerve cell @@ -8255,6 +7682,18 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D009474 http://en.wikipedia.org/wiki/Neuron + + + + FBbt:00005106 + + + + + + ZFA:0009248 + + @@ -8272,6 +7711,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that originates from the neural crest and differentiates into a pigment cell. BTO:0003217 FMA:83377 + ZFA:0009249 Derived from UBERON:0002342 neural crest. melanoblast @@ -8282,6 +7722,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm SANBI:mhl + + + + ZFA:0009249 + + @@ -8361,7 +7807,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8511,7 +7956,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8532,6 +7976,7 @@ For example, A and B may be gene products and binding of B by A positively regul A nucleated immature erythrocyte, having cytoplasm generally similar to that of the earlier proerythroblast but sometimes even more basophilic, and usually regular in outline. The nucleus is still relatively large, but the chromatin strands are thicker and more deeply staining, giving a coarser appearance; the nucleoli have disappeared. This cell is CD71-positive and lacks hematopoeitic lineage markers. FMA:83505 + ZFA:0005236 basophilic normoblast early erythroblast early normoblast @@ -8551,6 +7996,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721601464 + + + + ZFA:0005236 + + @@ -8601,7 +8052,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8628,6 +8078,7 @@ For example, A and B may be gene products and binding of B by A positively regul A nucleated, immature erythrocyte in which the nucleus occupies a relatively smaller part of the cell than in its precursor, the basophilic erythroblast. The cytoplasm is beginning to acquire hemoglobin and thus is no longer a purely basophilic, but takes on acidophilic aspects, which becomes progressively more marked as the cell matures. The chromatin of the nucleus is arranged in coarse, deeply staining clumps. This cell is CD71-positive and lacks hematopoeitic lineage markers. FMA:83506 + ZFA:0005241 intermediate erythroblast intermediate normoblast polychromatic erythroblast @@ -8648,6 +8099,12 @@ For example, A and B may be gene products and binding of B by A positively regul A nucleated, immature erythrocyte in which the nucleus occupies a relatively smaller part of the cell than in its precursor, the basophilic erythroblast. The cytoplasm is beginning to acquire hemoglobin and thus is no longer a purely basophilic, but takes on acidophilic aspects, which becomes progressively more marked as the cell matures. The chromatin of the nucleus is arranged in coarse, deeply staining clumps. This cell is CD71-positive and lacks hematopoeitic lineage markers. ISBN:0721601464 + + + + ZFA:0005241 + + @@ -9105,7 +8562,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9194,6 +8650,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001173 CALOHA:TS-0864 MESH:D012156 + ZFA:0009252 reticulocyte @@ -9213,6 +8670,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:15946868 PMID:2037622 + + + + ZFA:0009252 + + @@ -9243,6 +8706,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004044 FMA:67766 + ZFA:0009255 amacrine neuron AC ACs @@ -9259,6 +8723,12 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D025042 WikipediaVersioned:Amacrine_cell&oldid=1023572246 + + + + ZFA:0009255 + + @@ -9301,7 +8771,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9327,6 +8796,7 @@ For example, A and B may be gene products and binding of B by A positively regul A mesenchymal stem cell capable of developing into blood vessel endothelium. + ZFA:0009258 angioblast chondroplast These cells are reportedly CD31-positive, CD34-positive, CD144-positive, CD309-positive, and TAL1-positive. @@ -9346,6 +8816,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:12768659 + + + + ZFA:0009258 + + @@ -9364,6 +8840,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001036 CALOHA:TS-0866 FMA:67748 + ZFA:0009262 cone @@ -9375,6 +8852,12 @@ For example, A and B may be gene products and binding of B by A positively regul One of the two photoreceptor cell types in the vertebrate retina. In cones the photopigment is in invaginations of the cell membrane of the outer segment. Cones are less sensitive to light than rods, but they provide vision with higher spatial and temporal acuity, and the combination of signals from cones with different pigments allows color vision. MESH:D017949 + + + + ZFA:0009262 + + @@ -9411,6 +8894,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004298 CALOHA:TS-0173 FMA:70551 + ZFA:0009264 epithelial cell of cornea @@ -9423,6 +8907,12 @@ For example, A and B may be gene products and binding of B by A positively regul An epithelial cell of the cornea. GOC:tfm + + + + ZFA:0009264 + + @@ -9447,6 +8937,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001024 CALOHA:TS-0870 FMA:67747 + ZFA:0009275 rod @@ -9458,6 +8949,12 @@ For example, A and B may be gene products and binding of B by A positively regul One of the two photoreceptor cell types of the vertebrate retina. In rods the photopigment is in stacks of membranous disks separate from the outer cell membrane. Rods are more sensitive to light than cones, but rod mediated vision has less spatial and temporal resolution than cone vision. MESH:D017948 + + + + ZFA:0009275 + + @@ -9481,6 +8978,7 @@ For example, A and B may be gene products and binding of B by A positively regul Astrocyte-like radial glial cell that extends vertically throughout the retina, with the nucleus are usually in the middle of the inner nuclear layer. BTO:0003064 + ZFA:0009280 Muller cell Muller glia Müller cell @@ -9496,6 +8994,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:NV PMID:21911394 + + + + ZFA:0009280 + + @@ -9532,10 +9036,23 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00100291 WBbt:0006829 + ZFA:0009290 glutamatergic neuron + + + + FBbt:00100291 + + + + + + ZFA:0009290 + + @@ -9567,6 +9084,7 @@ For example, A and B may be gene products and binding of B by A positively regul A non-terminally differentiated cell that is capable of developing into a muscle cell. + ZFA:0009291 muscle precursor cell @@ -9576,6 +9094,12 @@ For example, A and B may be gene products and binding of B by A positively regul A non-terminally differentiated cell that is capable of developing into a muscle cell. GOC:add + + + + ZFA:0009291 + + @@ -9590,6 +9114,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell present in the developing CNS. Functions as both a precursor cell and as a scaffold to support neuronal migration. + ZFA:0009292 forebrain radial glial cell Unlike that of mammals, the brain of adult teleost fish exhibits an intense and widespread neurogenic activity as a result of the persistence of @@ -9602,6 +9127,12 @@ radial glial cells acting as neural progenitors throughout life. A cell present in the developing CNS. Functions as both a precursor cell and as a scaffold to support neuronal migration. GOC:dph + + + + ZFA:0009292 + + @@ -9667,6 +9198,7 @@ radial glial cells acting as neural progenitors throughout life. A stem cell that can give rise to cell types of the body other than those of the germ-line. CALOHA:TS-2086 MESH:D053687 + ZFA:0009307 somatic stem cell @@ -9675,6 +9207,12 @@ radial glial cells acting as neural progenitors throughout life. A stem cell that can give rise to cell types of the body other than those of the germ-line. GO:0048103 + + + + ZFA:0009307 + + @@ -9693,6 +9231,7 @@ radial glial cells acting as neural progenitors throughout life. BTO:0001800 FMA:67765 MESH:D012165 + ZFA:0009310 gangliocyte ganglion cell of retina RGC @@ -9708,6 +9247,12 @@ radial glial cells acting as neural progenitors throughout life. The set of neurons that receives neural inputs via bipolar, horizontal and amacrine cells. The axons of these cells make up the optic nerve. GOC:dph + + + + ZFA:0009310 + + @@ -9739,6 +9284,7 @@ radial glial cells acting as neural progenitors throughout life. A neuron that laterally connects other neurons in the inner nuclear layer of the retina. BTO:0004120 + ZFA:0009315 horizontal cell HC HCs @@ -9753,6 +9299,12 @@ radial glial cells acting as neural progenitors throughout life. A neuron that laterally connects other neurons in the inner nuclear layer of the retina. ISBN:0195088433 + + + + ZFA:0009315 + + @@ -9813,6 +9365,7 @@ radial glial cells acting as neural progenitors throughout life. A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the inner plexiform layer. + ZFA:0009318 BC BCs BPs @@ -9827,6 +9380,12 @@ radial glial cells acting as neural progenitors throughout life. A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the inner plexiform layer. PMID:14689473 + + + + ZFA:0009318 + + @@ -9878,6 +9437,7 @@ radial glial cells acting as neural progenitors throughout life. BTO:0001441 CALOHA:TS-0647 MESH:D022423 + ZFA:0009324 myeloid cell @@ -9893,6 +9453,12 @@ radial glial cells acting as neural progenitors throughout life. A cell of the monocyte, granulocyte, mast cell, megakaryocyte, or erythroid lineage. GOC:add + + + + ZFA:0009324 + + @@ -9905,6 +9471,7 @@ radial glial cells acting as neural progenitors throughout life. CALOHA:TS-0290 FMA:62845 FMA:83516 + ZFA:0009325 erythropoietic cell @@ -9918,6 +9485,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:add GOC:tfm + + + + ZFA:0009325 + + @@ -10084,6 +9657,7 @@ radial glial cells acting as neural progenitors throughout life. CALOHA:TS-0289 FMA:83504 MESH:D004900 + ZFA:0005237 normoblast @@ -10103,6 +9677,12 @@ radial glial cells acting as neural progenitors throughout life. ISBN:0721601464 PMID:18174176 + + + + ZFA:0005237 + + @@ -10177,7 +9757,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -10279,6 +9858,7 @@ radial glial cells acting as neural progenitors throughout life. BTO:0000725 CALOHA:TS-0448 + ZFA:0009354 MPP hemopoietic progenitor cell @@ -10295,6 +9875,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm PMID:19022770 + + + + ZFA:0009354 + + @@ -10326,6 +9912,7 @@ radial glial cells acting as neural progenitors throughout life. BTO:0004730 CALOHA:TS-2099 FMA:70339 + ZFA:0009356 Note that this is a class of cell types, not an identified single cell type. @@ -10345,6 +9932,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm PMID:19022770 + + + + ZFA:0009356 + + @@ -10357,6 +9950,7 @@ radial glial cells acting as neural progenitors throughout life. CALOHA:TS-2017 FMA:70366 FMA:83598 + ZFA:0005830 haematopoietic cell haemopoietic cell hemopoietic cell @@ -10370,6 +9964,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:add GO_REF:0000031 + + + + ZFA:0005830 + + @@ -10487,6 +10087,7 @@ radial glial cells acting as neural progenitors throughout life. 2010-06-29T03:38:22Z FMA:69074 + ZFA:0009385 ecto-epithelial cell @@ -10496,6 +10097,12 @@ radial glial cells acting as neural progenitors throughout life. FMA:69074 GOC:tfm + + + + ZFA:0009385 + + @@ -10524,6 +10131,7 @@ radial glial cells acting as neural progenitors throughout life. 2010-06-29T03:49:14Z FMA:69076 + ZFA:0009388 epithelial mesenchymal cell meso-epithelial cell @@ -10534,6 +10142,12 @@ radial glial cells acting as neural progenitors throughout life. FMA:69076 GOC:tfm + + + + ZFA:0009388 + + @@ -10807,6 +10421,7 @@ radial glial cells acting as neural progenitors throughout life. CALOHA:TS-2096 FMA:63875 MESH:D003239 + ZFA:0009392 connective tissue cell @@ -10817,6 +10432,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm ISBN:0618947256 + + + + ZFA:0009392 + + @@ -10830,6 +10451,7 @@ radial glial cells acting as neural progenitors throughout life. CALOHA:TS-0263 FMA:82840 WBbt:0007028 + ZFA:0007089 embryonic cell (metazoa) @@ -10838,6 +10460,12 @@ radial glial cells acting as neural progenitors throughout life. A cell of the embryo. FMA:0618947256 + + + + ZFA:0007089 + + @@ -10969,6 +10597,7 @@ radial glial cells acting as neural progenitors throughout life. An endothelial progenitor cell that participates in angiogenesis during development. 2011-02-28T04:20:39Z + ZFA:0005773 See CL:0002619. embryonic blood vessel endothelial progenitor cell @@ -10978,6 +10607,12 @@ radial glial cells acting as neural progenitors throughout life. An endothelial progenitor cell that participates in angiogenesis during development. GOC:tfm + + + + ZFA:0005773 + + @@ -11169,6 +10804,7 @@ radial glial cells acting as neural progenitors throughout life. A CNS interneuron located in the spinal cord. + ZFA:0000778 Is_a interneuron, part_of UBERON:0002240. spinal cord interneuron @@ -11184,6 +10820,12 @@ radial glial cells acting as neural progenitors throughout life. A CNS interneuron located in the spinal cord. CL:CVS + + + + ZFA:0000778 + + @@ -11206,6 +10848,7 @@ radial glial cells acting as neural progenitors throughout life. Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells. 2012-06-27T08:27:35Z + ZFA:0007084 premigratory neural crest cell @@ -11214,6 +10857,12 @@ radial glial cells acting as neural progenitors throughout life. Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells. UBERONREF:0000002 + + + + ZFA:0007084 + + @@ -11281,6 +10930,12 @@ radial glial cells acting as neural progenitors throughout life. A muscle cell that is part of some visceral muscle. GOC:dos + + + + FBbt:00005070 + + @@ -11331,10 +10986,17 @@ radial glial cells acting as neural progenitors throughout life. + Any neuron that is capable of part of some visual perception. 2017-07-09T19:12:36Z visual system neuron + + + + Any neuron that is capable of part of some visual perception. + FBC:Autogenerated + @@ -11389,20 +11051,27 @@ radial glial cells acting as neural progenitors throughout life. - + + Any photoreceptor cell that is part of some camera-type eye. camera type eye photoreceptor cell camera-type eye photoreceptor cell - + - + https://github.com/obophenotype/cell-ontology/issues/2245 + + + + Any photoreceptor cell that is part of some camera-type eye. + FBC:Autogenerated + @@ -12628,7 +12297,6 @@ plexiform layer. - A location, relative to cellular compartments and structures, occupied by a macromolecular machine. There are three types of cellular components described in the gene ontology: (1) the cellular anatomical entity where a gene product carries out a molecular function (e.g., plasma membrane, cytoskeleton) or membrane-enclosed compartments (e.g., mitochondrion); (2) virion components, where viral proteins act, and (3) the stable macromolecular complexes of which gene product are parts (e.g., the clathrin complex). https://github.com/geneontology/go-ontology/issues/17729 @@ -12675,13 +12343,16 @@ plexiform layer. + + + Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'. extracellular region @@ -12727,32 +12398,32 @@ plexiform layer. - - + + A protein complex consisting of three collagen chains assembled into a left-handed triple helix. These trimers typically assemble into higher order structures. Wikipedia:Collagen cellular_component GO:0005581 collagen trimer - + - + - + PMID:12382326 - + PMID:12382326 @@ -12834,7 +12505,6 @@ plexiform layer. - Note that for multicellular organisms, the extracellular space refers to everything outside a cell, but still within the organism (excluding the extracellular matrix). Gene products from a multi-cellular organism that are secreted from a cell into the interstitial fluid or blood can therefore be annotated to this term. extracellular space @@ -12928,12 +12598,14 @@ plexiform layer. + + nucleus @@ -12975,6 +12647,7 @@ plexiform layer. + Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore. chromosome @@ -13041,7 +12714,9 @@ plexiform layer. + + cytoplasm @@ -13058,7 +12733,12 @@ plexiform layer. - + + + + + + @@ -13076,11 +12756,14 @@ plexiform layer. GO:0005840 + + + ribosome @@ -13136,11 +12819,14 @@ plexiform layer. + + + plasma membrane @@ -13245,10 +12931,12 @@ plexiform layer. + + translation @@ -13376,7 +13064,9 @@ plexiform layer. + + Note that this term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term, for e.g. to transmembrane transport, to microtubule-based transport or to vesicle-mediated transport. transport @@ -13641,6 +13331,7 @@ plexiform layer. A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane. + https://github.com/geneontology/go-ontology/issues/27189 jl 2013-12-19T15:25:51Z GO:1902589 @@ -13650,8 +13341,10 @@ plexiform layer. organelle organization and biogenesis single-organism organelle organization GO:0006996 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. organelle organization @@ -13686,13 +13379,14 @@ plexiform layer. cell-division cycle biological_process GO:0007049 - + + cell cycle @@ -13779,10 +13473,6 @@ plexiform layer. GO:0023033 GO:0023045 Wikipedia:Signal_transduction - signal transduction by cis-phosphorylation - signal transduction by conformational transition - signal transduction by protein phosphorylation - signal transduction by trans-phosphorylation signaling cascade signalling cascade biological_process @@ -13793,6 +13483,7 @@ plexiform layer. + Note that signal transduction is defined broadly to include a ligand interacting with a receptor, downstream signaling steps and a response being triggered. A change in form of the signal in every step is not necessary. Note that in many cases the end of this process is regulation of the initiation of transcription. Note that specific transcription factors may be annotated to this term, but core/general transcription machinery such as RNA polymerase should not. signal transduction @@ -13803,12 +13494,6 @@ plexiform layer. GOC:go_curators GOC:mtg_signaling_feb11 - - - - signalling pathway - GOC:mah - @@ -13816,7 +13501,7 @@ plexiform layer. - The series of molecular signals initiated by activation of a receptor on the surface of a cell. The pathway begins with binding of an extracellular ligand to a cell surface receptor, or for receptors that signal in the absence of a ligand, by ligand-withdrawal or the activity of a constitutively active receptor. The pathway ends with regulation of a downstream cellular process, e.g. transcription. + The series of molecular signals initiated by an extracellular ligand binding to a receptor located on the cell surface. The pathway ends with regulation of a downstream cellular process, e.g. transcription. cell surface receptor linked signal transduction cell surface receptor linked signaling pathway cell surface receptor linked signalling pathway @@ -13828,10 +13513,7 @@ plexiform layer. - The series of molecular signals initiated by activation of a receptor on the surface of a cell. The pathway begins with binding of an extracellular ligand to a cell surface receptor, or for receptors that signal in the absence of a ligand, by ligand-withdrawal or the activity of a constitutively active receptor. The pathway ends with regulation of a downstream cellular process, e.g. transcription. - GOC:bf - GOC:mah - GOC:pr + The series of molecular signals initiated by an extracellular ligand binding to a receptor located on the cell surface. The pathway ends with regulation of a downstream cellular process, e.g. transcription. GOC:signaling @@ -14317,7 +13999,6 @@ plexiform layer. - A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence. https://github.com/geneontology/go-ontology/issues/24968 jl @@ -14357,6 +14038,7 @@ plexiform layer. The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation. + https://github.com/geneontology/go-ontology/issues/26424 jl 2012-10-17T15:46:40Z GO:0044236 @@ -14369,11 +14051,13 @@ plexiform layer. biological_process single-organism metabolic process GO:0008152 - + + + Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions. metabolic process @@ -14433,6 +14117,7 @@ plexiform layer. + biosynthetic process @@ -14454,6 +14139,7 @@ plexiform layer. The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass. https://github.com/geneontology/go-ontology/issues/15249 https://github.com/geneontology/go-ontology/issues/25418 + https://github.com/geneontology/go-ontology/issues/27189 GO:0043284 biopolymer biosynthetic process macromolecule anabolism @@ -14462,7 +14148,9 @@ plexiform layer. macromolecule synthesis biological_process GO:0009059 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. macromolecule biosynthetic process @@ -14612,7 +14300,7 @@ plexiform layer. response to environmental stimulus biological_process GO:0009605 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. @@ -14636,7 +14324,7 @@ plexiform layer. response to abiotic stress biological_process GO:0009628 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. @@ -14710,7 +14398,7 @@ plexiform layer. embryonal development biological_process GO:0009790 - + embryo development @@ -14931,9 +14619,11 @@ plexiform layer. + + Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children. programmed cell death @@ -15100,10 +14790,12 @@ plexiform layer. biological_process cell organization and biogenesis GO:0016043 + + cellular component organization @@ -15329,6 +15021,7 @@ plexiform layer. The chemical reactions and pathways involving a protein. Includes protein modification. https://github.com/geneontology/go-ontology/issues/23112 + https://github.com/geneontology/go-ontology/issues/27189 GO:0006411 GO:0044267 GO:0044268 @@ -15341,11 +15034,14 @@ plexiform layer. multicellular organismal protein metabolic process biological_process GO:0019538 + + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. protein metabolic process @@ -15434,6 +15130,7 @@ plexiform layer. biological_process GO:0022402 + cell cycle process @@ -15469,12 +15166,15 @@ plexiform layer. A cellular process that results in the breakdown of a cellular component. + https://github.com/geneontology/go-ontology/issues/27189 GO:0071845 cell structure disassembly cellular component disassembly at cellular level biological_process GO:0022411 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular component disassembly @@ -15558,6 +15258,7 @@ plexiform layer. biological_process GO:0022607 + cellular component assembly @@ -15666,11 +15367,13 @@ plexiform layer. single organism signaling GO:0023052 + + Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change. signaling @@ -15879,12 +15582,24 @@ plexiform layer. + + + + + + + + + + + + The process whose specific outcome is the progression of the myeloid and lymphoid derived organ/tissue systems of the blood and other parts of the body over time, from formation to the mature structure. The site of hemopoiesis is variable during development, but occurs primarily in bone marrow or kidney in many adult vertebrates. https://github.com/geneontology/go-ontology/issues/22178 Wikipedia:Haematopoiesis @@ -15980,6 +15695,7 @@ plexiform layer. + cell differentiation @@ -16283,6 +15999,7 @@ plexiform layer. GO:0031012 + @@ -16524,6 +16241,7 @@ plexiform layer. Any biological process, occurring at the level of a multicellular organism, pertinent to its function. + https://github.com/geneontology/go-ontology/issues/27189 @@ -16538,6 +16256,7 @@ plexiform layer. GO:0032501 + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. multicellular organismal process @@ -16647,7 +16366,12 @@ plexiform layer. - + + + + + + A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together. GO:0043234 @@ -16660,6 +16384,7 @@ plexiform layer. GO:0032991 + @@ -17021,7 +16746,6 @@ plexiform layer. - @@ -17139,10 +16863,12 @@ plexiform layer. cellular_component GO:0042995 + + cell projection @@ -17386,6 +17112,7 @@ plexiform layer. + organelle @@ -17883,7 +17610,10 @@ plexiform layer. biological_process GO:0044238 + + + primary metabolic process @@ -17902,12 +17632,15 @@ plexiform layer. The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells. + https://github.com/geneontology/go-ontology/issues/27052 cellular anabolism cellular biosynthesis cellular formation cellular synthesis biological_process GO:0044249 + + This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. cellular biosynthetic process @@ -17977,6 +17710,7 @@ plexiform layer. GO:0045202 + @@ -18467,6 +18201,7 @@ plexiform layer. + anatomical structure development @@ -18503,6 +18238,7 @@ plexiform layer. Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another. https://github.com/geneontology/go-ontology/issues/19809 + cell locomotion movement of a cell biological_process @@ -18510,6 +18246,7 @@ plexiform layer. GO:0048870 + cell motility @@ -18717,12 +18454,13 @@ plexiform layer. physiological response to stimulus biological_process GO:0050896 - + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. response to stimulus @@ -18844,6 +18582,7 @@ plexiform layer. Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation. + https://github.com/geneontology/go-ontology/issues/27052 jl 2013-12-18T13:51:04Z GO:1902578 @@ -18857,6 +18596,7 @@ plexiform layer. single organism localization single-organism localization GO:0051179 + localization @@ -19065,6 +18805,7 @@ plexiform layer. A cellular localization process whereby a substance or cellular entity, such as a protein complex or organelle, is transported to, and/or maintained in, a specific location within a cell including the localization of substances or cellular entities to the cell membrane. + https://github.com/geneontology/go-ontology/issues/27189 jl 2013-12-18T14:04:32Z GO:1902580 @@ -19077,7 +18818,9 @@ plexiform layer. biological_process single-organism cellular localization GO:0051641 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular localization @@ -19184,7 +18927,7 @@ plexiform layer. Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus by a cell and ends with a change in state or activity or the cell. biological_process GO:0051716 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular response to stimulus @@ -19258,6 +19001,7 @@ plexiform layer. GO:0055085 + @@ -19893,6 +19637,7 @@ plexiform layer. A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component. + https://github.com/geneontology/go-ontology/issues/27189 mah 2010-09-10T01:39:16Z GO:0071841 @@ -19901,8 +19646,10 @@ plexiform layer. cellular component organization or biogenesis at cellular level biological_process GO:0071840 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular component organization or biogenesis @@ -20280,7 +20027,7 @@ plexiform layer. region of plasma membrane cellular_component GO:0098590 - + Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass. plasma membrane region @@ -20332,7 +20079,6 @@ plexiform layer. - @@ -21105,6 +20851,7 @@ plexiform layer. The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon. + https://github.com/geneontology/go-ontology/issues/26424 pr 2012-11-05T11:04:40Z organic molecular entity anabolism @@ -21118,6 +20865,7 @@ plexiform layer. organic substance synthesis biological_process GO:1901576 + organic substance biosynthetic process @@ -22047,7 +21795,6 @@ plexiform layer. - A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities PATO:0000072 quality @@ -24320,70 +24067,6 @@ plexiform layer. - - - - - - - - - - - - - - - - - - - - - - A material entity that minimally consists of a protein. - protein - protein aggregate - protein complex - protein-containing complex - protein - PR:000050567 - Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566). - protein-containing material entity - - - - - A material entity that minimally consists of a protein. - PRO:DAN - - - - - protein - PRO:DAN - - - - - protein aggregate - PRO:DAN - - - - - protein complex - PRO:DAN - - - - - protein-containing complex - PRO:DAN - - - - @@ -24567,6 +24250,7 @@ plexiform layer. EHDAA2:0001824 EHDAA:500 EMAPA:35955 + FBbt:00005155 GAID:63 HAO:0000930 MA:0000017 @@ -24599,6 +24283,12 @@ plexiform layer. https://github.com/obophenotype/uberon/issues/549 https://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005155 + + @@ -24788,7 +24478,6 @@ plexiform layer. - @@ -24984,6 +24673,7 @@ plexiform layer. CARO:0000003 EHDAA2:0003003 EMAPA:0 + FBbt:00007001 FMA:305751 FMA:67135 GAID:781 @@ -25011,6 +24701,12 @@ plexiform layer. Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome. CARO:0000003 + + + + FBbt:00007001 + + @@ -25192,7 +24888,6 @@ plexiform layer. - @@ -25240,7 +24935,6 @@ plexiform layer. - @@ -25293,7 +24987,6 @@ plexiform layer. - @@ -25447,7 +25140,7 @@ plexiform layer. - + The surface (external) layer of ectoderm which begins to proliferate shortly after separation from the neuroectoderm. merge with non-neural. In vertebrates, the ectoderm has three parts: external ectoderm (also known as surface ectoderm), the neurectoderm (neural crest, and neural tube) EHDAA2:0001968 @@ -25470,7 +25163,7 @@ plexiform layer. external ectoderm http://upload.wikimedia.org/wikipedia/commons/1/1d/Ectoderm.png - + @@ -25483,7 +25176,7 @@ plexiform layer. - + EHDAA2 @@ -25511,7 +25204,6 @@ plexiform layer. - @@ -25553,7 +25245,6 @@ plexiform layer. - @@ -25646,7 +25337,6 @@ plexiform layer. - @@ -25733,7 +25423,6 @@ plexiform layer. - @@ -25784,7 +25473,6 @@ plexiform layer. - @@ -25830,7 +25518,6 @@ plexiform layer. - @@ -25838,7 +25525,7 @@ plexiform layer. - + @@ -25874,14 +25561,14 @@ plexiform layer. gastrula stage - + - + BILS @@ -25932,7 +25619,6 @@ plexiform layer. - @@ -25982,7 +25668,6 @@ plexiform layer. - @@ -26045,6 +25730,7 @@ plexiform layer. A fasciculated bundle of neuron projections (GO:0043005), largely or completely lacking synapses. UBERON:0005163 CARO:0001001 + FBbt:00005099 NLX:147821 funiculus nerve fiber bundle @@ -26061,6 +25747,12 @@ plexiform layer. FBC:DOS FBbt:00005099 + + + + FBbt:00005099 + + @@ -26136,6 +25828,7 @@ plexiform layer. EHDAA2:0001326 EHDAA:542 EMAPA:16262 + FBbt:00003126 FMA:49184 GAID:75 MA:0000341 @@ -26188,6 +25881,12 @@ plexiform layer. Wikipedia:Mouth https://github.com/obophenotype/uberon/wiki/The-digestive-tract + + + + FBbt:00003126 + + @@ -26270,7 +25969,6 @@ plexiform layer. - @@ -26278,15 +25976,15 @@ plexiform layer. - + - - + + A fluid that is composed of blood plasma and erythrocytes. AAO:0000046 @@ -26323,34 +26021,34 @@ plexiform layer. blood - + - + - + - + CL:tm - + https://github.com/obophenotype/uberon/issues/1330 - + Bgee:AN @@ -26623,6 +26321,7 @@ plexiform layer. CARO:0000004 EHDAA2:0003004 EMAPA:35178 + FBbt:00007019 FMA:9669 HAO:0000004 MA:0002450 @@ -26652,6 +26351,12 @@ plexiform layer. Material anatomical entity in a gaseous, liquid, semisolid or solid state; produced by anatomical structures or derived from inhaled and ingested substances that have been modified by anatomical structures as they pass through the body. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007019 + + @@ -26706,6 +26411,7 @@ plexiform layer. BILA:0000005 CARO:0000005 EHDAA2:0003005 + FBbt:00007017 FMA:5897 HAO:0000005 NCIT:C94478 @@ -26729,6 +26435,12 @@ plexiform layer. Non-material anatomical entity of three dimensions, that is generated by morphogenetic or other physiologic processes; is surrounded by one or more anatomical structures; contains one or more organism substances or anatomical structures. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007017 + + @@ -26748,7 +26460,6 @@ plexiform layer. - Anatomical entity that has mass. @@ -26760,6 +26471,7 @@ plexiform layer. BILA:0000006 CARO:0000006 EHDAA2:0003006 + FBbt:00007016 FMA:67165 HAO:0000006 TAO:0001836 @@ -26777,13 +26489,18 @@ plexiform layer. Anatomical entity that has mass. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007016 + + - Anatomical entity that has no mass. @@ -26794,6 +26511,7 @@ plexiform layer. BILA:0000007 CARO:0000007 EHDAA2:0003007 + FBbt:00007015 FMA:67112 HAO:0000007 TAO:0001835 @@ -26812,6 +26530,12 @@ plexiform layer. Anatomical entity that has no mass. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007015 + + @@ -26854,6 +26578,7 @@ plexiform layer. EHDAA:392 EMAPA:16103 EV:0100000 + FBbt:00004856 FMA:7149 HAO:0000011 MA:0000003 @@ -26895,6 +26620,12 @@ plexiform layer. system GO:0048731 + + + + FBbt:00004856 + + @@ -26946,6 +26677,7 @@ plexiform layer. EHDAA:1 EMAPA:25765 EV:0100016 + FBbt:00000001 FMA:256135 HAO:0000012 NCIT:C13041 @@ -26990,6 +26722,12 @@ plexiform layer. VHOG:0000671 WBbt:0007833 + + + + FBbt:00000001 + + @@ -27050,6 +26788,7 @@ plexiform layer. EFO:0000808 EHDAA2:0003032 EMAPA:36031 + FBbt:00007009 FMA:7153 HAO:0000032 MA:0002433 @@ -27092,6 +26831,12 @@ plexiform layer. CARO:DOS http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007009 + + @@ -27133,6 +26878,7 @@ plexiform layer. BILA:0000040 CARO:0000040 EHDAA2:0003040 + FBbt:00007013 FMA:63863 HAO:0000040 TAO:0000382 @@ -27158,6 +26904,12 @@ plexiform layer. Anatomical structure that consists of cell parts and cell substances and together does not constitute a cell or a tissue. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007013 + + @@ -27176,6 +26928,7 @@ plexiform layer. + FBbt:00007277 VHOG:0001737 uberon UBERON:0000477 @@ -27189,6 +26942,12 @@ plexiform layer. Anatomical group whose component anatomical structures lie in close proximity to each other. FBbt:00007277 + + + + FBbt:00007277 + + @@ -27222,6 +26981,7 @@ plexiform layer. CARO:0000043 EHDAA2:0003043 EMAPA:35868 + FBbt:00007003 FMA:9637 HAO:0000043 MA:0003002 @@ -27257,6 +27017,12 @@ plexiform layer. Multicellular anatomical structure that consists of many cells of one or a few types, arranged in an extracellular matrix such that their long-range organisation is at least partly a repetition of their short-range organisation. CARO:0000043 + + + + FBbt:00007003 + + @@ -27297,6 +27063,7 @@ plexiform layer. BILA:0000055 CARO:0000055 EHDAA2:0003055 + FBbt:00007010 HAO:0000055 TAO:0001488 TGMA:0001847 @@ -27323,6 +27090,12 @@ plexiform layer. CARO:0000055 http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007010 + + @@ -27347,7 +27120,6 @@ plexiform layer. - @@ -27361,7 +27133,7 @@ plexiform layer. - + @@ -27378,6 +27150,7 @@ plexiform layer. CARO:0000066 EHDAA2:0003066 EMAPA:32738 + FBbt:00007005 FMA:9639 GAID:402 HAO:0000066 @@ -27402,14 +27175,14 @@ plexiform layer. epithelium https://upload.wikimedia.org/wikipedia/commons/8/8f/Illu_epithelium.jpg - + - + http://palaeos.com/metazoa/porifera/homoscleromorpha.html @@ -27419,6 +27192,12 @@ plexiform layer. Wikipedia:Epithelium http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007005 + + @@ -27763,6 +27542,7 @@ plexiform layer. EHDAA2_RETIRED:0003236 EHDAA:38 EMAPA:16039 + FBbt:00000052 FMA:69068 GAID:963 MAT:0000226 @@ -27800,6 +27580,12 @@ plexiform layer. GO:0009790 Wikipedia:Embryo + + + + FBbt:00000052 + + @@ -27837,6 +27623,7 @@ plexiform layer. BILA:0000035 BTO:0000556 EMAPA:36033 + FBbt:00000110 FMA:69069 GAID:1303 MESH:D005855 @@ -27873,6 +27660,12 @@ plexiform layer. embryonic tissue FMA:69069 + + + + FBbt:00000110 + + @@ -27911,7 +27704,7 @@ plexiform layer. - + Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue. AAO:0000137 BILA:0000036 @@ -27921,6 +27714,7 @@ plexiform layer. EHDAA2:0000428 EMAPA:16069 EV:0100003 + FBbt:00000111 FMA:69070 GAID:1304 MAT:0000155 @@ -27945,14 +27739,14 @@ plexiform layer. ectoderm http://upload.wikimedia.org/wikipedia/commons/1/19/Gray32.png - + - + Bgee:AN @@ -27961,6 +27755,12 @@ plexiform layer. Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue. Wikipedia:Ectoderm + + + + FBbt:00000111 + + @@ -27986,7 +27786,7 @@ plexiform layer. - + Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut. AAO:0000139 BILA:0000038 @@ -27996,6 +27796,7 @@ plexiform layer. EHDAA2:0000436 EMAPA:16062 EV:0100005 + FBbt:00000125 FMA:69071 GAID:1305 MAT:0000175 @@ -28020,14 +27821,14 @@ plexiform layer. http://upload.wikimedia.org/wikipedia/commons/c/c0/Endoderm2.png http://upload.wikimedia.org/wikipedia/commons/d/df/Gray10.png - + - + Bgee:AN @@ -28036,6 +27837,12 @@ plexiform layer. Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut. Wikipedia:Endoderm + + + + FBbt:00000125 + + @@ -28062,7 +27869,7 @@ plexiform layer. - + The middle germ layer of the embryo, between the endoderm and ectoderm. UBERON:0003263 @@ -28077,6 +27884,7 @@ plexiform layer. EHDAA:183 EMAPA:16083 EV:0100006 + FBbt:00000126 FMA:69072 GAID:522 MAT:0000174 @@ -28102,14 +27910,14 @@ plexiform layer. mesoderm http://upload.wikimedia.org/wikipedia/commons/e/e8/Mesoderm.png - + - + Bgee:AN @@ -28118,6 +27926,12 @@ plexiform layer. The middle germ layer of the embryo, between the endoderm and ectoderm. Wikipedia:Mesoderm + + + + FBbt:00000126 + + @@ -28168,6 +27982,7 @@ plexiform layer. BTO:0004224 EHDAA2:0001929 EMAPA:16263 + FBbt:00000439 FMA:295846 NCIT:C34306 TAO:0001290 @@ -28206,6 +28021,12 @@ plexiform layer. stomodeal-hypophyseal primordium XAO:0000269 + + + + FBbt:00000439 + + @@ -28284,7 +28105,7 @@ plexiform layer. - + @@ -28346,14 +28167,14 @@ plexiform layer. cranial nerve II - + - + EHDAA2 @@ -28463,7 +28284,7 @@ plexiform layer. - + @@ -28535,14 +28356,14 @@ plexiform layer. https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_F_Heart.glb https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_M_Heart.glb - + - + MA @@ -28584,7 +28405,7 @@ plexiform layer. - + @@ -28603,7 +28424,7 @@ plexiform layer. - + The brain is the center of the nervous system in all vertebrate, and most invertebrate, animals. Some primitive animals such as jellyfish and starfish have a decentralized nervous system without a brain, while sponges lack any nervous system at all. In vertebrates, the brain is located in the head, protected by the skull and close to the primary sensory apparatus of vision, hearing, balance, taste, and smell[WP]. requires review for applicability to invertebrate structures, e.g. synganglion @@ -28622,6 +28443,7 @@ plexiform layer. EHDAA:6485 EMAPA:16894 EV:0100164 + FBbt:00005095 FMA:50801 GAID:571 HBA:4005 @@ -28661,11 +28483,11 @@ plexiform layer. https://ccf-ontology.hubmapconsortium.org/objects/v1.2/Allen_F_Brain.glb https://ccf-ontology.hubmapconsortium.org/objects/v1.2/Allen_M_Brain.glb - + - + @@ -28678,13 +28500,13 @@ plexiform layer. - + FMA - + Bgee:AN @@ -28694,6 +28516,12 @@ plexiform layer. Wikipedia:Brain https://github.com/obophenotype/uberon/issues/300 + + + + FBbt:00005095 + + @@ -28926,12 +28754,11 @@ plexiform layer. - - - - + + + @@ -29015,34 +28842,34 @@ plexiform layer. cornea http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + - + - + MA - + MA - + FMA-isa @@ -29219,10 +29046,10 @@ plexiform layer. - - - - + + + + The retina is the innermost layer or coating at the back of the eyeball, which is sensitive to light and in which the optic nerve terminates. @@ -29270,44 +29097,44 @@ plexiform layer. retina http://upload.wikimedia.org/wikipedia/commons/e/ed/Human_eye_cross-sectional_view_grayscale.png - + - + - + - + - + FMA - + FMA - + FMA - + EHDAA2 @@ -29362,8 +29189,8 @@ plexiform layer. - - + + @@ -29377,6 +29204,7 @@ plexiform layer. CALOHA:TS-0309 EFO:0000827 EV:0100336 + FBbt:00005162 GAID:69 MAT:0000140 MESH:D005123 @@ -29394,24 +29222,24 @@ plexiform layer. eye - + - + - + PMID:21062451 - + PMID:21062451 @@ -29420,6 +29248,12 @@ plexiform layer. An organ that detects light. https://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005162 + + @@ -29565,6 +29399,7 @@ plexiform layer. BTO:0000058 CALOHA:TS-1293 EFO:0000793 + FBbt:00005055 FMA:7152 GAID:278 MA:0002431 @@ -29601,6 +29436,12 @@ plexiform layer. NLM:alimentary+system Wikipedia:Digestive_system + + + + FBbt:00005055 + + @@ -29787,7 +29628,7 @@ plexiform layer. - + @@ -29805,6 +29646,7 @@ plexiform layer. EHDAA:826 EMAPA:16469 EV:0100162 + FBbt:00005093 FMA:7157 GAID:466 MA:0000016 @@ -29836,14 +29678,14 @@ plexiform layer. http://upload.wikimedia.org/wikipedia/commons/b/b2/TE-Nervous_system_diagram.svg http://upload.wikimedia.org/wikipedia/commons/b/ba/Nervous_system_diagram.png - + - + Bgee:AN @@ -29858,6 +29700,12 @@ plexiform layer. Wikipedia:Nervous_system ZFIN:curator + + + + FBbt:00005093 + + @@ -29903,7 +29751,7 @@ plexiform layer. - + The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the neural tube derivatives: the brain and spinal cord. In invertebrates it includes central ganglia plus nerve cord. @@ -29919,6 +29767,7 @@ plexiform layer. EMAPA:16470 EMAPA:16754 EV:0100163 + FBbt:00005094 FMA:55675 GAID:570 MA:0000167 @@ -29947,7 +29796,7 @@ plexiform layer. central nervous system - + @@ -29961,7 +29810,7 @@ plexiform layer. - + Bgee:AN @@ -29978,6 +29827,12 @@ plexiform layer. Wikipedia:Acoelomorpha + + + + FBbt:00005094 + + @@ -30022,6 +29877,7 @@ plexiform layer. A group of axons linking two or more neuropils and having a common origin, termination[FBbt]. BIRNLEX:1649 EV:0100304 + FBbt:00005100 FMA:83847 NLX:147822 axonal tract @@ -30044,6 +29900,12 @@ plexiform layer. http://flybrain.uni-freiburg.de/Flybrain/html/terms/terms.html https://github.com/obophenotype/uberon/issues/286 + + + + FBbt:00005100 + + @@ -30171,6 +30033,7 @@ plexiform layer. EFO:0000805 EHDAA2:0003094 EMAPA:16192 + FBbt:00007692 FMA:75259 MA:0002442 MAT:0000031 @@ -30204,6 +30067,12 @@ plexiform layer. Anatomical system that overlaps the nervous system and is responsible for receiving and processing sensory information. Wikipedia:Sensory_system + + + + FBbt:00007692 + + @@ -30262,6 +30131,7 @@ plexiform layer. BTO:0001886 EFO:0001652 EHDAA2:0003171 + FBbt:00005495 FMA:86589 MAT:0000482 NCIT:C34275 @@ -30295,6 +30165,12 @@ plexiform layer. FB:FBrf0089570 http://flybase.org/reports/FBrf0178740.html + + + + FBbt:00005495 + + @@ -30405,6 +30281,7 @@ plexiform layer. BIRNLEX:6 CARO:0000000 EHDAA2:0002229 + FBbt:10000000 FMA:62955 HAO:0000000 MA:0000001 @@ -30428,6 +30305,12 @@ plexiform layer. FMA:62955 http://orcid.org/0000-0001-9114-8737 + + + + FBbt:10000000 + + @@ -30580,7 +30463,7 @@ plexiform layer. - + Simple squamous epithelium of mesodermal origin which lines serous membranes. Examples: mesothelium of pleura, mesothelium of peritoneum[FMA]. Wikipedia: The mesothelium is a membrane that forms the lining of several body cavities: the pleura (thoracal cavity), peritoneum (abdominal cavity including the mesentery) and pericardium (heart sac). Mesothelial tissue also surrounds the male internal reproductive organs (the tunica vaginalis testis) and covers the internal reproductive organs of women (the tunica serosa uteri). AEO:0000111 BTO:0002422 @@ -30605,14 +30488,14 @@ plexiform layer. mesothelium http://upload.wikimedia.org/wikipedia/commons/2/25/Mesothelium_peritoneal_wash_high_mag.jpg - + - + FMA @@ -30908,7 +30791,7 @@ plexiform layer. - + A tube extending from the mouth to the anus. @@ -30921,6 +30804,7 @@ plexiform layer. EHDAA2:0000726 EHDAA:518 EMAPA:16247 + FBbt:00003125 FMA:45615 MA:0000917 NCIT:C34082 @@ -30944,14 +30828,14 @@ plexiform layer. digestive tract - + - + NCBIBook:NBK10107 @@ -30973,6 +30857,12 @@ plexiform layer. DOI:10.1371/journal.pone.0016309 + + + + FBbt:00003125 + + @@ -31000,7 +30890,7 @@ plexiform layer. - + The ciliary muscle is a ring of smooth muscle in the middle layer of the eye that controls the eye's accommodation for viewing objects at varying distances and regulates the flow of aqueous humour through Schlemm's canal. [WP,unvetted]. BTO:0000654 @@ -31023,7 +30913,7 @@ plexiform layer. ciliary muscle http://upload.wikimedia.org/wikipedia/commons/2/28/Gray872.png - + @@ -31042,7 +30932,7 @@ plexiform layer. - + FMA @@ -31160,7 +31050,7 @@ plexiform layer. - + @@ -31206,14 +31096,14 @@ plexiform layer. eyelid https://upload.wikimedia.org/wikipedia/commons/8/84/Eye_makeup.jpg - + - + multiple @@ -31479,7 +31369,7 @@ plexiform layer. - + @@ -31518,14 +31408,14 @@ plexiform layer. iris - + - + XAO @@ -31579,7 +31469,7 @@ plexiform layer. - + @@ -31628,14 +31518,14 @@ plexiform layer. corneal epithelium http://upload.wikimedia.org/wikipedia/commons/6/66/Gray871.png - + - + ISBN:0781772214 @@ -31723,15 +31613,15 @@ plexiform layer. - - + + - + @@ -31766,34 +31656,34 @@ plexiform layer. sclera http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + - + - + FMA - + ZFA - + ISBN:0781772214 @@ -31835,7 +31725,7 @@ plexiform layer. - + @@ -31873,14 +31763,14 @@ plexiform layer. ciliary body http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + ISBN:0781772214 @@ -31918,14 +31808,14 @@ plexiform layer. - + - + @@ -31986,24 +31876,24 @@ plexiform layer. optic choroid http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + - + MA - + Wikipedia @@ -32196,9 +32086,9 @@ plexiform layer. - - - + + + A double layer covering the ciliary body that produces aqueous humor. BTO:0001770 @@ -32218,15 +32108,15 @@ plexiform layer. ciliary epithelium - + - + - + @@ -32239,19 +32129,19 @@ plexiform layer. - + MA - + MP - + Wikipedia @@ -32367,7 +32257,7 @@ plexiform layer. - + @@ -32425,14 +32315,14 @@ plexiform layer. pigmented layer of retina http://upload.wikimedia.org/wikipedia/commons/5/55/Gray881.png - + - + Wikipedia @@ -32508,7 +32398,7 @@ plexiform layer. - + @@ -32540,14 +32430,14 @@ plexiform layer. photoreceptor layer of retina http://upload.wikimedia.org/wikipedia/commons/5/55/Gray881.png - + - + ZFA @@ -33040,7 +32930,7 @@ plexiform layer. - + @@ -33096,7 +32986,7 @@ plexiform layer. ganglionic layer of retina http://upload.wikimedia.org/wikipedia/commons/5/55/Gray881.png - + @@ -33109,7 +32999,7 @@ plexiform layer. - + FMA @@ -33163,7 +33053,7 @@ plexiform layer. - + @@ -33218,14 +33108,14 @@ plexiform layer. nerve fiber layer of retina - + - + FMA @@ -33915,7 +33805,7 @@ plexiform layer. - + @@ -33947,14 +33837,14 @@ plexiform layer. anterior segment of eyeball http://upload.wikimedia.org/wikipedia/commons/b/ba/Cataract_in_human_eye.png - + - + FMA @@ -33998,7 +33888,7 @@ plexiform layer. - + @@ -34028,14 +33918,14 @@ plexiform layer. posterior segment of eyeball http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + FMA @@ -34072,9 +33962,9 @@ plexiform layer. - - - + + + @@ -34122,15 +34012,15 @@ plexiform layer. conjunctiva http://upload.wikimedia.org/wikipedia/commons/5/55/Gray883.png - + - + - + @@ -34143,19 +34033,19 @@ plexiform layer. - + cjm - + MA - + ISBN:0781772214 @@ -34313,7 +34203,7 @@ plexiform layer. - + The midbrain is the middle division of the three primary divisions of the developing chordate brain or the corresponding part of the adult brain (in vertebrates, includes a ventral part containing the cerebral peduncles and a dorsal tectum containing the corpora quadrigemina and that surrounds the aqueduct of Sylvius connecting the third and fourth ventricles)[GO]. developmental relationships need revised @@ -34359,14 +34249,14 @@ plexiform layer. midbrain http://upload.wikimedia.org/wikipedia/commons/f/f9/Human_brain_inferior_view_description.JPG - + - + Bgee:AN @@ -34837,7 +34727,7 @@ plexiform layer. - + Ventral part of the midbrain, separated from the hindbrain by the isthmus[ISBN:0471888893]. Subdivision of the midbrain lying anterior to the tectum and posterior to the substantia nigra and cerebral peduncle[FMA] The part of the midbrain extending from the substantia nigra to the cerebral aqueduct in a horizontal section of the midbrain. It forms the floor of the midbrain that surrounds the cerebral aqueduct[WP]. MTg @@ -34876,14 +34766,14 @@ plexiform layer. midbrain tegmentum http://upload.wikimedia.org/wikipedia/commons/b/b6/Gray712.png - + - + ZFA @@ -34969,7 +34859,6 @@ plexiform layer. - @@ -35044,7 +34933,6 @@ plexiform layer. - @@ -35053,8 +34941,8 @@ plexiform layer. - - + + @@ -35067,7 +34955,7 @@ plexiform layer. - + @@ -35121,34 +35009,34 @@ plexiform layer. blood vessel http://upload.wikimedia.org/wikipedia/commons/2/29/Circulatory_System_en.svg - + - + - + - + AEO - + EHDAA2 - + GO:0072360 @@ -35477,7 +35365,7 @@ plexiform layer. - + The most posterior of the three principal regions of the brain. In mammals and birds the hindbrain is divided into a rostral metencephalon and a caudal myelencephalon. In zebrafish, with the exception of the cerebellum, the ventral remainder of the metencephalon can be separated only arbitrarily from the more caudal myelencephalic portion of the medulla oblongata (From: Neuroanatomy of the Zebrafish Brain)[ZFA]. Organ component of neuraxis that has as its parts the pons, cerebellum and medulla oblongata[FMA]. @@ -35520,14 +35408,14 @@ plexiform layer. hindbrain http://upload.wikimedia.org/wikipedia/commons/5/54/EmbryonicBrain.svg - + - + Bgee:AN @@ -35653,6 +35541,7 @@ plexiform layer. BTO:0000174 CALOHA:TS-2110 EFO:0000461 + FBbt:00004208 FMA:69067 GAID:407 MESH:D004628 @@ -35683,6 +35572,12 @@ plexiform layer. BTO:0000174 ZFIN:curator + + + + FBbt:00004208 + + @@ -36151,7 +36046,7 @@ plexiform layer. - + Vasculature that is part of the eye region. FMA:74743 @@ -36173,14 +36068,14 @@ plexiform layer. https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_F_Blood_Vasculature.glb https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_M_Blood_Vasculature.glb - + - + ISBN:0781772214 @@ -36384,7 +36279,7 @@ plexiform layer. - + @@ -36458,14 +36353,14 @@ plexiform layer. https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_F_Spinal_Cord.glb https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_M_Spinal_Cord.glb - + - + ZFA @@ -36813,6 +36708,7 @@ plexiform layer. AEO:0000186 BTO:0001707 EHDAA2:0000267 + FBbt:00005060 FMA:85006 NCIT:C25444 RETIRED_EHDAA2:0003186 @@ -36849,6 +36745,12 @@ plexiform layer. body cavity BTO:0001707 + + + + FBbt:00005060 + + @@ -36913,9 +36815,9 @@ plexiform layer. - - - + + + @@ -36963,15 +36865,15 @@ plexiform layer. notochord http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + - + @@ -36990,19 +36892,19 @@ plexiform layer. - + http://tolweb.org/Chordata/2499 - + ZFA - + EHDAA2 @@ -37042,8 +36944,8 @@ plexiform layer. - - + + Somites are spheres of epithelial cells that form sequentially along the anterior-posterior axis of the embryo through mesenchymal to epithelial transition of the presomitic mesoderm. mesodermal cluster @@ -37081,11 +36983,11 @@ plexiform layer. somite http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + @@ -37098,13 +37000,13 @@ plexiform layer. - + GOTAX:0000352 - + ZFA @@ -37166,22 +37068,22 @@ plexiform layer. - + - - + + - + A specialized region of ectoderm found between the neural ectoderm (neural plate) and non-neural ectoderm and composed of highly migratory pluripotent cells that delaminate in early embryonic development from the dorsal neural tube and give rise to an astounding variety of differentiated cell types[MP]. AAO:0010578 BTO:0001764 @@ -37214,45 +37116,45 @@ plexiform layer. http://upload.wikimedia.org/wikipedia/commons/5/5f/Gray644.png https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png - + - + - + - + - + XAO https://github.com/obophenotype/uberon/wiki/The-neural-crest - + BTO - + PMID:11523831 - + PMID:11523831 @@ -37310,6 +37212,7 @@ plexiform layer. EHDAA:255 EMAPA:16073 EV:0100004 + FBbt:00001057 FMA:87657 MAT:0000176 MIAA:0000176 @@ -37338,6 +37241,12 @@ plexiform layer. Embryonic ectoderm that gives rise to nervous tissue. Wikipedia:Neuroectoderm + + + + FBbt:00001057 + + @@ -37531,7 +37440,7 @@ plexiform layer. - + @@ -37584,14 +37493,14 @@ plexiform layer. hematopoietic system - + - + FMA @@ -37631,8 +37540,8 @@ plexiform layer. - - + + @@ -37658,11 +37567,11 @@ plexiform layer. iris epithelium - + - + @@ -37675,13 +37584,13 @@ plexiform layer. - + MA - + MP @@ -37820,7 +37729,7 @@ plexiform layer. - + Ectodermal placode that develops in the head into a part of the sensory nervous system. With a few exceptions (lens, adenohypophyseal), cranial placodes are neurogenic. Do not merge with neurogenic placode ectodermal placode @@ -37837,7 +37746,7 @@ plexiform layer. cranial placode - + @@ -37850,7 +37759,7 @@ plexiform layer. - + PMID:11523831 PMID:22512454 @@ -38050,7 +37959,7 @@ plexiform layer. - + @@ -38063,7 +37972,7 @@ plexiform layer. - + The part of the brain that is the morphological boundary between the midbrain and hindbrain and that is the location of an organizing center which patterns the midbrain and hindbrain primordia of the neural plate. consider adding class for organizer. Consider adding separate class for isthmus as a structure AAO:0011064 @@ -38092,24 +38001,24 @@ plexiform layer. midbrain-hindbrain boundary - + - + - + ZFA - + ZFA @@ -38231,7 +38140,7 @@ plexiform layer. - + Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form. AAO:0011086 EFO:0001982 @@ -38254,14 +38163,14 @@ plexiform layer. presomitic mesoderm - + - + Bgee:AN @@ -38428,7 +38337,7 @@ plexiform layer. - + @@ -38465,7 +38374,7 @@ plexiform layer. eye primordium - + @@ -38478,7 +38387,7 @@ plexiform layer. - + PMID:16496288 XAO @@ -38528,8 +38437,8 @@ plexiform layer. - - + + @@ -38557,24 +38466,24 @@ plexiform layer. optic cup - + - + - + ZFA - + ZFA @@ -38630,7 +38539,7 @@ plexiform layer. - + @@ -38668,7 +38577,7 @@ plexiform layer. lens placode http://upload.wikimedia.org/wikipedia/commons/2/2f/Gray864.png - + @@ -38681,7 +38590,7 @@ plexiform layer. - + ZFA @@ -38720,9 +38629,9 @@ plexiform layer. - - - + + + A region of embryonic ectodermal cells that lie directly above the notochord. During neurulation, they change shape and produce an infolding of the neural plate (the neural fold) that then seals to form the neural tube[XAO]. The earliest recognizable dorsal ectodermal primordium of the central nervous system present near the end of gastrulation before infolding to form the neural keel; consists of a thickened pseudostratified epithelium[ZFA]. AAO:0011072 BTO:0001765 @@ -38751,34 +38660,34 @@ plexiform layer. neural plate https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png - + - + - + - + GOTAX:0000352 - + Wikipedia - + Bgee:AN @@ -38853,7 +38762,7 @@ plexiform layer. - + The paraxial mesoderm is the mesoderm located bilaterally adjacent to the notochord and neural tube[GO]. AAO:0010568 EFO:0003515 @@ -38879,7 +38788,7 @@ plexiform layer. paraxial mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + @@ -38892,7 +38801,7 @@ plexiform layer. - + Bgee:AN @@ -38968,7 +38877,7 @@ plexiform layer. - + @@ -39008,7 +38917,7 @@ plexiform layer. lateral plate mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + @@ -39021,7 +38930,7 @@ plexiform layer. - + EHDAA2 VHOG @@ -39071,15 +38980,15 @@ plexiform layer. - - + + - + Bilateral groups of cells consisting of three rows: one row of endocardial precursors medially and two rows of myocardical precursors laterally. The two populations fuse at the midline to form the heart rudiment or cone. should probably be merged with heart rudiment. AAO:0011044 @@ -39096,15 +39005,15 @@ plexiform layer. heart primordium - + - + - + @@ -39117,19 +39026,19 @@ plexiform layer. - + ZFA - + ZFA - + XAO @@ -39158,8 +39067,8 @@ plexiform layer. - - + + Ventral somitic compartment that is a precursor of the axial skeleton[XAO]. Sclerotomes eventually differentiate into the vertebrae and most of the skull. The caudal (posterior) half of one sclerotome fuses with the rostral (anterior) half of the adjacent one to form each vertebra. From their initial location within the somite, the sclerotome cells migrate medially towards the notochord. These cells meet the sclerotome cells from the other side to form the vertebral body. From this vertebral body, sclerotome cells move dorsally and surround the developing spinal cord, forming the vertebral arch[WP]. AAO:0010571 AEO:0000212 @@ -39183,11 +39092,11 @@ plexiform layer. sclerotome http://upload.wikimedia.org/wikipedia/commons/9/96/Gray65.png - + - + @@ -39206,13 +39115,13 @@ plexiform layer. - + VHOG:0000680 - + ZFA @@ -39533,7 +39442,7 @@ plexiform layer. - + Mesenchyme that is part of a developing camera-type eye. TODO - change mesenchyme relationships to precursor_of EHDAA2:0000485 @@ -39545,14 +39454,14 @@ plexiform layer. UBERON:0003314 eye mesenchyme - + - + EHDAA2 @@ -40327,7 +40236,7 @@ plexiform layer. - + The part of the coelom in the embryo between the somatopleuric and splanchnopleuric mesoderm; the principal body cavities of the trunk (thoracic, abdominal, and pelvic) arise from this embryonic part of the coelom. consider merging with coelom. TODO - add spatial relationships to halves of LPM. Note the OG places XAO and ZFA coelem terms here. editor note: TODO check ZFA, which appears to be a structure present in adults EHDAA:251 @@ -40342,14 +40251,14 @@ plexiform layer. intraembryonic coelom - + - + Wikipedia @@ -40442,7 +40351,7 @@ plexiform layer. - + The part of the retina that contains neurons and photoreceptor cells[GO]. AAO:0011095 @@ -40473,14 +40382,14 @@ plexiform layer. retinal neural layer - + - + Bgee:AN @@ -40556,6 +40465,7 @@ plexiform layer. Epithelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues, with tube shape and organization varying from the single-celled excretory organ in Caenorhabditis elegans to the branching trees of the mammalian kidney and insect tracheal system. AEO:0000114 EHDAA2:0003114 + FBbt:00007474 epithelial or endothelial tube uberon UBERON:0003914 @@ -40568,6 +40478,12 @@ plexiform layer. GO:0060562 PMID:12526790 + + + + FBbt:00007474 + + @@ -40726,7 +40642,7 @@ plexiform layer. - + The layer of undifferentiated, proliferating cells that line the neural tube lumen that is the immediate transformation of the germinal neuroepithelium. consider merging with 'ventricular zone'; note that the MA class probably does not belong here, as this is an embryonic structure ependymal layer @@ -40743,7 +40659,7 @@ plexiform layer. neural tube ventricular layer - + @@ -40756,7 +40672,7 @@ plexiform layer. - + NCBIBook:NBK10047 @@ -41158,9 +41074,9 @@ plexiform layer. - - - + + + @@ -41192,34 +41108,34 @@ plexiform layer. optic vesicle http://upload.wikimedia.org/wikipedia/commons/e/e0/Gray863.png - + - + - + - + ZFA - + GO-def - + ZFA @@ -41315,8 +41231,8 @@ plexiform layer. - - + + A specific region of the lateral mesoderm that will form the primary beating heart tube. In mammals the primary heart field gives rise to the left ventricle. XAO:0004185 first heart field @@ -41328,24 +41244,24 @@ plexiform layer. UBERON:0004140 primary heart field - + - + - + GO:0003128 - + https://orcid.org/0000-0003-3308-6245 @@ -41398,7 +41314,7 @@ plexiform layer. - + An epithelial tube that will give rise to the mature heart. AAO:0010411 EFO:0003526 @@ -41417,14 +41333,14 @@ plexiform layer. heart tube - + - + ZFA-modified @@ -41501,7 +41417,7 @@ plexiform layer. - + @@ -41517,14 +41433,14 @@ plexiform layer. eye muscle - + - + MA @@ -41707,7 +41623,7 @@ plexiform layer. - + A transparent homogeneous acellular layer found between the substantia propria and the endothelial layer of the cornea[MP]. EMAPA:18804 @@ -41736,14 +41652,14 @@ plexiform layer. Descemet's membrane https://github.com/obophenotype/uberon/issues/15 - + - + Cline et al @@ -42002,7 +41918,6 @@ plexiform layer. - @@ -42099,7 +42014,6 @@ plexiform layer. - @@ -42384,6 +42298,7 @@ plexiform layer. UBERON:0007012 BILA:0000060 BTO:0001403 + FBbt:00005317 FMA:293108 GAID:1302 MESH:D005775 @@ -42415,6 +42330,12 @@ plexiform layer. Wikipedia:Gastrula Wikipedia:Trilaminar_blastocyst + + + + FBbt:00005317 + + @@ -42488,7 +42409,7 @@ plexiform layer. - + Organ consisting of skeletal tissue. Encompasses whole bones, fused bones, cartilaginious elements, teeth, dermal denticles. AAO:0011129 TAO:0001890 @@ -42502,14 +42423,14 @@ plexiform layer. skeletal element - + - + VSAO @@ -42536,7 +42457,7 @@ plexiform layer. - + @@ -42575,14 +42496,14 @@ plexiform layer. UBERON:0004770 articular system - + - + FMA @@ -42798,6 +42719,7 @@ plexiform layer. Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts. + FBbt:00005811 joint uberon UBERON:0004905 @@ -42810,6 +42732,12 @@ plexiform layer. Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005811 + + @@ -42842,6 +42770,7 @@ plexiform layer. A proximal-distal subdivision of the digestive tract. + FBbt:00100315 FMA:71131 uberon alimentary system subdivision @@ -42860,6 +42789,12 @@ plexiform layer. A proximal-distal subdivision of the digestive tract. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00100315 + + @@ -43147,6 +43082,7 @@ plexiform layer. A structure consisting of multiple cell components but which is not itself a cell and does not have (complete) cells as a part. AAO:0011000 CARO:0001000 + FBbt:00007060 FMA:83115 multi-cell-component structure multi-cell-part structure @@ -43162,6 +43098,12 @@ plexiform layer. A structure consisting of multiple cell components but which is not itself a cell and does not have (complete) cells as a part. CARO:0001000 + + + + FBbt:00007060 + + @@ -43413,7 +43355,7 @@ plexiform layer. - + Portion of primordial embryonic connective tissue of the developing head, consisting of mesenchymal cells supported in interlaminar jelly, that derive mostly from the mesoderm and contribute to head connective tissue, bone and musculature in conjunction with cranial neural crest cells. EFO:0003492 EHDAA2:0000732 @@ -43434,14 +43376,14 @@ plexiform layer. head mesenchyme - + - + EHDAA2 @@ -43499,7 +43441,7 @@ plexiform layer. - + Mesenchyme that is part of a developing trunk. EFO:0003485 EHDAA2:0002092 @@ -43515,14 +43457,14 @@ plexiform layer. trunk mesenchyme - + - + EHDAA2 @@ -43669,6 +43611,7 @@ plexiform layer. An array of photoreceptors and any supporting cells found in an eye. + FBbt:00004200 light-sensitive tissue uberon UBERON:0005388 @@ -43680,6 +43623,12 @@ plexiform layer. An array of photoreceptors and any supporting cells found in an eye. https://orcid.org/0000-0002-6601-2165 + + + + FBbt:00004200 + + @@ -43731,6 +43680,7 @@ plexiform layer. AEO:0000125 CALOHA:TS-2122 EHDAA2:0003125 + FBbt:00007006 FMA:292313 MIAA:0000019 uberon @@ -43741,6 +43691,12 @@ plexiform layer. developing anatomical structure + + + + FBbt:00007006 + + @@ -44023,7 +43979,7 @@ plexiform layer. - + Portion of tissue that is part of the eye and gives rise to the mature, fully layered cornea. TAO:0002188 ZFA:0001688 @@ -44031,7 +43987,7 @@ plexiform layer. UBERON:0005427 corneal primordium - + @@ -44050,7 +44006,7 @@ plexiform layer. - + ZFA @@ -44073,7 +44029,7 @@ plexiform layer. - + Multi-tissue structure that arises from the heart rudiment and will become the heart tube. EHDAA2:0001512 EHDAA:424 @@ -44091,14 +44047,14 @@ plexiform layer. primitive heart tube - + - + ZFA @@ -44189,7 +44145,6 @@ plexiform layer. - @@ -44289,7 +44244,7 @@ plexiform layer. - + A delimited region of dense mesenchyme within looser mesenchyme. AEO:0000148 EHDAA2_RETIRED:0003148 @@ -44299,7 +44254,7 @@ plexiform layer. UBERON:0005856 developing mesenchymal condensation - + @@ -44318,7 +44273,7 @@ plexiform layer. - + AEO-modified-relation @@ -44339,7 +44294,6 @@ plexiform layer. - @@ -44376,8 +44330,8 @@ plexiform layer. - - + + @@ -44394,11 +44348,11 @@ plexiform layer. UBERON:0005908 conjunctival sac - + - + @@ -44411,13 +44365,13 @@ plexiform layer. - + FMA - + HPO:pr @@ -44659,7 +44613,7 @@ plexiform layer. - + @@ -44682,14 +44636,14 @@ plexiform layer. future diencephalon - + - + EHDAA2 @@ -44865,7 +44819,7 @@ plexiform layer. - + @@ -44889,14 +44843,14 @@ plexiform layer. future spinal cord - + - + EHDAA2 @@ -44933,7 +44887,7 @@ plexiform layer. - + The notochordal plate is the dorsal part of the notochordal process when the ventral portion breaks down. It is continuous laterally with the endoderm that composes the roof of the primitive foregut and is in contact dorsally with the neural tube. The folding off of the notochordal plate gives rise to the notochord. TODO - check ordering; awaiting confirmation from JB EHDAA2:0001278 @@ -44947,7 +44901,7 @@ plexiform layer. notochordal plate - + @@ -44960,7 +44914,7 @@ plexiform layer. - + EHDAA2 @@ -44988,7 +44942,7 @@ plexiform layer. - + A midline cellular cord formed from the migration of mesenchymal cells from the primitive knot. EHDAA2:0001279 EHDAA:224 @@ -45005,14 +44959,14 @@ plexiform layer. The notochordal process grows cranially until it reaches the prechordal plate, the future site of the mouth. In this area the ectoderm is attached directly to the endoderm without intervening mesoderm. This area is known as the oropharyngeal membrane, and it will break down to become the mouth. At the other end of the primitive streak the ectoderm is also fused directly to the endoderm; this is known as the cloacal membrane (proctodeum), or primordial anus. notochordal process - + - + EHDAA2 @@ -45593,7 +45547,6 @@ plexiform layer. - @@ -46054,8 +46007,8 @@ plexiform layer. - - + + @@ -46081,24 +46034,24 @@ plexiform layer. presumptive hindbrain - + - + - + XAO-abduced - + cjm @@ -46149,7 +46102,7 @@ plexiform layer. - + @@ -46168,14 +46121,14 @@ plexiform layer. presumptive midbrain hindbrain boundary - + - + ZFA @@ -46321,7 +46274,7 @@ plexiform layer. - + @@ -46347,7 +46300,7 @@ plexiform layer. presumptive paraxial mesoderm - + @@ -46363,7 +46316,7 @@ plexiform layer. - + https://github.com/obophenotype/uberon/issues/1277 @@ -46445,7 +46398,7 @@ plexiform layer. - + A neural decussation that is part of a diencephalon. FMA:62446 diencephalon decussation @@ -46453,7 +46406,7 @@ plexiform layer. UBERON:0007425 decussation of diencephalon - + @@ -46466,7 +46419,7 @@ plexiform layer. - + Obol @@ -46541,7 +46494,7 @@ plexiform layer. - + Mesenchyme with little extracellular matrix. AEO:0000146 EHDAA2:0003146 @@ -46549,7 +46502,7 @@ plexiform layer. UBERON:0007524 dense mesenchyme tissue - + @@ -46562,7 +46515,7 @@ plexiform layer. - + AEO @@ -46741,6 +46694,7 @@ plexiform layer. AEO:0000170 EFO:0001649 EHDAA2:0003170 + FBbt:00005426 Wikipedia:Anlage_(biology) developmental field uberon @@ -46770,6 +46724,12 @@ plexiform layer. FBbt:00005426 http://flybase.org/reports/FBrf0178740.html + + + + FBbt:00005426 + + @@ -46794,7 +46754,7 @@ plexiform layer. - + An axon tract that is part of a brain. the NIFSTD class 'nerve tract' is classified under 'regional part of brain', so it may seem like it belongs here, but actually includes spinal cord tracts FMA:83848 @@ -46804,14 +46764,14 @@ plexiform layer. UBERON:0007702 tract of brain - + - + cjm @@ -46839,7 +46799,7 @@ plexiform layer. - + Anatomical system that consists of all blood and lymph vessels. consider merging with vasculature @@ -46856,14 +46816,14 @@ plexiform layer. vascular system - + - + MA @@ -46984,7 +46944,7 @@ plexiform layer. - + @@ -47001,14 +46961,14 @@ plexiform layer. UBERON:0009142 entire embryonic mesenchyme - + - + EHDAA2 @@ -47104,7 +47064,7 @@ plexiform layer. - + @@ -47120,14 +47080,14 @@ plexiform layer. UBERON:0009615 midbrain hindbrain boundary neural plate - + - + ZFA @@ -47160,14 +47120,14 @@ plexiform layer. - + - + @@ -47192,24 +47152,24 @@ plexiform layer. presumptive midbrain - + - + - + ZFA - + ZFA @@ -47255,7 +47215,7 @@ plexiform layer. - + EHDAA2:0002094 trunk and cervical paraxial mesenchyme uberon @@ -47263,14 +47223,14 @@ plexiform layer. UBERON:0009618 trunk paraxial mesoderm - + - + EHDAA2 @@ -47293,7 +47253,7 @@ plexiform layer. - + EFO:0003704 TAO:0005041 ZFA:0005041 @@ -47303,14 +47263,14 @@ plexiform layer. anterior lateral plate mesoderm - + - + ZFA @@ -47366,14 +47326,14 @@ plexiform layer. - + EHDAA2:0001315 EHDAA:1122 uberon UBERON:0009920 optic neural crest - + @@ -47386,7 +47346,7 @@ plexiform layer. - + EHDAA2 @@ -47424,6 +47384,7 @@ plexiform layer. CARO:0010000 + FBbt:00100313 multicellular structure uberon UBERON:0010000 @@ -47437,6 +47398,12 @@ plexiform layer. An anatomical structure that has more than one cell as a part. CARO:0010000 + + + + FBbt:00100313 + + @@ -47520,7 +47487,7 @@ plexiform layer. - + @@ -47543,14 +47510,14 @@ plexiform layer. eyeball of camera-type eye - + - + FMA @@ -47591,8 +47558,8 @@ plexiform layer. - - + + Portion of tissue that is dorsolateral to the floor plate and part of the midbrain. DHBA:12322 EFO:0003567 @@ -47606,11 +47573,11 @@ plexiform layer. midbrain basal plate - + - + @@ -47623,13 +47590,13 @@ plexiform layer. - + EHDAA2 - + ZFA @@ -47658,7 +47625,7 @@ plexiform layer. - + Portion of neural tube that gives rise to the midbrain. we follow ZFA in temporally dividing midbrain NT from presumptive midbrain, but in future this may be collapsed TAO:0007039 @@ -47667,14 +47634,14 @@ plexiform layer. UBERON:0010286 midbrain neural tube - + - + ZFA @@ -47977,8 +47944,8 @@ plexiform layer. - - + + Anatomical cluster consisting of the skeletal elements (i.e. bone elements, cartilage elements, cartilage condensations) that are part of an individual subdivision of the organism. Excludes joints. FMA:23879 SCTID:129140006 @@ -47990,11 +47957,11 @@ plexiform layer. subdivision of skeleton - + - + @@ -48007,13 +47974,13 @@ plexiform layer. - + UBERONREF:0000003 - + VSAO @@ -48074,7 +48041,7 @@ plexiform layer. - + Subdivision of the skeletal system which consists of the postcranial axial skeleton plus associated joints. axial skeletal system FMA:302077 @@ -48084,7 +48051,7 @@ plexiform layer. postcranial axial skeletal system http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton - + @@ -48097,7 +48064,7 @@ plexiform layer. - + cjm @@ -48183,6 +48150,7 @@ plexiform layer. + FBbt:00007330 FMA:67509 SCTID:91690000 uberon @@ -48204,6 +48172,12 @@ plexiform layer. A subdivision of an anatomical system. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00007330 + + @@ -48212,7 +48186,7 @@ plexiform layer. - + AAO:0010038 EMAPA:18808 FMA:49150 @@ -48222,14 +48196,14 @@ plexiform layer. UBERON:0011222 intra-ocular muscle - + - + EMAPA @@ -48491,7 +48465,7 @@ plexiform layer. - + @@ -48533,7 +48507,7 @@ plexiform layer. anterior uvea - + @@ -48546,7 +48520,7 @@ plexiform layer. - + MP @@ -48677,7 +48651,6 @@ plexiform layer. - @@ -49073,6 +49046,7 @@ plexiform layer. An anatomical group whose component structures share a common function. AEO:0000093 + FBbt:00007278 uberon UBERON:0015203 non-connected functional system @@ -49086,6 +49060,12 @@ plexiform layer. FBC:DOS FBbt:00007278 + + + + FBbt:00007278 + + @@ -49333,7 +49313,7 @@ plexiform layer. - + @@ -49356,7 +49336,7 @@ plexiform layer. UBERON:0016887 entire extraembryonic component - + @@ -49369,7 +49349,7 @@ plexiform layer. - + AEO @@ -49838,6 +49818,7 @@ plexiform layer. CARO:0020000 + FBbt:00007276 uberon UBERON:0034923 @@ -49855,6 +49836,12 @@ plexiform layer. Material anatomical entity consisting of multiple anatomical structures that are not connected to each other. CARO:0020000 + + + + FBbt:00007276 + + @@ -50348,781 +50335,6 @@ plexiform layer. - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - If a molecular function (X) has a regulatory subfunction, then any gene product which is an input to that subfunction has an activity that directly_regulates X. Note: this is intended for cases where the regaultory subfunction is protein binding, so it could be tightened with an additional clause to specify this. - inferring direct reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - inferring direct neg reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - inferring direct positive reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - effector input is compound function input - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Input of effector is input of its parent MF - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly regulates X, its parent MF directly regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly positively regulates X, its parent MF directly positively regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly negatively regulates X, its parent MF directly negatively regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - 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+_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid653 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid70 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid708 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid73 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid760 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid779 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid795 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid802 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid813 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid819 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid836 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid842 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid851 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid861 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid909 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid959 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid969 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid976 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid983 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid990 "cell" "neural crest derived fibroblast" "neuronal receptor cell" @@ -852,7 +843,6 @@ _:B4f14f866X2Da756X2D48e6X2D9c37X2D1d31e14ff4c3genid996 "integrin alpha" "Mus musculus protein" "eukaryotic protein" - "protein-containing material entity" "processual entity" "camera-type eye" "sense organ" diff --git a/src/ontology/subsets/general_cell_types_upper_slim.json b/src/ontology/subsets/general_cell_types_upper_slim.json index 1f330c5ba..effd7a8d6 100644 --- a/src/ontology/subsets/general_cell_types_upper_slim.json +++ b/src/ontology/subsets/general_cell_types_upper_slim.json @@ -4,68 +4,11 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", - "val" : "2024-04-05" + "val" : "2024-05-15" } ], - "version" : "http://purl.obolibrary.org/obo/cl/releases/2024-04-05/subsets/general_cell_types_upper_slim.owl" + "version" : "http://purl.obolibrary.org/obo/cl/releases/2024-05-15/subsets/general_cell_types_upper_slim.owl" }, "nodes" : [ { - "id" : "http://purl.obolibrary.org/obo/BFO_0000002", - "lbl" : "continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000003", - "lbl" : "occurrent", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An entity that has temporal parts and that happens, unfolds or develops through time." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000004", - "lbl" : "independent continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" - }, - "comments" : [ "A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000015", - "lbl" : "process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" - }, - "comments" : [ "An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000020", - "lbl" : "specifically dependent continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" - }, - "comments" : [ "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000040", - "lbl" : "material entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." - } - } - }, { "id" : "http://purl.obolibrary.org/obo/BFO_0000050", "lbl" : "part_of", "type" : "PROPERTY", @@ -218,10 +161,6 @@ }, "comments" : [ "Paraphrase of definition: a relation between an independent continuant and a process, in which the process takes place entirely within the independent continuant" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000141", - "lbl" : "immaterial entity", - "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/CL_0000000", "lbl" : "cell", @@ -251,6 +190,8 @@ "val" : "WBbt:0004017" }, { "val" : "XAO:0003012" + }, { + "val" : "ZFA:0009000" } ] } }, { @@ -258,10 +199,17 @@ "lbl" : "neuronal receptor cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any sensory receptor cell that is a(n) neuron and is capable of some detection of stimulus involved in sensory perception.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "neuronal receptor cell (sensu Animalia)" + } ], + "xrefs" : [ { + "val" : "ZFA:0009001" } ] } }, { @@ -272,7 +220,10 @@ "definition" : { "val" : "A cell found in the embryo before the formation of all the gem layers is complete.", "xrefs" : [ "GOC:tfm" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009002" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000034", @@ -293,6 +244,8 @@ "val" : "CALOHA:TS-2086" }, { "val" : "FMA:63368" + }, { + "val" : "ZFA:0005957" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -334,6 +287,8 @@ "val" : "MESH:D006412" }, { "val" : "VHOG:0001485" + }, { + "val" : "ZFA:0009014" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -350,7 +305,10 @@ "xrefs" : [ "GOC:tfm", "ISBN:0721662544" ] }, "comments" : [ "Originally this term had some plant germ line cell children." ], - "subsets" : [ "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim", "http://purl.obolibrary.org/obo/ubprop#_upper_level" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim", "http://purl.obolibrary.org/obo/ubprop#_upper_level" ], + "xrefs" : [ { + "val" : "ZFA:0009016" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000040", @@ -380,6 +338,8 @@ "val" : "CALOHA:TS-1195" }, { "val" : "FMA:83553" + }, { + "val" : "ZFA:0009017" } ] } }, { @@ -406,6 +366,8 @@ } ], "xrefs" : [ { "val" : "FMA:84789" + }, { + "val" : "ZFA:0009020" } ] } }, { @@ -456,6 +418,8 @@ } ], "xrefs" : [ { "val" : "BTO:0004730" + }, { + "val" : "ZFA:0009021" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -503,6 +467,9 @@ "pred" : "hasRelatedSynonym", "val" : "lymphopoietic stem cell" } ], + "xrefs" : [ { + "val" : "ZFA:0009023" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -525,6 +492,8 @@ "val" : "FMA:84790" }, { "val" : "MESH:D039901" + }, { + "val" : "ZFA:0009024" } ] } }, { @@ -567,6 +536,8 @@ "val" : "FMA:70335" }, { "val" : "VHOG:0001529" + }, { + "val" : "ZFA:0009025" } ] } }, { @@ -590,6 +561,8 @@ "val" : "NCIT:C12482" }, { "val" : "VHOG:0001482" + }, { + "val" : "ZFA:0009026" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -622,6 +595,8 @@ "val" : "FMA:66768" }, { "val" : "WBbt:0003672" + }, { + "val" : "ZFA:0009034" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -641,6 +616,9 @@ "xrefs" : [ "GO:0002065", "https://orcid.org/0000-0001-5208-3432" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], + "xrefs" : [ { + "val" : "ZFA:0009038" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -660,6 +638,8 @@ "val" : "FMA:62844" }, { "val" : "MESH:D001773" + }, { + "val" : "ZFA:0009044" } ] } }, { @@ -698,6 +678,8 @@ "val" : "MESH:D013601" }, { "val" : "VHOG:0001479" + }, { + "val" : "ZFA:0009046" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -727,6 +709,8 @@ "val" : "FMA:66781" }, { "val" : "MESH:D010010" + }, { + "val" : "ZFA:0009047" } ] } }, { @@ -757,6 +741,8 @@ "val" : "CALOHA:TS-0422" }, { "val" : "FMA:62854" + }, { + "val" : "ZFA:0009048" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -792,6 +778,8 @@ "val" : "FMA:83617" }, { "val" : "WBbt:0005409" + }, { + "val" : "ZFA:0009052" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -807,6 +795,7 @@ "val" : "Any neuron having a sensory function; an afferent neuron conveying sensory impulses.", "xrefs" : [ "ISBN:0721662544" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "xrefs" : [ { "val" : "BTO:0001037" }, { @@ -817,6 +806,12 @@ "val" : "MESH:D011984" }, { "val" : "WBbt:0005759" + }, { + "val" : "ZFA:0009053" + } ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" } ] } }, { @@ -831,6 +826,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "xrefs" : [ { "val" : "BTO:0001433" + }, { + "val" : "ZFA:0009064" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -847,7 +844,7 @@ "xrefs" : [ "MESH:D009457" ] }, "comments" : [ "Not all glial cells develop from glioblasts, with microglia developing from the mesoderm instead. See https://github.com/obophenotype/cell-ontology/issues/1571" ], - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "neuroglial cell" @@ -863,6 +860,12 @@ "val" : "FBbt:00005144" }, { "val" : "FMA:54536" + }, { + "val" : "ZFA:0009073" + } ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" } ] } }, { @@ -877,6 +880,9 @@ "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "neurectoderm cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009080" } ] } }, { @@ -943,6 +949,8 @@ "val" : "BTO:0003298" }, { "val" : "FMA:70546" + }, { + "val" : "ZFA:0009081" } ], "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", @@ -972,6 +980,8 @@ "val" : "CALOHA:TS-0012" }, { "val" : "FMA:63880" + }, { + "val" : "ZFA:0009082" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -993,6 +1003,9 @@ "synonymType" : "http://purl.obolibrary.org/obo/OMO_0003000", "pred" : "hasRelatedSynonym", "val" : "APC" + } ], + "xrefs" : [ { + "val" : "ZFA:0009088" } ] } }, { @@ -1013,6 +1026,8 @@ } ], "xrefs" : [ { "val" : "VHOG:0001678" + }, { + "val" : "ZFA:0009090" } ] } }, { @@ -1039,6 +1054,8 @@ "val" : "MESH:D008544" }, { "val" : "VHOG:0001679" + }, { + "val" : "ZFA:0009091" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1083,6 +1100,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim" ], "xrefs" : [ { "val" : "FMA:16014" + }, { + "val" : "ZFA:0009092" } ] } }, { @@ -1101,6 +1120,8 @@ } ], "xrefs" : [ { "val" : "FMA:83809" + }, { + "val" : "ZFA:0009096" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1147,6 +1168,8 @@ "val" : "FMA:67328" }, { "val" : "WBbt:0003675" + }, { + "val" : "ZFA:0009114" } ], "basicPropertyValues" : [ { "pred" : "http://xmlns.com/foaf/0.1/depiction", @@ -1173,6 +1196,8 @@ "val" : "CALOHA:TS-2158" }, { "val" : "FMA:9727" + }, { + "val" : "ZFA:0009115" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1210,6 +1235,8 @@ "val" : "CALOHA:TS-2159" }, { "val" : "FMA:14072" + }, { + "val" : "ZFA:0009118" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1246,8 +1273,12 @@ "val" : "BTO:0001060" }, { "val" : "CALOHA:TS-0868" + }, { + "val" : "FBbt:00004211" }, { "val" : "FMA:86740" + }, { + "val" : "ZFA:0009127" } ], "basicPropertyValues" : [ { "pred" : "http://xmlns.com/foaf/0.1/depiction", @@ -1262,7 +1293,10 @@ "definition" : { "val" : "A cell whose function is determined by the generation or the reception of an electric signal.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009128" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000219", @@ -1272,7 +1306,10 @@ "definition" : { "val" : "A cell that moves by its own activities.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009136" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000221", @@ -1289,6 +1326,8 @@ } ], "xrefs" : [ { "val" : "FMA:72549" + }, { + "val" : "ZFA:0009137" } ] } }, { @@ -1310,6 +1349,8 @@ } ], "xrefs" : [ { "val" : "FMA:72554" + }, { + "val" : "ZFA:0009138" } ] } }, { @@ -1327,6 +1368,8 @@ } ], "xrefs" : [ { "val" : "FMA:72555" + }, { + "val" : "ZFA:0009139" } ] } }, { @@ -1380,6 +1423,8 @@ "val" : "FMA:83806" }, { "val" : "MESH:D010586" + }, { + "val" : "ZFA:0009140" } ] } }, { @@ -1407,6 +1452,8 @@ "val" : "FMA:83585" }, { "val" : "MESH:D008264" + }, { + "val" : "ZFA:0009141" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1443,6 +1490,8 @@ "val" : "MESH:D001402" }, { "val" : "VHOG:0001480" + }, { + "val" : "ZFA:0009142" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1454,6 +1503,10 @@ "lbl" : "eukaryotic cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any cell that only exists in Eukaryota.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "MESH:D005057" @@ -1473,7 +1526,12 @@ }, { "id" : "http://purl.obolibrary.org/obo/CL_0000327", "lbl" : "extracellular matrix secreting cell", - "type" : "CLASS" + "type" : "CLASS", + "meta" : { + "xrefs" : [ { + "val" : "ZFA:0009162" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000333", "lbl" : "migratory neural crest cell", @@ -1485,6 +1543,8 @@ }, "xrefs" : [ { "val" : "FMA:86667" + }, { + "val" : "ZFA:0007086" } ] } }, { @@ -1492,7 +1552,14 @@ "lbl" : "extraembryonic cell", "type" : "CLASS", "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim" ] + "definition" : { + "val" : "Any cell that is part of some extraembryonic structure.", + "xrefs" : [ "FBC:Autogenerated" ] + }, + "subsets" : [ "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim" ], + "xrefs" : [ { + "val" : "ZFA:0009176" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000352", @@ -1516,6 +1583,8 @@ "comments" : [ "Multi-potency demonstrated ex vivo. At the time of writing, it is unclear whether the endogenous population differentiates into multiple cell types in vivo." ], "xrefs" : [ { "val" : "FMA:86767" + }, { + "val" : "ZFA:0009179" } ] } }, { @@ -1547,7 +1616,10 @@ "definition" : { "val" : "A cell whose function is determined by its response to an electric signal.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009190" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000404", @@ -1557,7 +1629,10 @@ "definition" : { "val" : "A cell that initiates an electrical signal and passes that signal to another cell.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009193" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000451", @@ -1584,6 +1659,8 @@ "val" : "FMA:83036" }, { "val" : "MESH:D003713" + }, { + "val" : "ZFA:0009209" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1614,6 +1691,8 @@ "val" : "BTO:0002064" }, { "val" : "FMA:83624" + }, { + "val" : "ZFA:0009226" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1639,6 +1718,8 @@ } ], "xrefs" : [ { "val" : "FMA:84797" + }, { + "val" : "ZFA:0009234" } ] } }, { @@ -1661,6 +1742,8 @@ } ], "xrefs" : [ { "val" : "FMA:84798" + }, { + "val" : "ZFA:0009235" } ] } }, { @@ -1678,6 +1761,8 @@ } ], "xrefs" : [ { "val" : "FMA:84799" + }, { + "val" : "ZFA:0009236" } ] } }, { @@ -1706,6 +1791,8 @@ } ], "xrefs" : [ { "val" : "FMA:87653" + }, { + "val" : "ZFA:0009238" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1724,6 +1811,9 @@ "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "output neuron" + } ], + "xrefs" : [ { + "val" : "ZFA:0009239" } ] } }, { @@ -1753,6 +1843,8 @@ "val" : "VHOG:0001483" }, { "val" : "WBbt:0003679" + }, { + "val" : "ZFA:0009248" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1776,6 +1868,8 @@ "val" : "BTO:0003217" }, { "val" : "FMA:83377" + }, { + "val" : "ZFA:0009249" } ] } }, { @@ -1799,6 +1893,8 @@ "val" : "MESH:D008214" }, { "val" : "VHOG:0001535" + }, { + "val" : "ZFA:0009250" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1845,6 +1941,9 @@ "val" : "GMP", "xrefs" : [ "ISBN:0721601464", "PMCID:PMC2213186", "PMCID:PMC548021" ] } ], + "xrefs" : [ { + "val" : "ZFA:0009251" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -1865,6 +1964,8 @@ "val" : "BTO:0004657" }, { "val" : "FMA:83551" + }, { + "val" : "ZFA:0009253" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1887,6 +1988,9 @@ }, { "pred" : "hasExactSynonym", "val" : "chondroplast" + } ], + "xrefs" : [ { + "val" : "ZFA:0009258" } ] } }, { @@ -1906,6 +2010,8 @@ "val" : "CALOHA:TS-0638" }, { "val" : "FMA:62864" + }, { + "val" : "ZFA:0009265" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1946,6 +2052,8 @@ "val" : "MESH:D007694" }, { "val" : "VHOG:0001697" + }, { + "val" : "ZFA:0009278" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1961,7 +2069,10 @@ "val" : "A non-terminally differentiated cell that is capable of developing into a muscle cell.", "xrefs" : [ "GOC:add" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], + "xrefs" : [ { + "val" : "ZFA:0009291" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000723", @@ -1976,6 +2087,8 @@ "val" : "CALOHA:TS-2086" }, { "val" : "MESH:D053687" + }, { + "val" : "ZFA:0009307" } ] } }, { @@ -1993,6 +2106,8 @@ "val" : "CALOHA:TS-2157" }, { "val" : "FMA:86936" + }, { + "val" : "ZFA:0005784" } ] } }, { @@ -2025,6 +2140,8 @@ "val" : "MESH:D007962" }, { "val" : "NCIT:C12529" + }, { + "val" : "ZFA:0009309" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2067,6 +2184,8 @@ "val" : "FMA:14067" }, { "val" : "MESH:D032383" + }, { + "val" : "ZFA:0009316" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2092,6 +2211,8 @@ "val" : "CALOHA:TS-0647" }, { "val" : "MESH:D022423" + }, { + "val" : "ZFA:0009324" } ] } }, { @@ -2103,67 +2224,9 @@ "val" : "A cell of the monocyte, granulocyte, or mast cell lineage.", "xrefs" : [ "GOC:add" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/CL_0000775", - "lbl" : "neutrophil", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any of the immature or mature forms of a granular leukocyte that in its mature form has a nucleus with three to five lobes connected by slender threads of chromatin, and cytoplasm containing fine inconspicuous granules and stainable by neutral dyes.", - "xrefs" : [ "GOC:add", "GOC:amm", "GOC:tfm", "ISBN:0721601464" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim", "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], - "synonyms" : [ { - "pred" : "hasBroadSynonym", - "val" : "PMN" - }, { - "pred" : "hasBroadSynonym", - "val" : "poly" - }, { - "pred" : "hasBroadSynonym", - "val" : "polymorphonuclear leucocyte" - }, { - "pred" : "hasBroadSynonym", - "val" : "polymorphonuclear leukocyte" - }, { - "pred" : "hasBroadSynonym", - "val" : "polymorphonuclear neutrophil" - }, { - "pred" : "hasBroadSynonym", - "val" : "polynuclear neutrophilic leucocyte" - }, { - "pred" : "hasBroadSynonym", - "val" : "polynuclear neutrophilic leukocyte" - }, { - "pred" : "hasExactSynonym", - "val" : "neutrocyte" - }, { - "pred" : "hasExactSynonym", - "val" : "neutrophil leucocyte" - }, { - "pred" : "hasExactSynonym", - "val" : "neutrophil leukocyte" - }, { - "pred" : "hasExactSynonym", - "val" : "neutrophilic leucocyte" - }, { - "pred" : "hasExactSynonym", - "val" : "neutrophilic leukocyte" - } ], + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { - "val" : "BTO:0000130" - }, { - "val" : "CALOHA:TS-0688" - }, { - "val" : "FMA:62860" - }, { - "val" : "MESH:D009504" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0002175", - "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + "val" : "ZFA:0009326" } ] } }, { @@ -2222,6 +2285,9 @@ "pred" : "hasRelatedSynonym", "val" : "preNK cell", "xrefs" : [ "PMID:11532393" ] + } ], + "xrefs" : [ { + "val" : "ZFA:0009348" } ] } }, { @@ -2267,6 +2333,8 @@ } ], "xrefs" : [ { "val" : "BTO:0003104" + }, { + "val" : "ZFA:0009349" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2298,6 +2366,9 @@ }, { "pred" : "hasNarrowSynonym", "val" : "TN1 cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009350" } ] } }, { @@ -2322,6 +2393,8 @@ "val" : "BTO:0000725" }, { "val" : "CALOHA:TS-0448" + }, { + "val" : "ZFA:0009354" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2349,6 +2422,8 @@ "val" : "CALOHA:TS-2025" }, { "val" : "FMA:70338" + }, { + "val" : "ZFA:0009355" } ] } }, { @@ -2372,6 +2447,8 @@ "val" : "CALOHA:TS-2099" }, { "val" : "FMA:70339" + }, { + "val" : "ZFA:0009356" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2401,6 +2478,8 @@ "val" : "CALOHA:TS-0768" }, { "val" : "FMA:86713" + }, { + "val" : "ZFA:0009357" } ] } }, { @@ -2447,6 +2526,8 @@ "val" : "FMA:70366" }, { "val" : "FMA:83598" + }, { + "val" : "ZFA:0005830" } ] } }, { @@ -2644,6 +2725,8 @@ }, "xrefs" : [ { "val" : "FMA:69074" + }, { + "val" : "ZFA:0009385" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2758,6 +2841,8 @@ "val" : "FMA:63875" }, { "val" : "MESH:D003239" + }, { + "val" : "ZFA:0009392" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2782,6 +2867,8 @@ "val" : "FMA:82840" }, { "val" : "WBbt:0007028" + }, { + "val" : "ZFA:0007089" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2881,6 +2968,9 @@ "val" : "Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells.", "xrefs" : [ "UBERONREF:0000002" ] }, + "xrefs" : [ { + "val" : "ZFA:0007084" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0001-9114-8737" @@ -2990,6 +3080,10 @@ "lbl" : "cardiac myoblast", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any myoblast that develops into some cardiac muscle cell.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "xrefs" : [ { "val" : "MESH:D032386" } ] @@ -3144,34 +3238,6 @@ "val" : "results_in_fission_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0000003", - "lbl" : "reproduction", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms.", - "xrefs" : [ "GOC:go_curators", "GOC:isa_complete", "GOC:jl", "ISBN:0198506732" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "reproductive physiological process" - } ], - "xrefs" : [ { - "val" : "Wikipedia:Reproduction" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0019952" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0050876" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000323", "lbl" : "lytic vacuole", @@ -4107,7 +4173,7 @@ "xrefs" : [ "GOC:go_curators" ] }, "comments" : [ "Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "extracellular" @@ -4236,7 +4302,7 @@ "val" : "A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell nucleus" @@ -4265,7 +4331,7 @@ "xrefs" : [ "ISBN:0198547684" ] }, "comments" : [ "Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "interphase chromosome" @@ -4313,7 +4379,7 @@ "val" : "The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.", "xrefs" : [ "ISBN:0198547684" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "xrefs" : [ { "val" : "Wikipedia:Cytoplasm" } ], @@ -4374,7 +4440,7 @@ "val" : "A closed structure, found only in eukaryotic cells, that is completely surrounded by unit membrane and contains liquid material. Cells contain one or several vacuoles, that may have different functions from each other. Vacuoles have a diverse array of functions. They can act as a storage organelle for nutrients or waste products, as a degradative compartment, as a cost-effective way of increasing cell size, and as a homeostatic regulator controlling both turgor pressure and pH of the cytosol.", "xrefs" : [ "GOC:mtg_sensu", "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "vacuolar carboxypeptidase Y" @@ -4396,7 +4462,7 @@ "val" : "The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.", "xrefs" : [ "ISBN:0716731363" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "juxtamembrane" @@ -4486,7 +4552,7 @@ "val" : "Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "DNA metabolism" @@ -4511,7 +4577,7 @@ "val" : "Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Interchromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -4527,7 +4593,7 @@ "xrefs" : [ "GOC:dos", "GOC:dph", "GOC:jl", "GOC:mah" ] }, "comments" : [ "Note that this term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term, for e.g. to transmembrane transport, to microtubule-based transport or to vesicle-mediated transport." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "single-organism transport" @@ -4779,7 +4845,8 @@ "val" : "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "organelle organisation" @@ -4796,6 +4863,9 @@ "val" : "single-organism organelle organization" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -5119,7 +5189,7 @@ "xrefs" : [ "GOC:go_curators", "ISBN:0198547684" ] }, "comments" : [ "Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "metabolism" @@ -5140,6 +5210,9 @@ "val" : "Wikipedia:Metabolism" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/26424" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -5165,7 +5238,7 @@ "val" : "The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.", "xrefs" : [ "GOC:curators", "ISBN:0198547684" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "formation" @@ -5214,7 +5287,8 @@ "val" : "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "biopolymer biosynthetic process", @@ -5238,6 +5312,9 @@ }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/25418" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0043284" @@ -5368,7 +5445,7 @@ "xrefs" : [ "GOC:hb" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "response to environmental stimulus" @@ -5388,7 +5465,7 @@ "xrefs" : [ "GOC:hb" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "response to biotic stress" @@ -5408,7 +5485,7 @@ "xrefs" : [ "GOC:hb" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "response to abiotic stress" @@ -5457,7 +5534,7 @@ "val" : "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant.", "xrefs" : [ "GOC:go_curators", "GOC:isa_complete", "GOC:mtg_sensu" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "embryogenesis and morphogenesis" @@ -5772,7 +5849,7 @@ "val" : "A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component.", "xrefs" : [ "GOC:ai", "GOC:jl", "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell organisation" @@ -5838,7 +5915,7 @@ "val" : "A cellular transport process in which transported substances are moved in membrane-bounded vesicles; transported substances are enclosed in the vesicle lumen or located in the vesicle membrane. The process begins with a step that directs a substance to the forming vesicle, and includes vesicle budding and coating. Vesicles are then targeted to, and fuse with, an acceptor membrane.", "xrefs" : [ "GOC:ai", "GOC:mah", "ISBN:08789310662000" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_pombe" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_pombe" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "vesicle transport" @@ -5891,6 +5968,9 @@ "xrefs" : [ "GOC:ma" ] }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002161", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_4751" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -6077,12 +6157,18 @@ "val" : "A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents.", "xrefs" : [ "GOC:dph", "GOC:isa_complete" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_generic" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "single organism reproductive process" } ], + "xrefs" : [ { + "val" : "Wikipedia:Reproduction" + } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27054" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -6121,7 +6207,7 @@ "xrefs" : [ "GOC:mtg_signal", "GOC:mtg_signaling_feb11", "GOC:signaling" ] }, "comments" : [ "Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "biological signaling" @@ -6401,7 +6487,7 @@ "val" : "The cellular developmental process in which a relatively unspecialized cell, e.g. embryonic or regenerative cell, acquires specialized structural and/or functional features that characterize a specific cell. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "xrefs" : [ { "val" : "Wikipedia:Cellular_differentiation" } ], @@ -6545,7 +6631,7 @@ "val" : "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues.", "xrefs" : [ "GOC:BHF", "GOC:mah", "GOC:rph", "NIF_Subcellular:nlx_subcell_20090513", "PMID:21123617", "PMID:28089324" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "proteinaceous extracellular matrix" @@ -6748,6 +6834,7 @@ "val" : "Any biological process, occurring at the level of a multicellular organism, pertinent to its function.", "xrefs" : [ "GOC:curators", "GOC:dph", "GOC:isa_complete", "GOC:tb" ] }, + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", @@ -6757,6 +6844,9 @@ "val" : "single-multicellular organism process" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://purl.obolibrary.org/obo/RO_0002161", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_2" }, { @@ -6886,7 +6976,7 @@ "xrefs" : [ "GOC:dos", "GOC:mah" ] }, "comments" : [ "A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "macromolecular complex" @@ -7182,14 +7272,17 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Primary lysosomal granule found in neutrophil granulocytes. Contains a wide range of hydrolytic enzymes and is released into the extracellular fluid.", - "xrefs" : [ "GOC:jl", "PMID:17152095" ] + "val" : "Primary lysosomal granule readily stainable with a Romanowsky stain.", + "xrefs" : [ "GOC:jl", "PMID:17152095", "PMID:28717070", "PMID:5914694", "WIKIPEDIA:Azurophilic_granule" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "primary granule" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27231" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] @@ -7275,7 +7368,7 @@ "val" : "A prolongation or process extending from a cell, e.g. a flagellum or axon.", "xrefs" : [ "GOC:jl", "http://www.cogsci.princeton.edu/~wn/" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "cell process" @@ -7386,7 +7479,7 @@ "val" : "Organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton, and prokaryotic structures such as anammoxosomes and pirellulosomes. Excludes the plasma membrane.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "xrefs" : [ { "val" : "NIF_Subcellular:sao1539965131" }, { @@ -7516,7 +7609,7 @@ } }, { "id" : "http://purl.obolibrary.org/obo/GO_0043292", - "lbl" : "contractile fiber", + "lbl" : "contractile muscle fiber", "type" : "CLASS", "meta" : { "definition" : { @@ -7528,6 +7621,9 @@ "val" : "contractile fibre" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27281" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] @@ -7565,6 +7661,8 @@ "val" : "The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells.", "xrefs" : [ "GOC:jl" ] }, + "comments" : [ "This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular anabolism" @@ -7579,6 +7677,9 @@ "val" : "cellular synthesis" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27052" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -7654,7 +7755,7 @@ "val" : "The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane.", "xrefs" : [ "GOC:aruk", "ISBN:0198506732", "PMID:24619342", "PMID:29383328", "PMID:31998110" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_synapse" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_synapse" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "synaptic junction" @@ -7952,7 +8053,7 @@ "xrefs" : [ "GOC:jid" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -8072,7 +8173,7 @@ "val" : "The biological process whose specific outcome is the progression of an anatomical structure from an initial condition to its mature state. This process begins with the formation of the structure and ends with the mature structure, whatever form that may be including its natural destruction. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome.", "xrefs" : [ "GO_REF:0000021" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "development of an anatomical structure" @@ -8108,7 +8209,7 @@ "val" : "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another.", "xrefs" : [ "GOC:dgh", "GOC:dph", "GOC:isa_complete", "GOC:mlg" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell locomotion" @@ -8122,6 +8223,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/19809" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002161", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_4890" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -8247,6 +8351,9 @@ "xrefs" : [ "GOC:ai" ] }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002161", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_4890" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -8289,7 +8396,7 @@ "xrefs" : [ "GOC:ai", "GOC:bf" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "physiological response to stimulus" @@ -8388,7 +8495,7 @@ "val" : "Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation.", "xrefs" : [ "GOC:ai", "GOC:dos" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "establishment and maintenance of localization" @@ -8417,6 +8524,9 @@ "val" : "single-organism localization" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27052" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -8555,7 +8665,7 @@ "xrefs" : [ "GOC:dph", "GOC:jid" ] }, "comments" : [ "Transmembrane transport is the transport of a solute across a lipid bilayer. Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane and is not traversed. For transport through the nuclear pore, consider instead the term 'nucleocytoplasmic transport ; GO:0006913' and its children. Note also that this term is not intended for use in annotating lateral movement within membranes." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "membrane transport" @@ -8888,7 +8998,8 @@ "val" : "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular component organisation or biogenesis", @@ -8902,6 +9013,9 @@ "val" : "cellular component organization or biogenesis at cellular level" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "mah" }, { @@ -9099,7 +9213,7 @@ "xrefs" : [ "GOC:dos" ] }, "comments" : [ "Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "region of plasma membrane" @@ -9547,6 +9661,7 @@ "val" : "The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon.", "xrefs" : [ "GOC:TermGenie", "GOC:pr" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "organic molecular entity anabolism", @@ -9580,6 +9695,9 @@ "val" : "organic substance synthesis" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/26424" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "pr" }, { @@ -12164,24 +12282,6 @@ "val" : "protein" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/PR_000001355", - "lbl" : "immunoglobulin gamma Fc receptor II/III/IV", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A protein with a core domain architecture consisting of an extracellular domain containing two copies of the Immunoglobulin domain (Pfam:PF00047), followed by a single-pass transmembrane region and a small intracellular domain. The active protein is a low affinity receptor for immunoglobulin gamma chain Fc region. Human II-a, II-b, and II-c represent a recent gene expansion and are equally related to mouse II, III, and IV. Human III-A and III-B are closely related and closer to mouse IV than to mouse III.", - "xrefs" : [ "PRO:WCB" ] - }, - "comments" : [ "Category=family." ], - "xrefs" : [ { - "val" : "PIRSF:PIRSF001980" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "protein" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/PR_000001381", "lbl" : "interleukin-2 receptor subunit beta", @@ -12265,56 +12365,6 @@ "val" : "protein" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/PR_000001479", - "lbl" : "low affinity immunoglobulin gamma Fc region receptor II", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An immunoglobulin gamma Fc receptor II/III/IV that is a translation product of the mouse Fcgr2 gene or a 1:1 ortholog thereof.", - "xrefs" : [ "PRO:CNA" ] - }, - "comments" : [ "Category=gene. Requested by=CL." ], - "synonyms" : [ { - "pred" : "hasBroadSynonym", - "val" : "CD32", - "xrefs" : [ "PRO:DNx" ] - }, { - "pred" : "hasExactSynonym", - "val" : "Fc gamma receptor IIB" - }, { - "pred" : "hasExactSynonym", - "val" : "Fc-gamma RII" - }, { - "pred" : "hasExactSynonym", - "val" : "Fc-gamma-RIIB" - }, { - "pred" : "hasExactSynonym", - "val" : "FcRII" - }, { - "synonymType" : "http://purl.obolibrary.org/obo/pr#PRO-short-label", - "pred" : "hasExactSynonym", - "val" : "Fcgr2", - "xrefs" : [ "PRO:DNx" ] - }, { - "pred" : "hasExactSynonym", - "val" : "IgG Fc receptor II beta" - }, { - "pred" : "hasExactSynonym", - "val" : "ly-17" - }, { - "pred" : "hasExactSynonym", - "val" : "lymphocyte antigen 17" - }, { - "synonymType" : "http://purl.obolibrary.org/obo/pr#Gene-based", - "pred" : "hasRelatedSynonym", - "val" : "Fcgr2b" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "protein" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/PR_000001753", "lbl" : "transcription factor NF-kappa-B subunit", @@ -12545,55 +12595,6 @@ "val" : "protein" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/PR_000001879", - "lbl" : "leukosialin", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A protein that is a translation product of the human SPN gene or a 1:1 ortholog thereof.", - "xrefs" : [ "PRO:WCB" ] - }, - "comments" : [ "Category=gene. Requested by=CL." ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "B-cell differentiation antigen LP-3" - }, { - "pred" : "hasExactSynonym", - "val" : "GALGP" - }, { - "synonymType" : "http://purl.obolibrary.org/obo/pr#PRO-short-label", - "pred" : "hasExactSynonym", - "val" : "SPN", - "xrefs" : [ "PRO:DNx" ] - }, { - "pred" : "hasExactSynonym", - "val" : "galactoglycoprotein" - }, { - "pred" : "hasExactSynonym", - "val" : "leukocyte sialoglycoprotein" - }, { - "pred" : "hasExactSynonym", - "val" : "ly-48" - }, { - "pred" : "hasExactSynonym", - "val" : "lymphocyte antigen 48" - }, { - "pred" : "hasExactSynonym", - "val" : "sialophorin" - }, { - "synonymType" : "http://purl.obolibrary.org/obo/pr#Gene-based", - "pred" : "hasRelatedSynonym", - "val" : "CD43" - } ], - "xrefs" : [ { - "val" : "PIRSF:PIRSF001994" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "protein" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/PR_000001889", "lbl" : "CD14 molecule", @@ -13513,38 +13514,6 @@ "val" : "protein" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/PR_000050567", - "lbl" : "protein-containing material entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A material entity that minimally consists of a protein.", - "xrefs" : [ "PRO:DAN" ] - }, - "comments" : [ "Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566)." ], - "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "protein", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein aggregate", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein complex", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein-containing complex", - "xrefs" : [ "PRO:DAN" ] - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "protein" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000052", "lbl" : "characteristic of", @@ -13618,20 +13587,6 @@ "val" : "has_participant" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000079", - "lbl" : "function of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000080", "lbl" : "quality of", @@ -13646,33 +13601,6 @@ "val" : "A quality inheres in its bearer at all times for which the quality exists." } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000081", - "lbl" : "role of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000085", - "lbl" : "has function", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000086", "lbl" : "has quality", @@ -13686,39 +13614,6 @@ "val" : "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000087", - "lbl" : "has role", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000091", - "lbl" : "has disposition", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000092", - "lbl" : "disposition of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "inverse of has disposition" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0001000", "lbl" : "derives from", @@ -13841,104 +13736,6 @@ "val" : "bounding_layer_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002013", - "lbl" : "has regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." - }, - "xrefs" : [ { - "val" : "RO:0002013" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:30:46Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "has_regulatory_component_activity" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002014", - "lbl" : "has negative regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." - }, - "comments" : [ "By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'." ], - "xrefs" : [ { - "val" : "RO:0002014" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:31:01Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "has_negative_regulatory_component_activity" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002015", - "lbl" : "has positive regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." - }, - "comments" : [ "By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:31:17Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002017", - "lbl" : "has component activity", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:44:33Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002018", - "lbl" : "has component process", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:49:21Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002021", "lbl" : "occurs across", @@ -13955,72 +13752,6 @@ "val" : "2017-07-20T17:19:37Z" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002022", - "lbl" : "directly regulated by", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:24Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002023", - "lbl" : "directly negatively regulated by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:38Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002024", - "lbl" : "directly positively regulated by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:47Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002025", - "lbl" : "has effector activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "comments" : [ "This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-22T14:14:36Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002081", "lbl" : "before or simultaneous with", @@ -15170,20 +14901,6 @@ "val" : "A relationship that holds between entities participating in some developmental process (GO:0032502)" } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002327", - "lbl" : "enables", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c enables p iff c is capable of p and c acts to execute p." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Enables" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002328", "lbl" : "functionally related to", @@ -15211,19 +14928,6 @@ "val" : "holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002331", - "lbl" : "involved in", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved_in p if and only if c enables some process p', and p' is part of p" - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Involved_in" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002332", "lbl" : "regulates levels of", @@ -15243,20 +14947,6 @@ "val" : "regulates_levels_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002333", - "lbl" : "enabled by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "inverse of enables" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Enabled_by" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002334", "lbl" : "regulated by", @@ -15652,48 +15342,6 @@ "val" : "causally_downstream_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002405", - "lbl" : "immediately causally downstream of", - "type" : "PROPERTY", - "meta" : { - "xrefs" : [ { - "val" : "RO:0002405" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "immediately_causally_downstream_of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002407", - "lbl" : "indirectly positively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Indirectly_positively_regulates" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002409", - "lbl" : "indirectly negatively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Indirectly_negatively_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002410", "lbl" : "causally related to", @@ -15728,25 +15376,6 @@ "val" : "causally_upstream_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002412", - "lbl" : "immediately causally upstream of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." - }, - "xrefs" : [ { - "val" : "RO:0002412" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "immediately_causally_upstream_of" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002418", "lbl" : "causally upstream of or within", @@ -15802,28 +15431,6 @@ "val" : "c involved in regulation of p if c is involved in some p' and p' regulates some p" } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002429", - "lbl" : "involved in positive regulation of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002430", - "lbl" : "involved in negative regulation of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002428" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002431", "lbl" : "involved in or involved in regulation of", @@ -15837,25 +15444,6 @@ "val" : "OWL does not allow defining object properties via a Union" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002432", - "lbl" : "is active in", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure.", - "xrefs" : [ "https://orcid.org/0000-0002-6601-2165", "https://orcid.org/0000-0002-7073-9172" ] - }, - "comments" : [ "" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "enables activity in" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Is_active_in" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002433", "lbl" : "contributes to morphology of", @@ -15865,96 +15453,6 @@ "val" : "p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002434", - "lbl" : "interacts with", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "in pairwise interaction with" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Considering relabeling as 'pairwise interacts with'" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002436", - "lbl" : "molecularly interacts with", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ECO_0000353" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002447", - "lbl" : "phosphorylates", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Axiomatization to GO to be added later" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002448", - "lbl" : "directly regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly controls" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002449", - "lbl" : "directly negatively regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly decreases activity of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002450", - "lbl" : "directly positively regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly increases activity of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002464", - "lbl" : "helper property (not for use in curation)", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002473", "lbl" : "composed primarily of", @@ -15975,10 +15473,6 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002481", - "lbl" : "is kinase activity", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002485", "lbl" : "receives input from", @@ -16131,16 +15625,6 @@ "val" : "http://purl.obolibrary.org/obo/BFO_0000169" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002506", - "lbl" : "causal relation between entities", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002551", "lbl" : "has skeleton", @@ -16150,27 +15634,6 @@ "val" : "A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002559", - "lbl" : "causally influenced by", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002563", - "lbl" : "interaction relation helper property", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002564", - "lbl" : "molecular interaction relation helper property", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002565", "lbl" : "results in movement of", @@ -16191,15 +15654,6 @@ "val" : "results_in_movement_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002566", - "lbl" : "causally influences", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." - } - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002567", "lbl" : "biomechanically related to", @@ -16268,26 +15722,6 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002578", - "lbl" : "directly regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly regulates q iff p is immediately causally upstream of q and p regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002578" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002584", "lbl" : "has part structure that is capable of", @@ -16417,55 +15851,6 @@ "val" : "process_has_causal_agent" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002629", - "lbl" : "directly positively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002629" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_positively_regulates" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Directly_positively_regulates" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002630", - "lbl" : "directly negatively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002630" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_negatively_regulates" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Directly_negatively_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0003000", "lbl" : "produces", @@ -16587,102 +15972,6 @@ "val" : "has_primary_input" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004031", - "lbl" : "enables subfunction", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-25T23:20:13Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004032", - "lbl" : "acts upstream of or within, positive effect", - "type" : "PROPERTY", - "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:49:30Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004033", - "lbl" : "acts upstream of or within, negative effect", - "type" : "PROPERTY", - "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:49:51Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004034", - "lbl" : "acts upstream of, positive effect", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:53:14Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004035", - "lbl" : "acts upstream of, negative effect", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:53:22Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0004046", "lbl" : "causally upstream of or within, negative effect", @@ -16731,15 +16020,6 @@ "val" : "2018-03-14T00:03:24Z" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0011002", - "lbl" : "regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." - } - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0012000", "lbl" : "has small molecule regulator", @@ -16865,38 +16145,6 @@ "val" : "results_in_fusion_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0012011", - "lbl" : "indirectly causally upstream of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0003-1813-6857" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2022-09-26T06:07:17Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0012012", - "lbl" : "indirectly regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0003-1813-6857" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2022-09-26T06:08:01Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0013001", "lbl" : "has synaptic IO in region", @@ -17036,75 +16284,15 @@ "pred" : "hasBroadSynonym", "val" : "utilizes" } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2021-11-08T12:00:00Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019000", - "lbl" : "regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019000" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "regulates_characteristic" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019001", - "lbl" : "positively regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019001" - } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" + "val" : "https://orcid.org/0000-0001-9625-1899" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "positively_regulates_characteristic" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019002", - "lbl" : "negatively regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019002" - } ], - "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" + "val" : "https://orcid.org/0000-0003-2620-0345" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "negatively_regulates_characteristic" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2021-11-08T12:00:00Z" } ] } }, { @@ -17222,6 +16410,8 @@ "val" : "EHDAA:500" }, { "val" : "EMAPA:35955" + }, { + "val" : "FBbt:00005155" }, { "val" : "GAID:63" }, { @@ -17367,6 +16557,8 @@ } ], "xrefs" : [ { "val" : "AAO:0011123" + }, { + "val" : "FBbt:00100314" }, { "val" : "FMA:30320" }, { @@ -17456,6 +16648,8 @@ "val" : "EHDAA2:0003003" }, { "val" : "EMAPA:0" + }, { + "val" : "FBbt:00007001" }, { "val" : "FMA:305751" }, { @@ -18325,6 +17519,8 @@ "val" : "EHDAA:542" }, { "val" : "EMAPA:16262" + }, { + "val" : "FBbt:00003126" }, { "val" : "FMA:49184" }, { @@ -18546,6 +17742,8 @@ "val" : "EHDAA2:0003004" }, { "val" : "EMAPA:35178" + }, { + "val" : "FBbt:00007019" }, { "val" : "FMA:9669" }, { @@ -18618,6 +17816,8 @@ "val" : "CARO:0000005" }, { "val" : "EHDAA2:0003005" + }, { + "val" : "FBbt:00007017" }, { "val" : "FMA:5897" }, { @@ -18671,6 +17871,8 @@ "val" : "CARO:0000006" }, { "val" : "EHDAA2:0003006" + }, { + "val" : "FBbt:00007016" }, { "val" : "FMA:67165" }, { @@ -18721,6 +17923,8 @@ "val" : "CARO:0000007" }, { "val" : "EHDAA2:0003007" + }, { + "val" : "FBbt:00007015" }, { "val" : "FMA:67112" }, { @@ -18799,6 +18003,8 @@ "val" : "EMAPA:16103" }, { "val" : "EV:0100000" + }, { + "val" : "FBbt:00004856" }, { "val" : "FMA:7149" }, { @@ -18911,6 +18117,8 @@ "val" : "EMAPA:25765" }, { "val" : "EV:0100016" + }, { + "val" : "FBbt:00000001" }, { "val" : "FMA:256135" }, { @@ -19001,6 +18209,8 @@ "val" : "EHDAA2:0003032" }, { "val" : "EMAPA:36031" + }, { + "val" : "FBbt:00007009" }, { "val" : "FMA:7153" }, { @@ -19075,6 +18285,8 @@ "val" : "CARO:0000040" }, { "val" : "EHDAA2:0003040" + }, { + "val" : "FBbt:00007013" }, { "val" : "FMA:63863" }, { @@ -19113,6 +18325,8 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy", "http://purl.obolibrary.org/obo/uberon/core#upper_level" ], "xrefs" : [ { + "val" : "FBbt:00007277" + }, { "val" : "VHOG:0001737" } ], "basicPropertyValues" : [ { @@ -19166,6 +18380,8 @@ "val" : "EHDAA2:0003042" }, { "val" : "EHDAA:46" + }, { + "val" : "FBbt:00005835" }, { "val" : "FMA:85537" }, { @@ -19232,6 +18448,8 @@ "val" : "EHDAA2:0003043" }, { "val" : "EMAPA:35868" + }, { + "val" : "FBbt:00007003" }, { "val" : "FMA:9637" }, { @@ -19302,6 +18520,8 @@ "val" : "CARO:0000055" }, { "val" : "EHDAA2:0003055" + }, { + "val" : "FBbt:00007010" }, { "val" : "HAO:0000055" }, { @@ -19366,6 +18586,8 @@ "val" : "EHDAA2:0003066" }, { "val" : "EMAPA:32738" + }, { + "val" : "FBbt:00007005" }, { "val" : "FMA:9639" }, { @@ -19556,6 +18778,8 @@ "val" : "EHDAA:38" }, { "val" : "EMAPA:16039" + }, { + "val" : "FBbt:00000052" }, { "val" : "FMA:69068" }, { @@ -19634,6 +18858,8 @@ "val" : "BTO:0000556" }, { "val" : "EMAPA:36033" + }, { + "val" : "FBbt:00000110" }, { "val" : "FMA:69069" }, { @@ -19695,6 +18921,8 @@ "val" : "EMAPA:16069" }, { "val" : "EV:0100003" + }, { + "val" : "FBbt:00000111" }, { "val" : "FMA:69070" }, { @@ -19764,6 +18992,8 @@ "val" : "EMAPA:16062" }, { "val" : "EV:0100005" + }, { + "val" : "FBbt:00000125" }, { "val" : "FMA:69071" }, { @@ -19846,6 +19076,8 @@ "val" : "EMAPA:16083" }, { "val" : "EV:0100006" + }, { + "val" : "FBbt:00000126" }, { "val" : "FMA:69072" }, { @@ -19935,6 +19167,8 @@ "val" : "EHDAA2:0001929" }, { "val" : "EMAPA:16263" + }, { + "val" : "FBbt:00000439" }, { "val" : "FMA:295846" }, { @@ -19996,6 +19230,8 @@ "val" : "EMAPA:35306" }, { "val" : "EV:0100128" + }, { + "val" : "FBbt:00005068" }, { "val" : "FMA:9668" }, { @@ -20054,6 +19290,8 @@ "val" : "EFO:0000827" }, { "val" : "EV:0100336" + }, { + "val" : "FBbt:00005162" }, { "val" : "GAID:69" }, { @@ -20184,6 +19422,8 @@ "val" : "CALOHA:TS-1293" }, { "val" : "EFO:0000793" + }, { + "val" : "FBbt:00005055" }, { "val" : "FMA:7152" }, { @@ -20387,6 +19627,8 @@ "val" : "EMAPA:16469" }, { "val" : "EV:0100162" + }, { + "val" : "FBbt:00005093" }, { "val" : "FMA:7157" }, { @@ -20489,6 +19731,8 @@ "val" : "EMAPA:16754" }, { "val" : "EV:0100163" + }, { + "val" : "FBbt:00005094" }, { "val" : "FMA:55675" }, { @@ -20588,6 +19832,8 @@ "val" : "EHDAA2:0003094" }, { "val" : "EMAPA:16192" + }, { + "val" : "FBbt:00007692" }, { "val" : "FMA:75259" }, { @@ -20714,6 +19960,8 @@ "val" : "CARO:0000000" }, { "val" : "EHDAA2:0002229" + }, { + "val" : "FBbt:10000000" }, { "val" : "FMA:62955" }, { @@ -21124,6 +20372,8 @@ "val" : "EHDAA:518" }, { "val" : "EMAPA:16247" + }, { + "val" : "FBbt:00003125" }, { "val" : "FMA:45615" }, { @@ -21287,6 +20537,8 @@ "val" : "CALOHA:TS-2110" }, { "val" : "EFO:0000461" + }, { + "val" : "FBbt:00004208" }, { "val" : "FMA:69067" }, { @@ -21849,6 +21101,8 @@ "val" : "EMAPA:16073" }, { "val" : "EV:0100004" + }, { + "val" : "FBbt:00001057" }, { "val" : "FMA:87657" }, { @@ -22440,6 +21694,8 @@ "val" : "EHDAA:2161" }, { "val" : "EMAPA:18425" + }, { + "val" : "FBbt:00100317" }, { "val" : "FMA:7146" }, { @@ -23151,6 +22407,8 @@ "val" : "AEO:0000114" }, { "val" : "EHDAA2:0003114" + }, { + "val" : "FBbt:00007474" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -23468,6 +22726,8 @@ "val" : "BILA:0000060" }, { "val" : "BTO:0001403" + }, { + "val" : "FBbt:00005317" }, { "val" : "FMA:293108" }, { @@ -23648,6 +22908,9 @@ "pred" : "hasNarrowSynonym", "val" : "joint" } ], + "xrefs" : [ { + "val" : "FBbt:00005811" + } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -23683,6 +22946,8 @@ "xrefs" : [ "FMA:71131" ] } ], "xrefs" : [ { + "val" : "FBbt:00100315" + }, { "val" : "FMA:71131" } ], "basicPropertyValues" : [ { @@ -23924,6 +23189,9 @@ "pred" : "hasExactSynonym", "val" : "light-sensitive tissue" } ], + "xrefs" : [ { + "val" : "FBbt:00004200" + } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -23952,6 +23220,8 @@ "val" : "CALOHA:TS-2122" }, { "val" : "EHDAA2:0003125" + }, { + "val" : "FBbt:00007006" }, { "val" : "FMA:292313" }, { @@ -24639,6 +23909,8 @@ } ], "xrefs" : [ { "val" : "CARO:0010000" + }, { + "val" : "FBbt:00100313" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -24750,6 +24022,8 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#upper_level" ], "xrefs" : [ { + "val" : "FBbt:00007330" + }, { "val" : "FMA:67509" }, { "val" : "SCTID:91690000" @@ -25174,6 +24448,8 @@ }, "xrefs" : [ { "val" : "AEO:0000093" + }, { + "val" : "FBbt:00007278" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -25454,6 +24730,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy" ], "xrefs" : [ { "val" : "CARO:0020000" + }, { + "val" : "FBbt:00007276" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -26048,26 +25326,6 @@ } } ], "edges" : [ { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000004", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000015", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000020", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000040", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000141", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000000", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" @@ -26189,10 +25447,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000040", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000040", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -26337,10 +25591,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000092", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000092", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -26391,10 +25641,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000094", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000094", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -26807,10 +26053,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000451", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000145" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000451", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000451", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -26943,10 +26185,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000542", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000842" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000542", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000542", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -26979,10 +26217,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000557", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_1001610" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000557", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000557", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -27025,10 +26259,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000559", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000559", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -27055,10 +26285,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000566", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0011026" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000566", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000566", "pred" : "http://purl.obolibrary.org/obo/RO_0002104", @@ -27251,24 +26477,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000766", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000763" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000775", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/CL_0000094", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#is_inferred", - "val" : "true" - } ] - } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000775", - "pred" : "http://purl.obolibrary.org/obo/RO_0002104", - "obj" : "http://purl.obolibrary.org/obo/PR_000001479" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000775", - "pred" : "http://purl.obolibrary.org/obo/RO_0002104", - "obj" : "http://purl.obolibrary.org/obo/PR_000001879" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000782", "pred" : "is_a", @@ -27301,10 +26509,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000825", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000825", "pred" : "http://purl.obolibrary.org/obo/CL_4030046", @@ -27343,10 +26547,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000826", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000826", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -27385,10 +26585,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000837", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0008001" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000837", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000837", "pred" : "http://purl.obolibrary.org/obo/CL_4030046", @@ -27893,10 +27089,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_1001610", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0012429" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0000003", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0008150" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0000323", "pred" : "is_a", @@ -28229,10 +27421,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0003015", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0003013" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0005575", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005576", "pred" : "is_a", @@ -28330,7 +27518,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006259", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0043170" + "obj" : "http://purl.obolibrary.org/obo/GO_0008152" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006310", "pred" : "is_a", @@ -28531,10 +27719,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0008015", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0003013" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0008150", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000015" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0008152", "pred" : "is_a", @@ -28823,10 +28007,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0022414", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0008150" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0022414", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/GO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0022600", "pred" : "is_a", @@ -28879,6 +28059,10 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0030097", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0048468" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0030097", + "pred" : "http://purl.obolibrary.org/obo/RO_0002160", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0030097", "pred" : "http://purl.obolibrary.org/obo/RO_0002296", @@ -29069,8 +28253,8 @@ "obj" : "http://purl.obolibrary.org/obo/GO_0005575" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0032991", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", + "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0032993", "pred" : "is_a", @@ -29151,10 +28335,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0042110", "pred" : "http://purl.obolibrary.org/obo/RO_0004009", "obj" : "http://purl.obolibrary.org/obo/CL_0000084" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0042391", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0042391", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -29179,10 +28359,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0042582", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0030141" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0042582", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/CL_0000775" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0042592", "pred" : "is_a", @@ -29303,6 +28479,10 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0043292", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/GO_0005737" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0043292", + "pred" : "http://purl.obolibrary.org/obo/RO_0002160", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0044237", "pred" : "is_a", @@ -29883,10 +29063,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0098644", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0099080" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0098644", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0098644", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -30259,10 +29435,6 @@ "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_9989", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_314147" - }, { - "sub" : "http://purl.obolibrary.org/obo/PATO_0000001", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000020" }, { "sub" : "http://purl.obolibrary.org/obo/PATO_0000051", "pred" : "is_a", @@ -30511,10 +29683,6 @@ "sub" : "http://purl.obolibrary.org/obo/PR_000001332", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/PR_000000001" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000001355", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/PR_000001381", "pred" : "is_a", @@ -30523,10 +29691,6 @@ "sub" : "http://purl.obolibrary.org/obo/PR_000001444", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/PR_000001327" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000001479", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000001355" }, { "sub" : "http://purl.obolibrary.org/obo/PR_000001753", "pred" : "is_a", @@ -30555,10 +29719,6 @@ "sub" : "http://purl.obolibrary.org/obo/PR_000001874", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/PR_000000001" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000001879", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/PR_000001889", "pred" : "is_a", @@ -30679,14 +29839,6 @@ "sub" : "http://purl.obolibrary.org/obo/PR_000050216", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/PR_000001006" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000050567", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000050567", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", - "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000020", "pred" : "is_a", @@ -30753,10 +29905,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000043", "pred" : "http://purl.obolibrary.org/obo/RO_0002176", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001630" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000058", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000058", "pred" : "is_a", @@ -30821,10 +29969,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000064", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000062" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", "pred" : "is_a", @@ -30841,10 +29985,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", "pred" : "http://purl.obolibrary.org/obo/BFO_0000063", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000071" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", "pred" : "is_a", @@ -30861,10 +30001,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", "pred" : "http://purl.obolibrary.org/obo/RO_0002082", "obj" : "http://purl.obolibrary.org/obo/GO_0009790" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000071", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000071", "pred" : "is_a", @@ -30895,10 +30031,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000075", "pred" : "http://purl.obolibrary.org/obo/RO_0002473", "obj" : "http://purl.obolibrary.org/obo/UBERON_0004765" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", "pred" : "is_a", @@ -30911,10 +30043,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", "pred" : "http://purl.obolibrary.org/obo/RO_0002082", "obj" : "http://purl.obolibrary.org/obo/GO_0009791" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", "pred" : "is_a", @@ -30935,10 +30063,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000105", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000104" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", "pred" : "is_a", @@ -30951,10 +30075,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", "pred" : "http://purl.obolibrary.org/obo/RO_0002223", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000104" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", "pred" : "is_a", @@ -30971,10 +30091,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", "pred" : "http://purl.obolibrary.org/obo/RO_0002087", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000106" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", "pred" : "is_a", @@ -30987,10 +30103,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", "pred" : "http://purl.obolibrary.org/obo/BFO_0000062", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000107" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", "pred" : "is_a", @@ -31017,10 +30129,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", "pred" : "is_a", @@ -31041,10 +30149,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000111", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000111", "pred" : "is_a", @@ -31121,18 +30225,10 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000464", "pred" : "http://purl.obolibrary.org/obo/RO_0002219", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000465", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000465", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001062" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000466", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000141" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000466", "pred" : "is_a", @@ -31215,10 +30311,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000481", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000479" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000483", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000483", "pred" : "is_a", @@ -31840,10 +30932,6 @@ "val" : "ZFA" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0002330", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0002330", "pred" : "is_a", @@ -31935,10 +31023,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0002346", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/CL_0000133" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0002365", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0002365", "pred" : "is_a", @@ -32710,10 +31794,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0005764", "pred" : "http://purl.obolibrary.org/obo/RO_0002007", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0005769", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0005769", "pred" : "is_a", @@ -32976,10 +32056,6 @@ "val" : "AEO" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0007845", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0007845", "pred" : "is_a", @@ -33180,10 +32256,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0011822", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/GO_0071953" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0011823", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0011823", "pred" : "is_a", @@ -33192,10 +32264,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0011823", "pred" : "http://purl.obolibrary.org/obo/RO_0002473", "obj" : "http://purl.obolibrary.org/obo/UBERON_0011860" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0011860", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0011860", "pred" : "is_a", @@ -33620,38 +32688,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0000052", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002314" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000079", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000080", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000052" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000081", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000085", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000086", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000087", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000091", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000092", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002000", "pred" : "subPropertyOf", @@ -33668,58 +32712,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002007", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000050" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002013", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002017" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002013", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002334" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002014", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002013" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002014", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002335" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002015", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002013" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002015", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002336" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002017", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002018" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002018", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002180" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002021", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002479" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002022", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002334" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002023", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002022" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002024", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002022" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002025", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002017" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002081", "pred" : "subPropertyOf", @@ -34092,34 +33088,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002315", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0040036" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002327", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002215" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002329", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002331", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000056" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002331", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002431" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002332", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002333", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000057" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002333", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002334", "pred" : "subPropertyOf", @@ -34272,30 +33248,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002404", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002427" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002087" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002404" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002407", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002213" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002407", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012012" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002409", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002212" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002409", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012012" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002411", "pred" : "subPropertyOf", @@ -34304,14 +33256,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002411", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002418" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002412", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002090" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002412", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002411" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002418", "pred" : "subPropertyOf", @@ -34328,14 +33272,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002428", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002431" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002429", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002428" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002430", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002428" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002431", "pred" : "subPropertyOf", @@ -34348,50 +33284,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002431", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002500" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002432", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002131" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002432", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002433", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002131" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002436", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002434" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002447", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002436" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002448", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002436" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002448", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0011002" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002449", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002448" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002450", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002448" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002473", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000051" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002481", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002564" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002485", "pred" : "subPropertyOf", @@ -34464,34 +33364,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002501", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002410" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002506", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002410" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002551", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000051" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002559", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002506" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002563", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002464" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002564", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002563" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002565", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0040036" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002566", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002506" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002567", "pred" : "subPropertyOf", @@ -34524,14 +33404,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002576", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000050" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002578", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002211" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002578", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002412" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002584", "pred" : "subPropertyOf", @@ -34588,22 +33460,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002608", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002410" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002629", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002213" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002629", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002630", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002212" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002630", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002578" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0004007", "pred" : "subPropertyOf", @@ -34624,34 +33480,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0004009", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0004007" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004031", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004032", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004033", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004034", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004034", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0004032" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004035", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004035", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0004033" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0004046", "pred" : "subPropertyOf", @@ -34660,10 +33488,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0004047", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002418" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0011002", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002566" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0012000", "pred" : "subPropertyOf", @@ -34692,18 +33516,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0012008", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002592" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0012011", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002411" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0012012", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002211" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0012012", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012011" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0013001", "pred" : "subPropertyOf", @@ -34728,18 +33540,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0015016", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002104" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0019000", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002410" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0019001", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0019000" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0019002", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0019000" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0040036", "pred" : "subPropertyOf", @@ -34808,22 +33608,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0000056", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000057" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000079", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000085" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000080", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000086" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000081", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000087" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000091", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000092" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0001000", "pred" : "inverseOf", @@ -34844,18 +33632,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002006", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002130" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002022", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002023", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002630" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002024", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002629" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002087", "pred" : "inverseOf", @@ -34936,10 +33712,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002297", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002354" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002327", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002333" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002350", "pred" : "inverseOf", @@ -34952,10 +33724,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002404", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002411" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002412" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002418", "pred" : "inverseOf", @@ -34972,10 +33740,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002551", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002576" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002559", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002566" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0003000", "pred" : "inverseOf", @@ -35542,16 +34306,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002202", "fillerId" : "http://purl.obolibrary.org/obo/CL_0000049" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000775", - "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000094" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001479" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001879" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000782", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000990" ], @@ -36157,13 +34911,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002296", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0001049" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0022414", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0008150" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0000003" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0022600", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0003008" ], @@ -36760,13 +35507,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002160", "fillerId" : "http://purl.obolibrary.org/obo/NCBITaxon_2759" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/PR_000050567", - "genusIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000051", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000000001" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_0000020", "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000062" ], @@ -37215,25 +35955,6 @@ } ] } ], "domainRangeAxioms" : [ { - "predicateId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "allValuesFromEdges" : [ { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000002", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000003", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : 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"http://purl.obolibrary.org/obo/RO_0002206", + "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000465" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002315", "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002571", - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] } ], "propertyChainAxioms" : [ { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002131", @@ -37657,24 +36206,9 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002226", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002207", "http://purl.obolibrary.org/obo/RO_0001025" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002211", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0002025" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019000", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0019000" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002213", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002212", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019002", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002212", "http://purl.obolibrary.org/obo/RO_0019001" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019001", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002213", "http://purl.obolibrary.org/obo/RO_0019001" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019002", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002213", "http://purl.obolibrary.org/obo/RO_0019002" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002162", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002215", "http://purl.obolibrary.org/obo/RO_0002162" ] @@ -37735,87 +36269,12 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002314", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002314", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002331", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002327", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000051" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004031", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000051" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002327", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002017" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002428", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002211" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002448", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002430", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002429", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002213" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004034", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002304" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004035", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002305" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002263", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002566", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411", "http://purl.obolibrary.org/obo/RO_0002233" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002566", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002264", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002418" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002450", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002449", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004033", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0004046" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004032", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0004047" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002331", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002428", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002211" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002430", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002429", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002213" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002338", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002338", "http://purl.obolibrary.org/obo/BFO_0000050" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002339", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002339", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002407", "http://purl.obolibrary.org/obo/RO_0002629" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002409", "http://purl.obolibrary.org/obo/RO_0002409" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002409", "http://purl.obolibrary.org/obo/RO_0002630" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002488", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002488", "http://purl.obolibrary.org/obo/BFO_0000050" ] @@ -37843,21 +36302,6 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/uberon/core#indirectly_supplies", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002569", "http://purl.obolibrary.org/obo/uberon/core#indirectly_supplies" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002211", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002578", "http://purl.obolibrary.org/obo/RO_0002578" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002407" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002629" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002409" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002630" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0013001", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0013001", "http://purl.obolibrary.org/obo/BFO_0000050" ] diff --git a/src/ontology/subsets/general_cell_types_upper_slim.obo b/src/ontology/subsets/general_cell_types_upper_slim.obo index e08277a75..ff7dddd78 100644 --- a/src/ontology/subsets/general_cell_types_upper_slim.obo +++ b/src/ontology/subsets/general_cell_types_upper_slim.obo @@ -1,5 +1,5 @@ format-version: 1.2 -data-version: cl/releases/2024-04-05/subsets/general_cell_types_upper_slim.owl +data-version: cl/releases/2024-05-15/subsets/general_cell_types_upper_slim.owl subsetdef: abnormal_slim "" subsetdef: added_for_HCA "" subsetdef: attribute_slim "" @@ -19,19 +19,21 @@ subsetdef: eye_upper_slim "a subset of general classes related to specific cell subsetdef: functional_classification "" subsetdef: general_cell_types_upper_slim "a subset of general classes of cell types in the cell ontology." subsetdef: gocheck_do_not_annotate "" -subsetdef: gocheck_do_not_manually_annotate "" subsetdef: goslim_agr "" subsetdef: goslim_candida "" subsetdef: goslim_chembl "" subsetdef: goslim_drosophila "" +subsetdef: goslim_euk_cellular_processes_ribbon "" subsetdef: goslim_flybase_ribbon "" subsetdef: goslim_generic "" subsetdef: goslim_metagenomics "" subsetdef: goslim_mouse "" subsetdef: goslim_pir "" subsetdef: goslim_plant "" +subsetdef: goslim_plant_ribbon "" subsetdef: goslim_pombe "" subsetdef: goslim_prokaryote "" +subsetdef: goslim_prokaryote_ribbon "" subsetdef: goslim_synapse "" subsetdef: goslim_yeast "" subsetdef: grouping_class "" @@ -88,56 +90,7 @@ synonymtypedef: synonym "" synonymtypedef: SYSTEMATIC "" synonymtypedef: systematic_synonym "" ontology: cl/subsets/general_cell_types_upper_slim -property_value: owl:versionInfo "2024-04-05" xsd:string - -[Term] -id: BFO:0000002 -name: continuant -def: "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." [] -disjoint_from: BFO:0000003 ! occurrent -relationship: part_of BFO:0000002 {all_only="true"} ! continuant - -[Term] -id: BFO:0000003 -name: occurrent -def: "An entity that has temporal parts and that happens, unfolds or develops through time." [] -relationship: part_of BFO:0000003 {all_only="true"} ! occurrent - -[Term] -id: BFO:0000004 -name: independent continuant -def: "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" [] -comment: A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. -is_a: BFO:0000002 ! continuant -disjoint_from: BFO:0000020 ! specifically dependent continuant -relationship: part_of BFO:0000004 {all_only="true"} ! independent continuant - -[Term] -id: BFO:0000015 -name: process -def: "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" [] -comment: An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. -is_a: BFO:0000003 ! occurrent - -[Term] -id: BFO:0000020 -name: specifically dependent continuant -def: "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" [] -comment: A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. -is_a: BFO:0000002 ! continuant -relationship: part_of BFO:0000020 {all_only="true"} ! specifically dependent continuant - -[Term] -id: BFO:0000040 -name: material entity -def: "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." [] -is_a: BFO:0000004 ! independent continuant -disjoint_from: BFO:0000141 ! immaterial entity - -[Term] -id: BFO:0000141 -name: immaterial entity -is_a: BFO:0000004 ! independent continuant +property_value: owl:versionInfo "2024-05-15" xsd:string [Term] id: CL:0000000 @@ -147,7 +100,7 @@ comment: The definition of cell is intended to represent all cells, and thus a c subset: cellxgene_subset subset: ubprop:upper_level xref: CALOHA:TS-2035 -xref: FBbt:00007002 +xref: FBbt:00007002 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:68646 xref: GO:0005623 xref: KUPO:0000002 @@ -155,6 +108,7 @@ xref: MESH:D002477 xref: VHOG:0001533 xref: WBbt:0004017 xref: XAO:0003012 +xref: ZFA:0009000 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: UBERON:0000061 ! anatomical structure disjoint_from: GO:0031012 ! extracellular matrix disjoint_from: GO:0032991 ! protein-containing complex @@ -164,8 +118,10 @@ relationship: RO:0002160 NCBITaxon:131567 ! only in taxon cellular organisms [Term] id: CL:0000006 name: neuronal receptor cell +def: "Any sensory receptor cell that is a(n) neuron and is capable of some detection of stimulus involved in sensory perception." [FBC:Autogenerated] subset: cellxgene_subset synonym: "neuronal receptor cell (sensu Animalia)" EXACT [] +xref: ZFA:0009001 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000101 ! sensory neuron is_a: CL:0000197 ! sensory receptor cell intersection_of: CL:0000197 ! sensory receptor cell @@ -176,6 +132,7 @@ intersection_of: capable_of GO:0050906 ! detection of stimulus involved in senso id: CL:0000007 name: early embryonic cell (metazoa) def: "A cell found in the embryo before the formation of all the gem layers is complete." [GOC:tfm] +xref: ZFA:0009002 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) [Term] @@ -189,6 +146,7 @@ subset: human_reference_atlas synonym: "animal stem cell" EXACT [] xref: CALOHA:TS-2086 xref: FMA:63368 +xref: ZFA:0005957 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0011115 ! precursor cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0017145 ! stem cell division @@ -213,6 +171,7 @@ xref: CALOHA:TS-0448 xref: FMA:86475 xref: MESH:D006412 xref: VHOG:0001485 +xref: ZFA:0009014 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000723 ! somatic stem cell is_a: CL:0008001 ! hematopoietic precursor cell is_a: CL:0011026 ! progenitor cell @@ -254,6 +213,7 @@ def: "A cell that is within the developmental lineage of gametes and is able to comment: Originally this term had some plant germ line cell children. subset: general_cell_types_upper_slim subset: ubprop:upper_level +xref: ZFA:0009016 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell relationship: capable_of GO:0022414 ! reproductive process @@ -268,9 +228,9 @@ synonym: "colony forming unit monocyte" RELATED [] synonym: "monocyte stem cell" RELATED [] xref: CALOHA:TS-1195 xref: FMA:83553 +xref: ZFA:0009017 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0002194 {is_inferred="true"} ! monopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002194 ! monopoietic cell intersection_of: capable_of GO:0030224 ! monocyte differentiation intersection_of: has_part CL:0017503 ! basophilic cytoplasm @@ -292,6 +252,7 @@ synonym: "multifate stem cell" EXACT [] synonym: "multipotent cell" EXACT [] synonym: "multipotent stem cell" EXACT [] xref: FMA:84789 +xref: ZFA:0009020 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000034 ! stem cell intersection_of: CL:0000000 ! cell intersection_of: bearer_of PATO:0001402 ! multipotent @@ -314,6 +275,7 @@ synonym: "multipotential myeloid stem cell" RELATED [ISBN:0878932437] synonym: "myeloid stem cell" RELATED [ISBN:0878932437] synonym: "pluripotent stem cell (bone marrow)" RELATED [ISBN:0878932437] xref: BTO:0004730 +xref: ZFA:0009021 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell disjoint_from: CL:0000051 ! common lymphoid progenitor disjoint_from: CL:0000557 ! granulocyte monocyte progenitor cell @@ -335,6 +297,7 @@ synonym: "early lymphocyte progenitor" RELATED [] synonym: "ELP" RELATED OMO:0003000 [] synonym: "lymphoid stem cell" RELATED [] synonym: "lymphopoietic stem cell" RELATED [] +xref: ZFA:0009023 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0002032 ! hematopoietic oligopotent progenitor cell @@ -349,6 +312,7 @@ def: "A stem cell from which all cells of the body can form." [GOC:add, GOC:tfm] synonym: "totipotential stem cell" EXACT [] xref: FMA:84790 xref: MESH:D039901 +xref: ZFA:0009024 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000723 ! somatic stem cell [Term] @@ -368,9 +332,10 @@ name: myoblast def: "A cell that is commited to differentiating into a muscle cell. Embryonic myoblasts develop from the mesoderm. They undergo proliferation, migrate to their various sites, and then differentiate into the appropriate form of myocytes. Myoblasts also occur as transient populations of cells in muscles undergoing repair." [GOC:tfm, MESH:D032446, PMID:21849021] xref: BTO:0000222 xref: CALOHA:TS-0650 -xref: FBbt:00005083 +xref: FBbt:00005083 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:70335 xref: VHOG:0001529 +xref: ZFA:0009025 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000680 ! muscle precursor cell [Term] @@ -386,6 +351,7 @@ xref: CALOHA:TS-0362 xref: FMA:63877 xref: NCIT:C12482 xref: VHOG:0001482 +xref: ZFA:0009026 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002320 ! connective tissue cell relationship: RO:0002202 CL:0000134 ! develops from mesenchymal stem cell property_value: RO:0002175 NCBITaxon:9606 @@ -401,9 +367,10 @@ synonym: "epitheliocyte" EXACT [] xref: BTO:0000414 xref: CALOHA:TS-2026 xref: CARO:0000077 -xref: FBbt:00000124 +xref: FBbt:00000124 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:66768 xref: WBbt:0003672 +xref: ZFA:0009034 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell disjoint_from: CL:0000738 ! leukocyte relationship: part_of UBERON:0000483 ! epithelium @@ -416,6 +383,7 @@ name: columnar/cuboidal epithelial cell def: "A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube." [GO:0002065, https://orcid.org/0000-0001-5208-3432] subset: cellxgene_subset subset: human_reference_atlas +xref: ZFA:0009038 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell property_value: RO:0002175 NCBITaxon:9606 @@ -427,6 +395,7 @@ subset: cellxgene_subset subset: general_cell_types_upper_slim xref: FMA:62844 xref: MESH:D001773 +xref: ZFA:0009044 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: capable_of GO:0008015 ! blood circulation @@ -449,6 +418,7 @@ xref: CALOHA:TS-1001 xref: FMA:62870 xref: MESH:D013601 xref: VHOG:0001479 +xref: ZFA:0009046 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000542 {is_inferred="true"} ! lymphocyte intersection_of: CL:0000542 ! lymphocyte intersection_of: capable_of GO:0002456 ! T cell mediated immunity @@ -468,10 +438,10 @@ xref: BTO:0000968 xref: CALOHA:TS-0721 xref: FMA:66781 xref: MESH:D010010 +xref: ZFA:0009047 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000518 ! phagocyte (sensu Vertebrata) is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte is_a: CL:0001035 {is_inferred="true"} ! bone cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000766 ! myeloid leukocyte intersection_of: capable_of GO:0045453 ! bone resorption intersection_of: has_part PR:000001850 ! cathepsin K @@ -505,9 +475,9 @@ xref: BTO:0000539 xref: BTO:0001026 xref: CALOHA:TS-0422 xref: FMA:62854 +xref: ZFA:0009048 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000081 ! blood cell is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000766 ! myeloid leukocyte intersection_of: capable_of GO:0008015 ! blood circulation intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -543,9 +513,10 @@ subset: cellxgene_subset subset: human_reference_atlas synonym: "motoneuron" EXACT [] xref: BTO:0000312 -xref: FBbt:00005123 +xref: FBbt:00005123 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:83617 xref: WBbt:0005409 +xref: ZFA:0009052 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000527 ! efferent neuron property_value: RO:0002175 NCBITaxon:9606 @@ -553,15 +524,18 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000101 name: sensory neuron def: "Any neuron having a sensory function; an afferent neuron conveying sensory impulses." [ISBN:0721662544] +subset: human_reference_atlas xref: BTO:0001037 -xref: FBbt:00005124 +xref: FBbt:00005124 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:84649 xref: MESH:D011984 xref: WBbt:0005759 +xref: ZFA:0009053 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000526 ! afferent neuron intersection_of: CL:0000540 ! neuron intersection_of: capable_of GO:0050906 ! detection of stimulus involved in sensory perception relationship: capable_of GO:0050906 ! detection of stimulus involved in sensory perception +property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000113 @@ -570,6 +544,7 @@ def: "A vertebrate phagocyte with a single nucleus." [GOC:add, GOC:tfm, ISBN:078 subset: cellxgene_subset subset: human_reference_atlas xref: BTO:0001433 +xref: ZFA:0009064 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000518 {is_inferred="true"} ! phagocyte (sensu Vertebrata) is_a: CL:0000842 ! mononuclear cell intersection_of: CL:0000518 ! phagocyte (sensu Vertebrata) @@ -583,19 +558,23 @@ def: "A non-neuronal cell of the nervous system. They not only provide physical comment: Not all glial cells develop from glioblasts, with microglia developing from the mesoderm instead. See https://github.com/obophenotype/cell-ontology/issues/1571 subset: cellxgene_subset subset: general_cell_types_upper_slim +subset: human_reference_atlas synonym: "neuroglia" RELATED [] synonym: "neuroglial cell" EXACT [] xref: BTO:0002606 xref: CALOHA:TS-0415 -xref: FBbt:00005144 +xref: FBbt:00005144 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:54536 +xref: ZFA:0009073 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000095 ! neuron associated cell +property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000133 name: neurectodermal cell def: "Ectoderm destined to be nervous tissue." [GOC:tfm, ISBN:068340007X] synonym: "neurectoderm cell" EXACT [] +xref: ZFA:0009080 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000221 ! ectodermal cell [Term] @@ -619,6 +598,7 @@ synonym: "stem cells, mesenchymal" RELATED OMO:0003004 [MESH:D044982] xref: BTO:0002625 xref: BTO:0003298 xref: FMA:70546 +xref: ZFA:0009081 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000048 ! multi fate stem cell is_a: CL:0002320 {is_inferred="true"} ! connective tissue cell property_value: seeAlso "https://github.com/obophenotype/cell-ontology/issues/474" xsd:string @@ -635,6 +615,7 @@ synonym: "fat cell" EXACT [] xref: BTO:0000443 xref: CALOHA:TS-0012 xref: FMA:63880 +xref: ZFA:0009082 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000325 ! stuff accumulating cell is_a: CL:0002320 ! connective tissue cell relationship: RO:0002202 CL:0000134 ! develops from mesenchymal stem cell @@ -648,6 +629,7 @@ comment: Note change of name; nearly all somatic cells can present antigens to T subset: blood_and_immune_upper_slim subset: cellxgene_subset synonym: "APC" RELATED OMO:0003000 [] +xref: ZFA:0009088 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000738 ! leukocyte intersection_of: CL:0000738 ! leukocyte intersection_of: capable_of GO:0002504 ! antigen processing and presentation of peptide or polysaccharide antigen via MHC class II @@ -660,6 +642,7 @@ def: "A pigment cell is a cell that contains pigment granules." [GOC:tfm] synonym: "chromatocyte" EXACT [] synonym: "chromatophore" EXACT [] xref: VHOG:0001678 +xref: ZFA:0009090 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000325 ! stuff accumulating cell [Term] @@ -675,6 +658,7 @@ xref: CALOHA:TS-0613 xref: FMA:70545 xref: MESH:D008544 xref: VHOG:0001679 +xref: ZFA:0009091 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000147 ! pigment cell intersection_of: CL:0000147 ! pigment cell intersection_of: has_part GO:0042470 ! melanosome @@ -707,6 +691,7 @@ name: exocrine cell def: "A cell of an exocrine gland; i.e. a gland that discharges its secretion via a duct." [ISBN:0198547684] subset: general_cell_types_upper_slim xref: FMA:16014 +xref: ZFA:0009092 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell intersection_of: CL:0000151 ! secretory cell intersection_of: part_of UBERON:0002365 ! exocrine gland @@ -721,6 +706,7 @@ subset: general_cell_types_upper_slim subset: human_reference_atlas synonym: "endocrinocyte" EXACT [] xref: FMA:83809 +xref: ZFA:0009096 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell relationship: part_of UBERON:0000949 ! endocrine system property_value: RO:0002175 NCBITaxon:9606 @@ -742,9 +728,10 @@ synonym: "myocyte" EXACT [] xref: BTO:0000888 xref: BTO:0000902 xref: CALOHA:TS-2032 -xref: FBbt:00005074 +xref: FBbt:00005074 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67328 xref: WBbt:0003675 +xref: ZFA:0009114 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000183 ! contractile cell is_a: CL:0000393 ! electrically responsive cell relationship: RO:0002202 CL:0000056 ! develops from myoblast @@ -761,6 +748,7 @@ synonym: "skeletal muscle cell" EXACT [] xref: BTO:0004392 xref: CALOHA:TS-2158 xref: FMA:9727 +xref: ZFA:0009115 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0001134 ! skeletal muscle tissue @@ -781,6 +769,7 @@ synonym: "smooth muscle fiber" EXACT [] xref: BTO:0004576 xref: CALOHA:TS-2159 xref: FMA:14072 +xref: ZFA:0009118 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008000 ! non-striated muscle cell is_a: CL:0008007 ! visceral muscle cell relationship: RO:0002202 CL:0000514 ! develops from smooth muscle myoblast @@ -806,7 +795,9 @@ def: "A cell specialized to detect and transduce light." [MESH:D010786] subset: cellxgene_subset xref: BTO:0001060 xref: CALOHA:TS-0868 +xref: FBbt:00004211 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:86740 +xref: ZFA:0009127 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000006 {is_inferred="true"} ! neuronal receptor cell intersection_of: CL:0000540 ! neuron intersection_of: capable_of GO:0050962 ! detection of light stimulus involved in sensory perception @@ -817,12 +808,14 @@ property_value: http://xmlns.com/foaf/0.1/depiction "https://www.swissbiopics.or id: CL:0000211 name: electrically active cell def: "A cell whose function is determined by the generation or the reception of an electric signal." [FB:ma] +xref: ZFA:0009128 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] id: CL:0000219 name: motile cell def: "A cell that moves by its own activities." [FB:ma] +xref: ZFA:0009136 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0048870 ! cell motility @@ -834,6 +827,7 @@ name: ectodermal cell def: "A cell of the outer of the three germ layers of the embryo." [MESH:D004475] synonym: "ectoderm cell" EXACT [] xref: FMA:72549 +xref: ZFA:0009137 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000924 ! ectoderm @@ -845,6 +839,7 @@ subset: cellxgene_subset synonym: "mesoblast" EXACT [] synonym: "mesoderm cell" EXACT [] xref: FMA:72554 +xref: ZFA:0009138 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000926 ! mesoderm @@ -854,6 +849,7 @@ name: endodermal cell def: "A cell of the inner of the three germ layers of the embryo." [MESH:D004707] synonym: "endoderm cell" EXACT [] xref: FMA:72555 +xref: ZFA:0009139 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000925 ! endoderm @@ -888,6 +884,7 @@ subset: cellxgene_subset xref: BTO:0001044 xref: FMA:83806 xref: MESH:D010586 +xref: ZFA:0009140 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000219 ! motile cell is_a: CL:0000325 ! stuff accumulating cell is_a: CL:0000473 ! defensive cell @@ -910,6 +907,7 @@ xref: CALOHA:TS-0587 xref: FMA:63261 xref: FMA:83585 xref: MESH:D008264 +xref: ZFA:0009141 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000113 ! mononuclear phagocyte is_a: CL:0000145 ! professional antigen presenting cell is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte @@ -937,6 +935,7 @@ xref: CALOHA:TS-0068 xref: FMA:62869 xref: MESH:D001402 xref: VHOG:0001480 +xref: ZFA:0009142 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000945 {is_inferred="true"} ! lymphocyte of B lineage intersection_of: CL:0000945 ! lymphocyte of B lineage intersection_of: capable_of GO:0019724 ! B cell mediated immunity @@ -946,6 +945,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000255 name: eukaryotic cell +def: "Any cell that only exists in Eukaryota." [FBC:Autogenerated] subset: cellxgene_subset xref: MESH:D005057 is_a: CL:0000000 ! cell @@ -963,6 +963,7 @@ is_a: CL:0000000 ! cell [Term] id: CL:0000327 name: extracellular matrix secreting cell +xref: ZFA:0009162 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000499 ! stromal cell [Term] @@ -970,6 +971,7 @@ id: CL:0000333 name: migratory neural crest cell def: "A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body." [doi:10.1016/j.stem.2015.02.017] xref: FMA:86667 +xref: ZFA:0007086 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000219 ! motile cell is_a: CL:0011012 ! neural crest cell is_a: CL:0011026 ! progenitor cell @@ -978,7 +980,9 @@ relationship: RO:0002202 CL:0007004 ! develops from premigratory neural crest ce [Term] id: CL:0000349 name: extraembryonic cell +def: "Any cell that is part of some extraembryonic structure." [FBC:Autogenerated] subset: general_cell_types_upper_slim +xref: ZFA:0009176 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0000478 ! extraembryonic structure @@ -996,6 +1000,7 @@ name: multi-potent skeletal muscle stem cell def: "A multifate stem cell found in skeletal muscle than can differentiate into many different cell types, including muscle. Distinct cell type from satellite cell." [PMID:18282570] comment: Multi-potency demonstrated ex vivo. At the time of writing, it is unclear whether the endogenous population differentiates into multiple cell types in vivo. xref: FMA:86767 +xref: ZFA:0009179 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000048 {is_inferred="true"} ! multi fate stem cell is_a: CL:0000188 ! cell of skeletal muscle intersection_of: CL:0000048 ! multi fate stem cell @@ -1020,12 +1025,14 @@ relationship: RO:0002160 NCBITaxon:33208 ! only in taxon Metazoa id: CL:0000393 name: electrically responsive cell def: "A cell whose function is determined by its response to an electric signal." [FB:ma] +xref: ZFA:0009190 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000211 ! electrically active cell [Term] id: CL:0000404 name: electrically signaling cell def: "A cell that initiates an electrical signal and passes that signal to another cell." [FB:ma] +xref: ZFA:0009193 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000211 ! electrically active cell [Term] @@ -1041,9 +1048,9 @@ xref: BTO:0002042 xref: CALOHA:TS-0194 xref: FMA:83036 xref: MESH:D003713 +xref: ZFA:0009209 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000113 ! mononuclear phagocyte is_a: CL:0000145 ! professional antigen presenting cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000738 ! leukocyte intersection_of: bearer_of PATO:0001407 ! mononucleate intersection_of: capable_of GO:0001816 ! cytokine production @@ -1082,6 +1089,7 @@ subset: general_cell_types_upper_slim subset: human_reference_atlas xref: BTO:0002064 xref: FMA:83624 +xref: ZFA:0009226 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002320 ! connective tissue cell relationship: RO:0002202 CL:0000134 ! develops from mesenchymal stem cell property_value: RO:0002175 NCBITaxon:9606 @@ -1094,6 +1102,7 @@ subset: cellxgene_subset synonym: "cardiac muscle progenitor cell" EXACT [] synonym: "cardiomyocyte progenitor cell" EXACT [] xref: FMA:84797 +xref: ZFA:0009234 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002494 ! cardiocyte is_a: CL:0010021 ! cardiac myoblast intersection_of: CL:0000056 ! myoblast @@ -1109,6 +1118,7 @@ subset: cellxgene_subset synonym: "myoblast, smooth muscle" EXACT [MESH:D032390] synonym: "satellite cell" RELATED [] xref: FMA:84798 +xref: ZFA:0009235 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000056 ! myoblast intersection_of: CL:0000056 ! myoblast intersection_of: RO:0002203 CL:0000192 ! develops into smooth muscle cell @@ -1120,6 +1130,7 @@ name: skeletal muscle myoblast def: "A myoblast that differentiates into skeletal muscle fibers." [SANBI:mhl] synonym: "skeletal myoblast" EXACT [] xref: FMA:84799 +xref: ZFA:0009236 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000056 ! myoblast is_a: CL:0011026 ! progenitor cell intersection_of: CL:0000056 ! myoblast @@ -1142,6 +1153,7 @@ def: "A neuron which conveys sensory information centrally from the periphery." subset: human_reference_atlas synonym: "input neuron" EXACT [] xref: FMA:87653 +xref: ZFA:0009238 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000540 ! neuron property_value: RO:0002175 NCBITaxon:9606 @@ -1150,6 +1162,7 @@ id: CL:0000527 name: efferent neuron def: "A neuron which sends impulses peripherally to activate muscles or secretory cells." [MESH:D009476] synonym: "output neuron" EXACT [] +xref: ZFA:0009239 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000540 ! neuron [Term] @@ -1163,10 +1176,11 @@ subset: human_reference_atlas synonym: "nerve cell" EXACT [] xref: BTO:0000938 xref: CALOHA:TS-0683 -xref: FBbt:00005106 +xref: FBbt:00005106 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:54527 xref: VHOG:0001483 xref: WBbt:0003679 +xref: ZFA:0009248 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000393 ! electrically responsive cell is_a: CL:0000404 ! electrically signaling cell is_a: CL:0002319 ! neural cell @@ -1181,6 +1195,7 @@ def: "A cell that originates from the neural crest and differentiates into a pig comment: Derived from UBERON:0002342 neural crest. xref: BTO:0003217 xref: FMA:83377 +xref: ZFA:0009249 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0011026 ! progenitor cell relationship: RO:0002202 CL:0000333 ! develops from migratory neural crest cell @@ -1197,8 +1212,8 @@ xref: CALOHA:TS-0583 xref: FMA:62863 xref: MESH:D008214 xref: VHOG:0001535 +xref: ZFA:0009250 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000842 ! mononuclear cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000738 ! leukocyte intersection_of: bearer_of PATO:0001407 ! mononucleate intersection_of: bearer_of PATO:0040072 ! high nuclear/cytoplasmic ratio @@ -1225,11 +1240,11 @@ synonym: "GMP" RELATED OMO:0003000 [ISBN:0721601464, PMCID:PMC2213186, PMCID:PMC synonym: "granulocyte-macrophage progenitor" EXACT [ISBN:0721601464, PMCID:PMC2213186, PMCID:PMC548021] synonym: "granulocyte/monocyte precursor" EXACT [] synonym: "granulocyte/monocyte progenitor" EXACT [] +xref: ZFA:0009251 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0001012 ! CD7-negative lymphoid progenitor OR granulocyte monocyte progenitor is_a: CL:0011026 ! progenitor cell is_a: CL:1001610 ! bone marrow hematopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002032 ! hematopoietic oligopotent progenitor cell intersection_of: capable_of GO:0030225 ! macrophage differentiation intersection_of: capable_of GO:0030851 ! granulocyte differentiation @@ -1257,9 +1272,9 @@ subset: cellxgene_subset subset: human_reference_atlas xref: BTO:0004657 xref: FMA:83551 +xref: ZFA:0009253 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0002194 {is_inferred="true"} ! monopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002194 ! monopoietic cell intersection_of: capable_of GO:0030224 ! monocyte differentiation intersection_of: has_part GO:0042582 ! azurophil granule @@ -1276,9 +1291,9 @@ def: "A mesenchymal stem cell capable of developing into blood vessel endotheliu comment: These cells are reportedly CD31-positive, CD34-positive, CD144-positive, CD309-positive, and TAL1-positive. synonym: "angioblast" EXACT [] synonym: "chondroplast" EXACT [] +xref: ZFA:0009258 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000134 {is_inferred="true"} ! mesenchymal stem cell is_a: CL:0011026 ! progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000134 ! mesenchymal stem cell intersection_of: RO:0002104 PR:000001444 ! has plasma membrane part cadherin-5 intersection_of: RO:0002104 PR:000002112 ! has plasma membrane part vascular endothelial growth factor receptor 2 @@ -1300,6 +1315,7 @@ subset: human_reference_atlas xref: BTO:0000876 xref: CALOHA:TS-0638 xref: FMA:62864 +xref: ZFA:0009265 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000113 ! mononuclear phagocyte is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte is_a: CL:0011026 ! progenitor cell @@ -1331,6 +1347,7 @@ xref: FMA:63147 xref: FMA:83601 xref: MESH:D007694 xref: VHOG:0001697 +xref: ZFA:0009278 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0001067 ! group 1 innate lymphoid cell intersection_of: CL:0001067 ! group 1 innate lymphoid cell intersection_of: capable_of GO:0002228 ! natural killer cell mediated immunity @@ -1351,6 +1368,7 @@ id: CL:0000680 name: muscle precursor cell def: "A non-terminally differentiated cell that is capable of developing into a muscle cell." [GOC:add] subset: cellxgene_subset +xref: ZFA:0009291 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell intersection_of: CL:0011115 ! precursor cell intersection_of: RO:0002203 CL:0000187 ! develops into muscle cell @@ -1363,6 +1381,7 @@ name: somatic stem cell def: "A stem cell that can give rise to cell types of the body other than those of the germ-line." [GO:0048103] xref: CALOHA:TS-2086 xref: MESH:D053687 +xref: ZFA:0009307 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000034 ! stem cell intersection_of: CL:0000034 ! stem cell intersection_of: capable_of GO:0048103 ! somatic stem cell division @@ -1375,6 +1394,7 @@ def: "Muscle cell which has as its direct parts myofilaments organized into sarc xref: BTO:0002916 xref: CALOHA:TS-2157 xref: FMA:86936 +xref: ZFA:0005784 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000187 ! muscle cell intersection_of: CL:0000187 ! muscle cell intersection_of: bearer_of PATO:0001410 ! striated @@ -1397,6 +1417,7 @@ xref: CALOHA:TS-0549 xref: FMA:62852 xref: MESH:D007962 xref: NCIT:C12529 +xref: ZFA:0009309 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000219 ! motile cell is_a: CL:0000255 ! eukaryotic cell is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell @@ -1428,6 +1449,7 @@ xref: BTO:0001539 xref: CALOHA:TS-0115 xref: FMA:14067 xref: MESH:D032383 +xref: ZFA:0009316 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000737 ! striated muscle cell is_a: CL:0002494 ! cardiocyte intersection_of: CL:0000187 ! muscle cell @@ -1448,6 +1470,7 @@ subset: cellxgene_subset xref: BTO:0001441 xref: CALOHA:TS-0647 xref: MESH:D022423 +xref: ZFA:0009324 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: RO:0002202 CL:0000049 ! develops from common myeloid progenitor @@ -1458,42 +1481,12 @@ id: CL:0000766 name: myeloid leukocyte def: "A cell of the monocyte, granulocyte, or mast cell lineage." [GOC:add] subset: cellxgene_subset +xref: ZFA:0009326 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000738 {is_inferred="true"} ! leukocyte is_a: CL:0000763 ! myeloid cell intersection_of: CL:0000738 ! leukocyte intersection_of: RO:0002202 CL:0000049 ! develops from common myeloid progenitor -[Term] -id: CL:0000775 -name: neutrophil -def: "Any of the immature or mature forms of a granular leukocyte that in its mature form has a nucleus with three to five lobes connected by slender threads of chromatin, and cytoplasm containing fine inconspicuous granules and stainable by neutral dyes." [GOC:add, GOC:amm, GOC:tfm, ISBN:0721601464] -subset: blood_and_immune_upper_slim -subset: cellxgene_subset -subset: human_reference_atlas -synonym: "neutrocyte" EXACT [] -synonym: "neutrophil leucocyte" EXACT [] -synonym: "neutrophil leukocyte" EXACT [] -synonym: "neutrophilic leucocyte" EXACT [] -synonym: "neutrophilic leukocyte" EXACT [] -synonym: "PMN" BROAD [] -synonym: "poly" BROAD [] -synonym: "polymorphonuclear leucocyte" BROAD [] -synonym: "polymorphonuclear leukocyte" BROAD [] -synonym: "polymorphonuclear neutrophil" BROAD [] -synonym: "polynuclear neutrophilic leucocyte" BROAD [] -synonym: "polynuclear neutrophilic leukocyte" BROAD [] -xref: BTO:0000130 -xref: CALOHA:TS-0688 -xref: FMA:62860 -xref: MESH:D009504 -is_a: CL:0000094 {is_inferred="true"} ! granulocyte -intersection_of: CL:0000094 ! granulocyte -intersection_of: RO:0002104 PR:000001479 ! has plasma membrane part low affinity immunoglobulin gamma Fc region receptor II -intersection_of: RO:0002104 PR:000001879 ! has plasma membrane part leukosialin -relationship: RO:0002104 PR:000001479 ! has plasma membrane part low affinity immunoglobulin gamma Fc region receptor II -relationship: RO:0002104 PR:000001879 ! has plasma membrane part leukosialin -property_value: RO:0002175 NCBITaxon:9606 - [Term] id: CL:0000782 name: myeloid dendritic cell @@ -1523,8 +1516,8 @@ synonym: "NKP" EXACT [PMID:12457618, PMID:15032583, PMID:15766674] synonym: "null cell" RELATED [PMID:11532393] synonym: "preNK cell" RELATED [PMID:11532393] synonym: "pro-natural killer cell" EXACT [] +xref: ZFA:0009348 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000838 {is_inferred="true"} ! lymphoid lineage restricted progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000838 ! lymphoid lineage restricted progenitor cell intersection_of: CL:4030046 PR:000001874 ! lacks_plasma_membrane_part KLRB1-like protein intersection_of: CL:4030046 PR:000002065 ! lacks_plasma_membrane_part mast/stem cell growth factor receptor @@ -1557,8 +1550,8 @@ synonym: "progenitor B lymphocyte" EXACT [] synonym: "progenitor B-cell" EXACT [] synonym: "progenitor B-lymphocyte" EXACT [] xref: BTO:0003104 +xref: ZFA:0009349 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000838 {is_inferred="true"} ! lymphoid lineage restricted progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000838 ! lymphoid lineage restricted progenitor cell intersection_of: has_part PR:000001903 ! paired box protein PAX-5 intersection_of: has_part PR:000006611 ! DNA nucleotidylexotransferase @@ -1579,6 +1572,7 @@ synonym: "DN1 thymocyte" NARROW [] synonym: "pro-T lymphocyte" EXACT [] synonym: "progenitor T cell" EXACT [] synonym: "TN1 cell" NARROW [] +xref: ZFA:0009350 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000838 {is_inferred="true"} ! lymphoid lineage restricted progenitor cell intersection_of: CL:0000838 ! lymphoid lineage restricted progenitor cell intersection_of: capable_of GO:0030217 ! T cell differentiation @@ -1597,8 +1591,8 @@ synonym: "hemopoietic progenitor cell" EXACT [] synonym: "MPP" EXACT [] xref: BTO:0000725 xref: CALOHA:TS-0448 +xref: ZFA:0009354 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008001 ! hematopoietic precursor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000988 ! hematopoietic cell intersection_of: bearer_of PATO:0001402 ! multipotent intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -1644,6 +1638,7 @@ synonym: "lymphoid progenitor cell" BROAD [] xref: BTO:0004731 xref: CALOHA:TS-2025 xref: FMA:70338 +xref: ZFA:0009355 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002031 {is_inferred="true"} ! hematopoietic lineage restricted progenitor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0002031 ! hematopoietic lineage restricted progenitor cell @@ -1662,6 +1657,7 @@ synonym: "myeloid progenitor cell" BROAD [] xref: BTO:0004730 xref: CALOHA:TS-2099 xref: FMA:70339 +xref: ZFA:0009356 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002031 {is_inferred="true"} ! hematopoietic lineage restricted progenitor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0002031 ! hematopoietic lineage restricted progenitor cell @@ -1680,6 +1676,7 @@ synonym: "peripheral blood mononuclear cell" NARROW [] xref: BTO:0000878 xref: CALOHA:TS-0768 xref: FMA:86713 +xref: ZFA:0009357 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000226 ! single nucleate cell is_a: CL:0000738 {is_inferred="true"} ! leukocyte intersection_of: CL:0000738 ! leukocyte @@ -1707,6 +1704,7 @@ xref: BTO:0000574 xref: CALOHA:TS-2017 xref: FMA:70366 xref: FMA:83598 +xref: ZFA:0005830 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -1869,6 +1867,7 @@ id: CL:0002077 name: ecto-epithelial cell def: "An epithelial cell derived from ectoderm." [FMA:69074, GOC:tfm] xref: FMA:69074 +xref: ZFA:0009385 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: RO:0002202 CL:0000221 ! develops from ectodermal cell @@ -1938,6 +1937,7 @@ subset: cellxgene_subset xref: CALOHA:TS-2096 xref: FMA:63875 xref: MESH:D003239 +xref: ZFA:0009392 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0002384 ! connective tissue @@ -1952,6 +1952,7 @@ def: "A cell of the embryo." [FMA:0618947256] xref: CALOHA:TS-0263 xref: FMA:82840 xref: WBbt:0007028 +xref: ZFA:0007089 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 creation_date: 2010-09-15T03:39:21Z @@ -1962,7 +1963,7 @@ name: myotube def: "A transversely striated, synctial muscle cell, formed by the fusion of myoblasts." [GOC:dos, GOC:tfm, ISBN:0323052908, PMID:22274696] synonym: "myotubule" EXACT [] synonym: "single cell sarcomere" EXACT [] -xref: FBbt:00005812 +xref: FBbt:00005812 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000228 ! multinucleate cell is_a: CL:0000737 ! striated muscle cell intersection_of: CL:0000187 ! muscle cell @@ -2004,6 +2005,7 @@ creation_date: 2012-06-15T02:51:27Z id: CL:0007004 name: premigratory neural crest cell def: "Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells." [UBERONREF:0000002] +xref: ZFA:0007084 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0011012 ! neural crest cell relationship: part_of UBERON:0002342 ! neural crest relationship: RO:0002202 CL:0000133 ! develops from neurectodermal cell @@ -2042,7 +2044,7 @@ relationship: RO:0002202 CL:0000515 ! develops from skeletal muscle myoblast id: CL:0008007 name: visceral muscle cell def: "A muscle cell that is part of some visceral muscle." [GOC:dos] -xref: FBbt:00005070 +xref: FBbt:00005070 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000187 ! muscle cell intersection_of: CL:0000187 ! muscle cell intersection_of: part_of UBERON:8600004 ! visceral muscle tissue @@ -2082,6 +2084,7 @@ property_value: seeAlso https://github.com/obophenotype/cell-ontology/issues/786 [Term] id: CL:0010021 name: cardiac myoblast +def: "Any myoblast that develops into some cardiac muscle cell." [FBC:Autogenerated] xref: MESH:D032386 is_a: CL:0000056 ! myoblast intersection_of: CL:0000056 ! myoblast @@ -2153,22 +2156,6 @@ intersection_of: CL:0000988 ! hematopoietic cell intersection_of: part_of UBERON:0002371 ! bone marrow relationship: part_of UBERON:0012429 ! hematopoietic tissue -[Term] -id: GO:0000003 -name: reproduction -namespace: biological_process -alt_id: GO:0019952 -alt_id: GO:0050876 -def: "The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms." [GOC:go_curators, GOC:isa_complete, GOC:jl, ISBN:0198506732] -subset: goslim_agr -subset: goslim_chembl -subset: goslim_flybase_ribbon -subset: goslim_pir -subset: goslim_plant -synonym: "reproductive physiological process" EXACT [] -xref: Wikipedia:Reproduction -is_a: GO:0008150 ! biological_process - [Term] id: GO:0000323 name: lytic vacuole @@ -2667,7 +2654,6 @@ synonym: "cell or subcellular entity" EXACT [] synonym: "cellular component" EXACT [] synonym: "subcellular entity" RELATED [NIF_Subcellular:nlx_subcell_100315] xref: NIF_Subcellular:sao1337158144 -is_a: BFO:0000040 ! material entity disjoint_from: GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/17729" xsd:anyURI @@ -2680,13 +2666,16 @@ comment: Note that this term is intended to annotate gene products that are not subset: goslim_agr subset: goslim_candida subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "extracellular" EXACT [] xref: Wikipedia:Extracellular @@ -2753,12 +2742,14 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "cell nucleus" EXACT [] synonym: "horsetail nucleus" NARROW [GOC:al, GOC:mah, GOC:vw, PMID:15030757] @@ -2784,6 +2775,7 @@ subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "chromatid" RELATED [] synonym: "interphase chromosome" NARROW [] @@ -2818,7 +2810,9 @@ subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast xref: Wikipedia:Cytoplasm is_a: GO:0110165 ! cellular anatomical entity @@ -2855,11 +2849,13 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "vacuolar carboxypeptidase Y" RELATED [] xref: Wikipedia:Vacuole @@ -2877,11 +2873,14 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "bacterial inner membrane" NARROW [] synonym: "cell membrane" EXACT [] @@ -2923,9 +2922,11 @@ subset: goslim_flybase_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon +subset: goslim_prokaryote_ribbon synonym: "cellular DNA metabolism" EXACT [] synonym: "DNA metabolism" EXACT [] -is_a: GO:0043170 ! macromolecule metabolic process +is_a: GO:0008152 ! metabolic process [Term] id: GO:0006310 @@ -2933,6 +2934,7 @@ name: DNA recombination namespace: biological_process def: "Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Interchromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction." [ISBN:0198506732] subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pombe subset: goslim_prokaryote @@ -2954,7 +2956,9 @@ subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "single-organism transport" RELATED [] is_a: GO:0051234 ! establishment of localization property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20292" xsd:anyURI @@ -3079,6 +3083,8 @@ name: organelle organization namespace: biological_process alt_id: GO:1902589 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_candida subset: goslim_pir synonym: "organelle organisation" EXACT [] @@ -3089,6 +3095,7 @@ is_a: GO:0016043 ! cellular component organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0043226 ! organelle relationship: results_in_organization_of GO:0043226 ! organelle +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2013-12-19T15:25:51Z @@ -3258,7 +3265,6 @@ synonym: "physiological process" EXACT [] synonym: "single organism process" RELATED [] synonym: "single-organism process" RELATED [] xref: Wikipedia:Biological_process -is_a: BFO:0000015 ! process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24968" xsd:anyURI created_by: jl creation_date: 2012-09-19T15:05:24Z @@ -3271,11 +3277,13 @@ alt_id: GO:0044236 alt_id: GO:0044710 def: "The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation." [GOC:go_curators, ISBN:0198547684] comment: Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_prokaryote_ribbon synonym: "metabolic process resulting in cell growth" NARROW [] synonym: "metabolism" EXACT [] synonym: "metabolism resulting in cell growth" NARROW [] @@ -3284,6 +3292,7 @@ synonym: "single-organism metabolic process" RELATED [] xref: Wikipedia:Metabolism is_a: GO:0008150 ! biological_process disjoint_from: GO:0051179 ! localization +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI created_by: jl creation_date: 2012-10-17T15:46:40Z @@ -3297,6 +3306,7 @@ def: "The chemical reactions and pathways resulting in the formation of substanc subset: goslim_chembl subset: goslim_metagenomics subset: goslim_plant +subset: goslim_plant_ribbon synonym: "anabolism" EXACT [] synonym: "biosynthesis" EXACT [] synonym: "formation" BROAD [] @@ -3314,6 +3324,8 @@ name: macromolecule biosynthetic process namespace: biological_process alt_id: GO:0043284 def: "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "biopolymer biosynthetic process" EXACT [GOC:mtg_chebi_dec09] synonym: "macromolecule anabolism" EXACT [] @@ -3325,6 +3337,7 @@ is_a: GO:0044249 ! cellular biosynthetic process is_a: GO:1901576 ! organic substance biosynthetic process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/15249" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25418" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0009314 @@ -3387,7 +3400,7 @@ name: response to external stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an external stimulus." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_drosophila subset: goslim_plant synonym: "response to environmental stimulus" EXACT [] @@ -3399,7 +3412,7 @@ name: response to biotic stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a biotic stimulus, a stimulus caused or produced by a living organism." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_metagenomics subset: goslim_plant synonym: "response to biotic stress" NARROW [] @@ -3411,7 +3424,7 @@ name: response to abiotic stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an abiotic (not derived from living organisms) stimulus." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_metagenomics subset: goslim_plant synonym: "response to abiotic stress" NARROW [] @@ -3437,7 +3450,7 @@ name: embryo development namespace: biological_process alt_id: GO:0009795 def: "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant." [GOC:go_curators, GOC:isa_complete, GOC:mtg_sensu] -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_plant synonym: "embryogenesis" EXACT [] @@ -3604,10 +3617,12 @@ namespace: biological_process alt_id: GO:0044235 alt_id: GO:0071842 def: "A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:ai, GOC:jl, GOC:mah] +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cell organisation" EXACT [] synonym: "cell organization and biogenesis" RELATED [GOC:mah] synonym: "cellular component organisation at cellular level" EXACT [GOC:mah] @@ -3642,6 +3657,7 @@ def: "A cellular transport process in which transported substances are moved in subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pir subset: goslim_pombe @@ -3671,6 +3687,7 @@ name: somatic cell DNA recombination namespace: biological_process def: "Recombination occurring within or between DNA molecules in somatic cells." [GOC:ma] is_a: GO:0006310 ! DNA recombination +property_value: RO:0002161 NCBITaxon:4751 [Term] id: GO:0016445 @@ -3770,12 +3787,18 @@ name: reproductive process namespace: biological_process alt_id: GO:0044702 def: "A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." [GOC:dph, GOC:isa_complete] +subset: gocheck_do_not_annotate +subset: goslim_agr +subset: goslim_chembl +subset: goslim_flybase_ribbon subset: goslim_generic +subset: goslim_pir +subset: goslim_plant +subset: goslim_plant_ribbon synonym: "single organism reproductive process" RELATED [] +xref: Wikipedia:Reproduction is_a: GO:0008150 ! biological_process -intersection_of: GO:0008150 ! biological_process -intersection_of: part_of GO:0000003 ! reproduction -relationship: part_of GO:0000003 ! reproduction +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27054" xsd:anyURI created_by: jl creation_date: 2012-09-19T15:56:06Z @@ -3799,11 +3822,13 @@ alt_id: GO:0044700 def: "The entirety of a process in which information is transmitted within a biological system. This process begins with an active signal and ends when a cellular response has been triggered." [GOC:mtg_signal, GOC:mtg_signaling_feb11, GOC:signaling] comment: Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change. subset: goslim_agr +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pombe subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "biological signaling" EXACT [] synonym: "signaling process" EXACT [] @@ -3832,8 +3857,8 @@ name: myofibril namespace: cellular_component def: "The contractile element of skeletal and cardiac muscle; a long, highly organized bundle of actin, myosin, and other proteins that contracts by a sliding filament mechanism." [ISBN:0815316194] xref: Wikipedia:Myofibril -is_a: GO:0043292 ! contractile fiber -intersection_of: GO:0043292 ! contractile fiber +is_a: GO:0043292 ! contractile muscle fiber +intersection_of: GO:0043292 ! contractile muscle fiber intersection_of: part_of CL:0000737 ! striated muscle cell relationship: part_of CL:0000737 ! striated muscle cell @@ -3887,6 +3912,8 @@ is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000988 ! hematopoietic cell relationship: results_in_development_of CL:0000988 ! hematopoietic cell +relationship: RO:0002160 NCBITaxon:6072 ! only in taxon Eumetazoa +relationship: RO:0002162 NCBITaxon:6072 {all_only="true"} ! in taxon Eumetazoa property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22178" xsd:anyURI [Term] @@ -3952,6 +3979,7 @@ subset: goslim_drosophila subset: goslim_generic subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon xref: Wikipedia:Cellular_differentiation is_a: GO:0048869 ! cellular developmental process intersection_of: GO:0048869 ! cellular developmental process @@ -4046,6 +4074,7 @@ alt_id: GO:0005578 def: "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues." [GOC:BHF, GOC:mah, GOC:rph, NIF_Subcellular:nlx_subcell_20090513, PMID:21123617, PMID:28089324] subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote @@ -4154,6 +4183,7 @@ namespace: biological_process alt_id: GO:0044707 alt_id: GO:0050874 def: "Any biological process, occurring at the level of a multicellular organism, pertinent to its function." [GOC:curators, GOC:dph, GOC:isa_complete, GOC:tb] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate subset: goslim_pir synonym: "organismal physiological process" EXACT [] @@ -4163,6 +4193,7 @@ property_value: RO:0002161 NCBITaxon:2 property_value: RO:0002161 NCBITaxon:2157 property_value: RO:0002161 NCBITaxon:4896 property_value: RO:0002161 NCBITaxon:4932 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2012-09-19T16:07:47Z @@ -4215,6 +4246,7 @@ def: "A stable assembly of two or more macromolecules, i.e. proteins, nucleic ac comment: A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole. subset: goslim_agr subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir @@ -4224,8 +4256,8 @@ synonym: "protein complex" NARROW [] synonym: "protein containing complex" EXACT [] synonym: "protein-protein complex" NARROW [] is_a: GO:0005575 ! cellular_component -is_a: PR:000050567 ! protein-containing material entity disjoint_from: GO:0110165 ! cellular anatomical entity +relationship: has_part PR:000000001 ! protein [Term] id: GO:0032993 @@ -4348,7 +4380,6 @@ id: GO:0042391 name: regulation of membrane potential namespace: biological_process def: "Any process that modulates the establishment or extent of a membrane potential, the electric potential existing across any membrane arising from charges in the membrane itself and from the charges present in the media on either side of the membrane." [GOC:jl, GOC:mtg_cardio, GOC:tb, ISBN:0198506732] -is_a: BFO:0000003 ! occurrent relationship: has_part GO:0034220 ! monoatomic ion transmembrane transport [Term] @@ -4368,11 +4399,11 @@ property_value: RO:0002161 NCBITaxon:6237 {source="GOC:kmv"} id: GO:0042582 name: azurophil granule namespace: cellular_component -def: "Primary lysosomal granule found in neutrophil granulocytes. Contains a wide range of hydrolytic enzymes and is released into the extracellular fluid." [GOC:jl, PMID:17152095] +def: "Primary lysosomal granule readily stainable with a Romanowsky stain." [GOC:jl, PMID:17152095, PMID:28717070, PMID:5914694, WIKIPEDIA:Azurophilic_granule] synonym: "primary granule" EXACT [] is_a: GO:0005766 ! primary lysosome is_a: GO:0030141 ! secretory granule -relationship: part_of CL:0000775 ! neutrophil +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27231" xsd:anyURI [Term] id: GO:0042592 @@ -4414,10 +4445,12 @@ name: cell projection namespace: cellular_component def: "A prolongation or process extending from a cell, e.g. a flagellum or axon." [GOC:jl, http://www.cogsci.princeton.edu/~wn/] subset: goslim_agr +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "cell process" BROAD [] synonym: "cellular process" BROAD [] synonym: "cellular projection" EXACT [] @@ -4480,6 +4513,7 @@ subset: goslim_chembl subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon xref: NIF_Subcellular:sao1539965131 xref: Wikipedia:Organelle is_a: GO:0110165 ! cellular anatomical entity @@ -4557,7 +4591,7 @@ relationship: part_of GO:0043226 ! organelle [Term] id: GO:0043292 -name: contractile fiber +name: contractile muscle fiber namespace: cellular_component def: "Fibers, composed of actin, myosin, and associated proteins, found in cells of smooth or striated muscle." [GOC:go_curators, ISBN:0815316194] synonym: "contractile fibre" EXACT [] @@ -4565,6 +4599,9 @@ is_a: GO:0043232 ! intracellular non-membrane-bounded organelle is_a: GO:0099512 ! supramolecular fiber relationship: part_of CL:0000187 ! muscle cell relationship: part_of GO:0005737 ! cytoplasm +relationship: RO:0002160 NCBITaxon:6072 ! only in taxon Eumetazoa +relationship: RO:0002162 NCBITaxon:6072 {all_only="true"} ! in taxon Eumetazoa +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27281" xsd:anyURI [Term] id: GO:0044237 @@ -4583,12 +4620,15 @@ id: GO:0044249 name: cellular biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:jl] +comment: This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. +subset: gocheck_do_not_annotate synonym: "cellular anabolism" EXACT [] synonym: "cellular biosynthesis" EXACT [] synonym: "cellular formation" EXACT [] synonym: "cellular synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0044237 ! cellular metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27052" xsd:anyURI [Term] id: GO:0044419 @@ -4625,6 +4665,7 @@ namespace: cellular_component def: "The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane." [GOC:aruk, ISBN:0198506732, PMID:24619342, PMID:29383328, PMID:31998110] subset: goslim_agr subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir @@ -4804,7 +4845,7 @@ name: regulation of response to stimulus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus." [GOC:jid] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0050896 ! response to stimulus @@ -4879,6 +4920,7 @@ subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_generic subset: goslim_plant +subset: goslim_plant_ribbon synonym: "development of an anatomical structure" EXACT [] is_a: GO:0032502 ! developmental process intersection_of: GO:0032502 ! developmental process @@ -4901,12 +4943,14 @@ namespace: biological_process def: "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another." [GOC:dgh, GOC:dph, GOC:isa_complete, GOC:mlg] subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_prokaryote synonym: "cell locomotion" EXACT [] synonym: "cell movement" RELATED [] synonym: "movement of a cell" EXACT [] is_a: GO:0009987 ! cellular process +property_value: RO:0002161 NCBITaxon:4890 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19809" xsd:anyURI [Term] @@ -4989,6 +5033,7 @@ is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001775 ! cell activation relationship: regulates GO:0001775 ! cell activation +property_value: RO:0002161 NCBITaxon:4890 [Term] id: GO:0050877 @@ -5018,12 +5063,13 @@ namespace: biological_process alt_id: GO:0051869 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism." [GOC:ai, GOC:bf] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "physiological response to stimulus" EXACT [] is_a: GO:0008150 ! biological_process @@ -5072,6 +5118,7 @@ name: localization namespace: biological_process alt_id: GO:1902578 def: "Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation." [GOC:ai, GOC:dos] +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "establishment and maintenance of cellular component location" NARROW [] synonym: "establishment and maintenance of localization" EXACT [] @@ -5082,6 +5129,7 @@ synonym: "localisation" EXACT [GOC:mah] synonym: "single organism localization" RELATED [GOC:TermGenie] synonym: "single-organism localization" RELATED [] is_a: GO:0008150 ! biological_process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27052" xsd:anyURI created_by: jl creation_date: 2013-12-18T13:51:04Z @@ -5161,6 +5209,7 @@ def: "The process in which a solute is transported across a lipid bilayer, from comment: Transmembrane transport is the transport of a solute across a lipid bilayer. Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane and is not traversed. For transport through the nuclear pore, consider instead the term 'nucleocytoplasmic transport ; GO:0006913' and its children. Note also that this term is not intended for use in annotating lateral movement within membranes. subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pombe subset: goslim_yeast @@ -5341,12 +5390,15 @@ name: cellular component organization or biogenesis namespace: biological_process alt_id: GO:0071841 def: "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_flybase_ribbon subset: goslim_metagenomics synonym: "cellular component organisation or biogenesis" EXACT [GOC:mah] synonym: "cellular component organisation or biogenesis at cellular level" EXACT [GOC:mah] synonym: "cellular component organization or biogenesis at cellular level" EXACT [] is_a: GO:0009987 ! cellular process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: mah creation_date: 2010-09-10T01:39:16Z @@ -5447,7 +5499,7 @@ name: plasma membrane region namespace: cellular_component def: "A membrane that is a (regional) part of the plasma membrane." [GOC:dos] comment: Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "region of plasma membrane" EXACT [] is_a: GO:0016020 ! membrane intersection_of: GO:0016020 ! membrane @@ -5482,7 +5534,6 @@ def: "A complex of collagen trimers such as a fibril or collagen network." [GOC: synonym: "Supramolecular aggregate of collagen" EXACT [PMID:19693541] synonym: "Supramolecular collagen assembly" EXACT [PMID:21421911] is_a: GO:0099080 ! supramolecular complex -is_a: PR:000050567 ! protein-containing material entity relationship: has_part GO:0005581 ! collagen trimer relationship: part_of GO:0062023 ! collagen-containing extracellular matrix @@ -5728,6 +5779,7 @@ id: GO:1901576 name: organic substance biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon." [GOC:pr, GOC:TermGenie] +subset: gocheck_do_not_annotate synonym: "organic molecular entity anabolism" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthesis" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthetic process" EXACT [] @@ -5739,6 +5791,7 @@ synonym: "organic substance formation" EXACT [] synonym: "organic substance synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0071704 ! organic substance metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI created_by: pr creation_date: 2012-11-05T11:04:40Z @@ -6095,7 +6148,6 @@ name: quality namespace: quality alt_id: PATO:0000072 def: "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities" [PATOC:GVG] -is_a: BFO:0000020 ! specifically dependent continuant [Term] id: PATO:0000051 @@ -6769,15 +6821,6 @@ synonym: "CGM6" RELATED Gene-based [] synonym: "non-specific cross-reacting antigen NCA-95" EXACT [] is_a: PR:000000001 ! protein -[Term] -id: PR:000001355 -name: immunoglobulin gamma Fc receptor II/III/IV -namespace: protein -def: "A protein with a core domain architecture consisting of an extracellular domain containing two copies of the Immunoglobulin domain (Pfam:PF00047), followed by a single-pass transmembrane region and a small intracellular domain. The active protein is a low affinity receptor for immunoglobulin gamma chain Fc region. Human II-a, II-b, and II-c represent a recent gene expansion and are equally related to mouse II, III, and IV. Human III-A and III-B are closely related and closer to mouse IV than to mouse III." [PRO:WCB] -comment: Category=family. -xref: PIRSF:PIRSF001980 -is_a: PR:000000001 ! protein - [Term] id: PR:000001381 name: interleukin-2 receptor subunit beta @@ -6809,24 +6852,6 @@ synonym: "vascular endothelial cadherin" EXACT [] synonym: "VE-cadherin" EXACT [] is_a: PR:000001327 ! cadherin -[Term] -id: PR:000001479 -name: low affinity immunoglobulin gamma Fc region receptor II -namespace: protein -def: "An immunoglobulin gamma Fc receptor II/III/IV that is a translation product of the mouse Fcgr2 gene or a 1:1 ortholog thereof." [PRO:CNA] -comment: Category=gene. Requested by=CL. -synonym: "CD32" BROAD [PRO:DNx] -synonym: "Fc gamma receptor IIB" EXACT [] -synonym: "Fc-gamma RII" EXACT [] -synonym: "Fc-gamma-RIIB" EXACT [] -synonym: "Fcgr2" EXACT PRO-short-label [PRO:DNx] -synonym: "Fcgr2b" RELATED Gene-based [] -synonym: "FcRII" EXACT [] -synonym: "IgG Fc receptor II beta" EXACT [] -synonym: "ly-17" EXACT [] -synonym: "lymphocyte antigen 17" EXACT [] -is_a: PR:000001355 ! immunoglobulin gamma Fc receptor II/III/IV - [Term] id: PR:000001753 name: transcription factor NF-kappa-B subunit @@ -6919,24 +6944,6 @@ comment: Category=family. Requested by=CL. xref: PIRSF:PIRSF038804 is_a: PR:000000001 ! protein -[Term] -id: PR:000001879 -name: leukosialin -namespace: protein -def: "A protein that is a translation product of the human SPN gene or a 1:1 ortholog thereof." [PRO:WCB] -comment: Category=gene. Requested by=CL. -synonym: "B-cell differentiation antigen LP-3" EXACT [] -synonym: "CD43" RELATED Gene-based [] -synonym: "galactoglycoprotein" EXACT [] -synonym: "GALGP" EXACT [] -synonym: "leukocyte sialoglycoprotein" EXACT [] -synonym: "ly-48" EXACT [] -synonym: "lymphocyte antigen 48" EXACT [] -synonym: "sialophorin" EXACT [] -synonym: "SPN" EXACT PRO-short-label [PRO:DNx] -xref: PIRSF:PIRSF001994 -is_a: PR:000000001 ! protein - [Term] id: PR:000001889 name: CD14 molecule @@ -7299,21 +7306,6 @@ synonym: "CD45R" EXACT [] synonym: "PTPRC/iso:CD45R" EXACT PRO-short-label [PRO:DNx] is_a: PR:000001006 ! receptor-type tyrosine-protein phosphatase C -[Term] -id: PR:000050567 -name: protein-containing material entity -namespace: protein -def: "A material entity that minimally consists of a protein." [PRO:DAN] -comment: Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566). -synonym: "protein" NARROW [PRO:DAN] -synonym: "protein aggregate" NARROW [PRO:DAN] -synonym: "protein complex" NARROW [PRO:DAN] -synonym: "protein-containing complex" NARROW [PRO:DAN] -is_a: BFO:0000040 ! material entity -intersection_of: BFO:0000040 ! material entity -intersection_of: has_part PR:000000001 ! protein -relationship: has_part PR:000000001 ! protein - [Term] id: UBERON:0000000 name: processual entity @@ -7350,6 +7342,7 @@ xref: CALOHA:TS-2043 xref: EHDAA2:0001824 xref: EHDAA:500 xref: EMAPA:35955 +xref: FBbt:00005155 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: GAID:63 xref: HAO:0000930 xref: MA:0000017 @@ -7427,6 +7420,7 @@ synonym: "ducts" RELATED OMO:0003004 [XAO:0004000] synonym: "exocrine duct" NARROW [] synonym: "exocrine gland duct" NARROW [] xref: AAO:0011123 +xref: FBbt:00100314 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:30320 xref: galen:Duct xref: NCIT:C12948 @@ -7436,7 +7430,6 @@ xref: UMLS:C0687028 {source="ncithesaurus:Duct"} xref: Wikipedia:Duct_(anatomy) xref: XAO:0004000 xref: ZFA:0005171 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000063 ! organ subunit relationship: has_part UBERON:0034969 ! epithelial layer of duct relationship: RO:0000086 PATO:0002299 ! has quality tubular @@ -7473,6 +7466,7 @@ xref: BILA:0000003 xref: CARO:0000003 xref: EHDAA2:0003003 xref: EMAPA:0 +xref: FBbt:00007001 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:305751 xref: FMA:67135 xref: GAID:781 @@ -7575,7 +7569,6 @@ xref: EFO:0001272 xref: FBdv:00005369 xref: WBls:0000041 xref: XtroDO:0000084 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000092 ! post-embryonic stage relationship: preceded_by UBERON:0000111 ! organogenesis stage @@ -7602,7 +7595,6 @@ xref: WBls:0000003 xref: WBls:0000092 xref: WBls:0000102 xref: XAO:1000012 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage disjoint_from: UBERON:0000092 ! post-embryonic stage relationship: precedes UBERON:0000066 ! fully formed stage @@ -7618,7 +7610,6 @@ subset: common_anatomy synonym: "death" RELATED [] xref: XAO:0000437 xref: XtroDO:0000085 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: RO:0002229 UBERON:0000104 ! ends life cycle property_value: RO:0002175 NCBITaxon:33090 @@ -7659,7 +7650,6 @@ xref: OGES:000024 xref: WBls:0000022 xref: WBls:0000093 xref: WBls:0000103 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: preceded_by UBERON:0000068 ! embryo stage relationship: RO:0002082 GO:0009791 ! simultaneous with post-embryonic development @@ -7681,7 +7671,6 @@ xref: HsapDv:0000001 xref: MmusDv:0000001 xref: ncithesaurus:Life xref: OGES:000011 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000000 ! processual entity relationship: ends_with UBERON:0000071 ! death stage relationship: has_part UBERON:0000105 ! life cycle stage @@ -7745,7 +7734,6 @@ xref: VHOG:0000745 xref: Wikipedia:Zygote xref: XAO:1000001 xref: ZFS:0000001 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: RO:0002223 UBERON:0000104 ! starts life cycle @@ -7769,7 +7757,6 @@ xref: PdumDv:0000200 xref: Wikipedia:Cleavage_(embryo) xref: XAO:1000004 xref: ZFS:0000046 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage intersection_of: UBERON:0000105 ! life cycle stage intersection_of: RO:0002082 GO:0040016 ! simultaneous with embryonic cleavage @@ -7795,7 +7782,6 @@ xref: WBls:0000005 xref: Wikipedia:Blastula xref: XAO:1000003 xref: ZFS:0000045 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000107 ! cleavage stage @@ -7825,7 +7811,6 @@ xref: OGES:000019 xref: WBls:0000010 xref: XAO:1000005 xref: ZFS:0000047 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000108 {source="BILS"} ! blastula stage @@ -7842,7 +7827,6 @@ xref: BILS:0000110 xref: HsapDv:0000012 xref: MmusDv:0000017 xref: XAO:1000006 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000109 ! gastrula stage @@ -7864,7 +7848,6 @@ xref: MmusDv:0000018 xref: OGES:000005 xref: OGES:000032 xref: Wikipedia:Organogenesis -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: RO:0002082 GO:0048513 ! simultaneous with animal organ development @@ -7904,6 +7887,7 @@ xref: EFO:0000825 xref: EHDAA2:0001326 xref: EHDAA:542 xref: EMAPA:16262 +xref: FBbt:00003126 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:49184 xref: GAID:75 xref: galen:Mouth @@ -8010,6 +7994,7 @@ xref: CALOHA:TS-2101 xref: CARO:0000004 xref: EHDAA2:0003004 xref: EMAPA:35178 +xref: FBbt:00007019 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9669 xref: galen:BodySubstance xref: HAO:0000004 @@ -8044,6 +8029,7 @@ xref: AEO:0000005 xref: BILA:0000005 xref: CARO:0000005 xref: EHDAA2:0003005 +xref: FBbt:00007017 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:5897 xref: HAO:0000005 xref: NCIT:C94478 @@ -8071,12 +8057,12 @@ xref: AEO:0000006 xref: BILA:0000006 xref: CARO:0000006 xref: EHDAA2:0003006 +xref: FBbt:00007016 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67165 xref: HAO:0000006 xref: TAO:0001836 xref: TGMA:0001826 xref: VHOG:0001721 -is_a: BFO:0000040 ! material entity is_a: UBERON:0001062 ! anatomical entity disjoint_from: UBERON:0000466 ! immaterial anatomical entity property_value: RO:0002175 NCBITaxon:33090 @@ -8096,12 +8082,12 @@ xref: AEO:0000007 xref: BILA:0000007 xref: CARO:0000007 xref: EHDAA2:0003007 +xref: FBbt:00007015 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67112 xref: HAO:0000007 xref: TAO:0001835 xref: TGMA:0001827 xref: VHOG:0001727 -is_a: BFO:0000141 ! immaterial entity is_a: UBERON:0001062 ! anatomical entity property_value: RO:0002175 NCBITaxon:33090 property_value: RO:0002175 NCBITaxon:33208 @@ -8133,6 +8119,7 @@ xref: EHDAA2:0003011 xref: EHDAA:392 xref: EMAPA:16103 xref: EV:0100000 +xref: FBbt:00004856 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7149 xref: galen:AnatomicalSystem xref: HAO:0000011 @@ -8186,6 +8173,7 @@ xref: EHDAA2:0003191 xref: EHDAA:1 xref: EMAPA:25765 xref: EV:0100016 +xref: FBbt:00000001 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:256135 xref: galen:Organism xref: HAO:0000012 @@ -8229,6 +8217,7 @@ xref: CARO:0000032 xref: EFO:0000808 xref: EHDAA2:0003032 xref: EMAPA:36031 +xref: FBbt:00007009 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7153 xref: galen:BodyPart xref: HAO:0000032 @@ -8264,6 +8253,7 @@ xref: AEO:0000040 xref: BILA:0000040 xref: CARO:0000040 xref: EHDAA2:0003040 +xref: FBbt:00007013 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:63863 xref: HAO:0000040 xref: TAO:0000382 @@ -8283,6 +8273,7 @@ namespace: uberon def: "Anatomical group whose component anatomical structures lie in close proximity to each other." [FBbt:00007277] subset: common_anatomy subset: upper_level +xref: FBbt:00007277 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: VHOG:0001737 is_a: UBERON:0034923 ! disconnected anatomical group property_value: RO:0002175 NCBITaxon:33090 @@ -8308,6 +8299,7 @@ xref: CALOHA:TS-2119 xref: CARO:0000042 xref: EHDAA2:0003042 xref: EHDAA:46 +xref: FBbt:00005835 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:85537 xref: HAO:0000042 xref: NCIT:C34055 @@ -8343,6 +8335,7 @@ xref: CALOHA:TS-2090 xref: CARO:0000043 xref: EHDAA2:0003043 xref: EMAPA:35868 +xref: FBbt:00007003 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9637 xref: galen:Tissue xref: HAO:0000043 @@ -8377,6 +8370,7 @@ xref: AEO:0000055 xref: BILA:0000055 xref: CARO:0000055 xref: EHDAA2:0003055 +xref: FBbt:00007010 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: HAO:0000055 xref: TAO:0001488 xref: TGMA:0001847 @@ -8409,6 +8403,7 @@ xref: CALOHA:TS-0288 xref: CARO:0000066 xref: EHDAA2:0003066 xref: EMAPA:32738 +xref: FBbt:00007005 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9639 xref: GAID:402 xref: HAO:0000066 @@ -8422,7 +8417,6 @@ xref: VHOG:0000387 xref: Wikipedia:Epithelium xref: XAO:0003045 xref: ZFA:0001486 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000479 ! tissue intersection_of: UBERON:0000479 ! tissue intersection_of: RO:0002473 CL:0000066 ! composed primarily of epithelial cell @@ -8508,6 +8502,7 @@ xref: EHDAA2:0000002 xref: EHDAA2_RETIRED:0003236 xref: EHDAA:38 xref: EMAPA:16039 +xref: FBbt:00000052 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69068 xref: GAID:963 xref: http://neurolex.org/wiki/Category\:Embryonic_organism @@ -8548,6 +8543,7 @@ xref: AAO:0000480 xref: BILA:0000035 xref: BTO:0000556 xref: EMAPA:36033 +xref: FBbt:00000110 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69069 xref: GAID:1303 xref: MESH:D005855 @@ -8581,6 +8577,7 @@ xref: EFO:0000414 xref: EHDAA2:0000428 xref: EMAPA:16069 xref: EV:0100003 +xref: FBbt:00000111 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69070 xref: GAID:1304 xref: MAT:0000155 @@ -8618,6 +8615,7 @@ xref: EFO:0002545 xref: EHDAA2:0000436 xref: EMAPA:16062 xref: EV:0100005 +xref: FBbt:00000125 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69071 xref: GAID:1305 xref: MAT:0000175 @@ -8661,6 +8659,7 @@ xref: EHDAA:160 xref: EHDAA:183 xref: EMAPA:16083 xref: EV:0100006 +xref: FBbt:00000126 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69072 xref: GAID:522 xref: MAT:0000174 @@ -8700,6 +8699,7 @@ synonym: "stomodeal-hypophyseal primordium" BROAD [XAO:0000269] xref: BTO:0004224 xref: EHDAA2:0001929 xref: EMAPA:16263 +xref: FBbt:00000439 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:295846 xref: NCIT:C34306 xref: TAO:0001290 @@ -8733,6 +8733,7 @@ xref: EFO:0002969 xref: EHDAA2:0002224 xref: EMAPA:35306 xref: EV:0100128 +xref: FBbt:00005068 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9668 xref: GAID:439 xref: MA:0000012 @@ -8777,6 +8778,7 @@ xref: BTO:0000439 xref: CALOHA:TS-0309 xref: EFO:0000827 xref: EV:0100336 +xref: FBbt:00005162 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: GAID:69 xref: MAT:0000140 xref: MESH:D005123 @@ -8849,6 +8851,7 @@ xref: BILA:0000082 xref: BTO:0000058 xref: CALOHA:TS-1293 xref: EFO:0000793 +xref: FBbt:00005055 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7152 xref: GAID:278 xref: galen:DigestiveSystem @@ -8967,6 +8970,7 @@ xref: EHDAA2:0001246 xref: EHDAA:826 xref: EMAPA:16469 xref: EV:0100162 +xref: FBbt:00005093 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7157 xref: GAID:466 xref: MA:0000016 @@ -9028,6 +9032,7 @@ xref: EHDAA:828 xref: EMAPA:16470 xref: EMAPA:16754 xref: EV:0100163 +xref: FBbt:00005094 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:55675 xref: GAID:570 xref: MA:0000167 @@ -9073,6 +9078,7 @@ xref: BILA:0000099 xref: EFO:0000805 xref: EHDAA2:0003094 xref: EMAPA:16192 +xref: FBbt:00007692 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:75259 xref: MA:0002442 xref: MAT:0000031 @@ -9142,6 +9148,7 @@ xref: BILA:0000000 xref: BIRNLEX:6 xref: CARO:0000000 xref: EHDAA2:0002229 +xref: FBbt:10000000 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:62955 xref: HAO:0000000 xref: MA:0000001 @@ -9349,6 +9356,7 @@ xref: BTO:0000545 xref: EHDAA2:0000726 xref: EHDAA:518 xref: EMAPA:16247 +xref: FBbt:00003125 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45615 xref: galen:AlimentaryTract xref: MA:0000917 @@ -9439,6 +9447,7 @@ xref: BILA:0000034 xref: BTO:0000174 xref: CALOHA:TS-2110 xref: EFO:0000461 +xref: FBbt:00004208 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69067 xref: GAID:407 xref: MESH:D004628 @@ -9671,7 +9680,6 @@ xref: NCIT:C12957 xref: UMLS:C1516995 {source="ncithesaurus:Exocrine_System"} xref: Wikipedia:Exocrine_gland xref: WikipediaCategory:Exocrine_system -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system @@ -9743,6 +9751,7 @@ xref: EHDAA:1498 xref: EHDAA:255 xref: EMAPA:16073 xref: EV:0100004 +xref: FBbt:00001057 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:87657 xref: MAT:0000176 xref: MIAA:0000176 @@ -9780,7 +9789,6 @@ xref: NCIT:C12712 xref: SCTID:115976003 xref: UMLS:C0015282 {source="ncithesaurus:Exocrine_Gland"} xref: Wikipedia:Exocrine_gland -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0002530 ! gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0002330 ! exocrine system @@ -10062,6 +10070,7 @@ xref: EFO:0000797 xref: EHDAA2:0003096 xref: EHDAA:2161 xref: EMAPA:18425 +xref: FBbt:00100317 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7146 xref: FMA:86294 xref: galen:Gland @@ -10425,6 +10434,7 @@ def: "Epithelial tubes transport gases, liquids and cells from one site to anoth synonym: "epithelial or endothelial tube" EXACT [] xref: AEO:0000114 xref: EHDAA2:0003114 +xref: FBbt:00007474 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000025 ! tube is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium @@ -10588,6 +10598,7 @@ synonym: "trilaminar disk" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar germ" RELATED [https://orcid.org/0000-0002-6601-2165] xref: BILA:0000060 xref: BTO:0001403 +xref: FBbt:00005317 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:293108 xref: GAID:1302 xref: MESH:D005775 @@ -10685,6 +10696,7 @@ namespace: uberon def: "Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "joint" NARROW [] +xref: FBbt:00005811 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0034921 ! multi organ part structure relationship: part_of UBERON:0004770 ! articular system @@ -10700,6 +10712,7 @@ synonym: "gut section" RELATED [FBbt:00100315] synonym: "intestinal tract" RELATED [] synonym: "segment of intestinal tract" RELATED [] synonym: "subdivision of alimentary system" RELATED [FMA:71131] +xref: FBbt:00100315 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:71131 is_a: UBERON:0013522 ! subdivision of tube intersection_of: UBERON:0013522 ! subdivision of tube @@ -10835,6 +10848,7 @@ name: photoreceptor array namespace: uberon def: "An array of photoreceptors and any supporting cells found in an eye." [https://orcid.org/0000-0002-6601-2165] synonym: "light-sensitive tissue" EXACT [] +xref: FBbt:00004200 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: part_of UBERON:0000970 ! eye @@ -10854,6 +10868,7 @@ synonym: "developmental tissue" RELATED [MIAA:0000019] xref: AEO:0000125 xref: CALOHA:TS-2122 xref: EHDAA2:0003125 +xref: FBbt:00007006 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:292313 xref: MIAA:0000019 is_a: UBERON:0000465 ! material anatomical entity @@ -10892,7 +10907,6 @@ xref: NCIT:C13191 xref: SCTID:68989006 xref: UMLS:C0004799 {source="ncithesaurus:Basement_Membrane"} xref: Wikipedia:Basement_membrane -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0005764 {source="FMA"} ! acellular membrane relationship: adjacent_to CL:0000066 ! epithelial cell relationship: has_part GO:0005587 ! collagen type IV trimer @@ -11174,7 +11188,6 @@ name: regular connective tissue namespace: uberon def: "Connective tissue, which consists of fibroblasts, the intercellular matrix of which contains a regular network of collagen and elastic fiber bundles. Examples: bone (tissue), cartilage (tissue), dense regular connective tissue." [FMA:20103] xref: FMA:20103 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0002384 {source="FMA"} ! connective tissue disjoint_from: UBERON:0011821 ! irregular connective tissue relationship: has_part CL:0000057 ! fibroblast @@ -11240,6 +11253,7 @@ subset: common_anatomy subset: upper_level synonym: "multicellular structure" EXACT [FBbt:00100313] xref: CARO:0010000 +xref: FBbt:00100313 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: RO:0000086 PATO:0001993 ! has quality multicellular @@ -11309,6 +11323,7 @@ def: "A subdivision of an anatomical system." [http://orcid.org/0000-0002-6601-2 subset: common_anatomy subset: human_reference_atlas subset: upper_level +xref: FBbt:00007330 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67509 xref: SCTID:91690000 is_a: UBERON:0010000 {source="FBbt"} ! multicellular anatomical structure @@ -11366,7 +11381,6 @@ xref: AAO:0000121 xref: NCIT:C32450 xref: UMLS:C1511770 {source="ncithesaurus:Dense_Connective_Tissue"} xref: Wikipedia:Dense_connective_tissue -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: RO:0002473 UBERON:0011860 ! composed primarily of collection of collagen fibrils @@ -11381,7 +11395,6 @@ xref: FMA:63212 xref: MESH:D024022 xref: NCIT:C32339 xref: NIF_Subcellular:sao7547390221 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000476 {source="ZFA"} ! acellular anatomical structure relationship: RO:0002473 GO:0005581 ! composed primarily of collagen trimer relationship: RO:0002473 GO:0098643 ! composed primarily of banded collagen fibril @@ -11536,6 +11549,7 @@ name: non-connected functional system namespace: uberon def: "An anatomical group whose component structures share a common function." [AEO:0000093, AEO:JB, FBbt:00007278, FBC:DOS] xref: AEO:0000093 +xref: FBbt:00007278 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0034923 ! disconnected anatomical group [Term] @@ -11688,6 +11702,7 @@ namespace: uberon def: "Material anatomical entity consisting of multiple anatomical structures that are not connected to each other." [CARO:0020000] subset: common_anatomy xref: CARO:0020000 +xref: FBbt:00007276 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000465 {source="CARO"} ! material anatomical entity relationship: has_component UBERON:0000061 {minCardinality="2"} ! anatomical structure relationship: RO:0000086 PATO:0010001 ! has quality disconnected @@ -11787,15 +11802,6 @@ is_functional: true is_a: RO:0002314 ! characteristic of part of inverse_of: bearer_of ! bearer of -[Typedef] -id: RO:0000079 -name: function of -def: "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -property_value: IAO:0000116 "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." xsd:string -is_a: RO:0000052 ! characteristic of -inverse_of: RO:0000085 ! has function - [Typedef] id: RO:0000080 name: quality of @@ -11805,23 +11811,6 @@ property_value: IAO:0000116 "A quality inheres in its bearer at all times for wh is_a: RO:0000052 ! characteristic of inverse_of: RO:0000086 ! has quality -[Typedef] -id: RO:0000081 -name: role of -def: "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -property_value: IAO:0000116 "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." xsd:string -is_a: RO:0000052 ! characteristic of -inverse_of: RO:0000087 ! has role - -[Typedef] -id: RO:0000085 -name: has function -def: "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" [] -property_value: IAO:0000116 "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." xsd:string -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of - [Typedef] id: RO:0000086 name: has quality @@ -11829,30 +11818,6 @@ def: "a relation between an independent continuant (the bearer) and a quality, i property_value: IAO:0000116 "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." xsd:string is_a: bearer_of ! bearer of -[Typedef] -id: RO:0000087 -name: has role -def: "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" [] -property_value: IAO:0000116 "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." xsd:string -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of - -[Typedef] -id: RO:0000091 -name: has disposition -def: "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" [] -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of -inverse_of: RO:0000092 ! disposition of - -[Typedef] -id: RO:0000092 -name: disposition of -def: "inverse of has disposition" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -subset: RO:0002259 -is_a: RO:0000052 ! characteristic of - [Typedef] id: RO:0001000 name: derives from @@ -11884,8 +11849,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: IAO:0000116 "Location as a relation between instances: The primitive instance-level relation c located_in r at t reflects the fact that each continuant is at any given time associated with exactly one spatial region, namely its exact location. Following we can use this relation to define a further instance-level location relation - not between a continuant and the region which it exactly occupies, but rather between one continuant and another. c is located in c1, in this sense, whenever the spatial region occupied by c is part_of the spatial region occupied by c1. Note that this relation comprehends both the relation of exact location between one continuant and another which obtains when r and r1 are identical (for example, when a portion of fluid exactly fills a cavity), as well as those sorts of inexact location relations which obtain, for example, between brain and head or between ovum and uterus" xsd:string property_value: IAO:0000116 "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" xsd:string property_value: seeAlso "https://wiki.geneontology.org/Located_in" xsd:anyURI -domain: BFO:0000004 {IAO:0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant -range: BFO:0000004 {IAO:0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant is_transitive: true transitive_over: part_of ! part of @@ -11904,8 +11867,6 @@ name: has 2D boundary def: "a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity" [] property_value: IAO:0000116 "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." xsd:string property_value: IAO:0000116 "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." xsd:string -domain: BFO:0000040 ! material entity -range: BFO:0000141 ! immaterial entity is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -11920,34 +11881,6 @@ name: has synaptic terminal of is_a: overlaps ! overlaps inverse_of: RO:0002130 ! has synaptic terminal in -[Typedef] -id: RO:0002015 -name: has positive regulatory component activity -def: "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." [] -comment: By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'. -is_a: has_regulatory_component_activity ! has regulatory component activity -is_a: positively_regulated_by ! positively regulated by -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:31:17Z - -[Typedef] -id: RO:0002017 -name: has component activity -comment: A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B. -is_a: RO:0002018 ! has component process -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:44:33Z - -[Typedef] -id: RO:0002018 -name: has component process -def: "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." [] -domain: BFO:0000015 ! process -range: BFO:0000015 ! process -is_a: has_component ! has component -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:49:21Z - [Typedef] id: RO:0002021 name: occurs across @@ -11956,43 +11889,6 @@ is_a: RO:0002479 ! has part that occurs in created_by: https://orcid.org/0000-0002-7073-9172 creation_date: 2017-07-20T17:19:37Z -[Typedef] -id: RO:0002022 -name: directly regulated by -comment: Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. {xref="https://orcid.org/0000-0002-7073-9172"} -is_a: regulated_by ! regulated by -inverse_of: directly_regulates ! directly regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:24Z - -[Typedef] -id: RO:0002023 -name: directly negatively regulated by -def: "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1." [https://orcid.org/0000-0002-7073-9172] -is_a: RO:0002022 ! directly regulated by -inverse_of: directly_negatively_regulates ! directly negatively regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:38Z - -[Typedef] -id: RO:0002024 -name: directly positively regulated by -def: "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1." [https://orcid.org/0000-0002-7073-9172] -is_a: RO:0002022 ! directly regulated by -inverse_of: directly_positively_regulates ! directly positively regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:47Z - -[Typedef] -id: RO:0002025 -name: has effector activity -def: "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity." [https://orcid.org/0000-0002-7073-9172] -comment: This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations. -is_functional: true -is_a: RO:0002017 ! has component activity -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-22T14:14:36Z - [Typedef] id: RO:0002081 name: before or simultaneous with @@ -12116,8 +12012,6 @@ id: RO:0002150 name: continuous with def: "X continuous_with Y if and only if X and Y share a fiat boundary." [] property_value: seeAlso "FMA:85972" xsd:string -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_symmetric: true is_a: RO:0002323 ! mereotopologically related to @@ -12180,7 +12074,6 @@ name: connects def: "c connects a if and only if there exist some b such that a and b are similar parts of the same system, and c connects b, specifically, c connects a with b. When one structure connects two others it unites some aspect of the function or role they play within the system." [] property_value: seeAlso "https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern" xsd:anyURI property_value: seeAlso "https://github.com/obophenotype/uberon/wiki/Modeling-articulations-Design-Pattern" xsd:anyURI -domain: BFO:0000004 ! independent continuant is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -12211,8 +12104,6 @@ id: RO:0002202 name: develops from def: "x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y" [] comment: This is the transitive form of the develops from relation -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_transitive: true is_a: RO:0002254 ! has developmental contribution from is_a: RO:0002258 ! developmentally preceded by @@ -12232,7 +12123,6 @@ is_a: RO:0002388 ! has potential to directly develop into id: RO:0002206 name: expressed in def: "x expressed in y if and only if there is a gene expression process (GO:0010467) that occurs in y, and one of the following holds: (i) x is a gene, and x is transcribed into a transcript as part of the gene expression process (ii) x is a transcript, and the transcription of x is part of the gene expression process (iii) x is a mature gene product such as a protein, and x was translated or otherwise processes from a transcript that was transcribed as part of this gene expression process" [] -domain: BFO:0000002 ! continuant range: UBERON:0000465 ! material anatomical entity is_a: RO:0002330 ! genomically related to inverse_of: RO:0002292 ! expresses @@ -12273,8 +12163,6 @@ id: RO:0002222 name: temporally related to comment: A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. subset: ro-eco -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent [Typedef] id: RO:0002223 @@ -12366,8 +12254,6 @@ name: developmentally preceded by def: "Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p" [] comment: This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from property_value: IAO:0000116 "false" xsd:boolean -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant is_a: RO:0002324 ! developmentally related to inverse_of: RO:0002286 ! developmentally succeeded by @@ -12377,7 +12263,6 @@ name: acts upstream of def: "c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes." [] subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of -holds_over_chain: RO:0002327 causally_upstream_of is_a: RO:0002264 ! acts upstream of or within [Typedef] @@ -12387,7 +12272,6 @@ def: "c acts upstream of or within p if c is enables f, and f is causally upstre subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term synonym: "affects" RELATED [] property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of_or_within is_a: RO:0002500 ! causal agent in process [Typedef] @@ -12439,17 +12323,6 @@ id: RO:0002324 name: developmentally related to def: "A relationship that holds between entities participating in some developmental process (GO:0032502)" [] -[Typedef] -id: RO:0002327 -name: enables -def: "c enables p iff c is capable of p and c acts to execute p." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Enables" xsd:anyURI -is_a: capable_of ! capable of -inverse_of: RO:0002333 ! enabled by -transitive_over: has_part ! has part -transitive_over: RO:0002017 ! has component activity - [Typedef] id: RO:0002328 name: functionally related to @@ -12465,34 +12338,11 @@ is_a: RO:0002328 ! functionally related to id: RO:0002330 name: genomically related to def: "holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts." [] -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant - -[Typedef] -id: RO:0002331 -name: involved in -def: "c involved_in p if and only if c enables some process p', and p' is part of p" [] -property_value: seeAlso "https://wiki.geneontology.org/Involved_in" xsd:anyURI -holds_over_chain: RO:0002327 part_of -is_a: participates_in ! participates in -is_a: RO:0002431 ! involved in or involved in regulation of -transitive_over: part_of ! part of - -[Typedef] -id: RO:0002333 -name: enabled by -def: "inverse of enables" [] -subset: http://purl.obolibrary.org/obo/valid_for_gocam -property_value: seeAlso "https://wiki.geneontology.org/Enabled_by" xsd:anyURI -is_a: has_participant ! has participant -is_a: RO:0002328 ! functionally related to [Typedef] id: RO:0002337 name: related via localization to def: "A relationship that holds via some process of localization" [] -domain: BFO:0000015 ! process -range: BFO:0000002 ! continuant [Typedef] id: RO:0002350 @@ -12559,8 +12409,6 @@ name: in branching relationship with def: "A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network." [] property_value: seeAlso http://purl.obolibrary.org/obo/ro/docs/branching_part_of.png property_value: seeAlso "https://github.com/obophenotype/uberon/issues/170" xsd:anyURI -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -12622,31 +12470,6 @@ name: has potential to directly develop into def: "x has potential to directly develop into y iff x directly develops into y or x is capable of directly developing into y" [] is_a: RO:0002387 ! has potential to develop into -[Typedef] -id: RO:0002407 -name: indirectly positively regulates -def: "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." [] -property_value: seeAlso "https://wiki.geneontology.org/Indirectly_positively_regulates" xsd:anyURI -holds_over_chain: directly_positively_regulates directly_positively_regulates -holds_over_chain: directly_positively_regulates RO:0002407 -holds_over_chain: RO:0002409 RO:0002409 -is_transitive: true -is_a: positively_regulates ! positively regulates -is_a: RO:0012012 ! indirectly regulates -transitive_over: directly_positively_regulates ! directly positively regulates - -[Typedef] -id: RO:0002409 -name: indirectly negatively regulates -def: "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." [] -property_value: seeAlso "https://wiki.geneontology.org/Indirectly_negatively_regulates" xsd:anyURI -holds_over_chain: directly_negatively_regulates directly_negatively_regulates -holds_over_chain: directly_negatively_regulates RO:0002409 -is_transitive: true -is_a: negatively_regulates ! negatively regulates -is_a: RO:0012012 ! indirectly regulates -transitive_over: directly_negatively_regulates ! directly negatively regulates - [Typedef] id: RO:0002410 name: causally related to @@ -12657,28 +12480,9 @@ property_value: IAO:0000116 "This branch of the ontology deals with causal relat id: RO:0002428 name: involved in regulation of def: "c involved in regulation of p if c is involved in some p' and p' regulates some p" [] -holds_over_chain: RO:0002327 regulates -holds_over_chain: RO:0002331 regulates is_a: RO:0002263 ! acts upstream of is_a: RO:0002431 ! involved in or involved in regulation of -[Typedef] -id: RO:0002429 -name: involved in positive regulation of -def: "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" [] -holds_over_chain: RO:0002327 positively_regulates -holds_over_chain: RO:0002331 positively_regulates -is_a: RO:0002428 ! involved in regulation of - -[Typedef] -id: RO:0002430 -name: involved in negative regulation of -def: "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" [] -property_value: RO:0004050 RO:0002428 -holds_over_chain: RO:0002327 negatively_regulates -holds_over_chain: RO:0002331 negatively_regulates -is_a: RO:0002428 ! involved in regulation of - [Typedef] id: RO:0002431 name: involved in or involved in regulation of @@ -12688,87 +12492,17 @@ is_a: RO:0002264 ! acts upstream of or within is_a: RO:0002328 ! functionally related to is_a: RO:0002500 ! causal agent in process -[Typedef] -id: RO:0002432 -name: is active in -def: "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure." [https://orcid.org/0000-0002-6601-2165, https://orcid.org/0000-0002-7073-9172] -synonym: "enables activity in" EXACT [] -property_value: seeAlso "https://wiki.geneontology.org/Is_active_in" xsd:anyURI -is_a: overlaps ! overlaps -is_a: RO:0002328 ! functionally related to - [Typedef] id: RO:0002433 name: contributes to morphology of def: "p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm." [] is_a: overlaps ! overlaps -[Typedef] -id: RO:0002434 -name: interacts with -def: "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." [] -subset: ro-eco -synonym: "in pairwise interaction with" EXACT [] -property_value: IAO:0000116 "Considering relabeling as 'pairwise interacts with'" xsd:anyURI -property_value: IAO:0000116 "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." xsd:string -property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_symmetric: true - -[Typedef] -id: RO:0002436 -name: molecularly interacts with -def: "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." [] -property_value: seeAlso ECO:0000353 -is_symmetric: true -is_a: RO:0002434 ! interacts with - -[Typedef] -id: RO:0002447 -name: phosphorylates -property_value: IAO:0000116 "Axiomatization to GO to be added later" xsd:string -is_a: RO:0002436 ! molecularly interacts with - -[Typedef] -id: RO:0002448 -name: directly regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." [] -synonym: "molecularly controls" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002436 ! molecularly interacts with -is_a: RO:0011002 ! regulates activity of - -[Typedef] -id: RO:0002449 -name: directly negatively regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." [] -synonym: "molecularly decreases activity of" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002448 ! directly regulates activity of - -[Typedef] -id: RO:0002450 -name: directly positively regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." [] -synonym: "molecularly increases activity of" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002448 ! directly regulates activity of - -[Typedef] -id: RO:0002464 -name: helper property (not for use in curation) - [Typedef] id: RO:0002473 name: composed primarily of def: "x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y." [] subset: ro-eco -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: has_part ! has part [Typedef] @@ -12776,13 +12510,6 @@ id: RO:0002479 name: has part that occurs in def: "p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c." [] subset: ro-eco -domain: BFO:0000003 ! occurrent -range: BFO:0000004 ! independent continuant - -[Typedef] -id: RO:0002481 -name: is kinase activity -is_a: RO:0002564 ! molecular interaction relation helper property [Typedef] id: RO:0002485 @@ -12800,8 +12527,6 @@ is_a: RO:0002170 ! connected to [Typedef] id: RO:0002487 name: relation between physical entity and a process or stage -domain: BFO:0000004 ! independent continuant -range: BFO:0000003 ! occurrent [Typedef] id: RO:0002488 @@ -12898,8 +12623,6 @@ inverse_of: process_has_causal_agent ! process has causal agent id: RO:0002501 name: causal relation between processes def: "p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q." [] -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent is_a: RO:0002410 ! causally related to [Typedef] @@ -12907,14 +12630,6 @@ id: RO:0002502 name: depends on property_value: seeAlso BFO:0000169 -[Typedef] -id: RO:0002506 -name: causal relation between entities -property_value: IAO:0000116 "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" xsd:string -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant -is_a: RO:0002410 ! causally related to - [Typedef] id: RO:0002551 name: has skeleton @@ -12925,32 +12640,6 @@ is_a: has_part ! has part inverse_of: RO:0002576 ! skeleton of is_asymmetric: true -[Typedef] -id: RO:0002559 -name: causally influenced by -is_a: RO:0002506 ! causal relation between entities -inverse_of: RO:0002566 ! causally influences - -[Typedef] -id: RO:0002563 -name: interaction relation helper property -property_value: seeAlso http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29 -property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI -is_a: RO:0002464 ! helper property (not for use in curation) - -[Typedef] -id: RO:0002564 -name: molecular interaction relation helper property -is_a: RO:0002563 ! interaction relation helper property - -[Typedef] -id: RO:0002566 -name: causally influences -def: "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." [] -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant -is_a: RO:0002506 ! causal relation between entities - [Typedef] id: RO:0002567 name: biomechanically related to @@ -12980,8 +12669,6 @@ id: RO:0002570 name: conduit for def: "x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x." [] subset: ro-eco -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: overlaps ! overlaps [Typedef] @@ -12989,7 +12676,6 @@ id: RO:0002571 name: lumen of def: "x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull." [] subset: ro-eco -range: BFO:0000040 ! material entity is_a: part_of ! part of [Typedef] @@ -12997,7 +12683,6 @@ id: RO:0002572 name: luminal space of def: "s is luminal space of x iff s is lumen_of x and s is an immaterial entity" [] subset: ro-eco -domain: BFO:0000141 ! immaterial entity is_a: RO:0002571 ! lumen of [Typedef] @@ -13028,8 +12713,6 @@ id: RO:0002595 name: causal relation between material entity and a process def: "A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity." [] property_value: IAO:0000116 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string -domain: BFO:0000040 ! material entity -range: BFO:0000015 ! process is_a: RO:0002410 ! causally related to [Typedef] @@ -13053,61 +12736,6 @@ def: "Holds between c and p if and only if c is capable of some activity a, and holds_over_chain: capable_of positively_regulates is_a: RO:0002596 ! capable of regulating -[Typedef] -id: RO:0004031 -name: enables subfunction -def: "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." [] -holds_over_chain: RO:0002327 has_part -is_a: RO:0002328 ! functionally related to -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-25T23:20:13Z - -[Typedef] -id: RO:0004032 -name: acts upstream of or within, positive effect -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect" xsd:anyURI -holds_over_chain: RO:0002327 RO:0004047 -is_a: RO:0002264 ! acts upstream of or within -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:49:30Z - -[Typedef] -id: RO:0004033 -name: acts upstream of or within, negative effect -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: RO:0004050 RO:0002264 -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect" xsd:anyURI -holds_over_chain: RO:0002327 RO:0004046 -is_a: RO:0002264 ! acts upstream of or within -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:49:51Z - -[Typedef] -id: RO:0004034 -name: acts upstream of, positive effect -def: "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of,_positive_effect -is_a: RO:0002263 ! acts upstream of -is_a: RO:0004032 ! acts upstream of or within, positive effect -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:53:14Z - -[Typedef] -id: RO:0004035 -name: acts upstream of, negative effect -def: "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: RO:0004050 RO:0002263 -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of,_negative_effect -is_a: RO:0002263 ! acts upstream of -is_a: RO:0004033 ! acts upstream of or within, negative effect -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:53:22Z - [Typedef] id: RO:0004046 name: causally upstream of or within, negative effect @@ -13125,14 +12753,6 @@ is_a: causally_upstream_of_or_within ! causally upstream of or within created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-03-13T23:55:19Z -[Typedef] -id: RO:0011002 -name: regulates activity of -def: "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002566 ! causally influences - [Typedef] id: RO:0012000 name: has small molecule regulator @@ -13160,23 +12780,6 @@ is_a: RO:0012004 ! is small molecule regulator of created_by: https://orcid.org/0000-0003-1813-6857 creation_date: 2020-06-24T13:15:26Z -[Typedef] -id: RO:0012011 -name: indirectly causally upstream of -def: "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." [] -is_a: causally_upstream_of ! causally upstream of -created_by: https://orcid.org/0000-0003-1813-6857 -creation_date: 2022-09-26T06:07:17Z - -[Typedef] -id: RO:0012012 -name: indirectly regulates -def: "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." [] -is_a: regulates ! regulates -is_a: RO:0012011 ! indirectly causally upstream of -created_by: https://orcid.org/0000-0003-1813-6857 -creation_date: 2022-09-26T06:08:01Z - [Typedef] id: RO:0013001 name: has synaptic IO in region @@ -13258,6 +12861,8 @@ id: RO:0017001 name: device utilizes material def: "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y." [] synonym: "utilizes" BROAD [] +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-9625-1899 +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-2620-0345 holds_over_chain: capable_of has_input creation_date: 2021-11-08T12:00:00Z @@ -13284,8 +12889,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002220 property_value: IAO:0000116 "This relation acts as a join point with BSPO" xsd:string -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_a: RO:0002163 ! spatially disjoint from [Typedef] @@ -13304,7 +12907,6 @@ namespace: external def: "Inverse of characteristic_of" [] xref: RO:0000053 property_value: IAO:0000116 "A bearer can have many dependents, and its dependents can exist for different periods of time, but none of its dependents can exist when the bearer does not exist." xsd:string -range: BFO:0000020 ! specifically dependent continuant is_inverse_functional: true [Typedef] @@ -13315,7 +12917,6 @@ def: "X outer_layer_of Y iff:\n. X :continuant that bearer_of some PATO:laminar\ comment: A relationship that applies between a continuant and its outer, bounding layer. Examples include the relationship between a multicellular organism and its integument, between an animal cell and its plasma membrane, and between a membrane bound organelle and its outer/bounding membrane. subset: ro-eco xref: RO:0002007 -range: BFO:0000040 ! material entity is_a: part_of ! part of [Typedef] @@ -13325,8 +12926,6 @@ namespace: external def: "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. " [] subset: ro-eco xref: RO:0002215 -domain: BFO:0000004 ! independent continuant -range: BFO:0000015 ! process is_a: capable_of_part_of ! capable of part of [Typedef] @@ -13425,45 +13024,6 @@ id: channels_into name: channels_into namespace: uberon -[Typedef] -id: directly_negatively_regulates -name: directly negatively regulates -namespace: external -def: "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002630 -property_value: RO:0004050 RO:0002578 -property_value: seeAlso "https://wiki.geneontology.org/Directly_negatively_regulates" xsd:anyURI -is_a: directly_regulates ! directly regulates -is_a: negatively_regulates ! negatively regulates - -[Typedef] -id: directly_positively_regulates -name: directly positively regulates -namespace: external -def: "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002629 -property_value: seeAlso "https://wiki.geneontology.org/Directly_positively_regulates" xsd:anyURI -is_a: directly_regulates ! directly regulates -is_a: positively_regulates ! positively regulates - -[Typedef] -id: directly_regulates -name: directly regulates -namespace: external -def: "p directly regulates q iff p is immediately causally upstream of q and p regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002578 -is_a: immediately_causally_upstream_of ! immediately causally upstream of -is_a: regulates ! regulates - [Typedef] id: distally_connected_to name: distally connected to @@ -13515,8 +13075,6 @@ namespace: external def: "x 'has end location' y if and only if there exists some process z such that x 'ends with' z and z 'occurs in' y" [] subset: ro-eco xref: RO:0002232 -domain: BFO:0000015 ! process -range: BFO:0000004 ! independent continuant holds_over_chain: ends_with occurs_in is_a: RO:0002479 ! has part that occurs in @@ -13539,7 +13097,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_gocam subset: ro-eco xref: RO:0002233 property_value: seeAlso "https://wiki.geneontology.org/Has_input" xsd:anyURI -domain: BFO:0000015 ! process holds_over_chain: starts_with has_input is_a: has_participant ! has participant inverse_of: RO:0002352 ! input of @@ -13552,18 +13109,6 @@ property_value: term_tracker_item https://github.com/obophenotype/cell-ontology/ is_obsolete: true replaced_by: RO:0015016 -[Typedef] -id: has_negative_regulatory_component_activity -name: has negative regulatory component activity -namespace: external -def: "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." [] -comment: By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'. -xref: RO:0002014 -is_a: has_regulatory_component_activity ! has regulatory component activity -is_a: negatively_regulated_by ! negatively regulated by -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:31:01Z - [Typedef] id: has_ontology_root_term name: has ontology root term @@ -13612,8 +13157,6 @@ namespace: external def: "a relation between a process and a continuant, in which the continuant is somehow involved in the process" [] xref: RO:0000057 property_value: IAO:0000116 "Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time." xsd:string -domain: BFO:0000003 ! occurrent -range: BFO:0000002 ! continuant holds_over_chain: has_part has_participant [Typedef] @@ -13651,17 +13194,6 @@ is_a: has_primary_input_or_output ! has primary input or output created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-12-13T11:26:32Z -[Typedef] -id: has_regulatory_component_activity -name: has regulatory component activity -namespace: external -def: "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." [] -xref: RO:0002013 -is_a: regulated_by ! regulated by -is_a: RO:0002017 ! has component activity -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:30:46Z - [Typedef] id: has_small_molecule_activator name: has small molecule activator @@ -13680,8 +13212,6 @@ namespace: external def: "x 'has starts location' y if and only if there exists some process z such that x 'starts with' z and z 'occurs in' y" [] subset: ro-eco xref: RO:0002231 -domain: BFO:0000015 ! process -range: BFO:0000004 ! independent continuant holds_over_chain: starts_with occurs_in is_a: RO:0002479 ! has part that occurs in @@ -13709,24 +13239,6 @@ xref: RO:0002338 is_a: results_in_transport_to_from_or_in ! results in transport to from or in transitive_over: part_of ! part of -[Typedef] -id: immediately_causally_downstream_of -name: immediately causally downstream of -namespace: external -xref: RO:0002405 -is_a: causally_downstream_of ! causally downstream of -is_a: immediately_preceded_by ! immediately preceded by -inverse_of: immediately_causally_upstream_of ! immediately causally upstream of - -[Typedef] -id: immediately_causally_upstream_of -name: immediately causally upstream of -namespace: external -def: "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." [] -xref: RO:0002412 -is_a: causally_upstream_of ! causally upstream of -is_a: immediately_precedes ! immediately precedes - [Typedef] id: immediately_preceded_by name: immediately preceded by @@ -13785,17 +13297,6 @@ is_a: causally_upstream_of,_negative_effect ! causally upstream of, negative eff is_a: regulates ! regulates inverse_of: negatively_regulated_by ! negatively regulated by -[Typedef] -id: negatively_regulates_characteristic -name: negatively regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." [] -xref: RO:0019002 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -holds_over_chain: negatively_regulates positively_regulates_characteristic -holds_over_chain: positively_regulates negatively_regulates_characteristic -is_a: regulates_characteristic ! regulates characteristic - [Typedef] id: occurs_in name: occurs in @@ -13807,8 +13308,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: BFO:0000066 property_value: seeAlso "https://wiki.geneontology.org/Occurs_in" xsd:anyURI -domain: BFO:0000003 ! occurrent -range: BFO:0000004 ! independent continuant holds_over_chain: part_of occurs_in inverse_of: BFO:0000067 ! contains process transitive_over: part_of ! part of @@ -13869,8 +13368,6 @@ name: participates in namespace: external def: "a relation between a continuant and a process, in which the continuant is somehow involved in the process" [] xref: RO:0000056 -domain: BFO:0000002 ! continuant -range: BFO:0000003 ! occurrent inverse_of: has_participant ! has participant [Typedef] @@ -13898,16 +13395,6 @@ is_a: causally_upstream_of,_positive_effect ! causally upstream of, positive eff is_a: regulates ! regulates inverse_of: positively_regulated_by ! positively regulated by -[Typedef] -id: positively_regulates_characteristic -name: positively regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." [] -xref: RO:0019001 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -holds_over_chain: positively_regulates positively_regulates_characteristic -is_a: regulates_characteristic ! regulates characteristic - [Typedef] id: posteriorly_connected_to name: posteriorly connected to @@ -13923,8 +13410,6 @@ def: "x is preceded by y if and only if the time point at which y ends is before subset: ro-eco xref: BFO:0000062 property_value: IAO:0000116 "An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other." xsd:string -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent holds_over_chain: part_of preceded_by is_transitive: true is_a: RO:0002086 ! ends after @@ -13937,8 +13422,6 @@ namespace: external def: "x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." [] subset: ro-eco xref: BFO:0000063 -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent holds_over_chain: part_of precedes is_transitive: true is_a: RO:0002222 ! temporally related to @@ -13958,8 +13441,6 @@ namespace: external def: "a produced_by b iff some process that occurs_in b has_output a." [] subset: ro-eco xref: RO:0003001 -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity [Typedef] id: produces @@ -13969,8 +13450,6 @@ def: "a produces b if some process that occurs_in a has_output b, where a and b comment: Note that this definition doesn't quite distinguish the output of a transformation process from a production process, which is related to the identity/granularity issue. subset: ro-eco xref: RO:0003000 -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity inverse_of: produced_by ! produced by [Typedef] @@ -13993,8 +13472,6 @@ namespace: external def: "inverse of regulates" [] subset: RO:0002259 xref: RO:0002334 -domain: BFO:0000015 ! process -range: BFO:0000015 ! process is_transitive: true is_a: causally_downstream_of_or_within ! causally downstream of or within @@ -14007,26 +13484,10 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002211 -domain: BFO:0000015 ! process -range: BFO:0000015 ! process -holds_over_chain: directly_regulates directly_regulates holds_over_chain: ends_with regulates is_transitive: true is_a: causally_upstream_of ! causally upstream of inverse_of: regulated_by ! regulated by -transitive_over: RO:0002025 ! has effector activity - -[Typedef] -id: regulates_characteristic -name: regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." [] -xref: RO:0019000 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -domain: BFO:0000015 ! process -range: PATO:0000001 ! quality -holds_over_chain: regulates regulates_characteristic -is_a: RO:0002410 ! causally related to [Typedef] id: regulates_levels_of @@ -14034,8 +13495,6 @@ name: regulates levels of namespace: external def: "p regulates levels of c if p regulates some amount (PATO:0000070) of c" [] xref: RO:0002332 -domain: BFO:0000015 ! process -range: BFO:0000040 ! material entity is_a: RO:0002328 ! functionally related to [Typedef] diff --git a/src/ontology/subsets/general_cell_types_upper_slim.owl b/src/ontology/subsets/general_cell_types_upper_slim.owl index 8532201d2..7d5d68045 100644 --- a/src/ontology/subsets/general_cell_types_upper_slim.owl +++ b/src/ontology/subsets/general_cell_types_upper_slim.owl @@ -14,8 +14,7 @@ xmlns:foaf="http://xmlns.com/foaf/0.1/" xmlns:pato="http://purl.obolibrary.org/obo/pato#" xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#" - xmlns:swrl="http://www.w3.org/2003/11/swrl#" - xmlns:swrlb="http://www.w3.org/2003/11/swrlb#" + xmlns:sssom="https://w3id.org/sssom/" xmlns:terms="http://purl.org/dc/terms/" xmlns:uberon="http://purl.obolibrary.org/obo/uberon#" xmlns:ubprop="http://purl.obolibrary.org/obo/ubprop#" @@ -23,8 +22,8 @@ xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#" xmlns:ncbitaxon="http://purl.obolibrary.org/obo/ncbitaxon#"> - - 2024-04-05 + + 2024-05-15 @@ -393,14 +392,6 @@ WHERE { - - - - - - - - @@ -433,6 +424,14 @@ WHERE { + + + + + + + + @@ -481,6 +480,14 @@ WHERE { + + + + + + + + @@ -497,6 +504,14 @@ WHERE { + + + + + + + + @@ -1029,12 +1044,6 @@ WHERE { - - - - - - @@ -1237,6 +1246,12 @@ WHERE { + + + + + + - - @@ -1515,19 +1519,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence - A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists. - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - function of - - - - @@ -1541,31 +1532,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence - A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists. - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - role of - - - - - - - - - - a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence - A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists. - has function - - - - @@ -1577,42 +1543,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence - A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists. - has role - - - - - - - - - - - a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence - has disposition - - - - - - - - - inverse of has disposition - - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - disposition of - - - - @@ -1652,8 +1582,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - @@ -1665,18 +1593,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. located in https://wiki.geneontology.org/Located_in - - - - - This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation. - - - - - - This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation. - @@ -1697,8 +1613,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts. Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape. @@ -1731,7 +1645,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - X outer_layer_of Y iff: . X :continuant that bearer_of some PATO:laminar . X part_of Y @@ -1753,81 +1666,6 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 - - - - - - A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B. - - 2017-05-24T09:30:46Z - RO:0002013 - external - has_regulatory_component_activity - has_regulatory_component_activity - has regulatory component activity - - - - - - - - - - A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B. - - 2017-05-24T09:31:01Z - RO:0002014 - external - has_negative_regulatory_component_activity - has_negative_regulatory_component_activity - By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'. - has negative regulatory component activity - - - - - - - - - - A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B. - - 2017-05-24T09:31:17Z - By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'. - has positive regulatory component activity - - - - - - - - - - 2017-05-24T09:44:33Z - A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B. - has component activity - - - - - - - - - - - w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type. - - 2017-05-24T09:49:21Z - has component process - - - - @@ -1840,83 +1678,6 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 - - - - - - - 2017-09-17T13:52:24Z - Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. - directly regulated by - - - - - Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. - - - - - - - - - - - Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1. - - 2017-09-17T13:52:38Z - directly negatively regulated by - - - - - Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1. - - - - - - - - - - - Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1. - - 2017-09-17T13:52:47Z - directly positively regulated by - - - - - Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1. - - - - - - - - - - - A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity. - - 2017-09-22T14:14:36Z - This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations. - has effector activity - - - - - A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity. - - - - - @@ -2235,8 +1996,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - X continuous_with Y if and only if X and Y share a fiat boundary. continuous with FMA:85972 @@ -2356,7 +2115,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - c connects a if and only if there exist some b such that a and b are similar parts of the same system, and c connects b, specifically, c connects a with b. When one structure connects two others it unites some aspect of the function or role they play within the system. connects https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern @@ -2425,8 +2183,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y This is the transitive form of the develops from relation develops from @@ -2453,7 +2209,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - @@ -2511,20 +2266,10 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - - - - - p regulates q iff p is causally upstream of q, the execution of p is not constant and varies according to specific conditions, and p influences the rate or magnitude of execution of q due to an effect either on some enabler of q or some enabler of a part of q. RO:0002211 external @@ -2597,8 +2342,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. RO:0002215 external @@ -2643,8 +2386,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - x adjacent to y if and only if x and y share a boundary. This relation acts as a join point with BSPO RO:0002220 @@ -2674,8 +2415,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. temporally related to @@ -2778,8 +2517,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - @@ -2800,8 +2537,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - @@ -2823,7 +2558,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - @@ -2955,8 +2689,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p false This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from @@ -2969,10 +2701,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes. acts upstream of @@ -2985,10 +2713,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - c acts upstream of or within p if c is enables f, and f is causally upstream of or within p. c is a material entity and p is an process. affects @@ -3238,27 +2962,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - - - - - - - - c enables p iff c is capable of p and c acts to execute p. - - enables - https://wiki.geneontology.org/Enables - - - - @@ -3281,40 +2984,16 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts. genomically related to - - - - - - - - - - - - - - c involved_in p if and only if c enables some process p', and p' is part of p - involved in - https://wiki.geneontology.org/Involved_in - - - - - - p regulates levels of c if p regulates some amount (PATO:0000070) of c RO:0002332 external @@ -3326,26 +3005,11 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - inverse of enables - - enabled by - https://wiki.geneontology.org/Enabled_by - - - - - - inverse of regulates RO:0002334 external @@ -3393,8 +3057,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relationship that holds via some process of localization related via localization to @@ -3521,7 +3183,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - has member is a mereological relation between a collection and an item. has member @@ -3632,8 +3293,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network. in branching relationship with @@ -3756,76 +3415,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - RO:0002405 - external - immediately_causally_downstream_of - immediately_causally_downstream_of - immediately causally downstream of - immediately causally downstream of - - - - - - - - - - - - - - - - - - - - - - - - - - - p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q. - indirectly positively regulates - https://wiki.geneontology.org/Indirectly_positively_regulates - - - - - - - - - - - - - - - - - - - - - - - p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q. - indirectly negatively regulates - https://wiki.geneontology.org/Indirectly_negatively_regulates - - - - @@ -3875,22 +3464,6 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q. - RO:0002412 - external - immediately_causally_upstream_of - immediately_causally_upstream_of - immediately causally upstream of - immediately causally upstream of - - - - @@ -3930,57 +3503,12 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - - - c involved in regulation of p if c is involved in some p' and p' regulates some p involved in regulation of - - - - - - - - - - - - - c involved in regulation of p if c is involved in some p' and p' positively regulates some p - involved in positive regulation of - - - - - - - - - - - - - - - - - c involved in regulation of p if c is involved in some p' and p' negatively regulates some p - - involved in negative regulation of - - - - @@ -3994,27 +3522,6 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure. - enables activity in - - is active in - https://wiki.geneontology.org/Is_active_in - - - - - c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure. - - - - - - @@ -4025,118 +3532,10 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - - A relationship that holds between two entities in which the processes executed by the two entities are causally connected. - This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact. - Considering relabeling as 'pairwise interacts with' - in pairwise interaction with - - interacts with - http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ - - - - - - - - - - An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other. - molecularly interacts with - - - - - - - - - - Axiomatization to GO to be added later - phosphorylates - - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B. - -A and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B. - molecularly controls - directly regulates activity of - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. -For example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B. - molecularly decreases activity of - directly negatively regulates activity of - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. -For example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B. - molecularly increases activity of - directly positively regulates activity of - - - - - - - - helper property (not for use in curation) - - - - - - x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y. composed primarily of @@ -4147,8 +3546,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c. has part that occurs in @@ -4156,15 +3553,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - is kinase activity - - - - @@ -4189,8 +3577,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - relation between physical entity and a process or stage @@ -4371,8 +3757,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q. causal relation between processes @@ -4388,25 +3772,12 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch - causal relation between entities - - - - - A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision. @@ -4421,36 +3792,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - causally influenced by - - - - - - - - - interaction relation helper property - - http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ - - - - - - - - - molecular interaction relation helper property - - - - @@ -4468,28 +3809,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size). - causally influences - - - - @@ -4530,8 +3849,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x. conduit for @@ -4543,7 +3860,6 @@ For example, A and B may be gene products and binding of B by A positively regul - x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull. lumen of @@ -4555,7 +3871,6 @@ For example, A and B may be gene products and binding of B by A positively regul - s is luminal space of x iff s is lumen_of x and s is an immaterial entity luminal space of @@ -4576,24 +3891,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - p directly regulates q iff p is immediately causally upstream of q and p regulates q. - RO:0002578 - external - directly_regulates - - - - directly_regulates - directly regulates - - - - @@ -4669,8 +3966,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity. Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect. causal relation between material entity and a process @@ -4734,51 +4029,10 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q. - RO:0002629 - external - directly_positively_regulates - - - - directly_positively_regulates - directly positively regulates - https://wiki.geneontology.org/Directly_positively_regulates - - - - - - - - - - p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q. - - RO:0002630 - external - directly_negatively_regulates - - - - directly_negatively_regulates - directly negatively regulates - https://wiki.geneontology.org/Directly_negatively_regulates - - - - - - @@ -4801,8 +4055,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - a produced_by b iff some process that occurs_in b has_output a. RO:0003001 external @@ -4888,96 +4140,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P. - - 2018-01-25T23:20:13Z - enables subfunction - - - - - - - - - - - - - - 2018-01-26T23:49:30Z - - acts upstream of or within, positive effect - https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect - - - - - - - - - - - - - - - 2018-01-26T23:49:51Z - - acts upstream of or within, negative effect - https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect - - - - - - - - - - - - - - c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive - - 2018-01-26T23:53:14Z - - acts upstream of, positive effect - https://wiki.geneontology.org/Acts_upstream_of,_positive_effect - - - - - - - - - - - - - - c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative - - - 2018-01-26T23:53:22Z - - acts upstream of, negative effect - https://wiki.geneontology.org/Acts_upstream_of,_negative_effect - - - - @@ -5003,18 +4165,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B. - regulates activity of - - - - @@ -5111,31 +4261,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q. - - 2022-09-26T06:07:17Z - indirectly causally upstream of - - - - - - - - - - p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q. - - 2022-09-26T06:08:01Z - indirectly regulates - - - - @@ -5298,6 +4423,8 @@ For example, A and B may be gene products and binding of B by A positively regul X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y. + + 2021-11-08T12:00:00Z utilizes device utilizes material @@ -5305,69 +4432,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C. - - RO:0019000 - gene_ontology - regulates_characteristic - regulates_characteristic - regulates characteristic - - - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C. - - RO:0019001 - gene_ontology - positively_regulates_characteristic - positively_regulates_characteristic - positively regulates characteristic - - - - - - - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C. - - RO:0019002 - gene_ontology - negatively_regulates_characteristic - negatively_regulates_characteristic - negatively regulates characteristic - - - - @@ -5682,127 +4746,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts. - continuant - - - - - - - - - - - - - - - - - - - - An entity that has temporal parts and that happens, unfolds or develops through time. - occurrent - - - - - - - - - - - - - - - - b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002]) - A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. - independent continuant - - - - - - - - - p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003]) - An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. - process - - - - - - - - - - - - - - - b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003]) - A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. - specifically dependent continuant - - - - - - - - - - - - - - - - An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time. - material entity - - - - - - - - - - - - - - - immaterial entity - - - - @@ -5826,6 +4769,7 @@ For example, A and B may be gene products and binding of B by A positively regul VHOG:0001533 WBbt:0004017 XAO:0003012 + ZFA:0009000 The definition of cell is intended to represent all cells, and thus a cell is defined as a material entity and not an anatomical structure, which implies that it is part of an organism (or the entirety of one). @@ -5837,6 +4781,18 @@ For example, A and B may be gene products and binding of B by A positively regul A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane. CARO:mah + + + + FBbt:00007002 + + + + + + ZFA:0009000 + + @@ -5857,10 +4813,24 @@ For example, A and B may be gene products and binding of B by A positively regul + Any sensory receptor cell that is a(n) neuron and is capable of some detection of stimulus involved in sensory perception. + ZFA:0009001 neuronal receptor cell (sensu Animalia) neuronal receptor cell + + + + Any sensory receptor cell that is a(n) neuron and is capable of some detection of stimulus involved in sensory perception. + FBC:Autogenerated + + + + + ZFA:0009001 + + @@ -5869,6 +4839,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found in the embryo before the formation of all the gem layers is complete. + ZFA:0009002 early embryonic cell (metazoa) @@ -5877,6 +4848,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found in the embryo before the formation of all the gem layers is complete. GOC:tfm + + + + ZFA:0009002 + + @@ -5911,6 +4888,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-2086 FMA:63368 + ZFA:0005957 animal stem cell @@ -5925,6 +4903,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D013234 + + + + ZFA:0005957 + + @@ -6088,6 +5072,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:86475 MESH:D006412 VHOG:0001485 + ZFA:0009014 blood forming stem cell hemopoietic stem cell HSC @@ -6108,6 +5093,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:19022770 http://en.wikipedia.org/wiki/Hematopoietic_stem_cell + + + + ZFA:0009014 + + @@ -6128,6 +5119,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that is within the developmental lineage of gametes and is able to pass along its genetic material to offspring. + ZFA:0009016 Originally this term had some plant germ line cell children. @@ -6140,6 +5132,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721662544 + + + + ZFA:0009016 + + @@ -6175,7 +5173,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -6209,6 +5206,7 @@ For example, A and B may be gene products and binding of B by A positively regul A myeloid progenitor cell committed to the monocyte lineage. This cell is CD11b-positive, has basophilic cytoplasm, euchromatin, and the presence of a nucleolus. CALOHA:TS-1195 FMA:83553 + ZFA:0009017 CFU-M colony forming unit macrophage colony forming unit monocyte @@ -6231,6 +5229,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://en.wikipedia.org/wiki/Monoblast http://www.copewithcytokines.de + + + + ZFA:0009017 + + @@ -6267,6 +5271,7 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to multiple lineages of cells. FMA:84789 + ZFA:0009020 multi-fate stem cell multifate stem cell multipotent cell @@ -6279,6 +5284,12 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to multiple lineages of cells. GOC:add + + + + ZFA:0009020 + + @@ -6291,6 +5302,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell committed to myeloid lineage, including the megakaryocyte and erythroid lineages. BTO:0004730 + ZFA:0009021 common myeloid precursor CFU-GEMM CFU-S @@ -6318,6 +5330,12 @@ For example, A and B may be gene products and binding of B by A positively regul ISBN:0878932437 MESH:D023461 + + + + ZFA:0009021 + + @@ -6390,6 +5408,7 @@ For example, A and B may be gene products and binding of B by A positively regul A oligopotent progenitor cell committed to the lymphoid lineage. + ZFA:0009023 common lymphocyte precursor common lymphocyte progenitor common lymphoid precursor @@ -6420,6 +5439,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:10407577 PMID:16551251 + + + + ZFA:0009023 + + @@ -6442,6 +5467,7 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell from which all cells of the body can form. FMA:84790 MESH:D039901 + ZFA:0009024 totipotential stem cell totipotent stem cell @@ -6452,6 +5478,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009024 + + @@ -6486,6 +5518,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005083 FMA:70335 VHOG:0001529 + ZFA:0009025 myoblast @@ -6496,6 +5529,18 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D032446 PMID:21849021 + + + + FBbt:00005083 + + + + + + ZFA:0009025 + + @@ -6516,6 +5561,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:63877 NCIT:C12482 VHOG:0001482 + ZFA:0009026 @@ -6530,6 +5576,12 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D005347 http://en.wikipedia.org/wiki/Fibroblast + + + + ZFA:0009026 + + @@ -6552,6 +5604,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00000124 FMA:66768 WBbt:0003672 + ZFA:0009034 epitheliocyte @@ -6567,6 +5620,18 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D004847 + + + + FBbt:00000124 + + + + + + ZFA:0009034 + + @@ -6576,6 +5641,7 @@ For example, A and B may be gene products and binding of B by A positively regul A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube. + ZFA:0009038 columnar/cuboidal epithelial cell @@ -6587,6 +5653,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0002065 https://orcid.org/0000-0001-5208-3432 + + + + ZFA:0009038 + + @@ -6614,6 +5686,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found predominately in the blood. FMA:62844 MESH:D001773 + ZFA:0009044 blood cell @@ -6631,6 +5704,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009044 + + @@ -6669,6 +5748,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62870 MESH:D013601 VHOG:0001479 + ZFA:0009046 T lymphocyte T-cell T-lymphocyte @@ -6693,6 +5773,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0781735149 + + + + ZFA:0009046 + + @@ -6745,7 +5831,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -6805,6 +5890,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0721 FMA:66781 MESH:D010010 + ZFA:0009047 chondroclast Morphology: Highly vesicular; markers: Surface: RANK, cFMS (MCSF receptor); Secreted: cathepsin K and TRAP (tartate resistant acid phosphatase); transcription factors: PU.1, cFOS, MITF, NFkB (p52); role or process: tissue remodelling: bone resorption; lineage: hematopoietic, myeloid. @@ -6834,6 +5920,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:15055519 PMID:17380158 + + + + ZFA:0009047 + + @@ -6885,7 +5977,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -6940,6 +6031,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001026 CALOHA:TS-0422 FMA:62854 + ZFA:0009048 granular leucocyte granular leukocyte polymorphonuclear leukocyte @@ -6962,6 +6054,12 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D006098 http://en.wikipedia.org/wiki/Granulocyte + + + + ZFA:0009048 + + @@ -6991,6 +6089,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005123 FMA:83617 WBbt:0005409 + ZFA:0009052 motoneuron @@ -7003,6 +6102,18 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D009046 PMID:16875686 + + + + FBbt:00005123 + + + + + + ZFA:0009052 + + @@ -7028,11 +6139,14 @@ For example, A and B may be gene products and binding of B by A positively regul Any neuron having a sensory function; an afferent neuron conveying sensory impulses. + BTO:0001037 FBbt:00005124 FMA:84649 MESH:D011984 WBbt:0005759 + ZFA:0009053 + sensory neuron @@ -7041,6 +6155,18 @@ For example, A and B may be gene products and binding of B by A positively regul Any neuron having a sensory function; an afferent neuron conveying sensory impulses. ISBN:0721662544 + + + + FBbt:00005124 + + + + + + ZFA:0009053 + + @@ -7063,6 +6189,7 @@ For example, A and B may be gene products and binding of B by A positively regul A vertebrate phagocyte with a single nucleus. BTO:0001433 + ZFA:0009064 mononuclear phagocyte @@ -7081,6 +6208,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0781735149 + + + + ZFA:0009064 + + @@ -7089,14 +6222,17 @@ For example, A and B may be gene products and binding of B by A positively regul A non-neuronal cell of the nervous system. They not only provide physical support, but also respond to injury, regulate the ionic and chemical composition of the extracellular milieu. Guide neuronal migration during development, and exchange metabolites with neurons. + BTO:0002606 CALOHA:TS-0415 FBbt:00005144 FMA:54536 + ZFA:0009073 neuroglial cell neuroglia + Not all glial cells develop from glioblasts, with microglia developing from the mesoderm instead. See https://github.com/obophenotype/cell-ontology/issues/1571 glial cell @@ -7106,6 +6242,18 @@ For example, A and B may be gene products and binding of B by A positively regul A non-neuronal cell of the nervous system. They not only provide physical support, but also respond to injury, regulate the ionic and chemical composition of the extracellular milieu. Guide neuronal migration during development, and exchange metabolites with neurons. MESH:D009457 + + + + FBbt:00005144 + + + + + + ZFA:0009073 + + @@ -7114,6 +6262,7 @@ For example, A and B may be gene products and binding of B by A positively regul Ectoderm destined to be nervous tissue. + ZFA:0009080 neurectoderm cell neurectodermal cell @@ -7124,6 +6273,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:068340007X + + + + ZFA:0009080 + + @@ -7136,6 +6291,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0002625 BTO:0003298 FMA:70546 + ZFA:0009081 bone marrow stromal cells colony-forming unit-fibroblast marrow stromal cells @@ -7173,6 +6329,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://en.wikipedia.org/wiki/Mesenchymal_stem_cell http://www.copewithcytokines.de/cope.cgi?key=mesenchymal%20stem%20cells + + + + ZFA:0009081 + + @@ -7237,6 +6399,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000443 CALOHA:TS-0012 FMA:63880 + ZFA:0009082 adipose cell fat cell @@ -7250,6 +6413,12 @@ For example, A and B may be gene products and binding of B by A positively regul A fat-storing cell found mostly in the abdominal cavity and subcutaneous tissue of mammals. Fat is usually stored in the form of triglycerides. MESH:D017667 + + + + ZFA:0009082 + + @@ -7275,6 +6444,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell capable of processing and presenting lipid and protein antigens to T cells in order to initiate an immune response. + ZFA:0009088 APC @@ -7288,6 +6458,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0781735149 + + + + ZFA:0009088 + + @@ -7303,6 +6479,7 @@ For example, A and B may be gene products and binding of B by A positively regul A pigment cell is a cell that contains pigment granules. VHOG:0001678 + ZFA:0009090 chromatocyte chromatophore pigment cell @@ -7313,6 +6490,12 @@ For example, A and B may be gene products and binding of B by A positively regul A pigment cell is a cell that contains pigment granules. GOC:tfm + + + + ZFA:0009090 + + @@ -7354,6 +6537,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:70545 MESH:D008544 VHOG:0001679 + ZFA:0009091 melanophore @@ -7366,6 +6550,12 @@ For example, A and B may be gene products and binding of B by A positively regul A pigment cell derived from the neural crest. Contains melanin-filled pigment granules, which gives a brown to black appearance. SANBI:mhl + + + + ZFA:0009091 + + @@ -7439,6 +6629,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of an exocrine gland; i.e. a gland that discharges its secretion via a duct. FMA:16014 + ZFA:0009092 exocrine cell @@ -7448,6 +6639,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of an exocrine gland; i.e. a gland that discharges its secretion via a duct. ISBN:0198547684 + + + + ZFA:0009092 + + @@ -7501,6 +6698,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of an endocrine gland, ductless glands that secrete substances which are released directly into the circulation and which influence metabolism and other body functions. FMA:83809 + ZFA:0009096 endocrinocyte @@ -7513,6 +6711,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of an endocrine gland, ductless glands that secrete substances which are released directly into the circulation and which influence metabolism and other body functions. MESH:D055098 + + + + ZFA:0009096 + + @@ -7551,6 +6755,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005074 FMA:67328 WBbt:0003675 + ZFA:0009114 muscle fiber myocyte @@ -7563,6 +6768,18 @@ For example, A and B may be gene products and binding of B by A positively regul A mature contractile cell, commonly known as a myocyte. This cell has as part of its cytoplasm myofibrils organized in various patterns. MESH:D032342 + + + + FBbt:00005074 + + + + + + ZFA:0009114 + + @@ -7592,6 +6809,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004392 CALOHA:TS-2158 FMA:9727 + ZFA:0009115 skeletal muscle cell @@ -7604,6 +6822,12 @@ For example, A and B may be gene products and binding of B by A positively regul A somatic cell located in skeletal muscle. GOC:tfm + + + + ZFA:0009115 + + @@ -7624,6 +6848,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004576 CALOHA:TS-2159 FMA:14072 + ZFA:0009118 SMCs myocytes, smooth muscle smooth muscle fiber @@ -7640,6 +6865,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:9315361 http://en.wikipedia.org/wiki/Smooth_muscle_cell + + + + ZFA:0009118 + + @@ -7718,7 +6949,9 @@ For example, A and B may be gene products and binding of B by A positively regul A cell specialized to detect and transduce light. BTO:0001060 CALOHA:TS-0868 + FBbt:00004211 FMA:86740 + ZFA:0009127 photoreceptor cell https://www.swissbiopics.org/api/image/Photoreceptor_cell.svg @@ -7735,6 +6968,18 @@ For example, A and B may be gene products and binding of B by A positively regul A cell specialized to detect and transduce light. MESH:D010786 + + + + FBbt:00004211 + + + + + + ZFA:0009127 + + @@ -7743,6 +6988,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by the generation or the reception of an electric signal. + ZFA:0009128 electrically active cell @@ -7751,6 +6997,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by the generation or the reception of an electric signal. FB:ma + + + + ZFA:0009128 + + @@ -7776,6 +7028,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that moves by its own activities. + ZFA:0009136 motile cell @@ -7784,6 +7037,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that moves by its own activities. FB:ma + + + + ZFA:0009136 + + @@ -7799,6 +7058,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the outer of the three germ layers of the embryo. FMA:72549 + ZFA:0009137 ectoderm cell ectodermal cell @@ -7808,6 +7068,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the outer of the three germ layers of the embryo. MESH:D004475 + + + + ZFA:0009137 + + @@ -7823,6 +7089,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the middle germ layer of the embryo. FMA:72554 + ZFA:0009138 mesoblast mesoderm cell @@ -7834,6 +7101,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the middle germ layer of the embryo. MESH:D008648 + + + + ZFA:0009138 + + @@ -7849,6 +7122,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the inner of the three germ layers of the embryo. FMA:72555 + ZFA:0009139 endoderm cell endodermal cell @@ -7858,6 +7132,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the inner of the three germ layers of the embryo. MESH:D004707 + + + + ZFA:0009139 + + @@ -7960,6 +7240,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001044 FMA:83806 MESH:D010586 + ZFA:0009140 phagocyte @@ -7970,6 +7251,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0721601464 + + + + ZFA:0009140 + + @@ -8017,6 +7304,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:63261 FMA:83585 MESH:D008264 + ZFA:0009141 histiocyte @@ -8041,6 +7329,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:16213494 PMID:1919437 + + + + ZFA:0009141 + + @@ -8072,6 +7366,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62869 MESH:D001402 VHOG:0001480 + ZFA:0009142 B lymphocyte B-cell B-lymphocyte @@ -8096,6 +7391,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO_REF:0000031 ISBN:0781735149 + + + + ZFA:0009142 + + @@ -8120,10 +7421,17 @@ For example, A and B may be gene products and binding of B by A positively regul + Any cell that only exists in Eukaryota. MESH:D005057 eukaryotic cell + + + + Any cell that only exists in Eukaryota. + FBC:Autogenerated + @@ -8148,8 +7456,15 @@ For example, A and B may be gene products and binding of B by A positively regul + ZFA:0009162 extracellular matrix secreting cell + + + + ZFA:0009162 + + @@ -8167,6 +7482,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body. FMA:86667 + ZFA:0007086 migratory neural crest cell @@ -8175,6 +7491,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body. doi:10.1016/j.stem.2015.02.017 + + + + ZFA:0007086 + + @@ -8199,9 +7521,23 @@ For example, A and B may be gene products and binding of B by A positively regul + Any cell that is part of some extraembryonic structure. + ZFA:0009176 extraembryonic cell + + + + Any cell that is part of some extraembryonic structure. + FBC:Autogenerated + + + + + ZFA:0009176 + + @@ -8240,6 +7576,7 @@ For example, A and B may be gene products and binding of B by A positively regul A multifate stem cell found in skeletal muscle than can differentiate into many different cell types, including muscle. Distinct cell type from satellite cell. FMA:86767 + ZFA:0009179 Multi-potency demonstrated ex vivo. At the time of writing, it is unclear whether the endogenous population differentiates into multiple cell types in vivo. multi-potent skeletal muscle stem cell @@ -8255,6 +7592,12 @@ For example, A and B may be gene products and binding of B by A positively regul A multifate stem cell found in skeletal muscle than can differentiate into many different cell types, including muscle. Distinct cell type from satellite cell. PMID:18282570 + + + + ZFA:0009179 + + @@ -8302,6 +7645,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by its response to an electric signal. + ZFA:0009190 electrically responsive cell @@ -8310,6 +7654,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by its response to an electric signal. FB:ma + + + + ZFA:0009190 + + @@ -8318,6 +7668,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that initiates an electrical signal and passes that signal to another cell. + ZFA:0009193 electrically signaling cell @@ -8326,6 +7677,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that initiates an electrical signal and passes that signal to another cell. FB:ma + + + + ZFA:0009193 + + @@ -8385,7 +7742,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8441,6 +7797,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0194 FMA:83036 MESH:D003713 + ZFA:0009209 interdigitating cell veiled cell @@ -8455,6 +7812,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0781735149 + + + + ZFA:0009209 + + @@ -8488,6 +7851,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0002064 FMA:83624 + ZFA:0009226 @@ -8500,6 +7864,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D017154 + + + + ZFA:0009226 + + @@ -8531,6 +7901,7 @@ For example, A and B may be gene products and binding of B by A positively regul A precursor cell destined to differentiate into cardiac muscle cell. FMA:84797 + ZFA:0009234 cardiac muscle progenitor cell cardiomyocyte progenitor cell @@ -8543,6 +7914,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D032386 + + + + ZFA:0009234 + + @@ -8569,6 +7946,7 @@ For example, A and B may be gene products and binding of B by A positively regul A precursor cell destined to differentiate into smooth muscle myocytes. FMA:84798 + ZFA:0009235 myoblast, smooth muscle satellite cell @@ -8581,6 +7959,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D032390 + + + + ZFA:0009235 + + @@ -8620,6 +8004,7 @@ For example, A and B may be gene products and binding of B by A positively regul A myoblast that differentiates into skeletal muscle fibers. FMA:84799 + ZFA:0009236 skeletal myoblast skeletal muscle myoblast @@ -8629,6 +8014,12 @@ For example, A and B may be gene products and binding of B by A positively regul A myoblast that differentiates into skeletal muscle fibers. SANBI:mhl + + + + ZFA:0009236 + + @@ -8662,6 +8053,7 @@ For example, A and B may be gene products and binding of B by A positively regul A neuron which conveys sensory information centrally from the periphery. FMA:87653 + ZFA:0009238 input neuron afferent neuron @@ -8673,6 +8065,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D009475 + + + + ZFA:0009238 + + @@ -8681,6 +8079,7 @@ For example, A and B may be gene products and binding of B by A positively regul A neuron which sends impulses peripherally to activate muscles or secretory cells. + ZFA:0009239 output neuron efferent neuron @@ -8690,6 +8089,12 @@ For example, A and B may be gene products and binding of B by A positively regul A neuron which sends impulses peripherally to activate muscles or secretory cells. MESH:D009476 + + + + ZFA:0009239 + + @@ -8713,6 +8118,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:54527 VHOG:0001483 WBbt:0003679 + ZFA:0009248 nerve cell @@ -8728,6 +8134,18 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D009474 http://en.wikipedia.org/wiki/Neuron + + + + FBbt:00005106 + + + + + + ZFA:0009248 + + @@ -8745,6 +8163,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that originates from the neural crest and differentiates into a pigment cell. BTO:0003217 FMA:83377 + ZFA:0009249 Derived from UBERON:0002342 neural crest. melanoblast @@ -8755,6 +8174,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm SANBI:mhl + + + + ZFA:0009249 + + @@ -8785,7 +8210,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8818,6 +8242,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62863 MESH:D008214 VHOG:0001535 + ZFA:0009250 Editors note: consider adding taxon constraint to vertebrata (PMID:18025161) @@ -8831,6 +8256,12 @@ For example, A and B may be gene products and binding of B by A positively regul ISBN:0683073696 ISBN:0781735149 + + + + ZFA:0009250 + + @@ -8880,7 +8311,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8926,6 +8356,7 @@ For example, A and B may be gene products and binding of B by A positively regul A hematopoietic progenitor cell that is committed to the granulocyte and monocyte lineages. These cells are CD123-positive, and do not express Gata1 or Gata2 but do express C/EBPa, and Pu.1. CFU-C , Colony forming unit in culture + ZFA:0009251 colony forming unit granulocyte macrophage granulocyte-macrophage progenitor granulocyte/monocyte precursor @@ -8960,6 +8391,12 @@ For example, A and B may be gene products and binding of B by A positively regul CFU-C , Colony forming unit in culture http://www.copewithcytokines.de + + + + ZFA:0009251 + + @@ -9021,7 +8458,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9044,6 +8480,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004657 FMA:83551 + ZFA:0009253 Morphology: Mononuclear cell, diameter 14-18 _M, fine azurophilic granules; markers: CD11b (shared with many other myeloid cells); location: Adult: bone marrow; Fetal: Liver, Yolk Sac; role or process: hematopoiesis, monocyte development; lineage: hematopoietic, myeloid. @@ -9062,6 +8499,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721601464 + + + + ZFA:0009253 + + @@ -9089,7 +8532,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9115,6 +8557,7 @@ For example, A and B may be gene products and binding of B by A positively regul A mesenchymal stem cell capable of developing into blood vessel endothelium. + ZFA:0009258 angioblast chondroplast These cells are reportedly CD31-positive, CD34-positive, CD144-positive, CD309-positive, and TAL1-positive. @@ -9134,6 +8577,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:12768659 + + + + ZFA:0009258 + + @@ -9195,6 +8644,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000876 CALOHA:TS-0638 FMA:62864 + ZFA:0009265 @@ -9215,6 +8665,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO_REF:0000031 MESH:D009000 + + + + ZFA:0009265 + + @@ -9294,6 +8750,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:83601 MESH:D007694 VHOG:0001697 + ZFA:0009278 NK cell @@ -9308,6 +8765,12 @@ For example, A and B may be gene products and binding of B by A positively regul ISBN:0781735149 PMID:15771571 + + + + ZFA:0009278 + + @@ -9339,6 +8802,7 @@ For example, A and B may be gene products and binding of B by A positively regul A non-terminally differentiated cell that is capable of developing into a muscle cell. + ZFA:0009291 muscle precursor cell @@ -9348,6 +8812,12 @@ For example, A and B may be gene products and binding of B by A positively regul A non-terminally differentiated cell that is capable of developing into a muscle cell. GOC:add + + + + ZFA:0009291 + + @@ -9375,6 +8845,7 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to cell types of the body other than those of the germ-line. CALOHA:TS-2086 MESH:D053687 + ZFA:0009307 somatic stem cell @@ -9383,6 +8854,12 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to cell types of the body other than those of the germ-line. GO:0048103 + + + + ZFA:0009307 + + @@ -9422,6 +8899,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0002916 CALOHA:TS-2157 FMA:86936 + ZFA:0005784 striated muscle cell @@ -9431,6 +8909,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721662544 + + + + ZFA:0005784 + + @@ -9487,6 +8971,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62852 MESH:D007962 NCIT:C12529 + ZFA:0009309 leucocyte white blood cell immune cell @@ -9508,6 +8993,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:978-0-323-05290-0 + + + + ZFA:0009309 + + @@ -9565,6 +9056,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0115 FMA:14067 MESH:D032383 + ZFA:0009316 cardiac muscle fiber cardiac myocyte cardiomyocyte @@ -9585,6 +9077,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:22426062 PMID:4711263 + + + + ZFA:0009316 + + @@ -9619,6 +9117,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001441 CALOHA:TS-0647 MESH:D022423 + ZFA:0009324 myeloid cell @@ -9634,6 +9133,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the monocyte, granulocyte, mast cell, megakaryocyte, or erythroid lineage. GOC:add + + + + ZFA:0009324 + + @@ -9654,6 +9159,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the monocyte, granulocyte, or mast cell lineage. + ZFA:0009326 myeloid leukocyte @@ -9669,77 +9175,11 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the monocyte, granulocyte, or mast cell lineage. GOC:add - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Any of the immature or mature forms of a granular leukocyte that in its mature form has a nucleus with three to five lobes connected by slender threads of chromatin, and cytoplasm containing fine inconspicuous granules and stainable by neutral dyes. - - PMN - poly - polymorphonuclear leucocyte - polymorphonuclear leukocyte - polymorphonuclear neutrophil - polynuclear neutrophilic leucocyte - polynuclear neutrophilic leukocyte - BTO:0000130 - CALOHA:TS-0688 - FMA:62860 - MESH:D009504 - neutrocyte - neutrophil leucocyte - neutrophil leukocyte - neutrophilic leucocyte - neutrophilic leukocyte - - - - neutrophil - - - - - true - - - - - Any of the immature or mature forms of a granular leukocyte that in its mature form has a nucleus with three to five lobes connected by slender threads of chromatin, and cytoplasm containing fine inconspicuous granules and stainable by neutral dyes. - GOC:add - GOC:amm - GOC:tfm - ISBN:0721601464 + + + ZFA:0009326 + @@ -9839,7 +9279,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9883,6 +9322,7 @@ For example, A and B may be gene products and binding of B by A positively regul A lymphoid progenitor cell that is committed to the natural killer cell lineage, expressing CD122 (IL-15) receptor, but lacking many of the phenotypic characteristics of later stages of natural killer cell development such as expression of NK activating and inhibitory molecules. In human this cell has the phenotype CD34-positive, CD45RA-positive, CD10-positive, CD117-negative, and CD161 negative. + ZFA:0009348 NKP natural killer cell progenitor pro-natural killer cell @@ -9909,6 +9349,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:15032583 PMID:15766674 + + + + ZFA:0009348 + + @@ -9955,7 +9401,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9984,6 +9429,7 @@ For example, A and B may be gene products and binding of B by A positively regul pre-pro B cell BTO:0003104 + ZFA:0009349 pro-B lymphocyte pro-B-cell pro-B-lymphocyte @@ -10020,6 +9466,12 @@ For example, A and B may be gene products and binding of B by A positively regul pre-pro B cell PMID:17582343 + + + + ZFA:0009349 + + @@ -10057,6 +9509,7 @@ For example, A and B may be gene products and binding of B by A positively regul A lymphoid progenitor cell of the T cell lineage, with some lineage specific marker expression, but not yet fully committed to the T cell lineage. + ZFA:0009350 pro-T lymphocyte progenitor T cell DN1 cell @@ -10078,6 +9531,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0781735149 + + + + ZFA:0009350 + + @@ -10152,7 +9611,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -10254,6 +9712,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000725 CALOHA:TS-0448 + ZFA:0009354 MPP hemopoietic progenitor cell @@ -10270,6 +9729,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:19022770 + + + + ZFA:0009354 + + @@ -10301,6 +9766,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004731 CALOHA:TS-2025 FMA:70338 + ZFA:0009355 Note that this is a class of cell types, not an identified single cell type. lymphoid lineage restricted progenitor cell @@ -10318,6 +9784,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009355 + + @@ -10349,6 +9821,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004730 CALOHA:TS-2099 FMA:70339 + ZFA:0009356 Note that this is a class of cell types, not an identified single cell type. @@ -10368,6 +9841,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:19022770 + + + + ZFA:0009356 + + @@ -10391,6 +9870,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000878 CALOHA:TS-0768 FMA:86713 + ZFA:0009357 mononuclear leukocyte peripheral blood mononuclear cell @@ -10409,6 +9889,12 @@ For example, A and B may be gene products and binding of B by A positively regul A leukocyte with a single non-segmented nucleus in the mature form. GOC:add + + + + ZFA:0009357 + + @@ -10456,6 +9942,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-2017 FMA:70366 FMA:83598 + ZFA:0005830 haematopoietic cell haemopoietic cell hemopoietic cell @@ -10469,6 +9956,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GO_REF:0000031 + + + + ZFA:0005830 + + @@ -11011,6 +10504,7 @@ For example, A and B may be gene products and binding of B by A positively regul 2010-06-29T03:38:22Z FMA:69074 + ZFA:0009385 ecto-epithelial cell @@ -11020,6 +10514,12 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:69074 GOC:tfm + + + + ZFA:0009385 + + @@ -11214,6 +10714,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-2096 FMA:63875 MESH:D003239 + ZFA:0009392 connective tissue cell @@ -11224,6 +10725,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0618947256 + + + + ZFA:0009392 + + @@ -11237,6 +10744,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0263 FMA:82840 WBbt:0007028 + ZFA:0007089 embryonic cell (metazoa) @@ -11245,6 +10753,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the embryo. FMA:0618947256 + + + + ZFA:0007089 + + @@ -11295,6 +10809,12 @@ For example, A and B may be gene products and binding of B by A positively regul ISBN:0323052908 PMID:22274696 + + + + FBbt:00005812 + + @@ -11384,6 +10904,7 @@ For example, A and B may be gene products and binding of B by A positively regul Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells. 2012-06-27T08:27:35Z + ZFA:0007084 premigratory neural crest cell @@ -11392,6 +10913,12 @@ For example, A and B may be gene products and binding of B by A positively regul Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells. UBERONREF:0000002 + + + + ZFA:0007084 + + @@ -11508,6 +11035,12 @@ For example, A and B may be gene products and binding of B by A positively regul A muscle cell that is part of some visceral muscle. GOC:dos + + + + FBbt:00005070 + + @@ -11605,9 +11138,16 @@ For example, A and B may be gene products and binding of B by A positively regul + Any myoblast that develops into some cardiac muscle cell. MESH:D032386 cardiac myoblast + + + + Any myoblast that develops into some cardiac muscle cell. + FBC:Autogenerated + @@ -11820,36 +11360,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms. - GO:0019952 - GO:0050876 - Wikipedia:Reproduction - reproductive physiological process - biological_process - GO:0000003 - - - - - - reproduction - - - - - The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms. - GOC:go_curators - GOC:isa_complete - GOC:jl - ISBN:0198506732 - - - - @@ -13238,7 +12748,6 @@ For example, A and B may be gene products and binding of B by A positively regul - A location, relative to cellular compartments and structures, occupied by a macromolecular machine. There are three types of cellular components described in the gene ontology: (1) the cellular anatomical entity where a gene product carries out a molecular function (e.g., plasma membrane, cytoskeleton) or membrane-enclosed compartments (e.g., mitochondrion); (2) virion components, where viral proteins act, and (3) the stable macromolecular complexes of which gene product are parts (e.g., the clathrin complex). https://github.com/geneontology/go-ontology/issues/17729 @@ -13285,13 +12794,16 @@ For example, A and B may be gene products and binding of B by A positively regul + + + Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'. extracellular region @@ -13309,32 +12821,32 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + A protein complex consisting of three collagen chains assembled into a left-handed triple helix. These trimers typically assemble into higher order structures. Wikipedia:Collagen cellular_component GO:0005581 collagen trimer - + - + - + PMID:12382326 - + PMID:12382326 @@ -13479,12 +12991,14 @@ For example, A and B may be gene products and binding of B by A positively regul + + nucleus @@ -13526,6 +13040,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore. chromosome @@ -13592,7 +13107,9 @@ For example, A and B may be gene products and binding of B by A positively regul + + cytoplasm @@ -13669,11 +13186,13 @@ For example, A and B may be gene products and binding of B by A positively regul + + vacuole @@ -13718,11 +13237,14 @@ For example, A and B may be gene products and binding of B by A positively regul + + + plasma membrane @@ -13785,7 +13307,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides. GO:0055132 DNA metabolism @@ -13799,6 +13321,8 @@ For example, A and B may be gene products and binding of B by A positively regul + + DNA metabolic process @@ -13818,6 +13342,7 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process GO:0006310 + @@ -13853,7 +13378,9 @@ For example, A and B may be gene products and binding of B by A positively regul + + Note that this term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term, for e.g. to transmembrane transport, to microtubule-based transport or to vesicle-mediated transport. transport @@ -14169,6 +13696,7 @@ For example, A and B may be gene products and binding of B by A positively regul A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane. + https://github.com/geneontology/go-ontology/issues/27189 jl 2013-12-19T15:25:51Z GO:1902589 @@ -14178,8 +13706,10 @@ For example, A and B may be gene products and binding of B by A positively regul organelle organization and biogenesis single-organism organelle organization GO:0006996 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. organelle organization @@ -14604,7 +14134,6 @@ For example, A and B may be gene products and binding of B by A positively regul - A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence. https://github.com/geneontology/go-ontology/issues/24968 jl @@ -14644,6 +14173,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation. + https://github.com/geneontology/go-ontology/issues/26424 jl 2012-10-17T15:46:40Z GO:0044236 @@ -14656,11 +14186,13 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process single-organism metabolic process GO:0008152 - + + + Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions. metabolic process @@ -14695,6 +14227,7 @@ For example, A and B may be gene products and binding of B by A positively regul + biosynthetic process @@ -14716,6 +14249,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass. https://github.com/geneontology/go-ontology/issues/15249 https://github.com/geneontology/go-ontology/issues/25418 + https://github.com/geneontology/go-ontology/issues/27189 GO:0043284 biopolymer biosynthetic process macromolecule anabolism @@ -14724,7 +14258,9 @@ For example, A and B may be gene products and binding of B by A positively regul macromolecule synthesis biological_process GO:0009059 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. macromolecule biosynthetic process @@ -14874,7 +14410,7 @@ For example, A and B may be gene products and binding of B by A positively regul response to environmental stimulus biological_process GO:0009605 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. @@ -14897,7 +14433,7 @@ For example, A and B may be gene products and binding of B by A positively regul response to biotic stress biological_process GO:0009607 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. @@ -14921,7 +14457,7 @@ For example, A and B may be gene products and binding of B by A positively regul response to abiotic stress biological_process GO:0009628 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. @@ -14995,7 +14531,7 @@ For example, A and B may be gene products and binding of B by A positively regul embryonal development biological_process GO:0009790 - + embryo development @@ -15396,10 +14932,12 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process cell organization and biogenesis GO:0016043 + + cellular component organization @@ -15511,6 +15049,7 @@ For example, A and B may be gene products and binding of B by A positively regul + @@ -15557,6 +15096,7 @@ For example, A and B may be gene products and binding of B by A positively regul Recombination occurring within or between DNA molecules in somatic cells. + biological_process GO:0016444 somatic cell DNA recombination @@ -15850,32 +15390,24 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents. + https://github.com/geneontology/go-ontology/issues/27054 jl 2012-09-19T15:56:06Z GO:0044702 + Wikipedia:Reproduction biological_process single organism reproductive process GO:0022414 + + + + + + + reproductive process @@ -15943,11 +15475,13 @@ For example, A and B may be gene products and binding of B by A positively regul single organism signaling GO:0023052 + + Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change. signaling @@ -16171,12 +15705,24 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + The process whose specific outcome is the progression of the myeloid and lymphoid derived organ/tissue systems of the blood and other parts of the body over time, from formation to the mature structure. The site of hemopoiesis is variable during development, but occurs primarily in bone marrow or kidney in many adult vertebrates. https://github.com/geneontology/go-ontology/issues/22178 Wikipedia:Haematopoiesis @@ -16379,6 +15925,7 @@ For example, A and B may be gene products and binding of B by A positively regul + cell differentiation @@ -16644,6 +16191,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0031012 + @@ -16901,6 +16449,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any biological process, occurring at the level of a multicellular organism, pertinent to its function. + https://github.com/geneontology/go-ontology/issues/27189 @@ -16915,6 +16464,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0032501 + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. multicellular organismal process @@ -17020,7 +16570,12 @@ For example, A and B may be gene products and binding of B by A positively regul - + + + + + + A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together. GO:0043234 @@ -17033,6 +16588,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0032991 + @@ -17417,7 +16973,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -17492,13 +17047,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - Primary lysosomal granule found in neutrophil granulocytes. Contains a wide range of hydrolytic enzymes and is released into the extracellular fluid. + Primary lysosomal granule readily stainable with a Romanowsky stain. + https://github.com/geneontology/go-ontology/issues/27231 primary granule cellular_component GO:0042582 @@ -17507,9 +17057,12 @@ For example, A and B may be gene products and binding of B by A positively regul - Primary lysosomal granule found in neutrophil granulocytes. Contains a wide range of hydrolytic enzymes and is released into the extracellular fluid. + Primary lysosomal granule readily stainable with a Romanowsky stain. GOC:jl PMID:17152095 + PMID:28717070 + PMID:5914694 + WIKIPEDIA:Azurophilic_granule @@ -17606,10 +17159,12 @@ For example, A and B may be gene products and binding of B by A positively regul cellular_component GO:0042995 + + cell projection @@ -17757,6 +17312,7 @@ For example, A and B may be gene products and binding of B by A positively regul + organelle @@ -17983,11 +17539,24 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + Fibers, composed of actin, myosin, and associated proteins, found in cells of smooth or striated muscle. + https://github.com/geneontology/go-ontology/issues/27281 contractile fibre cellular_component GO:0043292 - contractile fiber + contractile muscle fiber @@ -18034,12 +17603,15 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells. + https://github.com/geneontology/go-ontology/issues/27052 cellular anabolism cellular biosynthesis cellular formation cellular synthesis biological_process GO:0044249 + + This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. cellular biosynthetic process @@ -18136,6 +17708,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0045202 + @@ -18679,7 +18252,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process that modulates the frequency, rate or extent of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. biological_process GO:0048583 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. regulation of response to stimulus @@ -18916,6 +18489,7 @@ For example, A and B may be gene products and binding of B by A positively regul + anatomical structure development @@ -18952,6 +18526,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another. https://github.com/geneontology/go-ontology/issues/19809 + cell locomotion movement of a cell biological_process @@ -18959,6 +18534,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0048870 + cell motility @@ -19205,6 +18781,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process that modulates the frequency, rate or extent of cell activation, the change in the morphology or behavior of a cell resulting from exposure to an activating factor such as a cellular or soluble ligand. + biological_process GO:0050865 regulation of cell activation @@ -19284,12 +18861,13 @@ For example, A and B may be gene products and binding of B by A positively regul physiological response to stimulus biological_process GO:0050896 - + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. response to stimulus @@ -19411,6 +18989,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation. + https://github.com/geneontology/go-ontology/issues/27052 jl 2013-12-18T13:51:04Z GO:1902578 @@ -19424,6 +19003,7 @@ For example, A and B may be gene products and binding of B by A positively regul single organism localization single-organism localization GO:0051179 + localization @@ -19656,6 +19236,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0055085 + @@ -20130,6 +19711,7 @@ For example, A and B may be gene products and binding of B by A positively regul A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component. + https://github.com/geneontology/go-ontology/issues/27189 mah 2010-09-10T01:39:16Z GO:0071841 @@ -20138,8 +19720,10 @@ For example, A and B may be gene products and binding of B by A positively regul cellular component organization or biogenesis at cellular level biological_process GO:0071840 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular component organization or biogenesis @@ -20436,7 +20020,7 @@ For example, A and B may be gene products and binding of B by A positively regul region of plasma membrane cellular_component GO:0098590 - + Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass. plasma membrane region @@ -20508,7 +20092,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -21275,6 +20858,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon. + https://github.com/geneontology/go-ontology/issues/26424 pr 2012-11-05T11:04:40Z organic molecular entity anabolism @@ -21288,6 +20872,7 @@ For example, A and B may be gene products and binding of B by A positively regul organic substance synthesis biological_process GO:1901576 + organic substance biosynthetic process @@ -22260,7 +21845,6 @@ For example, A and B may be gene products and binding of B by A positively regul - A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities PATO:0000072 quality @@ -23815,26 +23399,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - A protein with a core domain architecture consisting of an extracellular domain containing two copies of the Immunoglobulin domain (Pfam:PF00047), followed by a single-pass transmembrane region and a small intracellular domain. The active protein is a low affinity receptor for immunoglobulin gamma chain Fc region. Human II-a, II-b, and II-c represent a recent gene expansion and are equally related to mouse II, III, and IV. Human III-A and III-B are closely related and closer to mouse IV than to mouse III. - PIRSF:PIRSF001980 - protein - PR:000001355 - Category=family. - immunoglobulin gamma Fc receptor II/III/IV - - - - - A protein with a core domain architecture consisting of an extracellular domain containing two copies of the Immunoglobulin domain (Pfam:PF00047), followed by a single-pass transmembrane region and a small intracellular domain. The active protein is a low affinity receptor for immunoglobulin gamma chain Fc region. Human II-a, II-b, and II-c represent a recent gene expansion and are equally related to mouse II, III, and IV. Human III-A and III-B are closely related and closer to mouse IV than to mouse III. - PRO:WCB - - - - @@ -23914,54 +23478,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - An immunoglobulin gamma Fc receptor II/III/IV that is a translation product of the mouse Fcgr2 gene or a 1:1 ortholog thereof. - CD32 - Fc gamma receptor IIB - Fc-gamma RII - Fc-gamma-RIIB - FcRII - Fcgr2 - IgG Fc receptor II beta - ly-17 - lymphocyte antigen 17 - protein - Fcgr2b - PR:000001479 - Category=gene. Requested by=CL. - low affinity immunoglobulin gamma Fc region receptor II - - - - - An immunoglobulin gamma Fc receptor II/III/IV that is a translation product of the mouse Fcgr2 gene or a 1:1 ortholog thereof. - PRO:CNA - - - - - CD32 - PRO:DNx - - - - - Fcgr2 - PRO:DNx - - - - - - Fcgr2b - - - - - @@ -24190,48 +23706,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - A protein that is a translation product of the human SPN gene or a 1:1 ortholog thereof. - PIRSF:PIRSF001994 - B-cell differentiation antigen LP-3 - GALGP - SPN - galactoglycoprotein - leukocyte sialoglycoprotein - ly-48 - lymphocyte antigen 48 - sialophorin - protein - CD43 - PR:000001879 - Category=gene. Requested by=CL. - leukosialin - - - - - A protein that is a translation product of the human SPN gene or a 1:1 ortholog thereof. - PRO:WCB - - - - - SPN - PRO:DNx - - - - - - CD43 - - - - - @@ -25250,70 +24724,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - - - - - - A material entity that minimally consists of a protein. - protein - protein aggregate - protein complex - protein-containing complex - protein - PR:000050567 - Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566). - protein-containing material entity - - - - - A material entity that minimally consists of a protein. - PRO:DAN - - - - - protein - PRO:DAN - - - - - protein aggregate - PRO:DAN - - - - - protein complex - PRO:DAN - - - - - protein-containing complex - PRO:DAN - - - - @@ -25373,6 +24783,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0001824 EHDAA:500 EMAPA:35955 + FBbt:00005155 GAID:63 HAO:0000930 MA:0000017 @@ -25405,6 +24816,12 @@ For example, A and B may be gene products and binding of B by A positively regul https://github.com/obophenotype/uberon/issues/549 https://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005155 + + @@ -25510,8 +24927,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + @@ -25559,11 +24976,11 @@ For example, A and B may be gene products and binding of B by A positively regul tendon http://upload.wikimedia.org/wikipedia/commons/3/3c/Achilles-tendon.jpg - + - + @@ -25576,13 +24993,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + OG - + AEO @@ -25619,7 +25036,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -25641,6 +25057,7 @@ For example, A and B may be gene products and binding of B by A positively regul A tubular structure that transports secreted or excreted substances. AAO:0011123 + FBbt:00100314 FMA:30320 NCIT:C12948 SCTID:91726008 @@ -25666,6 +25083,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://orcid.org/0000-0002-6601-2165 http://www.siumed.edu/~dking2/intro/glands.htm#ducts + + + + FBbt:00100314 + + @@ -25751,6 +25174,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000003 EHDAA2:0003003 EMAPA:0 + FBbt:00007001 FMA:305751 FMA:67135 GAID:781 @@ -25778,6 +25202,12 @@ For example, A and B may be gene products and binding of B by A positively regul Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome. CARO:0000003 + + + + FBbt:00007001 + + @@ -25959,7 +25389,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26007,7 +25436,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26060,7 +25488,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26156,7 +25583,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26198,7 +25624,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26291,7 +25716,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26378,7 +25802,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26429,7 +25852,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26475,7 +25897,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26483,7 +25904,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -26519,14 +25940,14 @@ For example, A and B may be gene products and binding of B by A positively regul gastrula stage - + - + BILS @@ -26577,7 +25998,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26627,7 +26047,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26696,6 +26115,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0001326 EHDAA:542 EMAPA:16262 + FBbt:00003126 FMA:49184 GAID:75 MA:0000341 @@ -26748,6 +26168,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Mouth https://github.com/obophenotype/uberon/wiki/The-digestive-tract + + + + FBbt:00003126 + + @@ -27027,6 +26453,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000004 EHDAA2:0003004 EMAPA:35178 + FBbt:00007019 FMA:9669 HAO:0000004 MA:0002450 @@ -27056,6 +26483,12 @@ For example, A and B may be gene products and binding of B by A positively regul Material anatomical entity in a gaseous, liquid, semisolid or solid state; produced by anatomical structures or derived from inhaled and ingested substances that have been modified by anatomical structures as they pass through the body. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007019 + + @@ -27110,6 +26543,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000005 CARO:0000005 EHDAA2:0003005 + FBbt:00007017 FMA:5897 HAO:0000005 NCIT:C94478 @@ -27133,6 +26567,12 @@ For example, A and B may be gene products and binding of B by A positively regul Non-material anatomical entity of three dimensions, that is generated by morphogenetic or other physiologic processes; is surrounded by one or more anatomical structures; contains one or more organism substances or anatomical structures. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007017 + + @@ -27152,7 +26592,6 @@ For example, A and B may be gene products and binding of B by A positively regul - Anatomical entity that has mass. @@ -27164,6 +26603,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000006 CARO:0000006 EHDAA2:0003006 + FBbt:00007016 FMA:67165 HAO:0000006 TAO:0001836 @@ -27181,13 +26621,18 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical entity that has mass. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007016 + + - Anatomical entity that has no mass. @@ -27198,6 +26643,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000007 CARO:0000007 EHDAA2:0003007 + FBbt:00007015 FMA:67112 HAO:0000007 TAO:0001835 @@ -27216,6 +26662,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical entity that has no mass. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007015 + + @@ -27258,6 +26710,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:392 EMAPA:16103 EV:0100000 + FBbt:00004856 FMA:7149 HAO:0000011 MA:0000003 @@ -27299,6 +26752,12 @@ For example, A and B may be gene products and binding of B by A positively regul system GO:0048731 + + + + FBbt:00004856 + + @@ -27350,6 +26809,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:1 EMAPA:25765 EV:0100016 + FBbt:00000001 FMA:256135 HAO:0000012 NCIT:C13041 @@ -27394,6 +26854,12 @@ For example, A and B may be gene products and binding of B by A positively regul VHOG:0000671 WBbt:0007833 + + + + FBbt:00000001 + + @@ -27454,6 +26920,7 @@ For example, A and B may be gene products and binding of B by A positively regul EFO:0000808 EHDAA2:0003032 EMAPA:36031 + FBbt:00007009 FMA:7153 HAO:0000032 MA:0002433 @@ -27496,6 +26963,12 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:DOS http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007009 + + @@ -27537,6 +27010,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000040 CARO:0000040 EHDAA2:0003040 + FBbt:00007013 FMA:63863 HAO:0000040 TAO:0000382 @@ -27562,6 +27036,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical structure that consists of cell parts and cell substances and together does not constitute a cell or a tissue. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007013 + + @@ -27580,6 +27060,7 @@ For example, A and B may be gene products and binding of B by A positively regul + FBbt:00007277 VHOG:0001737 uberon UBERON:0000477 @@ -27593,6 +27074,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical group whose component anatomical structures lie in close proximity to each other. FBbt:00007277 + + + + FBbt:00007277 + + @@ -27625,6 +27112,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000042 EHDAA2:0003042 EHDAA:46 + FBbt:00005835 FMA:85537 HAO:0000042 NCIT:C34055 @@ -27654,6 +27142,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://orcid.org/0000-0001-9114-8737 https://cedar.bio.indiana.edu/trac/env/ontologies/ticket/279 + + + + FBbt:00005835 + + @@ -27700,6 +27194,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000043 EHDAA2:0003043 EMAPA:35868 + FBbt:00007003 FMA:9637 HAO:0000043 MA:0003002 @@ -27735,6 +27230,12 @@ For example, A and B may be gene products and binding of B by A positively regul Multicellular anatomical structure that consists of many cells of one or a few types, arranged in an extracellular matrix such that their long-range organisation is at least partly a repetition of their short-range organisation. CARO:0000043 + + + + FBbt:00007003 + + @@ -27775,6 +27276,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000055 CARO:0000055 EHDAA2:0003055 + FBbt:00007010 HAO:0000055 TAO:0001488 TGMA:0001847 @@ -27801,6 +27303,12 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000055 http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007010 + + @@ -27833,7 +27341,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -27847,7 +27354,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -27864,6 +27371,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000066 EHDAA2:0003066 EMAPA:32738 + FBbt:00007005 FMA:9639 GAID:402 HAO:0000066 @@ -27888,14 +27396,14 @@ For example, A and B may be gene products and binding of B by A positively regul epithelium https://upload.wikimedia.org/wikipedia/commons/8/8f/Illu_epithelium.jpg - + - + http://palaeos.com/metazoa/porifera/homoscleromorpha.html @@ -27905,6 +27413,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Epithelium http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007005 + + @@ -28070,6 +27584,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2_RETIRED:0003236 EHDAA:38 EMAPA:16039 + FBbt:00000052 FMA:69068 GAID:963 MAT:0000226 @@ -28107,6 +27622,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0009790 Wikipedia:Embryo + + + + FBbt:00000052 + + @@ -28144,6 +27665,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000035 BTO:0000556 EMAPA:36033 + FBbt:00000110 FMA:69069 GAID:1303 MESH:D005855 @@ -28180,6 +27702,12 @@ For example, A and B may be gene products and binding of B by A positively regul embryonic tissue FMA:69069 + + + + FBbt:00000110 + + @@ -28218,7 +27746,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue. AAO:0000137 BILA:0000036 @@ -28228,6 +27756,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000428 EMAPA:16069 EV:0100003 + FBbt:00000111 FMA:69070 GAID:1304 MAT:0000155 @@ -28252,14 +27781,14 @@ For example, A and B may be gene products and binding of B by A positively regul ectoderm http://upload.wikimedia.org/wikipedia/commons/1/19/Gray32.png - + - + Bgee:AN @@ -28268,6 +27797,12 @@ For example, A and B may be gene products and binding of B by A positively regul Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue. Wikipedia:Ectoderm + + + + FBbt:00000111 + + @@ -28293,7 +27828,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut. AAO:0000139 BILA:0000038 @@ -28303,6 +27838,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000436 EMAPA:16062 EV:0100005 + FBbt:00000125 FMA:69071 GAID:1305 MAT:0000175 @@ -28327,14 +27863,14 @@ For example, A and B may be gene products and binding of B by A positively regul http://upload.wikimedia.org/wikipedia/commons/c/c0/Endoderm2.png http://upload.wikimedia.org/wikipedia/commons/d/df/Gray10.png - + - + Bgee:AN @@ -28343,6 +27879,12 @@ For example, A and B may be gene products and binding of B by A positively regul Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut. Wikipedia:Endoderm + + + + FBbt:00000125 + + @@ -28369,7 +27911,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The middle germ layer of the embryo, between the endoderm and ectoderm. UBERON:0003263 @@ -28384,6 +27926,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:183 EMAPA:16083 EV:0100006 + FBbt:00000126 FMA:69072 GAID:522 MAT:0000174 @@ -28409,14 +27952,14 @@ For example, A and B may be gene products and binding of B by A positively regul mesoderm http://upload.wikimedia.org/wikipedia/commons/e/e8/Mesoderm.png - + - + Bgee:AN @@ -28425,6 +27968,12 @@ For example, A and B may be gene products and binding of B by A positively regul The middle germ layer of the embryo, between the endoderm and ectoderm. Wikipedia:Mesoderm + + + + FBbt:00000126 + + @@ -28475,6 +28024,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004224 EHDAA2:0001929 EMAPA:16263 + FBbt:00000439 FMA:295846 NCIT:C34306 TAO:0001290 @@ -28513,6 +28063,12 @@ For example, A and B may be gene products and binding of B by A positively regul stomodeal-hypophyseal primordium XAO:0000269 + + + + FBbt:00000439 + + @@ -28597,6 +28153,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0002224 EMAPA:35306 EV:0100128 + FBbt:00005068 FMA:9668 GAID:439 MA:0000012 @@ -28627,6 +28184,12 @@ For example, A and B may be gene products and binding of B by A positively regul NLM:endocrine+system Wikipedia:Endocrine_system + + + + FBbt:00005068 + + @@ -28652,8 +28215,8 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -28667,6 +28230,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0309 EFO:0000827 EV:0100336 + FBbt:00005162 GAID:69 MAT:0000140 MESH:D005123 @@ -28684,24 +28248,24 @@ For example, A and B may be gene products and binding of B by A positively regul eye - + - + - + PMID:21062451 - + PMID:21062451 @@ -28710,6 +28274,12 @@ For example, A and B may be gene products and binding of B by A positively regul An organ that detects light. https://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005162 + + @@ -28858,6 +28428,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000058 CALOHA:TS-1293 EFO:0000793 + FBbt:00005055 FMA:7152 GAID:278 MA:0002431 @@ -28894,6 +28465,12 @@ For example, A and B may be gene products and binding of B by A positively regul NLM:alimentary+system Wikipedia:Digestive_system + + + + FBbt:00005055 + + @@ -29082,7 +28659,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -29102,6 +28679,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:826 EMAPA:16469 EV:0100162 + FBbt:00005093 FMA:7157 GAID:466 MA:0000016 @@ -29133,14 +28711,14 @@ For example, A and B may be gene products and binding of B by A positively regul http://upload.wikimedia.org/wikipedia/commons/b/b2/TE-Nervous_system_diagram.svg http://upload.wikimedia.org/wikipedia/commons/b/ba/Nervous_system_diagram.png - + - + Bgee:AN @@ -29155,6 +28733,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Nervous_system ZFIN:curator + + + + FBbt:00005093 + + @@ -29200,7 +28784,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the neural tube derivatives: the brain and spinal cord. In invertebrates it includes central ganglia plus nerve cord. @@ -29216,6 +28800,7 @@ For example, A and B may be gene products and binding of B by A positively regul EMAPA:16470 EMAPA:16754 EV:0100163 + FBbt:00005094 FMA:55675 GAID:570 MA:0000167 @@ -29244,7 +28829,7 @@ For example, A and B may be gene products and binding of B by A positively regul central nervous system - + @@ -29258,7 +28843,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Bgee:AN @@ -29275,6 +28860,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Acoelomorpha + + + + FBbt:00005094 + + @@ -29340,6 +28931,7 @@ For example, A and B may be gene products and binding of B by A positively regul EFO:0000805 EHDAA2:0003094 EMAPA:16192 + FBbt:00007692 FMA:75259 MA:0002442 MAT:0000031 @@ -29373,6 +28965,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical system that overlaps the nervous system and is responsible for receiving and processing sensory information. Wikipedia:Sensory_system + + + + FBbt:00007692 + + @@ -29504,6 +29102,7 @@ For example, A and B may be gene products and binding of B by A positively regul BIRNLEX:6 CARO:0000000 EHDAA2:0002229 + FBbt:10000000 FMA:62955 HAO:0000000 MA:0000001 @@ -29527,6 +29126,12 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62955 http://orcid.org/0000-0001-9114-8737 + + + + FBbt:10000000 + + @@ -29958,7 +29563,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Skeletal element that is composed of bone tissue. @@ -30000,14 +29605,14 @@ For example, A and B may be gene products and binding of B by A positively regul bone element - + - + VSAO-modified @@ -30073,7 +29678,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A tube extending from the mouth to the anus. @@ -30086,6 +29691,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000726 EHDAA:518 EMAPA:16247 + FBbt:00003125 FMA:45615 MA:0000917 NCIT:C34082 @@ -30109,14 +29715,14 @@ For example, A and B may be gene products and binding of B by A positively regul digestive tract - + - + NCBIBook:NBK10107 @@ -30138,6 +29744,12 @@ For example, A and B may be gene products and binding of B by A positively regul DOI:10.1371/journal.pone.0016309 + + + + FBbt:00003125 + + @@ -30314,6 +29926,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000174 CALOHA:TS-2110 EFO:0000461 + FBbt:00004208 FMA:69067 GAID:407 MESH:D004628 @@ -30344,6 +29957,12 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000174 ZFIN:curator + + + + FBbt:00004208 + + @@ -30632,9 +30251,9 @@ For example, A and B may be gene products and binding of B by A positively regul - - - + + + @@ -30682,15 +30301,15 @@ For example, A and B may be gene products and binding of B by A positively regul notochord http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + - + @@ -30709,19 +30328,19 @@ For example, A and B may be gene products and binding of B by A positively regul - + http://tolweb.org/Chordata/2499 - + ZFA - + EHDAA2 @@ -30761,8 +30380,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + Somites are spheres of epithelial cells that form sequentially along the anterior-posterior axis of the embryo through mesenchymal to epithelial transition of the presomitic mesoderm. mesodermal cluster @@ -30800,11 +30419,11 @@ For example, A and B may be gene products and binding of B by A positively regul somite http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + @@ -30817,13 +30436,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + GOTAX:0000352 - + ZFA @@ -30882,7 +30501,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -30949,22 +30567,22 @@ For example, A and B may be gene products and binding of B by A positively regul - + - - + + - + A specialized region of ectoderm found between the neural ectoderm (neural plate) and non-neural ectoderm and composed of highly migratory pluripotent cells that delaminate in early embryonic development from the dorsal neural tube and give rise to an astounding variety of differentiated cell types[MP]. AAO:0010578 BTO:0001764 @@ -30997,45 +30615,45 @@ For example, A and B may be gene products and binding of B by A positively regul http://upload.wikimedia.org/wikipedia/commons/5/5f/Gray644.png https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png - + - + - + - + - + XAO https://github.com/obophenotype/uberon/wiki/The-neural-crest - + BTO - + PMID:11523831 - + PMID:11523831 @@ -31093,6 +30711,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:255 EMAPA:16073 EV:0100004 + FBbt:00001057 FMA:87657 MAT:0000176 MIAA:0000176 @@ -31121,6 +30740,12 @@ For example, A and B may be gene products and binding of B by A positively regul Embryonic ectoderm that gives rise to nervous tissue. Wikipedia:Neuroectoderm + + + + FBbt:00001057 + + @@ -31157,7 +30782,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -31336,7 +30960,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -31392,14 +31016,14 @@ For example, A and B may be gene products and binding of B by A positively regul bone marrow http://upload.wikimedia.org/wikipedia/commons/7/74/Gray72-en.svg - + - + FMA MA @@ -31611,7 +31235,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -31665,14 +31289,14 @@ For example, A and B may be gene products and binding of B by A positively regul hematopoietic system - + - + FMA @@ -31880,6 +31504,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0003096 EHDAA:2161 EMAPA:18425 + FBbt:00100317 FMA:7146 FMA:86294 HAO:0000375 @@ -31910,6 +31535,12 @@ For example, A and B may be gene products and binding of B by A positively regul MGI:csmith MP:0002163 + + + + FBbt:00100317 + + @@ -32075,7 +31706,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form. AAO:0011086 EFO:0001982 @@ -32098,14 +31729,14 @@ For example, A and B may be gene products and binding of B by A positively regul presomitic mesoderm - + - + Bgee:AN @@ -32259,9 +31890,9 @@ For example, A and B may be gene products and binding of B by A positively regul - - - + + + A region of embryonic ectodermal cells that lie directly above the notochord. During neurulation, they change shape and produce an infolding of the neural plate (the neural fold) that then seals to form the neural tube[XAO]. The earliest recognizable dorsal ectodermal primordium of the central nervous system present near the end of gastrulation before infolding to form the neural keel; consists of a thickened pseudostratified epithelium[ZFA]. AAO:0011072 BTO:0001765 @@ -32290,34 +31921,34 @@ For example, A and B may be gene products and binding of B by A positively regul neural plate https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png - + - + - + - + GOTAX:0000352 - + Wikipedia - + Bgee:AN @@ -32357,7 +31988,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The paraxial mesoderm is the mesoderm located bilaterally adjacent to the notochord and neural tube[GO]. AAO:0010568 EFO:0003515 @@ -32383,7 +32014,7 @@ For example, A and B may be gene products and binding of B by A positively regul paraxial mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + @@ -32396,7 +32027,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Bgee:AN @@ -32443,7 +32074,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -32483,7 +32114,7 @@ For example, A and B may be gene products and binding of B by A positively regul lateral plate mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + @@ -32496,7 +32127,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 VHOG @@ -32546,7 +32177,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -32587,7 +32218,7 @@ For example, A and B may be gene products and binding of B by A positively regul myotome http://upload.wikimedia.org/wikipedia/commons/9/96/Gray65.png - + @@ -32600,7 +32231,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2-abduced @@ -32760,7 +32391,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The part of the coelom in the embryo between the somatopleuric and splanchnopleuric mesoderm; the principal body cavities of the trunk (thoracic, abdominal, and pelvic) arise from this embryonic part of the coelom. consider merging with coelom. TODO - add spatial relationships to halves of LPM. Note the OG places XAO and ZFA coelem terms here. editor note: TODO check ZFA, which appears to be a structure present in adults EHDAA:251 @@ -32775,14 +32406,14 @@ For example, A and B may be gene products and binding of B by A positively regul intraembryonic coelom - + - + Wikipedia @@ -32826,6 +32457,7 @@ For example, A and B may be gene products and binding of B by A positively regul Epithelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues, with tube shape and organization varying from the single-celled excretory organ in Caenorhabditis elegans to the branching trees of the mammalian kidney and insect tracheal system. AEO:0000114 EHDAA2:0003114 + FBbt:00007474 epithelial or endothelial tube uberon UBERON:0003914 @@ -32838,6 +32470,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0060562 PMID:12526790 + + + + FBbt:00007474 + + @@ -33077,7 +32715,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The bilaminar epithelium formed from the myotome and dermatome. AAO:0010572 AEO:0000214 @@ -33095,7 +32733,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0004290 dermomyotome - + @@ -33114,7 +32752,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 ZFA @@ -33281,6 +32919,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0007012 BILA:0000060 BTO:0001403 + FBbt:00005317 FMA:293108 GAID:1302 MESH:D005775 @@ -33312,6 +32951,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Gastrula Wikipedia:Trilaminar_blastocyst + + + + FBbt:00005317 + + @@ -33438,7 +33083,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Organ consisting of skeletal tissue. Encompasses whole bones, fused bones, cartilaginious elements, teeth, dermal denticles. AAO:0011129 TAO:0001890 @@ -33452,14 +33097,14 @@ For example, A and B may be gene products and binding of B by A positively regul skeletal element - + - + VSAO @@ -33486,7 +33131,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -33525,14 +33170,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0004770 articular system - + - + FMA @@ -33631,6 +33276,7 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts. + FBbt:00005811 joint uberon UBERON:0004905 @@ -33643,6 +33289,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005811 + + @@ -33675,6 +33327,7 @@ For example, A and B may be gene products and binding of B by A positively regul A proximal-distal subdivision of the digestive tract. + FBbt:00100315 FMA:71131 uberon alimentary system subdivision @@ -33693,6 +33346,12 @@ For example, A and B may be gene products and binding of B by A positively regul A proximal-distal subdivision of the digestive tract. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00100315 + + @@ -33959,7 +33618,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Mesenchyme that is part of a developing trunk. EFO:0003485 EHDAA2:0002092 @@ -33975,14 +33634,14 @@ For example, A and B may be gene products and binding of B by A positively regul trunk mesenchyme - + - + EHDAA2 @@ -34084,6 +33743,7 @@ For example, A and B may be gene products and binding of B by A positively regul An array of photoreceptors and any supporting cells found in an eye. + FBbt:00004200 light-sensitive tissue uberon UBERON:0005388 @@ -34095,6 +33755,12 @@ For example, A and B may be gene products and binding of B by A positively regul An array of photoreceptors and any supporting cells found in an eye. https://orcid.org/0000-0002-6601-2165 + + + + FBbt:00004200 + + @@ -34114,6 +33780,7 @@ For example, A and B may be gene products and binding of B by A positively regul AEO:0000125 CALOHA:TS-2122 EHDAA2:0003125 + FBbt:00007006 FMA:292313 MIAA:0000019 uberon @@ -34124,6 +33791,12 @@ For example, A and B may be gene products and binding of B by A positively regul developing anatomical structure + + + + FBbt:00007006 + + @@ -34176,7 +33849,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -34278,7 +33950,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The notochordal plate is the dorsal part of the notochordal process when the ventral portion breaks down. It is continuous laterally with the endoderm that composes the roof of the primitive foregut and is in contact dorsally with the neural tube. The folding off of the notochordal plate gives rise to the notochord. TODO - check ordering; awaiting confirmation from JB EHDAA2:0001278 @@ -34292,7 +33964,7 @@ For example, A and B may be gene products and binding of B by A positively regul notochordal plate - + @@ -34305,7 +33977,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 @@ -34333,7 +34005,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A midline cellular cord formed from the migration of mesenchymal cells from the primitive knot. EHDAA2:0001279 EHDAA:224 @@ -34350,14 +34022,14 @@ For example, A and B may be gene products and binding of B by A positively regul The notochordal process grows cranially until it reaches the prechordal plate, the future site of the mouth. In this area the ectoderm is attached directly to the endoderm without intervening mesoderm. This area is known as the oropharyngeal membrane, and it will break down to become the mouth. At the other end of the primitive streak the ectoderm is also fused directly to the endoderm; this is known as the cloacal membrane (proctodeum), or primordial anus. notochordal process - + - + EHDAA2 @@ -34968,7 +34640,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -34994,7 +34666,7 @@ For example, A and B may be gene products and binding of B by A positively regul presumptive paraxial mesoderm - + @@ -35010,7 +34682,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + https://github.com/obophenotype/uberon/issues/1277 @@ -35059,7 +34731,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Mesenchyme with little extracellular matrix. AEO:0000146 EHDAA2:0003146 @@ -35067,7 +34739,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0007524 dense mesenchyme tissue - + @@ -35080,7 +34752,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + AEO @@ -35095,7 +34767,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35239,7 +34910,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -35256,14 +34927,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0009142 entire embryonic mesenchyme - + - + EHDAA2 @@ -35285,7 +34956,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2:0002094 trunk and cervical paraxial mesenchyme uberon @@ -35293,14 +34964,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0009618 trunk paraxial mesoderm - + - + EHDAA2 @@ -35350,6 +35021,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0010000 + FBbt:00100313 multicellular structure uberon UBERON:0010000 @@ -35363,6 +35035,12 @@ For example, A and B may be gene products and binding of B by A positively regul An anatomical structure that has more than one cell as a part. CARO:0010000 + + + + FBbt:00100313 + + @@ -35538,6 +35216,7 @@ For example, A and B may be gene products and binding of B by A positively regul + FBbt:00007330 FMA:67509 SCTID:91690000 uberon @@ -35559,6 +35238,12 @@ For example, A and B may be gene products and binding of B by A positively regul A subdivision of an anatomical system. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00007330 + + @@ -35695,7 +35380,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35731,7 +35415,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35768,7 +35451,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -35792,7 +35475,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0011899 epimysium - + @@ -35805,7 +35488,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + FMA @@ -35911,7 +35594,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -35932,7 +35615,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0012429 hematopoietic tissue - + @@ -35945,7 +35628,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + defitional @@ -36250,6 +35933,7 @@ For example, A and B may be gene products and binding of B by A positively regul An anatomical group whose component structures share a common function. AEO:0000093 + FBbt:00007278 uberon UBERON:0015203 non-connected functional system @@ -36263,6 +35947,12 @@ For example, A and B may be gene products and binding of B by A positively regul FBC:DOS FBbt:00007278 + + + + FBbt:00007278 + + @@ -36493,7 +36183,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -36516,7 +36206,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0016887 entire extraembryonic component - + @@ -36529,7 +36219,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + AEO @@ -36615,7 +36305,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -36632,14 +36322,14 @@ For example, A and B may be gene products and binding of B by A positively regul skeletal musculature - + - + MA @@ -36734,6 +36424,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0020000 + FBbt:00007276 uberon UBERON:0034923 @@ -36751,6 +36442,12 @@ For example, A and B may be gene products and binding of B by A positively regul Material anatomical entity consisting of multiple anatomical structures that are not connected to each other. CARO:0020000 + + + + FBbt:00007276 + + @@ -37181,781 +36878,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - If a molecular function (X) has a regulatory subfunction, then any gene product which is an input to that subfunction has an activity that directly_regulates X. Note: this is intended for cases where the regaultory subfunction is protein binding, so it could be tightened with an additional clause to specify this. - inferring direct reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - inferring direct neg reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - inferring direct positive reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - effector input is compound function input - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Input of effector is input of its parent MF - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly regulates X, its parent MF directly regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly positively regulates X, its parent MF directly positively regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly negatively regulates X, its parent MF directly negatively regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - 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+_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid757 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid774 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid795 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid803 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid810 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid820 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid833 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid849 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid857 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid864 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid874 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid901 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid918 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid927 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid977 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid985 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid993 "cell" "neuronal receptor cell" "early embryonic cell (metazoa)" @@ -360,7 +350,6 @@ _:Bbb97c441X2D333bX2D4751X2D87e4X2D8b4936c8b0dagenid997 "cardiac muscle cell" "myeloid cell" "myeloid leukocyte" - "neutrophil" "myeloid dendritic cell" "pro-NK cell" "pro-B cell" @@ -405,7 +394,6 @@ _:Bbb97c441X2D333bX2D4751X2D87e4X2D8b4936c8b0dagenid997 "neutrophillic cytoplasm" "basophilic cytoplasm" "bone marrow hematopoietic cell" - "reproduction" "lytic vacuole" "chromatin" "euchromatin" @@ -587,7 +575,7 @@ _:Bbb97c441X2D333bX2D4751X2D87e4X2D8b4936c8b0dagenid997 "intracellular membrane-bounded organelle" "intracellular non-membrane-bounded organelle" "organelle lumen" - "contractile fiber" + "contractile muscle fiber" "cellular metabolic process" "cellular biosynthetic process" "biological process involved in interspecies interaction between organisms" @@ -781,10 +769,8 @@ _:Bbb97c441X2D333bX2D4751X2D87e4X2D8b4936c8b0dagenid997 "membrane-spanning 4-domains subfamily A member 1" "cadherin" "carcinoembryonic antigen-related cell adhesion molecule 8" - "immunoglobulin gamma Fc receptor II/III/IV" "interleukin-2 receptor subunit beta" "cadherin-5" - "low affinity immunoglobulin gamma Fc region receptor II" "transcription factor NF-kappa-B subunit" "CSF-1/PDGF receptor-type tyrosine-protein kinase" "T-cell surface glycoprotein CD5" @@ -792,7 +778,6 @@ _:Bbb97c441X2D333bX2D4751X2D87e4X2D8b4936c8b0dagenid997 "interleukin-3 receptor class 2 alpha chain" "interleukin-7 receptor subunit alpha" "KLRB1-like protein" - "leukosialin" "CD14 molecule" "neprilysin" "paired box protein PAX-5" @@ -820,7 +805,6 @@ _:Bbb97c441X2D333bX2D4751X2D87e4X2D8b4936c8b0dagenid997 "eukaryotic protein" "cathepsin-like protease" "receptor-type tyrosine-protein phosphatase C isoform CD45R" - "protein-containing material entity" "processual entity" "sense organ" "tube" diff --git a/src/ontology/subsets/kidney_upper_slim.json b/src/ontology/subsets/kidney_upper_slim.json index f32433dec..083c32f0b 100644 --- a/src/ontology/subsets/kidney_upper_slim.json +++ b/src/ontology/subsets/kidney_upper_slim.json @@ -4,68 +4,11 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", - "val" : "2024-04-05" + "val" : "2024-05-15" } ], - "version" : "http://purl.obolibrary.org/obo/cl/releases/2024-04-05/subsets/kidney_upper_slim.owl" + "version" : "http://purl.obolibrary.org/obo/cl/releases/2024-05-15/subsets/kidney_upper_slim.owl" }, "nodes" : [ { - "id" : "http://purl.obolibrary.org/obo/BFO_0000002", - "lbl" : "continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000003", - "lbl" : "occurrent", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An entity that has temporal parts and that happens, unfolds or develops through time." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000004", - "lbl" : "independent continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" - }, - "comments" : [ "A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000015", - "lbl" : "process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" - }, - "comments" : [ "An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000020", - "lbl" : "specifically dependent continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" - }, - "comments" : [ "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000040", - "lbl" : "material entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." - } - } - }, { "id" : "http://purl.obolibrary.org/obo/BFO_0000050", "lbl" : "part_of", "type" : "PROPERTY", @@ -218,10 +161,6 @@ }, "comments" : [ "Paraphrase of definition: a relation between an independent continuant and a process, in which the process takes place entirely within the independent continuant" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000141", - "lbl" : "immaterial entity", - "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/CL_0000000", "lbl" : "cell", @@ -251,6 +190,8 @@ "val" : "WBbt:0004017" }, { "val" : "XAO:0003012" + }, { + "val" : "ZFA:0009000" } ] } }, { @@ -261,7 +202,10 @@ "definition" : { "val" : "A cell found in the embryo before the formation of all the gem layers is complete.", "xrefs" : [ "GOC:tfm" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009002" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000034", @@ -282,6 +226,8 @@ "val" : "CALOHA:TS-2086" }, { "val" : "FMA:63368" + }, { + "val" : "ZFA:0005957" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -323,6 +269,8 @@ "val" : "MESH:D006412" }, { "val" : "VHOG:0001485" + }, { + "val" : "ZFA:0009014" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -362,6 +310,8 @@ } ], "xrefs" : [ { "val" : "BTO:0004911" + }, { + "val" : "ZFA:0009015" } ] } }, { @@ -374,7 +324,10 @@ "xrefs" : [ "GOC:tfm", "ISBN:0721662544" ] }, "comments" : [ "Originally this term had some plant germ line cell children." ], - "subsets" : [ "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim", "http://purl.obolibrary.org/obo/ubprop#_upper_level" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim", "http://purl.obolibrary.org/obo/ubprop#_upper_level" ], + "xrefs" : [ { + "val" : "ZFA:0009016" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000048", @@ -400,6 +353,8 @@ } ], "xrefs" : [ { "val" : "FMA:84789" + }, { + "val" : "ZFA:0009020" } ] } }, { @@ -450,6 +405,8 @@ } ], "xrefs" : [ { "val" : "BTO:0004730" + }, { + "val" : "ZFA:0009021" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -489,6 +446,9 @@ "pred" : "hasExactSynonym", "val" : "megakaryocyte/erythroid progenitor cell" } ], + "xrefs" : [ { + "val" : "ZFA:0009022" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -511,6 +471,8 @@ "val" : "FMA:84790" }, { "val" : "MESH:D039901" + }, { + "val" : "ZFA:0009024" } ] } }, { @@ -553,6 +515,8 @@ "val" : "FMA:70335" }, { "val" : "VHOG:0001529" + }, { + "val" : "ZFA:0009025" } ] } }, { @@ -576,6 +540,8 @@ "val" : "NCIT:C12482" }, { "val" : "VHOG:0001482" + }, { + "val" : "ZFA:0009026" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -596,6 +562,8 @@ "val" : "VHOG:0001532" }, { "val" : "XAO:0000031" + }, { + "val" : "ZFA:0009032" } ] } }, { @@ -624,6 +592,8 @@ "val" : "FMA:66768" }, { "val" : "WBbt:0003672" + }, { + "val" : "ZFA:0009034" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -645,6 +615,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "FMA:70605" + }, { + "val" : "ZFA:0009035" } ] } }, { @@ -656,7 +628,10 @@ "val" : "An epithelial cell that is part of a duct.", "xrefs" : [ "https://orcid.org/0000-0001-5208-3432" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], + "xrefs" : [ { + "val" : "ZFA:0009372" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000071", @@ -672,6 +647,9 @@ "pred" : "hasExactSynonym", "val" : "cuboidal endothelial cell of vascular tree" } ], + "xrefs" : [ { + "val" : "ZFA:0009036" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -691,6 +669,9 @@ "xrefs" : [ "GO:0002065", "https://orcid.org/0000-0001-5208-3432" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], + "xrefs" : [ { + "val" : "ZFA:0009038" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -704,6 +685,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "CALOHA:TS-1249" + }, { + "val" : "ZFA:0009039" } ] } }, { @@ -720,6 +703,8 @@ "val" : "FMA:62844" }, { "val" : "MESH:D001773" + }, { + "val" : "ZFA:0009044" } ] } }, { @@ -743,6 +728,8 @@ "val" : "CALOHA:TS-0278" }, { "val" : "FMA:66772" + }, { + "val" : "ZFA:0009065" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -761,6 +748,9 @@ "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "neurectoderm cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009080" } ] } }, { @@ -827,6 +817,8 @@ "val" : "BTO:0003298" }, { "val" : "FMA:70546" + }, { + "val" : "ZFA:0009081" } ], "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", @@ -852,7 +844,13 @@ }, { "id" : "http://purl.obolibrary.org/obo/CL_0000154", "lbl" : "protein secreting cell", - "type" : "CLASS" + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any secretory cell that is capable of some protein secretion.", + "xrefs" : [ "FBC:Autogenerated" ] + } + } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000183", "lbl" : "contractile cell", @@ -893,6 +891,8 @@ "val" : "FMA:67328" }, { "val" : "WBbt:0003675" + }, { + "val" : "ZFA:0009114" } ], "basicPropertyValues" : [ { "pred" : "http://xmlns.com/foaf/0.1/depiction", @@ -930,6 +930,8 @@ "val" : "CALOHA:TS-2159" }, { "val" : "FMA:14072" + }, { + "val" : "ZFA:0009118" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -944,7 +946,10 @@ "definition" : { "val" : "A cell whose function is determined by the generation or the reception of an electric signal.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009128" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000213", @@ -958,6 +963,9 @@ "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "boundary cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009130" } ] } }, { @@ -968,7 +976,10 @@ "definition" : { "val" : "A cell whose primary function is to prevent the transport of stuff across compartments.", "xrefs" : [ "JB:jb" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009132" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000219", @@ -978,7 +989,10 @@ "definition" : { "val" : "A cell that moves by its own activities.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009136" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000221", @@ -995,6 +1009,8 @@ } ], "xrefs" : [ { "val" : "FMA:72549" + }, { + "val" : "ZFA:0009137" } ] } }, { @@ -1016,6 +1032,8 @@ } ], "xrefs" : [ { "val" : "FMA:72554" + }, { + "val" : "ZFA:0009138" } ] } }, { @@ -1033,6 +1051,8 @@ } ], "xrefs" : [ { "val" : "FMA:72555" + }, { + "val" : "ZFA:0009139" } ] } }, { @@ -1067,12 +1087,21 @@ }, { "id" : "http://purl.obolibrary.org/obo/CL_0000239", "lbl" : "brush border epithelial cell", - "type" : "CLASS" + "type" : "CLASS", + "meta" : { + "xrefs" : [ { + "val" : "ZFA:0009143" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000255", "lbl" : "eukaryotic cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any cell that only exists in Eukaryota.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "MESH:D005057" @@ -1081,7 +1110,16 @@ }, { "id" : "http://purl.obolibrary.org/obo/CL_0000329", "lbl" : "oxygen accumulating cell", - "type" : "CLASS" + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any cell that is capable of some oxygen transport.", + "xrefs" : [ "FBC:Autogenerated" ] + }, + "xrefs" : [ { + "val" : "ZFA:0009164" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000333", "lbl" : "migratory neural crest cell", @@ -1093,6 +1131,8 @@ }, "xrefs" : [ { "val" : "FMA:86667" + }, { + "val" : "ZFA:0007086" } ] } }, { @@ -1103,7 +1143,10 @@ "definition" : { "val" : "A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors.", "xrefs" : [ "GOC:tfm", "PMID:5025404" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009166" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000352", @@ -1144,7 +1187,10 @@ "definition" : { "val" : "A cell whose function is determined by its response to an electric signal.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009190" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000404", @@ -1154,7 +1200,10 @@ "definition" : { "val" : "A cell that initiates an electrical signal and passes that signal to another cell.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009193" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000514", @@ -1176,6 +1225,8 @@ } ], "xrefs" : [ { "val" : "FMA:84798" + }, { + "val" : "ZFA:0009235" } ] } }, { @@ -1205,6 +1256,8 @@ "val" : "VHOG:0001483" }, { "val" : "WBbt:0003679" + }, { + "val" : "ZFA:0009248" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1264,6 +1317,8 @@ } ], "xrefs" : [ { "val" : "FMA:83505" + }, { + "val" : "ZFA:0005236" } ] } }, { @@ -1302,6 +1357,8 @@ } ], "xrefs" : [ { "val" : "FMA:83506" + }, { + "val" : "ZFA:0005241" } ] } }, { @@ -1446,6 +1503,8 @@ "val" : "CALOHA:TS-0864" }, { "val" : "MESH:D012156" + }, { + "val" : "ZFA:0009252" } ] } }, { @@ -1464,6 +1523,9 @@ }, { "pred" : "hasExactSynonym", "val" : "chondroplast" + } ], + "xrefs" : [ { + "val" : "ZFA:0009258" } ] } }, { @@ -1502,6 +1564,8 @@ } ], "xrefs" : [ { "val" : "BTO:0002315" + }, { + "val" : "ZFA:0009387" } ] } }, { @@ -1526,6 +1590,8 @@ } ], "xrefs" : [ { "val" : "FMA:84138" + }, { + "val" : "ZFA:0005238" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1555,6 +1621,8 @@ "val" : "FMA:70972" }, { "val" : "MESH:D050527" + }, { + "val" : "ZFA:0009283" } ] } }, { @@ -1566,6 +1634,9 @@ "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "window cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009286" } ] } }, { @@ -1603,6 +1674,8 @@ "val" : "BTO:0002441" }, { "val" : "FMA:63174" + }, { + "val" : "ZFA:0009112" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1618,7 +1691,10 @@ "val" : "A non-terminally differentiated cell that is capable of developing into a muscle cell.", "xrefs" : [ "GOC:add" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], + "xrefs" : [ { + "val" : "ZFA:0009291" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000723", @@ -1633,6 +1709,8 @@ "val" : "CALOHA:TS-2086" }, { "val" : "MESH:D053687" + }, { + "val" : "ZFA:0009307" } ] } }, { @@ -1651,6 +1729,8 @@ "val" : "CALOHA:TS-0647" }, { "val" : "MESH:D022423" + }, { + "val" : "ZFA:0009324" } ] } }, { @@ -1674,6 +1754,8 @@ "val" : "FMA:62845" }, { "val" : "FMA:83516" + }, { + "val" : "ZFA:0009325" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1702,6 +1784,8 @@ "val" : "FMA:83504" }, { "val" : "MESH:D004900" + }, { + "val" : "ZFA:0005237" } ] } }, { @@ -1726,6 +1810,8 @@ "val" : "BTO:0000725" }, { "val" : "CALOHA:TS-0448" + }, { + "val" : "ZFA:0009354" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1753,6 +1839,8 @@ "val" : "CALOHA:TS-2099" }, { "val" : "FMA:70339" + }, { + "val" : "ZFA:0009356" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1787,6 +1875,8 @@ "val" : "FMA:70366" }, { "val" : "FMA:83598" + }, { + "val" : "ZFA:0005830" } ] } }, { @@ -1837,6 +1927,8 @@ }, "xrefs" : [ { "val" : "FMA:69074" + }, { + "val" : "ZFA:0009385" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -1861,6 +1953,8 @@ } ], "xrefs" : [ { "val" : "FMA:69076" + }, { + "val" : "ZFA:0009388" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2061,6 +2155,8 @@ "val" : "FMA:63875" }, { "val" : "MESH:D003239" + }, { + "val" : "ZFA:0009392" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2085,6 +2181,8 @@ "val" : "FMA:82840" }, { "val" : "WBbt:0007028" + }, { + "val" : "ZFA:0007089" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2137,6 +2235,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "KUPO:0001019" + }, { + "val" : "ZFA:0009374" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2156,6 +2256,9 @@ "xrefs" : [ "GOC:tfm" ] }, "comments" : [ "See CL:0002619." ], + "xrefs" : [ { + "val" : "ZFA:0005773" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0003-1980-3228" @@ -2202,7 +2305,10 @@ "val" : "A cuboidal epithelial cell of the kidney which regulates sodium and potassium balance. The activity of sodium and potassium channels on the apical membrane of the cell is regulated by aldosterone and vasopressin. In mammals this cell type is located in the renal collecting duct system.", "xrefs" : [ "CL:CVS" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], + "xrefs" : [ { + "val" : "ZFA:0005322" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0007004", @@ -2213,6 +2319,9 @@ "val" : "Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells.", "xrefs" : [ "UBERONREF:0000002" ] }, + "xrefs" : [ { + "val" : "ZFA:0007084" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0001-9114-8737" @@ -2283,6 +2392,9 @@ "xrefs" : [ "Wiki:Mural_cell&oldid=930603194" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#added_for_HCA", "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], + "xrefs" : [ { + "val" : "ZFA:0005944" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -2498,6 +2610,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "KUPO:0001010" + }, { + "val" : "ZFA:0009389" } ] } }, { @@ -2511,6 +2625,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/cl#kidney_upper_slim" ], "xrefs" : [ { "val" : "KUPO:0001013" + }, { + "val" : "ZFA:0009390" } ] } }, { @@ -2524,6 +2640,8 @@ }, "xrefs" : [ { "val" : "KUPO:0001017" + }, { + "val" : "ZFA:0009391" } ] } }, { @@ -2557,6 +2675,10 @@ "lbl" : "kidney glomerular epithelial cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any kidney epithelial cell that is part of some glomerular epithelium.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "KUPO:0001023" @@ -2580,6 +2702,10 @@ "lbl" : "kidney papillary duct principal epithelial cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any kidney cell that is part of some papillary duct.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#kidney_upper_slim" ], "xrefs" : [ { "val" : "KUPO:0001064" @@ -2590,6 +2716,10 @@ "lbl" : "kidney corpuscule cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any renal cortical epithelial cell that is part of some renal corpuscle.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#kidney_upper_slim" ], "xrefs" : [ { "val" : "KUPO:0001021" @@ -2600,6 +2730,10 @@ "lbl" : "kidney cortex tubule cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any kidney tubule cell that is part of some renal cortex tubule.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "KUPO:0001024" @@ -2610,6 +2744,10 @@ "lbl" : "juxtaglomerular complex cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any kidney cortical cell that is part of some juxtaglomerular apparatus.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#kidney_upper_slim" ], "synonyms" : [ { "pred" : "hasExactSynonym", @@ -2643,6 +2781,10 @@ "lbl" : "glomerular cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any kidney corpuscule cell that is part of some renal glomerulus.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "xrefs" : [ { "val" : "KUPO:0001036" } ] @@ -2652,6 +2794,10 @@ "lbl" : "kidney connecting tubule epithelial cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any nephron tubule epithelial cell that is part of some renal connecting tubule.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/cl#kidney_upper_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "xrefs" : [ { "val" : "KUPO:0001058" @@ -2666,6 +2812,10 @@ "lbl" : "kidney distal convoluted tubule epithelial cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any epithelial cell of distal tubule that is part of some distal convoluted tubule.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/cl#kidney_upper_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "xrefs" : [ { "val" : "KUPO:0001056" @@ -2693,6 +2843,10 @@ "lbl" : "kidney arterial blood vessel cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any kidney blood vessel cell that is part of some kidney arterial blood vessel.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#kidney_upper_slim" ], "xrefs" : [ { "val" : "KUPO:0001029" @@ -2703,6 +2857,10 @@ "lbl" : "kidney capillary endothelial cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any kidney blood vessel cell that is part of some kidney capillary.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/cl#kidney_upper_slim" ], "xrefs" : [ { "val" : "KUPO:0001030" @@ -2713,6 +2871,10 @@ "lbl" : "kidney venous blood vessel cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any kidney blood vessel cell that is part of some renal vein.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#kidney_upper_slim" ], "xrefs" : [ { "val" : "KUPO:0001031" @@ -2723,6 +2885,10 @@ "lbl" : "kidney loop of Henle epithelial cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any nephron tubule epithelial cell that is part of some loop of Henle.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "KUPO:0001047" @@ -2733,6 +2899,10 @@ "lbl" : "kidney loop of Henle ascending limb epithelial cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any kidney loop of Henle epithelial cell that is part of some ascending limb of loop of Henle.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/cl#kidney_upper_slim" ], "xrefs" : [ { "val" : "KUPO:0001048" @@ -2743,6 +2913,10 @@ "lbl" : "kidney loop of Henle descending limb epithelial cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any kidney loop of Henle epithelial cell that is part of some descending limb of loop of Henle.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#kidney_upper_slim" ], "xrefs" : [ { "val" : "KUPO:0001053" @@ -2867,34 +3041,6 @@ "val" : "results_in_fission_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0000003", - "lbl" : "reproduction", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms.", - "xrefs" : [ "GOC:go_curators", "GOC:isa_complete", "GOC:jl", "ISBN:0198506732" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "reproductive physiological process" - } ], - "xrefs" : [ { - "val" : "Wikipedia:Reproduction" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0019952" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0050876" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000226", "lbl" : "microtubule cytoskeleton organization", @@ -3667,7 +3813,7 @@ "xrefs" : [ "GOC:go_curators" ] }, "comments" : [ "Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "extracellular" @@ -3785,7 +3931,7 @@ "xrefs" : [ "ISBN:0198547684" ] }, "comments" : [ "Note that for multicellular organisms, the extracellular space refers to everything outside a cell, but still within the organism (excluding the extracellular matrix). Gene products from a multi-cellular organism that are secreted from a cell into the interstitial fluid or blood can therefore be annotated to this term." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "intercellular space" @@ -3846,7 +3992,7 @@ "val" : "A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell nucleus" @@ -3875,7 +4021,7 @@ "xrefs" : [ "ISBN:0198547684" ] }, "comments" : [ "Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "interphase chromosome" @@ -3923,7 +4069,7 @@ "val" : "The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.", "xrefs" : [ "ISBN:0198547684" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "xrefs" : [ { "val" : "Wikipedia:Cytoplasm" } ], @@ -3944,7 +4090,7 @@ "val" : "A closed structure, found only in eukaryotic cells, that is completely surrounded by unit membrane and contains liquid material. Cells contain one or several vacuoles, that may have different functions from each other. Vacuoles have a diverse array of functions. They can act as a storage organelle for nutrients or waste products, as a degradative compartment, as a cost-effective way of increasing cell size, and as a homeostatic regulator controlling both turgor pressure and pH of the cytosol.", "xrefs" : [ "GOC:mtg_sensu", "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "vacuolar carboxypeptidase Y" @@ -3967,7 +4113,7 @@ "xrefs" : [ "ISBN:0198506732" ] }, "comments" : [ "Note that the Golgi apparatus can be located in various places in the cytoplasm. In plants and lower animal cells, the Golgi apparatus exists as many copies of discrete stacks dispersed throughout the cytoplasm, while the Golgi apparatus of interphase mammalian cells is a juxtanuclear, often pericentriolar reticulum, where the discrete Golgi stacks are stitched together to form a compact and interconnected ribbon, sometimes called the Golgi ribbon." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "Golgi" @@ -4023,7 +4169,7 @@ "val" : "An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "free ribosome", @@ -4058,7 +4204,7 @@ "val" : "A cellular structure that forms the internal framework of eukaryotic and prokaryotic cells. The cytoskeleton includes intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles.", "xrefs" : [ "GOC:mah", "PMID:16959967", "PMID:27419875" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "xrefs" : [ { "val" : "Wikipedia:Cytoskeleton" } ], @@ -4107,7 +4253,7 @@ "val" : "The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.", "xrefs" : [ "ISBN:0716731363" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "juxtamembrane" @@ -4292,7 +4438,7 @@ "val" : "The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "protein anabolism" @@ -4431,7 +4577,7 @@ "xrefs" : [ "GOC:dos", "GOC:dph", "GOC:jl", "GOC:mah" ] }, "comments" : [ "Note that this term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term, for e.g. to transmembrane transport, to microtubule-based transport or to vesicle-mediated transport." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "single-organism transport" @@ -4637,7 +4783,8 @@ "val" : "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "organelle organisation" @@ -4654,6 +4801,9 @@ "val" : "single-organism organelle organization" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -4739,7 +4889,7 @@ "val" : "The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.", "xrefs" : [ "GOC:go_curators", "GOC:mtg_cell_cycle" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell-division cycle" @@ -4802,20 +4952,8 @@ "xrefs" : [ "GOC:go_curators", "GOC:mtg_signaling_feb11" ] }, "comments" : [ "Note that signal transduction is defined broadly to include a ligand interacting with a receptor, downstream signaling steps and a response being triggered. A change in form of the signal in every step is not necessary. Note that in many cases the end of this process is regulation of the initiation of transcription. Note that specific transcription factors may be annotated to this term, but core/general transcription machinery such as RNA polymerase should not." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by cis-phosphorylation" - }, { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by conformational transition" - }, { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by protein phosphorylation" - }, { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by trans-phosphorylation" - }, { "pred" : "hasNarrowSynonym", "val" : "signaling cascade" }, { @@ -4826,8 +4964,7 @@ "val" : "signaling pathway" }, { "pred" : "hasRelatedSynonym", - "val" : "signalling pathway", - "xrefs" : [ "GOC:mah" ] + "val" : "signalling pathway" } ], "xrefs" : [ { "val" : "Wikipedia:Signal_transduction" @@ -5197,7 +5334,7 @@ "xrefs" : [ "GOC:go_curators", "ISBN:0198547684" ] }, "comments" : [ "Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "metabolism" @@ -5218,6 +5355,9 @@ "val" : "Wikipedia:Metabolism" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/26424" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -5296,7 +5436,7 @@ "val" : "The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.", "xrefs" : [ "GOC:curators", "ISBN:0198547684" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "formation" @@ -5345,7 +5485,8 @@ "val" : "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "biopolymer biosynthetic process", @@ -5369,6 +5510,9 @@ }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/25418" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0043284" @@ -5467,7 +5611,7 @@ "val" : "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant.", "xrefs" : [ "GOC:go_curators", "GOC:isa_complete", "GOC:mtg_sensu" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "embryogenesis and morphogenesis" @@ -5670,7 +5814,7 @@ "xrefs" : [ "GOC:lr", "GOC:mtg_apoptosis" ] }, "comments" : [ "Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "regulated cell death" @@ -5851,7 +5995,7 @@ "val" : "A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component.", "xrefs" : [ "GOC:ai", "GOC:jl", "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell organisation" @@ -5917,7 +6061,7 @@ "val" : "A cellular transport process in which transported substances are moved in membrane-bounded vesicles; transported substances are enclosed in the vesicle lumen or located in the vesicle membrane. The process begins with a step that directs a substance to the forming vesicle, and includes vesicle budding and coating. Vesicles are then targeted to, and fuse with, an acceptor membrane.", "xrefs" : [ "GOC:ai", "GOC:mah", "ISBN:08789310662000" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_pombe" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_pombe" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "vesicle transport" @@ -6032,7 +6176,8 @@ "val" : "The chemical reactions and pathways involving a protein. Includes protein modification.", "xrefs" : [ "GOC:ma" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular protein metabolic process" @@ -6058,6 +6203,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/23112" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0006411" @@ -6116,7 +6264,7 @@ "val" : "The cellular process that ensures successive accurate and complete genome replication and chromosome segregation.", "xrefs" : [ "GOC:isa_complete", "GOC:mtg_cell_cycle" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -6146,7 +6294,8 @@ "val" : "A cellular process that results in the breakdown of a cellular component.", "xrefs" : [ "GOC:isa_complete" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell structure disassembly" @@ -6155,6 +6304,9 @@ "val" : "cellular component disassembly at cellular level" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0071845" }, { @@ -6171,12 +6323,18 @@ "val" : "A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents.", "xrefs" : [ "GOC:dph", "GOC:isa_complete" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_generic" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "single organism reproductive process" } ], + "xrefs" : [ { + "val" : "Wikipedia:Reproduction" + } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27054" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -6214,7 +6372,7 @@ "val" : "The aggregation, arrangement and bonding together of a cellular component.", "xrefs" : [ "GOC:isa_complete" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell structure assembly" @@ -6288,7 +6446,7 @@ "xrefs" : [ "GOC:mtg_signal", "GOC:mtg_signaling_feb11", "GOC:signaling" ] }, "comments" : [ "Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "biological signaling" @@ -6474,7 +6632,7 @@ "val" : "The cellular developmental process in which a relatively unspecialized cell, e.g. embryonic or regenerative cell, acquires specialized structural and/or functional features that characterize a specific cell. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "xrefs" : [ { "val" : "Wikipedia:Cellular_differentiation" } ], @@ -6672,7 +6830,7 @@ "val" : "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues.", "xrefs" : [ "GOC:BHF", "GOC:mah", "GOC:rph", "NIF_Subcellular:nlx_subcell_20090513", "PMID:21123617", "PMID:28089324" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "proteinaceous extracellular matrix" @@ -6892,6 +7050,7 @@ "val" : "Any biological process, occurring at the level of a multicellular organism, pertinent to its function.", "xrefs" : [ "GOC:curators", "GOC:dph", "GOC:isa_complete", "GOC:tb" ] }, + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", @@ -6901,6 +7060,9 @@ "val" : "single-multicellular organism process" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://purl.obolibrary.org/obo/RO_0002161", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_2" }, { @@ -6960,21 +7122,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0032504", - "lbl" : "multicellular organism reproduction", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "The biological process in which new individuals are produced by one or two multicellular organisms. The new individuals inherit some proportion of their genetic material from the parent or parents.", - "xrefs" : [ "GOC:isa_complete", "GOC:jid" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0032838", "lbl" : "plasma membrane bounded cell projection cytoplasm", @@ -7059,7 +7206,7 @@ "xrefs" : [ "GOC:dos", "GOC:mah" ] }, "comments" : [ "A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "macromolecular complex" @@ -7553,7 +7700,7 @@ "val" : "A prolongation or process extending from a cell, e.g. a flagellum or axon.", "xrefs" : [ "GOC:jl", "http://www.cogsci.princeton.edu/~wn/" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "cell process" @@ -7651,7 +7798,7 @@ "val" : "Organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton, and prokaryotic structures such as anammoxosomes and pirellulosomes. Excludes the plasma membrane.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "xrefs" : [ { "val" : "NIF_Subcellular:sao1539965131" }, { @@ -7951,7 +8098,7 @@ "val" : "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism.", "xrefs" : [ "GOC:go_curators", "http://www.metacyc.org" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "primary metabolism" @@ -7973,6 +8120,8 @@ "val" : "The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells.", "xrefs" : [ "GOC:jl" ] }, + "comments" : [ "This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular anabolism" @@ -7987,6 +8136,9 @@ "val" : "cellular synthesis" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27052" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -8051,7 +8203,7 @@ "val" : "The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane.", "xrefs" : [ "GOC:aruk", "ISBN:0198506732", "PMID:24619342", "PMID:29383328", "PMID:31998110" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_synapse" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_synapse" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "synaptic junction" @@ -8291,6 +8443,7 @@ "val" : "The process, occurring above the cellular level, that is pertinent to the reproductive function of a multicellular organism. This includes the integrated processes at the level of tissues and organs.", "xrefs" : [ "GOC:dph", "GOC:jid", "GOC:tb" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_drosophila" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "organismal reproductive process" @@ -8299,6 +8452,9 @@ "val" : "reproductive process in a multicellular organism" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27054" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -8381,7 +8537,7 @@ "val" : "The biological process whose specific outcome is the progression of an anatomical structure from an initial condition to its mature state. This process begins with the formation of the structure and ends with the mature structure, whatever form that may be including its natural destruction. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome.", "xrefs" : [ "GO_REF:0000021" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "development of an anatomical structure" @@ -8417,7 +8573,7 @@ "val" : "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another.", "xrefs" : [ "GOC:dgh", "GOC:dph", "GOC:isa_complete", "GOC:mlg" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell locomotion" @@ -8431,6 +8587,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/19809" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002161", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_4890" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -8619,7 +8778,7 @@ "xrefs" : [ "GOC:ai", "GOC:bf" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "physiological response to stimulus" @@ -8641,7 +8800,7 @@ "val" : "Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation.", "xrefs" : [ "GOC:ai", "GOC:dos" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "establishment and maintenance of localization" @@ -8670,6 +8829,9 @@ "val" : "single-organism localization" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27052" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -8824,7 +8986,8 @@ "val" : "A cellular localization process whereby a substance or cellular entity, such as a protein complex or organelle, is transported to, and/or maintained in, a specific location within a cell including the localization of substances or cellular entities to the cell membrane.", "xrefs" : [ "GOC:tb", "GOC:vw" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular localisation", @@ -8850,6 +9013,9 @@ "val" : "single-organism cellular localization" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -8968,7 +9134,7 @@ "xrefs" : [ "GOC:bf", "GOC:jl" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -8984,7 +9150,7 @@ "xrefs" : [ "GOC:dph", "GOC:jid" ] }, "comments" : [ "Transmembrane transport is the transport of a solute across a lipid bilayer. Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane and is not traversed. For transport through the nuclear pore, consider instead the term 'nucleocytoplasmic transport ; GO:0006913' and its children. Note also that this term is not intended for use in annotating lateral movement within membranes." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "membrane transport" @@ -9592,7 +9758,8 @@ "val" : "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular component organisation or biogenesis", @@ -9606,6 +9773,9 @@ "val" : "cellular component organization or biogenesis at cellular level" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "mah" }, { @@ -9980,7 +10150,7 @@ "xrefs" : [ "GOC:dos" ] }, "comments" : [ "Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "region of plasma membrane" @@ -10455,6 +10625,7 @@ "val" : "The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon.", "xrefs" : [ "GOC:TermGenie", "GOC:pr" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "organic molecular entity anabolism", @@ -10488,6 +10659,9 @@ "val" : "organic substance synthesis" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/26424" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "pr" }, { @@ -13661,38 +13835,6 @@ "val" : "protein" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/PR_000050567", - "lbl" : "protein-containing material entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A material entity that minimally consists of a protein.", - "xrefs" : [ "PRO:DAN" ] - }, - "comments" : [ "Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566)." ], - "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "protein", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein aggregate", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein complex", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein-containing complex", - "xrefs" : [ "PRO:DAN" ] - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "protein" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000052", "lbl" : "characteristic of", @@ -13766,20 +13908,6 @@ "val" : "has_participant" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000079", - "lbl" : "function of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000080", "lbl" : "quality of", @@ -13794,33 +13922,6 @@ "val" : "A quality inheres in its bearer at all times for which the quality exists." } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000081", - "lbl" : "role of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000085", - "lbl" : "has function", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000086", "lbl" : "has quality", @@ -13834,39 +13935,6 @@ "val" : "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000087", - "lbl" : "has role", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000091", - "lbl" : "has disposition", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000092", - "lbl" : "disposition of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "inverse of has disposition" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0001000", "lbl" : "derives from", @@ -13989,104 +14057,6 @@ "val" : "bounding_layer_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002013", - "lbl" : "has regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." - }, - "xrefs" : [ { - "val" : "RO:0002013" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:30:46Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "has_regulatory_component_activity" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002014", - "lbl" : "has negative regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." - }, - "comments" : [ "By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'." ], - "xrefs" : [ { - "val" : "RO:0002014" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:31:01Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "has_negative_regulatory_component_activity" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002015", - "lbl" : "has positive regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." - }, - "comments" : [ "By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:31:17Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002017", - "lbl" : "has component activity", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:44:33Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002018", - "lbl" : "has component process", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:49:21Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002021", "lbl" : "occurs across", @@ -14103,72 +14073,6 @@ "val" : "2017-07-20T17:19:37Z" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002022", - "lbl" : "directly regulated by", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:24Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002023", - "lbl" : "directly negatively regulated by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:38Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002024", - "lbl" : "directly positively regulated by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:47Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002025", - "lbl" : "has effector activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "comments" : [ "This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-22T14:14:36Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002081", "lbl" : "before or simultaneous with", @@ -15318,20 +15222,6 @@ "val" : "A relationship that holds between entities participating in some developmental process (GO:0032502)" } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002327", - "lbl" : "enables", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c enables p iff c is capable of p and c acts to execute p." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Enables" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002328", "lbl" : "functionally related to", @@ -15359,19 +15249,6 @@ "val" : "holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002331", - "lbl" : "involved in", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved_in p if and only if c enables some process p', and p' is part of p" - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Involved_in" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002332", "lbl" : "regulates levels of", @@ -15391,20 +15268,6 @@ "val" : "regulates_levels_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002333", - "lbl" : "enabled by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "inverse of enables" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Enabled_by" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002334", "lbl" : "regulated by", @@ -15800,48 +15663,6 @@ "val" : "causally_downstream_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002405", - "lbl" : "immediately causally downstream of", - "type" : "PROPERTY", - "meta" : { - "xrefs" : [ { - "val" : "RO:0002405" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "immediately_causally_downstream_of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002407", - "lbl" : "indirectly positively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Indirectly_positively_regulates" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002409", - "lbl" : "indirectly negatively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Indirectly_negatively_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002410", "lbl" : "causally related to", @@ -15876,25 +15697,6 @@ "val" : "causally_upstream_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002412", - "lbl" : "immediately causally upstream of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." - }, - "xrefs" : [ { - "val" : "RO:0002412" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "immediately_causally_upstream_of" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002418", "lbl" : "causally upstream of or within", @@ -15950,28 +15752,6 @@ "val" : "c involved in regulation of p if c is involved in some p' and p' regulates some p" } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002429", - "lbl" : "involved in positive regulation of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002430", - "lbl" : "involved in negative regulation of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002428" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002431", "lbl" : "involved in or involved in regulation of", @@ -15985,25 +15765,6 @@ "val" : "OWL does not allow defining object properties via a Union" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002432", - "lbl" : "is active in", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure.", - "xrefs" : [ "https://orcid.org/0000-0002-6601-2165", "https://orcid.org/0000-0002-7073-9172" ] - }, - "comments" : [ "" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "enables activity in" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Is_active_in" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002433", "lbl" : "contributes to morphology of", @@ -16013,96 +15774,6 @@ "val" : "p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002434", - "lbl" : "interacts with", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "in pairwise interaction with" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Considering relabeling as 'pairwise interacts with'" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002436", - "lbl" : "molecularly interacts with", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ECO_0000353" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002447", - "lbl" : "phosphorylates", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Axiomatization to GO to be added later" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002448", - "lbl" : "directly regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly controls" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002449", - "lbl" : "directly negatively regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly decreases activity of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002450", - "lbl" : "directly positively regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly increases activity of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002464", - "lbl" : "helper property (not for use in curation)", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002473", "lbl" : "composed primarily of", @@ -16123,10 +15794,6 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002481", - "lbl" : "is kinase activity", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002485", "lbl" : "receives input from", @@ -16279,16 +15946,6 @@ "val" : "http://purl.obolibrary.org/obo/BFO_0000169" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002506", - "lbl" : "causal relation between entities", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002551", "lbl" : "has skeleton", @@ -16298,27 +15955,6 @@ "val" : "A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002559", - "lbl" : "causally influenced by", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002563", - "lbl" : "interaction relation helper property", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002564", - "lbl" : "molecular interaction relation helper property", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002565", "lbl" : "results in movement of", @@ -16339,15 +15975,6 @@ "val" : "results_in_movement_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002566", - "lbl" : "causally influences", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." - } - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002567", "lbl" : "biomechanically related to", @@ -16416,26 +16043,6 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002578", - "lbl" : "directly regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly regulates q iff p is immediately causally upstream of q and p regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002578" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002584", "lbl" : "has part structure that is capable of", @@ -16565,55 +16172,6 @@ "val" : "process_has_causal_agent" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002629", - "lbl" : "directly positively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002629" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_positively_regulates" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Directly_positively_regulates" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002630", - "lbl" : "directly negatively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002630" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_negatively_regulates" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Directly_negatively_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0003000", "lbl" : "produces", @@ -16735,102 +16293,6 @@ "val" : "has_primary_input" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004031", - "lbl" : "enables subfunction", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-25T23:20:13Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004032", - "lbl" : "acts upstream of or within, positive effect", - "type" : "PROPERTY", - "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:49:30Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004033", - "lbl" : "acts upstream of or within, negative effect", - "type" : "PROPERTY", - "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:49:51Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004034", - "lbl" : "acts upstream of, positive effect", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:53:14Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004035", - "lbl" : "acts upstream of, negative effect", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:53:22Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0004046", "lbl" : "causally upstream of or within, negative effect", @@ -16879,15 +16341,6 @@ "val" : "2018-03-14T00:03:24Z" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0011002", - "lbl" : "regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." - } - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0012000", "lbl" : "has small molecule regulator", @@ -17013,38 +16466,6 @@ "val" : "results_in_fusion_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0012011", - "lbl" : "indirectly causally upstream of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0003-1813-6857" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2022-09-26T06:07:17Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0012012", - "lbl" : "indirectly regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0003-1813-6857" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2022-09-26T06:08:01Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0013001", "lbl" : "has synaptic IO in region", @@ -17184,75 +16605,15 @@ "pred" : "hasBroadSynonym", "val" : "utilizes" } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2021-11-08T12:00:00Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019000", - "lbl" : "regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019000" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "regulates_characteristic" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019001", - "lbl" : "positively regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019001" - } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" + "val" : "https://orcid.org/0000-0001-9625-1899" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "positively_regulates_characteristic" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019002", - "lbl" : "negatively regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019002" - } ], - "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" + "val" : "https://orcid.org/0000-0003-2620-0345" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "negatively_regulates_characteristic" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2021-11-08T12:00:00Z" } ] } }, { @@ -17374,6 +16735,8 @@ "val" : "EMAPA:37283" }, { "val" : "EV:0100155" + }, { + "val" : "FBbt:00007000" }, { "val" : "HAO:0000144" }, { @@ -17567,6 +16930,8 @@ } ], "xrefs" : [ { "val" : "AAO:0011123" + }, { + "val" : "FBbt:00100314" }, { "val" : "FMA:30320" }, { @@ -17656,6 +17021,8 @@ "val" : "EHDAA2:0003003" }, { "val" : "EMAPA:0" + }, { + "val" : "FBbt:00007001" }, { "val" : "FMA:305751" }, { @@ -19125,6 +18492,8 @@ "val" : "EHDAA:542" }, { "val" : "EMAPA:16262" + }, { + "val" : "FBbt:00003126" }, { "val" : "FMA:49184" }, { @@ -19651,6 +19020,8 @@ "val" : "EHDAA2:0003004" }, { "val" : "EMAPA:35178" + }, { + "val" : "FBbt:00007019" }, { "val" : "FMA:9669" }, { @@ -19723,6 +19094,8 @@ "val" : "CARO:0000005" }, { "val" : "EHDAA2:0003005" + }, { + "val" : "FBbt:00007017" }, { "val" : "FMA:5897" }, { @@ -19776,6 +19149,8 @@ "val" : "CARO:0000006" }, { "val" : "EHDAA2:0003006" + }, { + "val" : "FBbt:00007016" }, { "val" : "FMA:67165" }, { @@ -19826,6 +19201,8 @@ "val" : "CARO:0000007" }, { "val" : "EHDAA2:0003007" + }, { + "val" : "FBbt:00007015" }, { "val" : "FMA:67112" }, { @@ -19904,6 +19281,8 @@ "val" : "EMAPA:16103" }, { "val" : "EV:0100000" + }, { + "val" : "FBbt:00004856" }, { "val" : "FMA:7149" }, { @@ -20016,6 +19395,8 @@ "val" : "EMAPA:25765" }, { "val" : "EV:0100016" + }, { + "val" : "FBbt:00000001" }, { "val" : "FMA:256135" }, { @@ -20148,6 +19529,8 @@ "val" : "EHDAA2:0003032" }, { "val" : "EMAPA:36031" + }, { + "val" : "FBbt:00007009" }, { "val" : "FMA:7153" }, { @@ -20222,6 +19605,8 @@ "val" : "CARO:0000040" }, { "val" : "EHDAA2:0003040" + }, { + "val" : "FBbt:00007013" }, { "val" : "FMA:63863" }, { @@ -20260,6 +19645,8 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy", "http://purl.obolibrary.org/obo/uberon/core#upper_level" ], "xrefs" : [ { + "val" : "FBbt:00007277" + }, { "val" : "VHOG:0001737" } ], "basicPropertyValues" : [ { @@ -20316,6 +19703,8 @@ "val" : "EHDAA2:0003043" }, { "val" : "EMAPA:35868" + }, { + "val" : "FBbt:00007003" }, { "val" : "FMA:9637" }, { @@ -20386,6 +19775,8 @@ "val" : "CARO:0000055" }, { "val" : "EHDAA2:0003055" + }, { + "val" : "FBbt:00007010" }, { "val" : "HAO:0000055" }, { @@ -20450,6 +19841,8 @@ "val" : "EHDAA2:0003066" }, { "val" : "EMAPA:32738" + }, { + "val" : "FBbt:00007005" }, { "val" : "FMA:9639" }, { @@ -20525,6 +19918,8 @@ "val" : "CARO:0000068" }, { "val" : "EHDAA2_RETIRED:0003068" + }, { + "val" : "FBbt:00007027" }, { "val" : "FMA:45567" }, { @@ -20865,6 +20260,8 @@ "val" : "EHDAA:38" }, { "val" : "EMAPA:16039" + }, { + "val" : "FBbt:00000052" }, { "val" : "FMA:69068" }, { @@ -20943,6 +20340,8 @@ "val" : "BTO:0000556" }, { "val" : "EMAPA:36033" + }, { + "val" : "FBbt:00000110" }, { "val" : "FMA:69069" }, { @@ -21004,6 +20403,8 @@ "val" : "EMAPA:16069" }, { "val" : "EV:0100003" + }, { + "val" : "FBbt:00000111" }, { "val" : "FMA:69070" }, { @@ -21073,6 +20474,8 @@ "val" : "EMAPA:16062" }, { "val" : "EV:0100005" + }, { + "val" : "FBbt:00000125" }, { "val" : "FMA:69071" }, { @@ -21155,6 +20558,8 @@ "val" : "EMAPA:16083" }, { "val" : "EV:0100006" + }, { + "val" : "FBbt:00000126" }, { "val" : "FMA:69072" }, { @@ -21244,6 +20649,8 @@ "val" : "EHDAA2:0001929" }, { "val" : "EMAPA:16263" + }, { + "val" : "FBbt:00000439" }, { "val" : "FMA:295846" }, { @@ -21307,6 +20714,8 @@ "val" : "EHDAA2:0000121" }, { "val" : "EMAPA:25038" + }, { + "val" : "FBbt:00000123" }, { "val" : "NCIT:C34278" }, { @@ -21626,6 +21035,8 @@ "val" : "EMAPA:17381" }, { "val" : "EV:0100100" + }, { + "val" : "FBbt:00004857" }, { "val" : "FMA:7160" }, { @@ -21770,6 +21181,8 @@ "val" : "CALOHA:TS-1293" }, { "val" : "EFO:0000793" + }, { + "val" : "FBbt:00005055" }, { "val" : "FMA:7152" }, { @@ -21865,6 +21278,8 @@ "val" : "EMAPA:17366" }, { "val" : "EV:0100095" + }, { + "val" : "FBbt:00005056" }, { "val" : "FMA:7159" }, { @@ -22078,6 +21493,8 @@ "val" : "EMAPA:16469" }, { "val" : "EV:0100162" + }, { + "val" : "FBbt:00005093" }, { "val" : "FMA:7157" }, { @@ -22180,6 +21597,8 @@ "val" : "EMAPA:16754" }, { "val" : "EV:0100163" + }, { + "val" : "FBbt:00005094" }, { "val" : "FMA:55675" }, { @@ -22253,6 +21672,8 @@ "val" : "EHDAA:520" }, { "val" : "EMAPA:16548" + }, { + "val" : "FBbt:00005379" }, { "val" : "FMA:45616" }, { @@ -22311,6 +21732,8 @@ "val" : "EHDAA:983" }, { "val" : "EMAPA:16255" + }, { + "val" : "FBbt:00005383" }, { "val" : "FMA:45617" }, { @@ -22369,6 +21792,8 @@ "val" : "EHDAA:975" }, { "val" : "EMAPA:16715" + }, { + "val" : "FBbt:00005384" }, { "val" : "FMA:45618" }, { @@ -22436,6 +21861,8 @@ "val" : "EFO:0001652" }, { "val" : "EHDAA2:0003171" + }, { + "val" : "FBbt:00005495" }, { "val" : "FMA:86589" }, { @@ -22551,6 +21978,8 @@ "val" : "CARO:0000000" }, { "val" : "EHDAA2:0002229" + }, { + "val" : "FBbt:10000000" }, { "val" : "FMA:62955" }, { @@ -23265,6 +22694,8 @@ "val" : "CALOHA:TS-2005" }, { "val" : "EV:0100082" + }, { + "val" : "FBbt:00047153" }, { "val" : "FMA:15711" }, { @@ -24059,6 +23490,8 @@ "val" : "EHDAA:518" }, { "val" : "EMAPA:16247" + }, { + "val" : "FBbt:00003125" }, { "val" : "FMA:45615" }, { @@ -24812,6 +24245,8 @@ "val" : "CALOHA:TS-2110" }, { "val" : "EFO:0000461" + }, { + "val" : "FBbt:00004208" }, { "val" : "FMA:69067" }, { @@ -25737,6 +25172,8 @@ "val" : "BTO:0001707" }, { "val" : "EHDAA2:0000267" + }, { + "val" : "FBbt:00005060" }, { "val" : "FMA:85006" }, { @@ -26085,6 +25522,8 @@ "val" : "EMAPA:16073" }, { "val" : "EV:0100004" + }, { + "val" : "FBbt:00001057" }, { "val" : "FMA:87657" }, { @@ -27767,6 +27206,8 @@ "val" : "AEO:0000114" }, { "val" : "EHDAA2:0003114" + }, { + "val" : "FBbt:00007474" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -29405,6 +28846,8 @@ "val" : "BILA:0000060" }, { "val" : "BTO:0001403" + }, { + "val" : "FBbt:00005317" }, { "val" : "FMA:293108" }, { @@ -29826,6 +29269,9 @@ "pred" : "hasNarrowSynonym", "val" : "joint" } ], + "xrefs" : [ { + "val" : "FBbt:00005811" + } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -29861,6 +29307,8 @@ "xrefs" : [ "FMA:71131" ] } ], "xrefs" : [ { + "val" : "FBbt:00100315" + }, { "val" : "FMA:71131" } ], "basicPropertyValues" : [ { @@ -30683,6 +30131,8 @@ "val" : "CALOHA:TS-2122" }, { "val" : "EHDAA2:0003125" + }, { + "val" : "FBbt:00007006" }, { "val" : "FMA:292313" }, { @@ -31599,6 +31049,8 @@ "val" : "terminal section of digestive tract" } ], "xrefs" : [ { + "val" : "FBbt:00005756" + }, { "val" : "WBbt:0005773" } ], "basicPropertyValues" : [ { @@ -32195,6 +31647,8 @@ "val" : "EFO:0001649" }, { "val" : "EHDAA2:0003170" + }, { + "val" : "FBbt:00005426" }, { "val" : "Wikipedia:Anlage_(biology)" } ], @@ -32752,6 +32206,8 @@ } ], "xrefs" : [ { "val" : "CARO:0010000" + }, { + "val" : "FBbt:00100313" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -33194,6 +32650,8 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#upper_level" ], "xrefs" : [ { + "val" : "FBbt:00007330" + }, { "val" : "FMA:67509" }, { "val" : "SCTID:91690000" @@ -33961,6 +33419,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy" ], "xrefs" : [ { "val" : "CARO:0020000" + }, { + "val" : "FBbt:00007276" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -34711,26 +34171,6 @@ } } ], "edges" : [ { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000004", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000015", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000020", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000040", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000141", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000000", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" @@ -34916,10 +34356,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000064", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000000" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000064", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000064", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -35258,10 +34694,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000547", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0002242" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000547", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000547", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -35336,10 +34768,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000549", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000549", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -35362,10 +34790,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000550", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000550", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -35506,10 +34930,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000558", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000558", "pred" : "http://purl.obolibrary.org/obo/CL_4030046", @@ -35580,10 +35000,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000566", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0011026" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000566", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000566", "pred" : "http://purl.obolibrary.org/obo/RO_0002104", @@ -35778,10 +35194,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000837", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0008001" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000837", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000837", "pred" : "http://purl.obolibrary.org/obo/CL_4030046", @@ -36564,10 +35976,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_4033054", "pred" : "http://purl.obolibrary.org/obo/RO_0002220", "obj" : "http://purl.obolibrary.org/obo/UBERON_0002049" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0000003", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0008150" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0000226", "pred" : "is_a", @@ -36880,10 +36288,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0003097", "pred" : "http://purl.obolibrary.org/obo/BFO_0000066", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001008" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0005575", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005576", "pred" : "is_a", @@ -37000,8 +36404,8 @@ "obj" : "http://purl.obolibrary.org/obo/GO_0043232" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005840", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", + "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005840", "pred" : "http://purl.obolibrary.org/obo/RO_0002216", @@ -37038,10 +36442,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0005929", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0120025" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0005929", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005929", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -37338,10 +36738,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0008104", "pred" : "http://purl.obolibrary.org/obo/RO_0004009", "obj" : "http://purl.obolibrary.org/obo/PR_000000001" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0008150", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000015" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0008152", "pred" : "is_a", @@ -37593,7 +36989,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/GO_0019953", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0000003" + "obj" : "http://purl.obolibrary.org/obo/GO_0022414" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0021915", "pred" : "is_a", @@ -37638,10 +37034,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0022414", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0008150" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0022414", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/GO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0022600", "pred" : "is_a", @@ -37722,6 +37114,10 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0030097", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0048468" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0030097", + "pred" : "http://purl.obolibrary.org/obo/RO_0002160", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0030097", "pred" : "http://purl.obolibrary.org/obo/RO_0002296", @@ -37866,14 +37262,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0032502", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0008150" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0032504", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0000003" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0032504", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0032501" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0032838", "pred" : "is_a", @@ -37908,8 +37296,8 @@ "obj" : "http://purl.obolibrary.org/obo/GO_0005575" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0032991", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", + "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0032993", "pred" : "is_a", @@ -38054,10 +37442,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0042073", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_2759" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0042391", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0042391", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -38334,10 +37718,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0048609", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0022414" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0048609", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/GO_0032504" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0048646", "pred" : "is_a", @@ -38906,10 +38286,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0098644", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0099080" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0098644", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0098644", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -39274,10 +38650,6 @@ "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_9989", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_314147" - }, { - "sub" : "http://purl.obolibrary.org/obo/PATO_0000001", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000020" }, { "sub" : "http://purl.obolibrary.org/obo/PATO_0000051", "pred" : "is_a", @@ -39626,14 +38998,6 @@ "sub" : "http://purl.obolibrary.org/obo/PR_000050025", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/PR_000000001" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000050567", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000050567", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", - "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000025", "pred" : "is_a", @@ -39750,10 +39114,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000057", "pred" : "http://purl.obolibrary.org/obo/uberon/core#channels_from", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001255" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000058", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000058", "pred" : "is_a", @@ -39818,10 +39178,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000064", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000062" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", "pred" : "is_a", @@ -39838,10 +39194,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", "pred" : "http://purl.obolibrary.org/obo/BFO_0000063", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000071" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", "pred" : "is_a", @@ -39858,10 +39210,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", "pred" : "http://purl.obolibrary.org/obo/RO_0002082", "obj" : "http://purl.obolibrary.org/obo/GO_0009790" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000071", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000071", "pred" : "is_a", @@ -40027,10 +39375,6 @@ "val" : "ISBN:9780878932504" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", "pred" : "is_a", @@ -40043,10 +39387,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", "pred" : "http://purl.obolibrary.org/obo/RO_0002082", "obj" : "http://purl.obolibrary.org/obo/GO_0009791" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", "pred" : "is_a", @@ -40067,10 +39407,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000105", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000104" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", "pred" : "is_a", @@ -40083,10 +39419,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", "pred" : "http://purl.obolibrary.org/obo/RO_0002223", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000104" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", "pred" : "is_a", @@ -40103,10 +39435,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", "pred" : "http://purl.obolibrary.org/obo/RO_0002087", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000106" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", "pred" : "is_a", @@ -40119,10 +39447,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", "pred" : "http://purl.obolibrary.org/obo/BFO_0000062", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000107" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", "pred" : "is_a", @@ -40149,10 +39473,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", "pred" : "is_a", @@ -40173,10 +39493,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000111", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000111", "pred" : "is_a", @@ -40323,10 +39639,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000174", "pred" : "http://purl.obolibrary.org/obo/RO_0002353", "obj" : "http://purl.obolibrary.org/obo/GO_0007588" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000178", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000178", "pred" : "is_a", @@ -40461,18 +39773,10 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000464", "pred" : "http://purl.obolibrary.org/obo/RO_0002219", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000465", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000465", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001062" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000466", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000141" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000466", "pred" : "is_a", @@ -40555,10 +39859,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000481", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000479" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000483", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000483", "pred" : "is_a", @@ -40860,7 +40160,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000990", "pred" : "http://purl.obolibrary.org/obo/RO_0002216", - "obj" : "http://purl.obolibrary.org/obo/GO_0000003" + "obj" : "http://purl.obolibrary.org/obo/GO_0022414" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000990", "pred" : "http://purl.obolibrary.org/obo/RO_0002492", @@ -41707,10 +41007,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0001851", "pred" : "http://purl.obolibrary.org/obo/RO_0002007", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000062" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0001969", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0001969", "pred" : "is_a", @@ -41769,10 +41065,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0001980", "pred" : "http://purl.obolibrary.org/obo/RO_0002433", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001637" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0001981", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0001981", "pred" : "is_a", @@ -42112,10 +41404,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0002224", "pred" : "http://purl.obolibrary.org/obo/RO_0002572", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000915" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0002303", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0002303", "pred" : "is_a", @@ -42917,7 +42205,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0003133", "pred" : "http://purl.obolibrary.org/obo/RO_0002216", - "obj" : "http://purl.obolibrary.org/obo/GO_0000003" + "obj" : "http://purl.obolibrary.org/obo/GO_0022414" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0003220", "pred" : "is_a", @@ -43480,10 +42768,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0004341", "pred" : "http://purl.obolibrary.org/obo/RO_0002387", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000926" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0004535", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0004535", "pred" : "is_a", @@ -43500,10 +42784,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0004535", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001981" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0004537", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0004537", "pred" : "is_a", @@ -43512,10 +42792,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0004537", "pred" : "http://purl.obolibrary.org/obo/RO_0002473", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001981" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0004572", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0004572", "pred" : "is_a", @@ -43530,10 +42806,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0004572", "pred" : "http://purl.obolibrary.org/obo/RO_0002351", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001637" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0004582", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0004582", "pred" : "is_a", @@ -44246,10 +43518,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0005764", "pred" : "http://purl.obolibrary.org/obo/RO_0002007", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0005769", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0005769", "pred" : "is_a", @@ -44597,10 +43865,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0006914", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/CL_0000076" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0006965", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0006965", "pred" : "is_a", @@ -45974,38 +45238,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0000052", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002314" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000079", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000080", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000052" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000081", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000085", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000086", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000087", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000091", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000092", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002000", "pred" : "subPropertyOf", @@ -46022,58 +45262,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002007", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000050" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002013", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002017" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002013", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002334" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002014", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002013" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002014", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002335" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002015", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002013" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002015", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002336" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002017", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002018" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002018", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002180" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002021", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002479" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002022", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002334" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002023", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002022" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002024", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002022" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002025", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002017" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002081", "pred" : "subPropertyOf", @@ -46446,34 +45638,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002315", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0040036" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002327", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002215" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002329", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002331", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000056" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002331", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002431" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002332", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002333", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000057" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002333", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002334", "pred" : "subPropertyOf", @@ -46626,30 +45798,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002404", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002427" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002087" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002404" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002407", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002213" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002407", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012012" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002409", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002212" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002409", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012012" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002411", "pred" : "subPropertyOf", @@ -46658,14 +45806,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002411", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002418" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002412", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002090" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002412", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002411" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002418", "pred" : "subPropertyOf", @@ -46682,14 +45822,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002428", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002431" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002429", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002428" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002430", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002428" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002431", "pred" : "subPropertyOf", @@ -46702,50 +45834,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002431", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002500" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002432", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002131" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002432", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002433", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002131" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002436", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002434" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002447", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002436" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002448", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002436" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002448", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0011002" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002449", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002448" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002450", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002448" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002473", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000051" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002481", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002564" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002485", "pred" : "subPropertyOf", @@ -46818,34 +45914,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002501", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002410" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002506", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002410" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002551", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000051" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002559", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002506" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002563", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002464" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002564", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002563" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002565", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0040036" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002566", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002506" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002567", "pred" : "subPropertyOf", @@ -46878,14 +45954,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002576", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000050" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002578", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002211" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002578", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002412" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002584", "pred" : "subPropertyOf", @@ -46942,22 +46010,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002608", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002410" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002629", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002213" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002629", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002630", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002212" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002630", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002578" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0004007", "pred" : "subPropertyOf", @@ -46978,34 +46030,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0004009", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0004007" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004031", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004032", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004033", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004034", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004034", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0004032" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004035", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004035", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0004033" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0004046", "pred" : "subPropertyOf", @@ -47014,10 +46038,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0004047", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002418" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0011002", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002566" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0012000", "pred" : "subPropertyOf", @@ -47046,18 +46066,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0012008", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002592" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0012011", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002411" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0012012", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002211" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0012012", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012011" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0013001", "pred" : "subPropertyOf", @@ -47082,18 +46090,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0015016", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002104" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0019000", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002410" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0019001", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0019000" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0019002", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0019000" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0040036", "pred" : "subPropertyOf", @@ -47162,22 +46158,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0000056", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000057" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000079", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000085" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000080", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000086" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000081", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000087" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000091", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000092" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0001000", "pred" : "inverseOf", @@ -47198,18 +46182,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002006", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002130" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002022", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002023", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002630" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002024", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002629" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002087", "pred" : "inverseOf", @@ -47290,10 +46262,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002297", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002354" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002327", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002333" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002350", "pred" : "inverseOf", @@ -47306,10 +46274,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002404", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002411" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002412" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002418", "pred" : "inverseOf", @@ -47326,10 +46290,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002551", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002576" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002559", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002566" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0003000", "pred" : "inverseOf", @@ -48496,13 +47456,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002590", "fillerId" : "http://purl.obolibrary.org/obo/GO_0005575" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0022414", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0008150" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0000003" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0022600", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0003008" ], @@ -49175,13 +48128,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002160", "fillerId" : "http://purl.obolibrary.org/obo/NCBITaxon_2759" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/PR_000050567", - "genusIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000051", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000000001" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_0000025", "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0004111" ], @@ -49295,7 +48241,7 @@ "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000467" ], "restrictions" : [ { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002216", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0000003" + "fillerId" : "http://purl.obolibrary.org/obo/GO_0022414" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_0000991", @@ -49507,7 +48453,7 @@ "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000062" ], "restrictions" : [ { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002216", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0000003" + "fillerId" : "http://purl.obolibrary.org/obo/GO_0022414" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_0003220", @@ -50221,25 +49167,6 @@ } ] } ], "domainRangeAxioms" : [ { - "predicateId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "allValuesFromEdges" : [ { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000002", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000003", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000004", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000020", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000020" - } ] - }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002162", "allValuesFromEdges" : [ { "sub" : "http://purl.obolibrary.org/obo/GO_0000278", @@ -50279,6 +49206,10 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0009888", "pred" : "http://purl.obolibrary.org/obo/RO_0002162", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_2759" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0030097", + "pred" : "http://purl.obolibrary.org/obo/RO_0002162", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0042073", "pred" : "http://purl.obolibrary.org/obo/RO_0002162", @@ -50324,50 +49255,9 @@ "pred" : "http://purl.obolibrary.org/obo/RO_0002162", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_33208" } ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/BFO_0000062", - 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"http://purl.obolibrary.org/obo/BFO_0000020" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002007", - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] + "predicateId" : "http://purl.obolibrary.org/obo/RO_0002206", + "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000465" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002315", "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002571", - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] } ], "propertyChainAxioms" : [ { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002131", @@ -50680,24 +49431,9 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002226", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002207", "http://purl.obolibrary.org/obo/RO_0001025" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002211", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0002025" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019000", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0019000" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002213", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002212", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019002", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002212", "http://purl.obolibrary.org/obo/RO_0019001" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019001", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002213", "http://purl.obolibrary.org/obo/RO_0019001" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019002", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002213", "http://purl.obolibrary.org/obo/RO_0019002" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002162", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002215", "http://purl.obolibrary.org/obo/RO_0002162" ] @@ -50758,87 +49494,12 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002314", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002314", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002331", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002327", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000051" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004031", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000051" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002327", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002017" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002428", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002211" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002448", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002430", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002429", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002213" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004034", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002304" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004035", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002305" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002263", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002566", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411", "http://purl.obolibrary.org/obo/RO_0002233" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002566", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002264", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002418" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002450", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002449", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004033", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0004046" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004032", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0004047" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002331", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002428", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002211" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002430", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002429", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002213" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002338", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002338", "http://purl.obolibrary.org/obo/BFO_0000050" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002339", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002339", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002407", "http://purl.obolibrary.org/obo/RO_0002629" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002409", "http://purl.obolibrary.org/obo/RO_0002409" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002409", "http://purl.obolibrary.org/obo/RO_0002630" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002488", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002488", "http://purl.obolibrary.org/obo/BFO_0000050" ] @@ -50866,21 +49527,6 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/uberon/core#indirectly_supplies", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002569", "http://purl.obolibrary.org/obo/uberon/core#indirectly_supplies" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002211", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002578", "http://purl.obolibrary.org/obo/RO_0002578" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002407" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002629" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002409" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002630" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0013001", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0013001", "http://purl.obolibrary.org/obo/BFO_0000050" ] diff --git a/src/ontology/subsets/kidney_upper_slim.obo b/src/ontology/subsets/kidney_upper_slim.obo index 39727a2fa..6bb9cf873 100644 --- a/src/ontology/subsets/kidney_upper_slim.obo +++ b/src/ontology/subsets/kidney_upper_slim.obo @@ -1,5 +1,5 @@ format-version: 1.2 -data-version: cl/releases/2024-04-05/subsets/kidney_upper_slim.owl +data-version: cl/releases/2024-05-15/subsets/kidney_upper_slim.owl subsetdef: abnormal_slim "" subsetdef: added_for_HCA "" subsetdef: attribute_slim "" @@ -19,19 +19,21 @@ subsetdef: eye_upper_slim "a subset of general classes related to specific cell subsetdef: functional_classification "" subsetdef: general_cell_types_upper_slim "a subset of general classes of cell types in the cell ontology." subsetdef: gocheck_do_not_annotate "" -subsetdef: gocheck_do_not_manually_annotate "" subsetdef: goslim_agr "" subsetdef: goslim_candida "" subsetdef: goslim_chembl "" subsetdef: goslim_drosophila "" +subsetdef: goslim_euk_cellular_processes_ribbon "" subsetdef: goslim_flybase_ribbon "" subsetdef: goslim_generic "" subsetdef: goslim_metagenomics "" subsetdef: goslim_mouse "" subsetdef: goslim_pir "" subsetdef: goslim_plant "" +subsetdef: goslim_plant_ribbon "" subsetdef: goslim_pombe "" subsetdef: goslim_prokaryote "" +subsetdef: goslim_prokaryote_ribbon "" subsetdef: goslim_synapse "" subsetdef: goslim_yeast "" subsetdef: grouping_class "" @@ -88,56 +90,7 @@ synonymtypedef: synonym "" synonymtypedef: SYSTEMATIC "" synonymtypedef: systematic_synonym "" ontology: cl/subsets/kidney_upper_slim -property_value: owl:versionInfo "2024-04-05" xsd:string - -[Term] -id: BFO:0000002 -name: continuant -def: "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." [] -disjoint_from: BFO:0000003 ! occurrent -relationship: part_of BFO:0000002 {all_only="true"} ! continuant - -[Term] -id: BFO:0000003 -name: occurrent -def: "An entity that has temporal parts and that happens, unfolds or develops through time." [] -relationship: part_of BFO:0000003 {all_only="true"} ! occurrent - -[Term] -id: BFO:0000004 -name: independent continuant -def: "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" [] -comment: A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. -is_a: BFO:0000002 ! continuant -disjoint_from: BFO:0000020 ! specifically dependent continuant -relationship: part_of BFO:0000004 {all_only="true"} ! independent continuant - -[Term] -id: BFO:0000015 -name: process -def: "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" [] -comment: An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. -is_a: BFO:0000003 ! occurrent - -[Term] -id: BFO:0000020 -name: specifically dependent continuant -def: "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" [] -comment: A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. -is_a: BFO:0000002 ! continuant -relationship: part_of BFO:0000020 {all_only="true"} ! specifically dependent continuant - -[Term] -id: BFO:0000040 -name: material entity -def: "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." [] -is_a: BFO:0000004 ! independent continuant -disjoint_from: BFO:0000141 ! immaterial entity - -[Term] -id: BFO:0000141 -name: immaterial entity -is_a: BFO:0000004 ! independent continuant +property_value: owl:versionInfo "2024-05-15" xsd:string [Term] id: CL:0000000 @@ -147,7 +100,7 @@ comment: The definition of cell is intended to represent all cells, and thus a c subset: cellxgene_subset subset: ubprop:upper_level xref: CALOHA:TS-2035 -xref: FBbt:00007002 +xref: FBbt:00007002 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:68646 xref: GO:0005623 xref: KUPO:0000002 @@ -155,6 +108,7 @@ xref: MESH:D002477 xref: VHOG:0001533 xref: WBbt:0004017 xref: XAO:0003012 +xref: ZFA:0009000 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: UBERON:0000061 ! anatomical structure disjoint_from: GO:0031012 ! extracellular matrix disjoint_from: GO:0032991 ! protein-containing complex @@ -165,6 +119,7 @@ relationship: RO:0002160 NCBITaxon:131567 ! only in taxon cellular organisms id: CL:0000007 name: early embryonic cell (metazoa) def: "A cell found in the embryo before the formation of all the gem layers is complete." [GOC:tfm] +xref: ZFA:0009002 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) [Term] @@ -178,6 +133,7 @@ subset: human_reference_atlas synonym: "animal stem cell" EXACT [] xref: CALOHA:TS-2086 xref: FMA:63368 +xref: ZFA:0005957 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0011115 ! precursor cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0017145 ! stem cell division @@ -202,6 +158,7 @@ xref: CALOHA:TS-0448 xref: FMA:86475 xref: MESH:D006412 xref: VHOG:0001485 +xref: ZFA:0009014 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000723 ! somatic stem cell is_a: CL:0008001 ! hematopoietic precursor cell is_a: CL:0011026 ! progenitor cell @@ -249,6 +206,7 @@ synonym: "CFU-E" RELATED OMO:0003000 [] synonym: "colony forming unit erythroid" RELATED [] synonym: "erythroid stem cell" RELATED [] xref: BTO:0004911 +xref: ZFA:0009015 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000764 ! erythroid lineage cell is_a: CL:0000839 {is_inferred="true"} ! myeloid lineage restricted progenitor cell relationship: RO:0002202 CL:0000050 ! develops from megakaryocyte-erythroid progenitor cell @@ -260,6 +218,7 @@ def: "A cell that is within the developmental lineage of gametes and is able to comment: Originally this term had some plant germ line cell children. subset: general_cell_types_upper_slim subset: ubprop:upper_level +xref: ZFA:0009016 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell relationship: capable_of GO:0022414 ! reproductive process @@ -272,6 +231,7 @@ synonym: "multifate stem cell" EXACT [] synonym: "multipotent cell" EXACT [] synonym: "multipotent stem cell" EXACT [] xref: FMA:84789 +xref: ZFA:0009020 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000034 ! stem cell intersection_of: CL:0000000 ! cell intersection_of: bearer_of PATO:0001402 ! multipotent @@ -294,6 +254,7 @@ synonym: "multipotential myeloid stem cell" RELATED [ISBN:0878932437] synonym: "myeloid stem cell" RELATED [ISBN:0878932437] synonym: "pluripotent stem cell (bone marrow)" RELATED [ISBN:0878932437] xref: BTO:0004730 +xref: ZFA:0009021 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell disjoint_from: CL:0000050 ! megakaryocyte-erythroid progenitor cell property_value: RO:0002175 NCBITaxon:9606 @@ -312,6 +273,7 @@ synonym: "Meg/E progenitor" EXACT [] synonym: "megakaryocyte/erythrocyte progenitor" EXACT [] synonym: "megakaryocyte/erythroid progenitor cell" EXACT [] synonym: "MEP" EXACT [] +xref: ZFA:0009022 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell is_a: CL:0011026 ! progenitor cell @@ -329,6 +291,7 @@ def: "A stem cell from which all cells of the body can form." [GOC:add, GOC:tfm] synonym: "totipotential stem cell" EXACT [] xref: FMA:84790 xref: MESH:D039901 +xref: ZFA:0009024 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000723 ! somatic stem cell [Term] @@ -348,9 +311,10 @@ name: myoblast def: "A cell that is commited to differentiating into a muscle cell. Embryonic myoblasts develop from the mesoderm. They undergo proliferation, migrate to their various sites, and then differentiate into the appropriate form of myocytes. Myoblasts also occur as transient populations of cells in muscles undergoing repair." [GOC:tfm, MESH:D032446, PMID:21849021] xref: BTO:0000222 xref: CALOHA:TS-0650 -xref: FBbt:00005083 +xref: FBbt:00005083 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:70335 xref: VHOG:0001529 +xref: ZFA:0009025 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000680 ! muscle precursor cell [Term] @@ -366,6 +330,7 @@ xref: CALOHA:TS-0362 xref: FMA:63877 xref: NCIT:C12482 xref: VHOG:0001482 +xref: ZFA:0009026 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002320 ! connective tissue cell relationship: RO:0002202 CL:0000134 ! develops from mesenchymal stem cell property_value: RO:0002175 NCBITaxon:9606 @@ -377,8 +342,8 @@ def: "A cell that has a filiform extrusion of the cell surface." [GOC:tfm] subset: cellxgene_subset xref: VHOG:0001532 xref: XAO:0000031 +xref: ZFA:0009032 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000000 ! cell intersection_of: has_part GO:0005929 ! cilium relationship: has_part GO:0005929 ! cilium @@ -394,9 +359,10 @@ synonym: "epitheliocyte" EXACT [] xref: BTO:0000414 xref: CALOHA:TS-2026 xref: CARO:0000077 -xref: FBbt:00000124 +xref: FBbt:00000124 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:66768 xref: WBbt:0003672 +xref: ZFA:0009034 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell relationship: part_of UBERON:0000483 ! epithelium property_value: http://xmlns.com/foaf/0.1/depiction "https://www.swissbiopics.org/api/image/Epithelial_cells.svg" xsd:anyURI @@ -408,6 +374,7 @@ name: ciliated epithelial cell def: "An epithelial cell that has a cilia." [GOC:tfm] subset: cellxgene_subset xref: FMA:70605 +xref: ZFA:0009035 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000064 ! ciliated cell is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell @@ -418,6 +385,7 @@ id: CL:0000068 name: duct epithelial cell def: "An epithelial cell that is part of a duct." [https://orcid.org/0000-0001-5208-3432] subset: cellxgene_subset +xref: ZFA:0009372 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0000058 ! duct @@ -430,6 +398,7 @@ def: "An endothelial cell that lines the vasculature." [GOC:tfm] subset: cellxgene_subset subset: human_reference_atlas synonym: "cuboidal endothelial cell of vascular tree" EXACT [] +xref: ZFA:0009036 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000076 {is_inferred="true"} ! squamous epithelial cell is_a: CL:0002139 ! endothelial cell of vascular tree intersection_of: CL:0000076 ! squamous epithelial cell @@ -450,6 +419,7 @@ name: columnar/cuboidal epithelial cell def: "A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube." [GO:0002065, https://orcid.org/0000-0001-5208-3432] subset: cellxgene_subset subset: human_reference_atlas +xref: ZFA:0009038 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell property_value: RO:0002175 NCBITaxon:9606 @@ -458,6 +428,7 @@ id: CL:0000076 name: squamous epithelial cell subset: cellxgene_subset xref: CALOHA:TS-1249 +xref: ZFA:0009039 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell [Term] @@ -468,6 +439,7 @@ subset: cellxgene_subset subset: general_cell_types_upper_slim xref: FMA:62844 xref: MESH:D001773 +xref: ZFA:0009044 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: capable_of GO:0008015 ! blood circulation @@ -484,6 +456,7 @@ synonym: "endotheliocyte" EXACT [] xref: BTO:0001176 xref: CALOHA:TS-0278 xref: FMA:66772 +xref: ZFA:0009065 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000213 ! lining cell is_a: CL:0002078 ! meso-epithelial cell property_value: RO:0002175 NCBITaxon:9606 @@ -493,6 +466,7 @@ id: CL:0000133 name: neurectodermal cell def: "Ectoderm destined to be nervous tissue." [GOC:tfm, ISBN:068340007X] synonym: "neurectoderm cell" EXACT [] +xref: ZFA:0009080 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000221 ! ectodermal cell [Term] @@ -516,6 +490,7 @@ synonym: "stem cells, mesenchymal" RELATED OMO:0003004 [MESH:D044982] xref: BTO:0002625 xref: BTO:0003298 xref: FMA:70546 +xref: ZFA:0009081 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000048 ! multi fate stem cell is_a: CL:0002320 {is_inferred="true"} ! connective tissue cell property_value: seeAlso "https://github.com/obophenotype/cell-ontology/issues/474" xsd:string @@ -535,6 +510,7 @@ relationship: capable_of GO:0032940 ! secretion by cell [Term] id: CL:0000154 name: protein secreting cell +def: "Any secretory cell that is capable of some protein secretion." [FBC:Autogenerated] is_a: CL:0000151 ! secretory cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0009306 ! protein secretion @@ -557,9 +533,10 @@ synonym: "myocyte" EXACT [] xref: BTO:0000888 xref: BTO:0000902 xref: CALOHA:TS-2032 -xref: FBbt:00005074 +xref: FBbt:00005074 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67328 xref: WBbt:0003675 +xref: ZFA:0009114 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000183 ! contractile cell is_a: CL:0000393 ! electrically responsive cell relationship: RO:0002202 CL:0000056 ! develops from myoblast @@ -579,6 +556,7 @@ synonym: "smooth muscle fiber" EXACT [] xref: BTO:0004576 xref: CALOHA:TS-2159 xref: FMA:14072 +xref: ZFA:0009118 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008000 ! non-striated muscle cell is_a: CL:0008007 ! visceral muscle cell relationship: RO:0002202 CL:0000514 ! develops from smooth muscle myoblast @@ -588,6 +566,7 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000211 name: electrically active cell def: "A cell whose function is determined by the generation or the reception of an electric signal." [FB:ma] +xref: ZFA:0009128 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -595,18 +574,21 @@ id: CL:0000213 name: lining cell def: "A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism." [JB:jb] synonym: "boundary cell" EXACT [] +xref: ZFA:0009130 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000215 ! barrier cell [Term] id: CL:0000215 name: barrier cell def: "A cell whose primary function is to prevent the transport of stuff across compartments." [JB:jb] +xref: ZFA:0009132 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] id: CL:0000219 name: motile cell def: "A cell that moves by its own activities." [FB:ma] +xref: ZFA:0009136 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0048870 ! cell motility @@ -618,6 +600,7 @@ name: ectodermal cell def: "A cell of the outer of the three germ layers of the embryo." [MESH:D004475] synonym: "ectoderm cell" EXACT [] xref: FMA:72549 +xref: ZFA:0009137 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000924 ! ectoderm @@ -629,6 +612,7 @@ subset: cellxgene_subset synonym: "mesoblast" EXACT [] synonym: "mesoderm cell" EXACT [] xref: FMA:72554 +xref: ZFA:0009138 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000926 ! mesoderm @@ -638,6 +622,7 @@ name: endodermal cell def: "A cell of the inner of the three germ layers of the embryo." [MESH:D004707] synonym: "endoderm cell" EXACT [] xref: FMA:72555 +xref: ZFA:0009139 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000925 ! endoderm @@ -671,12 +656,14 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000239 name: brush border epithelial cell +xref: ZFA:0009143 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000067 ! ciliated epithelial cell is_a: CL:0000075 ! columnar/cuboidal epithelial cell [Term] id: CL:0000255 name: eukaryotic cell +def: "Any cell that only exists in Eukaryota." [FBC:Autogenerated] subset: cellxgene_subset xref: MESH:D005057 is_a: CL:0000000 ! cell @@ -687,6 +674,8 @@ relationship: RO:0002160 NCBITaxon:2759 ! only in taxon Eukaryota [Term] id: CL:0000329 name: oxygen accumulating cell +def: "Any cell that is capable of some oxygen transport." [FBC:Autogenerated] +xref: ZFA:0009164 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0015671 ! oxygen transport @@ -697,6 +686,7 @@ id: CL:0000333 name: migratory neural crest cell def: "A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body." [doi:10.1016/j.stem.2015.02.017] xref: FMA:86667 +xref: ZFA:0007086 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000219 ! motile cell is_a: CL:0011012 ! neural crest cell is_a: CL:0011026 ! progenitor cell @@ -706,6 +696,7 @@ relationship: RO:0002202 CL:0007004 ! develops from premigratory neural crest ce id: CL:0000335 name: mesenchyme condensation cell def: "A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors." [GOC:tfm, PMID:5025404] +xref: ZFA:0009166 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008019 ! mesenchymal cell [Term] @@ -733,12 +724,14 @@ relationship: RO:0002160 NCBITaxon:33208 ! only in taxon Metazoa id: CL:0000393 name: electrically responsive cell def: "A cell whose function is determined by its response to an electric signal." [FB:ma] +xref: ZFA:0009190 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000211 ! electrically active cell [Term] id: CL:0000404 name: electrically signaling cell def: "A cell that initiates an electrical signal and passes that signal to another cell." [FB:ma] +xref: ZFA:0009193 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000211 ! electrically active cell [Term] @@ -749,6 +742,7 @@ subset: cellxgene_subset synonym: "myoblast, smooth muscle" EXACT [MESH:D032390] synonym: "satellite cell" RELATED [] xref: FMA:84798 +xref: ZFA:0009235 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000056 ! myoblast intersection_of: CL:0000056 ! myoblast intersection_of: RO:0002203 CL:0000192 ! develops into smooth muscle cell @@ -765,10 +759,11 @@ subset: human_reference_atlas synonym: "nerve cell" EXACT [] xref: BTO:0000938 xref: CALOHA:TS-0683 -xref: FBbt:00005106 +xref: FBbt:00005106 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:54527 xref: VHOG:0001483 xref: WBbt:0003679 +xref: ZFA:0009248 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000393 ! electrically responsive cell is_a: CL:0000404 ! electrically signaling cell is_a: CL:0002319 ! neural cell @@ -787,7 +782,6 @@ synonym: "rubriblast" EXACT [ISBN:0721601464] xref: FMA:83518 is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell is_a: CL:0002242 ! nucleate cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: bearer_of PATO:0002505 ! nucleated intersection_of: bearer_of PATO:0040072 ! high nuclear/cytoplasmic ratio @@ -831,8 +825,8 @@ synonym: "early erythroblast" EXACT [ISBN:0721601464] synonym: "early normoblast" EXACT [ISBN:0721601464] synonym: "prorubricyte" EXACT [ISBN:0721601464] xref: FMA:83505 +xref: ZFA:0005236 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000765 {is_inferred="true"} ! erythroblast -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000765 ! erythroblast intersection_of: has_part CL:0017503 ! basophilic cytoplasm intersection_of: has_part GO:0000792 ! heterochromatin @@ -852,8 +846,8 @@ synonym: "polychromatic normoblast" EXACT [ISBN:0721601464] synonym: "polychromatophilic normoblast" EXACT [ISBN:0721601464] synonym: "rubricyte" EXACT [ISBN:0721601464] xref: FMA:83506 +xref: ZFA:0005241 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000765 {is_inferred="true"} ! erythroblast -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000765 ! erythroblast intersection_of: has_part CL:0017504 ! polychromatophilic cytoplasm intersection_of: has_part GO:0000792 ! heterochromatin @@ -965,8 +959,8 @@ subset: cellxgene_subset xref: BTO:0001173 xref: CALOHA:TS-0864 xref: MESH:D012156 +xref: ZFA:0009252 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: capable_of GO:0071971 ! extracellular exosome assembly intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -1003,9 +997,9 @@ def: "A mesenchymal stem cell capable of developing into blood vessel endotheliu comment: These cells are reportedly CD31-positive, CD34-positive, CD144-positive, CD309-positive, and TAL1-positive. synonym: "angioblast" EXACT [] synonym: "chondroplast" EXACT [] +xref: ZFA:0009258 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000134 {is_inferred="true"} ! mesenchymal stem cell is_a: CL:0011026 ! progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000134 ! mesenchymal stem cell intersection_of: RO:0002104 PR:000001444 ! has plasma membrane part cadherin-5 intersection_of: RO:0002104 PR:000002112 ! has plasma membrane part vascular endothelial growth factor receptor 2 @@ -1034,6 +1028,7 @@ def: "A cell whose primary function is to support other cell types." [FB:ma, GOC subset: cellxgene_subset synonym: "supportive cell" EXACT [] xref: BTO:0002315 +xref: ZFA:0009387 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -1045,6 +1040,7 @@ synonym: "JG cell" EXACT [] synonym: "juxtaglomerular cell" BROAD [] synonym: "renin secreting cell" EXACT [] xref: FMA:84138 +xref: ZFA:0005238 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000154 ! protein secreting cell is_a: CL:0000192 ! smooth muscle cell is_a: CL:1000618 ! juxtaglomerular complex cell @@ -1065,6 +1061,7 @@ xref: BTO:0000853 xref: CALOHA:TS-0617 xref: FMA:70972 xref: MESH:D050527 +xref: ZFA:0009283 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000669 ! pericyte relationship: RO:0002202 CL:0000134 ! develops from mesenchymal stem cell @@ -1073,6 +1070,7 @@ id: CL:0000666 name: fenestrated cell subset: cellxgene_subset synonym: "window cell" EXACT [] +xref: ZFA:0009286 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell [Term] @@ -1090,6 +1088,7 @@ synonym: "pericyte cell" EXACT [] synonym: "pericyte of Rouget" EXACT [] xref: BTO:0002441 xref: FMA:63174 +xref: ZFA:0009112 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000183 ! contractile cell is_a: CL:0000630 ! supporting cell is_a: CL:0002320 ! connective tissue cell @@ -1101,6 +1100,7 @@ id: CL:0000680 name: muscle precursor cell def: "A non-terminally differentiated cell that is capable of developing into a muscle cell." [GOC:add] subset: cellxgene_subset +xref: ZFA:0009291 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell intersection_of: CL:0011115 ! precursor cell intersection_of: RO:0002203 CL:0000187 ! develops into muscle cell @@ -1113,6 +1113,7 @@ name: somatic stem cell def: "A stem cell that can give rise to cell types of the body other than those of the germ-line." [GO:0048103] xref: CALOHA:TS-2086 xref: MESH:D053687 +xref: ZFA:0009307 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000034 ! stem cell intersection_of: CL:0000034 ! stem cell intersection_of: capable_of GO:0048103 ! somatic stem cell division @@ -1126,6 +1127,7 @@ subset: cellxgene_subset xref: BTO:0001441 xref: CALOHA:TS-0647 xref: MESH:D022423 +xref: ZFA:0009324 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: RO:0002202 CL:0000049 ! develops from common myeloid progenitor @@ -1142,6 +1144,7 @@ synonym: "erythropoietic cell" EXACT [] xref: CALOHA:TS-0290 xref: FMA:62845 xref: FMA:83516 +xref: ZFA:0009325 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell property_value: RO:0002175 NCBITaxon:9606 @@ -1156,6 +1159,7 @@ xref: BTO:0001571 xref: CALOHA:TS-0289 xref: FMA:83504 xref: MESH:D004900 +xref: ZFA:0005237 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0000764 ! erythroid lineage cell @@ -1201,8 +1205,8 @@ synonym: "hemopoietic progenitor cell" EXACT [] synonym: "MPP" EXACT [] xref: BTO:0000725 xref: CALOHA:TS-0448 +xref: ZFA:0009354 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008001 ! hematopoietic precursor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000988 ! hematopoietic cell intersection_of: bearer_of PATO:0001402 ! multipotent intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -1249,6 +1253,7 @@ synonym: "myeloid progenitor cell" BROAD [] xref: BTO:0004730 xref: CALOHA:TS-2099 xref: FMA:70339 +xref: ZFA:0009356 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002031 {is_inferred="true"} ! hematopoietic lineage restricted progenitor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0002031 ! hematopoietic lineage restricted progenitor cell @@ -1268,6 +1273,7 @@ xref: BTO:0000574 xref: CALOHA:TS-2017 xref: FMA:70366 xref: FMA:83598 +xref: ZFA:0005830 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -1303,6 +1309,7 @@ id: CL:0002077 name: ecto-epithelial cell def: "An epithelial cell derived from ectoderm." [FMA:69074, GOC:tfm] xref: FMA:69074 +xref: ZFA:0009385 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: RO:0002202 CL:0000221 ! develops from ectodermal cell @@ -1316,6 +1323,7 @@ name: meso-epithelial cell def: "Epithelial cell derived from mesoderm or mesenchyme." [FMA:69076, GOC:tfm] synonym: "epithelial mesenchymal cell" EXACT [] xref: FMA:69076 +xref: ZFA:0009388 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: RO:0002202 CL:0000222 ! develops from mesodermal cell @@ -1440,6 +1448,7 @@ subset: cellxgene_subset xref: CALOHA:TS-2096 xref: FMA:63875 xref: MESH:D003239 +xref: ZFA:0009392 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0002384 ! connective tissue @@ -1454,6 +1463,7 @@ def: "A cell of the embryo." [FMA:0618947256] xref: CALOHA:TS-0263 xref: FMA:82840 xref: WBbt:0007028 +xref: ZFA:0007089 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 creation_date: 2010-09-15T03:39:21Z @@ -1481,6 +1491,7 @@ name: kidney epithelial cell def: "An epithelial cell of the kidney." [GOC:tfm, KUPO:SJ] subset: cellxgene_subset xref: KUPO:0001019 +xref: ZFA:0009374 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell is_a: CL:1000497 {is_inferred="true"} ! kidney cell intersection_of: CL:0000066 ! epithelial cell @@ -1493,6 +1504,7 @@ id: CL:0002546 name: embryonic blood vessel endothelial progenitor cell def: "An endothelial progenitor cell that participates in angiogenesis during development." [GOC:tfm] comment: See CL:0002619. +xref: ZFA:0005773 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000222 ! mesodermal cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 creation_date: 2011-02-28T04:20:39Z @@ -1523,6 +1535,7 @@ id: CL:0005009 name: renal principal cell def: "A cuboidal epithelial cell of the kidney which regulates sodium and potassium balance. The activity of sodium and potassium channels on the apical membrane of the cell is regulated by aldosterone and vasopressin. In mammals this cell type is located in the renal collecting duct system." [CL:CVS] subset: cellxgene_subset +xref: ZFA:0005322 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000075 ! columnar/cuboidal epithelial cell is_a: CL:0002518 ! kidney epithelial cell @@ -1530,6 +1543,7 @@ is_a: CL:0002518 ! kidney epithelial cell id: CL:0007004 name: premigratory neural crest cell def: "Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells." [UBERONREF:0000002] +xref: ZFA:0007084 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0011012 ! neural crest cell relationship: part_of UBERON:0002342 ! neural crest relationship: RO:0002202 CL:0000133 ! develops from neurectodermal cell @@ -1553,7 +1567,7 @@ is_a: CL:0000988 ! hematopoietic cell id: CL:0008007 name: visceral muscle cell def: "A muscle cell that is part of some visceral muscle." [GOC:dos] -xref: FBbt:00005070 +xref: FBbt:00005070 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000187 ! muscle cell intersection_of: CL:0000187 ! muscle cell intersection_of: part_of UBERON:8600004 ! visceral muscle tissue @@ -1578,6 +1592,7 @@ def: "Mural cells are pericytes and the vascular smooth muscle cells (vSMCs) of subset: added_for_HCA subset: cellxgene_subset subset: human_reference_atlas +xref: ZFA:0005944 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:4033054 ! perivascular cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-7073-9172 property_value: RO:0002175 NCBITaxon:9606 @@ -1719,6 +1734,7 @@ name: kidney cell def: "A cell that is part of a kidney." [] subset: cellxgene_subset xref: KUPO:0001010 +xref: ZFA:0009389 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0002113 ! kidney @@ -1731,6 +1747,7 @@ def: "A cell that is part of kidney interstitium." [] subset: cellxgene_subset subset: kidney_upper_slim xref: KUPO:0001013 +xref: ZFA:0009390 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:1000497 ! kidney cell is_a: CL:4030031 ! interstitial cell intersection_of: CL:1000497 ! kidney cell @@ -1742,6 +1759,7 @@ id: CL:1000504 name: kidney medulla cell def: "A cell that is part of a renal medulla." [PMID:22343825] xref: KUPO:0001017 +xref: ZFA:0009391 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:1000497 ! kidney cell intersection_of: CL:1000497 ! kidney cell intersection_of: part_of UBERON:0000362 ! renal medulla @@ -1772,6 +1790,7 @@ relationship: part_of UBERON:0001231 ! nephron tubule [Term] id: CL:1000510 name: kidney glomerular epithelial cell +def: "Any kidney epithelial cell that is part of some glomerular epithelium." [FBC:Autogenerated] subset: cellxgene_subset xref: KUPO:0001023 is_a: CL:1000746 ! glomerular cell @@ -1794,6 +1813,7 @@ relationship: part_of UBERON:0005185 ! renal medulla collecting duct [Term] id: CL:1000550 name: kidney papillary duct principal epithelial cell +def: "Any kidney cell that is part of some papillary duct." [FBC:Autogenerated] subset: kidney_upper_slim xref: KUPO:0001064 is_a: CL:1001225 ! kidney collecting duct cell @@ -1804,6 +1824,7 @@ relationship: part_of UBERON:0005167 ! papillary duct [Term] id: CL:1000612 name: kidney corpuscule cell +def: "Any renal cortical epithelial cell that is part of some renal corpuscle." [FBC:Autogenerated] subset: kidney_upper_slim xref: KUPO:0001021 is_a: CL:0002584 {is_inferred="true"} ! renal cortical epithelial cell @@ -1815,6 +1836,7 @@ relationship: part_of UBERON:0001229 ! renal corpuscle [Term] id: CL:1000615 name: kidney cortex tubule cell +def: "Any kidney tubule cell that is part of some renal cortex tubule." [FBC:Autogenerated] subset: cellxgene_subset xref: KUPO:0001024 is_a: CL:0002584 ! renal cortical epithelial cell @@ -1827,6 +1849,7 @@ relationship: part_of UBERON:0006853 ! renal cortex tubule [Term] id: CL:1000618 name: juxtaglomerular complex cell +def: "Any kidney cortical cell that is part of some juxtaglomerular apparatus." [FBC:Autogenerated] subset: kidney_upper_slim synonym: "juxtaglomerulus cell" EXACT [GO:0072052] xref: KUPO:0001028 @@ -1851,6 +1874,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1000746 name: glomerular cell +def: "Any kidney corpuscule cell that is part of some renal glomerulus." [FBC:Autogenerated] xref: KUPO:0001036 is_a: CL:1000612 {is_inferred="true"} ! kidney corpuscule cell intersection_of: CL:1000612 ! kidney corpuscule cell @@ -1860,6 +1884,7 @@ relationship: part_of UBERON:0000074 ! renal glomerulus [Term] id: CL:1000768 name: kidney connecting tubule epithelial cell +def: "Any nephron tubule epithelial cell that is part of some renal connecting tubule." [FBC:Autogenerated] subset: cellxgene_subset subset: human_reference_atlas subset: kidney_upper_slim @@ -1874,6 +1899,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1000849 name: kidney distal convoluted tubule epithelial cell +def: "Any epithelial cell of distal tubule that is part of some distal convoluted tubule." [FBC:Autogenerated] subset: cellxgene_subset subset: human_reference_atlas subset: kidney_upper_slim @@ -1899,6 +1925,7 @@ relationship: participates_in GO:0008015 ! blood circulation [Term] id: CL:1000891 name: kidney arterial blood vessel cell +def: "Any kidney blood vessel cell that is part of some kidney arterial blood vessel." [FBC:Autogenerated] subset: kidney_upper_slim xref: KUPO:0001029 is_a: CL:1000854 {is_inferred="true"} ! kidney blood vessel cell @@ -1909,6 +1936,7 @@ relationship: part_of UBERON:0003644 ! kidney arterial blood vessel [Term] id: CL:1000892 name: kidney capillary endothelial cell +def: "Any kidney blood vessel cell that is part of some kidney capillary." [FBC:Autogenerated] subset: cellxgene_subset subset: kidney_upper_slim xref: KUPO:0001030 @@ -1921,6 +1949,7 @@ relationship: part_of UBERON:0003527 ! kidney capillary [Term] id: CL:1000893 name: kidney venous blood vessel cell +def: "Any kidney blood vessel cell that is part of some renal vein." [FBC:Autogenerated] subset: kidney_upper_slim xref: KUPO:0001031 is_a: CL:1000854 {is_inferred="true"} ! kidney blood vessel cell @@ -1931,6 +1960,7 @@ relationship: part_of UBERON:0001140 ! renal vein [Term] id: CL:1000909 name: kidney loop of Henle epithelial cell +def: "Any nephron tubule epithelial cell that is part of some loop of Henle." [FBC:Autogenerated] subset: cellxgene_subset xref: KUPO:0001047 is_a: CL:1000494 {is_inferred="true"} ! nephron tubule epithelial cell @@ -1941,6 +1971,7 @@ relationship: part_of UBERON:0001288 ! loop of Henle [Term] id: CL:1001016 name: kidney loop of Henle ascending limb epithelial cell +def: "Any kidney loop of Henle epithelial cell that is part of some ascending limb of loop of Henle." [FBC:Autogenerated] subset: cellxgene_subset subset: kidney_upper_slim xref: KUPO:0001048 @@ -1953,6 +1984,7 @@ relationship: part_of UBERON:0005164 ! ascending limb of loop of Henle [Term] id: CL:1001021 name: kidney loop of Henle descending limb epithelial cell +def: "Any kidney loop of Henle epithelial cell that is part of some descending limb of loop of Henle." [FBC:Autogenerated] subset: kidney_upper_slim xref: KUPO:0001053 is_a: CL:1000909 {is_inferred="true"} ! kidney loop of Henle epithelial cell @@ -2006,22 +2038,6 @@ relationship: adjacent_to UBERON:0002049 ! vasculature property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-6677-8489 property_value: http://purl.org/dc/terms/date "2023-08-22T13:40:28Z" xsd:dateTime -[Term] -id: GO:0000003 -name: reproduction -namespace: biological_process -alt_id: GO:0019952 -alt_id: GO:0050876 -def: "The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms." [GOC:go_curators, GOC:isa_complete, GOC:jl, ISBN:0198506732] -subset: goslim_agr -subset: goslim_chembl -subset: goslim_flybase_ribbon -subset: goslim_pir -subset: goslim_plant -synonym: "reproductive physiological process" EXACT [] -xref: Wikipedia:Reproduction -is_a: GO:0008150 ! biological_process - [Term] id: GO:0000226 name: microtubule cytoskeleton organization @@ -2450,7 +2466,6 @@ synonym: "cell or subcellular entity" EXACT [] synonym: "cellular component" EXACT [] synonym: "subcellular entity" RELATED [NIF_Subcellular:nlx_subcell_100315] xref: NIF_Subcellular:sao1337158144 -is_a: BFO:0000040 ! material entity disjoint_from: GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/17729" xsd:anyURI @@ -2463,13 +2478,16 @@ comment: Note that this term is intended to annotate gene products that are not subset: goslim_agr subset: goslim_candida subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "extracellular" EXACT [] xref: Wikipedia:Extracellular @@ -2529,7 +2547,6 @@ comment: Note that for multicellular organisms, the extracellular space refers t subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic -subset: goslim_prokaryote synonym: "intercellular space" RELATED [] xref: NIF_Subcellular:sao1425028079 is_a: GO:0110165 ! cellular anatomical entity @@ -2563,12 +2580,14 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "cell nucleus" EXACT [] synonym: "horsetail nucleus" NARROW [GOC:al, GOC:mah, GOC:vw, PMID:15030757] @@ -2594,6 +2613,7 @@ subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "chromatid" RELATED [] synonym: "interphase chromosome" NARROW [] @@ -2628,7 +2648,9 @@ subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast xref: Wikipedia:Cytoplasm is_a: GO:0110165 ! cellular anatomical entity @@ -2644,11 +2666,13 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "vacuolar carboxypeptidase Y" RELATED [] xref: Wikipedia:Vacuole @@ -2665,10 +2689,12 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "Golgi" BROAD [] synonym: "Golgi complex" EXACT [] @@ -2700,11 +2726,14 @@ alt_id: GO:0033279 def: "An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins." [ISBN:0198506732] subset: goslim_candida subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "free ribosome" NARROW [NIF_Subcellular:sao1139385046] synonym: "membrane bound ribosome" NARROW [NIF_Subcellular:sao1291545653] @@ -2712,8 +2741,8 @@ synonym: "ribosomal RNA" RELATED [] xref: NIF_Subcellular:sao1429207766 xref: Wikipedia:Ribosome is_a: GO:0043232 ! intracellular non-membrane-bounded organelle -is_a: PR:000050567 ! protein-containing material entity relationship: capable_of_part_of GO:0006412 ! translation +relationship: has_part PR:000000001 ! protein [Term] id: GO:0005856 @@ -2724,11 +2753,13 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote subset: goslim_yeast xref: Wikipedia:Cytoskeleton @@ -2759,11 +2790,14 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "bacterial inner membrane" NARROW [] synonym: "cell membrane" EXACT [] @@ -2812,7 +2846,6 @@ xref: NIF_Subcellular:sao787716553 xref: Wikipedia:Cilium is_a: GO:0043227 ! membrane-bounded organelle is_a: GO:0120025 ! plasma membrane bounded cell projection -is_a: PR:000050567 ! protein-containing material entity relationship: has_part GO:0030990 ! intraciliary transport particle relationship: RO:0002160 NCBITaxon:2759 ! only in taxon Eukaryota relationship: RO:0002162 NCBITaxon:2759 {all_only="true"} ! in taxon Eukaryota @@ -2853,10 +2886,12 @@ def: "The cellular metabolic process in which a protein is formed, using the seq subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "protein anabolism" EXACT [] synonym: "protein biosynthesis" EXACT [] synonym: "protein biosynthetic process" EXACT [] @@ -2928,7 +2963,9 @@ subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "single-organism transport" RELATED [] is_a: GO:0051234 ! establishment of localization property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20292" xsd:anyURI @@ -3023,6 +3060,8 @@ name: organelle organization namespace: biological_process alt_id: GO:1902589 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_candida subset: goslim_pir synonym: "organelle organisation" EXACT [] @@ -3033,6 +3072,7 @@ is_a: GO:0016043 ! cellular component organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0043226 ! organelle relationship: results_in_organization_of GO:0043226 ! organelle +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2013-12-19T15:25:51Z @@ -3082,13 +3122,14 @@ id: GO:0007049 name: cell cycle namespace: biological_process def: "The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division." [GOC:go_curators, GOC:mtg_cell_cycle] -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cell-division cycle" EXACT [] xref: Wikipedia:Cell_cycle is_a: GO:0009987 ! cellular process @@ -3128,14 +3169,11 @@ subset: goslim_candida subset: goslim_chembl subset: goslim_metagenomics subset: goslim_plant -synonym: "signal transduction by cis-phosphorylation" NARROW [] -synonym: "signal transduction by conformational transition" NARROW [] -synonym: "signal transduction by protein phosphorylation" NARROW [] -synonym: "signal transduction by trans-phosphorylation" NARROW [] +subset: goslim_plant_ribbon synonym: "signaling cascade" NARROW [] synonym: "signaling pathway" RELATED [] synonym: "signalling cascade" NARROW [] -synonym: "signalling pathway" RELATED [GOC:mah] +synonym: "signalling pathway" RELATED [] xref: Wikipedia:Signal_transduction is_a: GO:0009987 ! cellular process is_a: GO:0050794 ! regulation of cellular process @@ -3323,7 +3361,6 @@ synonym: "physiological process" EXACT [] synonym: "single organism process" RELATED [] synonym: "single-organism process" RELATED [] xref: Wikipedia:Biological_process -is_a: BFO:0000015 ! process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24968" xsd:anyURI created_by: jl creation_date: 2012-09-19T15:05:24Z @@ -3336,11 +3373,13 @@ alt_id: GO:0044236 alt_id: GO:0044710 def: "The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation." [GOC:go_curators, ISBN:0198547684] comment: Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_prokaryote_ribbon synonym: "metabolic process resulting in cell growth" NARROW [] synonym: "metabolism" EXACT [] synonym: "metabolism resulting in cell growth" NARROW [] @@ -3349,6 +3388,7 @@ synonym: "single-organism metabolic process" RELATED [] xref: Wikipedia:Metabolism is_a: GO:0008150 ! biological_process disjoint_from: GO:0051179 ! localization +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI created_by: jl creation_date: 2012-10-17T15:46:40Z @@ -3386,6 +3426,7 @@ def: "The chemical reactions and pathways resulting in the formation of substanc subset: goslim_chembl subset: goslim_metagenomics subset: goslim_plant +subset: goslim_plant_ribbon synonym: "anabolism" EXACT [] synonym: "biosynthesis" EXACT [] synonym: "formation" BROAD [] @@ -3403,6 +3444,8 @@ name: macromolecule biosynthetic process namespace: biological_process alt_id: GO:0043284 def: "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "biopolymer biosynthetic process" EXACT [GOC:mtg_chebi_dec09] synonym: "macromolecule anabolism" EXACT [] @@ -3414,6 +3457,7 @@ is_a: GO:0044249 ! cellular biosynthetic process is_a: GO:1901576 ! organic substance biosynthetic process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/15249" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25418" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0009306 @@ -3466,7 +3510,7 @@ name: embryo development namespace: biological_process alt_id: GO:0009795 def: "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant." [GOC:go_curators, GOC:isa_complete, GOC:mtg_sensu] -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_plant synonym: "embryogenesis" EXACT [] @@ -3574,9 +3618,11 @@ comment: Note that this term should be used to annotate gene products in the org subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote synonym: "caspase-independent apoptosis" RELATED [] synonym: "caspase-independent cell death" NARROW [] @@ -3677,10 +3723,12 @@ namespace: biological_process alt_id: GO:0044235 alt_id: GO:0071842 def: "A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:ai, GOC:jl, GOC:mah] +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cell organisation" EXACT [] synonym: "cell organization and biogenesis" RELATED [GOC:mah] synonym: "cellular component organisation at cellular level" EXACT [GOC:mah] @@ -3715,6 +3763,7 @@ def: "A cellular transport process in which transported substances are moved in subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pir subset: goslim_pombe @@ -3779,11 +3828,14 @@ alt_id: GO:0006411 alt_id: GO:0044267 alt_id: GO:0044268 def: "The chemical reactions and pathways involving a protein. Includes protein modification." [GOC:ma] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cellular protein metabolic process" EXACT [] synonym: "cellular protein metabolism" EXACT [] synonym: "multicellular organismal protein metabolic process" NARROW [] @@ -3796,6 +3848,7 @@ intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output PR:000000001 ! protein relationship: has_primary_input_or_output PR:000000001 ! protein property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23112" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0019953 @@ -3804,7 +3857,7 @@ namespace: biological_process def: "A type of reproduction that combines the genetic material of two gametes (such as a sperm or egg cell or fungal spores). The gametes have an haploid genome (with a single set of chromosomes, the product of a meiotic division) and combines with one another to produce a zygote (diploid)." [Wikipedia:Sexual_reproduction] comment: Note that gametes may come from two organisms or from a single organism in the case of self-fertilizing hermaphrodites, e.g. C. elegans, or self-fertilization in plants. Note also that sexual reproduction may be seen as the regular alternation, in the life cycle of haplontic, diplontic and diplohaplontic organisms, of meiosis and fertilization which provides for the production offspring. In diplontic organisms there is a life cycle in which the products of meiosis behave directly as gametes, fusing to form a zygote from which the diploid, or sexually reproductive polyploid, adult organism will develop. In diplohaplontic organisms a haploid phase (gametophyte) exists in the life cycle between meiosis and fertilization (e.g. higher plants, many algae and Fungi); the products of meiosis are spores that develop as haploid individuals from which haploid gametes develop to form a diploid zygote; diplohaplontic organisms show an alternation of haploid and diploid generations. In haplontic organisms meiosis occurs in the zygote, giving rise to four haploid cells (e.g. many algae and protozoa), only the zygote is diploid and this may form a resistant spore, tiding organisms over hard times. xref: Wikipedia:Sexual_reproduction -is_a: GO:0000003 ! reproduction +is_a: GO:0022414 ! reproductive process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22929" xsd:anyURI [Term] @@ -3826,6 +3879,7 @@ name: cell cycle process namespace: biological_process def: "The cellular process that ensures successive accurate and complete genome replication and chromosome segregation." [GOC:isa_complete, GOC:mtg_cell_cycle] subset: gocheck_do_not_annotate +subset: goslim_euk_cellular_processes_ribbon is_a: GO:0009987 ! cellular process intersection_of: GO:0009987 ! cellular process intersection_of: part_of GO:0007049 ! cell cycle @@ -3845,6 +3899,8 @@ name: cellular component disassembly namespace: biological_process alt_id: GO:0071845 def: "A cellular process that results in the breakdown of a cellular component." [GOC:isa_complete] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "cell structure disassembly" EXACT [] synonym: "cellular component disassembly at cellular level" EXACT [] @@ -3853,6 +3909,7 @@ intersection_of: GO:0009987 ! cellular process intersection_of: results_in_disassembly_of GO:0005575 ! cellular_component disjoint_from: GO:0022607 ! cellular component assembly relationship: results_in_disassembly_of GO:0005575 ! cellular_component +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0022414 @@ -3860,12 +3917,18 @@ name: reproductive process namespace: biological_process alt_id: GO:0044702 def: "A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." [GOC:dph, GOC:isa_complete] +subset: gocheck_do_not_annotate +subset: goslim_agr +subset: goslim_chembl +subset: goslim_flybase_ribbon subset: goslim_generic +subset: goslim_pir +subset: goslim_plant +subset: goslim_plant_ribbon synonym: "single organism reproductive process" RELATED [] +xref: Wikipedia:Reproduction is_a: GO:0008150 ! biological_process -intersection_of: GO:0008150 ! biological_process -intersection_of: part_of GO:0000003 ! reproduction -relationship: part_of GO:0000003 ! reproduction +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27054" xsd:anyURI created_by: jl creation_date: 2012-09-19T15:56:06Z @@ -3887,6 +3950,7 @@ namespace: biological_process alt_id: GO:0071844 def: "The aggregation, arrangement and bonding together of a cellular component." [GOC:isa_complete] subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_pir synonym: "cell structure assembly" EXACT [] synonym: "cellular component assembly at cellular level" EXACT [] @@ -3930,11 +3994,13 @@ alt_id: GO:0044700 def: "The entirety of a process in which information is transmitted within a biological system. This process begins with an active signal and ends when a cellular response has been triggered." [GOC:mtg_signal, GOC:mtg_signaling_feb11, GOC:signaling] comment: Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change. subset: goslim_agr +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pombe subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "biological signaling" EXACT [] synonym: "signaling process" EXACT [] @@ -4011,6 +4077,8 @@ is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000988 ! hematopoietic cell relationship: results_in_development_of CL:0000988 ! hematopoietic cell +relationship: RO:0002160 NCBITaxon:6072 ! only in taxon Eumetazoa +relationship: RO:0002162 NCBITaxon:6072 {all_only="true"} ! in taxon Eumetazoa property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22178" xsd:anyURI [Term] @@ -4035,6 +4103,7 @@ subset: goslim_drosophila subset: goslim_generic subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon xref: Wikipedia:Cellular_differentiation is_a: GO:0048869 ! cellular developmental process intersection_of: GO:0048869 ! cellular developmental process @@ -4146,6 +4215,7 @@ alt_id: GO:0005578 def: "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues." [GOC:BHF, GOC:mah, GOC:rph, NIF_Subcellular:nlx_subcell_20090513, PMID:21123617, PMID:28089324] subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote @@ -4258,6 +4328,7 @@ namespace: biological_process alt_id: GO:0044707 alt_id: GO:0050874 def: "Any biological process, occurring at the level of a multicellular organism, pertinent to its function." [GOC:curators, GOC:dph, GOC:isa_complete, GOC:tb] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate subset: goslim_pir synonym: "organismal physiological process" EXACT [] @@ -4267,6 +4338,7 @@ property_value: RO:0002161 NCBITaxon:2 property_value: RO:0002161 NCBITaxon:2157 property_value: RO:0002161 NCBITaxon:4896 property_value: RO:0002161 NCBITaxon:4932 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2012-09-19T16:07:47Z @@ -4285,15 +4357,6 @@ is_a: GO:0008150 ! biological_process created_by: jl creation_date: 2012-12-19T12:21:31Z -[Term] -id: GO:0032504 -name: multicellular organism reproduction -namespace: biological_process -def: "The biological process in which new individuals are produced by one or two multicellular organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." [GOC:isa_complete, GOC:jid] -subset: goslim_drosophila -is_a: GO:0000003 ! reproduction -is_a: GO:0032501 ! multicellular organismal process - [Term] id: GO:0032838 name: plasma membrane bounded cell projection cytoplasm @@ -4342,6 +4405,7 @@ def: "A stable assembly of two or more macromolecules, i.e. proteins, nucleic ac comment: A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole. subset: goslim_agr subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir @@ -4351,8 +4415,8 @@ synonym: "protein complex" NARROW [] synonym: "protein containing complex" EXACT [] synonym: "protein-protein complex" NARROW [] is_a: GO:0005575 ! cellular_component -is_a: PR:000050567 ! protein-containing material entity disjoint_from: GO:0110165 ! cellular anatomical entity +relationship: has_part PR:000000001 ! protein [Term] id: GO:0032993 @@ -4571,7 +4635,6 @@ id: GO:0042391 name: regulation of membrane potential namespace: biological_process def: "Any process that modulates the establishment or extent of a membrane potential, the electric potential existing across any membrane arising from charges in the membrane itself and from the charges present in the media on either side of the membrane." [GOC:jl, GOC:mtg_cardio, GOC:tb, ISBN:0198506732] -is_a: BFO:0000003 ! occurrent relationship: has_part GO:0034220 ! monoatomic ion transmembrane transport [Term] @@ -4599,10 +4662,12 @@ name: cell projection namespace: cellular_component def: "A prolongation or process extending from a cell, e.g. a flagellum or axon." [GOC:jl, http://www.cogsci.princeton.edu/~wn/] subset: goslim_agr +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "cell process" BROAD [] synonym: "cellular process" BROAD [] synonym: "cellular projection" EXACT [] @@ -4655,6 +4720,7 @@ subset: goslim_chembl subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon xref: NIF_Subcellular:sao1539965131 xref: Wikipedia:Organelle is_a: GO:0110165 ! cellular anatomical entity @@ -4817,7 +4883,10 @@ name: primary metabolic process namespace: biological_process def: "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism." [GOC:go_curators, http://www.metacyc.org] subset: gocheck_do_not_annotate +subset: goslim_euk_cellular_processes_ribbon subset: goslim_pir +subset: goslim_plant_ribbon +subset: goslim_prokaryote_ribbon synonym: "primary metabolism" EXACT [] is_a: GO:0008152 ! metabolic process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI @@ -4827,12 +4896,15 @@ id: GO:0044249 name: cellular biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:jl] +comment: This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. +subset: gocheck_do_not_annotate synonym: "cellular anabolism" EXACT [] synonym: "cellular biosynthesis" EXACT [] synonym: "cellular formation" EXACT [] synonym: "cellular synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0044237 ! cellular metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27052" xsd:anyURI [Term] id: GO:0044782 @@ -4871,6 +4943,7 @@ namespace: cellular_component def: "The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane." [GOC:aruk, ISBN:0198506732, PMID:24619342, PMID:29383328, PMID:31998110] subset: goslim_agr subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir @@ -5012,10 +5085,12 @@ id: GO:0048609 name: multicellular organismal reproductive process namespace: biological_process def: "The process, occurring above the cellular level, that is pertinent to the reproductive function of a multicellular organism. This includes the integrated processes at the level of tissues and organs." [GOC:dph, GOC:jid, GOC:tb] +subset: gocheck_do_not_annotate +subset: goslim_drosophila synonym: "organismal reproductive process" BROAD [] synonym: "reproductive process in a multicellular organism" EXACT [] is_a: GO:0022414 ! reproductive process -relationship: part_of GO:0032504 ! multicellular organism reproduction +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27054" xsd:anyURI [Term] id: GO:0048646 @@ -5072,6 +5147,7 @@ subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_generic subset: goslim_plant +subset: goslim_plant_ribbon synonym: "development of an anatomical structure" EXACT [] is_a: GO:0032502 ! developmental process intersection_of: GO:0032502 ! developmental process @@ -5094,12 +5170,14 @@ namespace: biological_process def: "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another." [GOC:dgh, GOC:dph, GOC:isa_complete, GOC:mlg] subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_prokaryote synonym: "cell locomotion" EXACT [] synonym: "cell movement" RELATED [] synonym: "movement of a cell" EXACT [] is_a: GO:0009987 ! cellular process +property_value: RO:0002161 NCBITaxon:4890 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19809" xsd:anyURI [Term] @@ -5205,12 +5283,13 @@ namespace: biological_process alt_id: GO:0051869 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism." [GOC:ai, GOC:bf] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "physiological response to stimulus" EXACT [] is_a: GO:0008150 ! biological_process @@ -5220,6 +5299,7 @@ name: localization namespace: biological_process alt_id: GO:1902578 def: "Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation." [GOC:ai, GOC:dos] +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "establishment and maintenance of cellular component location" NARROW [] synonym: "establishment and maintenance of localization" EXACT [] @@ -5230,6 +5310,7 @@ synonym: "localisation" EXACT [GOC:mah] synonym: "single organism localization" RELATED [GOC:TermGenie] synonym: "single-organism localization" RELATED [] is_a: GO:0008150 ! biological_process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27052" xsd:anyURI created_by: jl creation_date: 2013-12-18T13:51:04Z @@ -5315,6 +5396,8 @@ name: cellular localization namespace: biological_process alt_id: GO:1902580 def: "A cellular localization process whereby a substance or cellular entity, such as a protein complex or organelle, is transported to, and/or maintained in, a specific location within a cell including the localization of substances or cellular entities to the cell membrane." [GOC:tb, GOC:vw] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "cellular localisation" EXACT [GOC:mah] synonym: "establishment and maintenance of cellular localization" EXACT [] @@ -5325,6 +5408,7 @@ synonym: "single organism cellular localization" EXACT [GOC:TermGenie] synonym: "single-organism cellular localization" RELATED [] is_a: GO:0009987 ! cellular process is_a: GO:0051179 ! localization +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2013-12-18T14:04:32Z @@ -5388,7 +5472,7 @@ name: cellular response to stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus by a cell and ends with a change in state or activity or the cell." [GOC:bf, GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0009987 ! cellular process is_a: GO:0050896 ! response to stimulus @@ -5401,6 +5485,7 @@ def: "The process in which a solute is transported across a lipid bilayer, from comment: Transmembrane transport is the transport of a solute across a lipid bilayer. Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane and is not traversed. For transport through the nuclear pore, consider instead the term 'nucleocytoplasmic transport ; GO:0006913' and its children. Note also that this term is not intended for use in annotating lateral movement within membranes. subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pombe subset: goslim_yeast @@ -5717,12 +5802,15 @@ name: cellular component organization or biogenesis namespace: biological_process alt_id: GO:0071841 def: "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_flybase_ribbon subset: goslim_metagenomics synonym: "cellular component organisation or biogenesis" EXACT [GOC:mah] synonym: "cellular component organisation or biogenesis at cellular level" EXACT [GOC:mah] synonym: "cellular component organization or biogenesis at cellular level" EXACT [] is_a: GO:0009987 ! cellular process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: mah creation_date: 2010-09-10T01:39:16Z @@ -5902,7 +5990,7 @@ name: plasma membrane region namespace: cellular_component def: "A membrane that is a (regional) part of the plasma membrane." [GOC:dos] comment: Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "region of plasma membrane" EXACT [] is_a: GO:0016020 ! membrane intersection_of: GO:0016020 ! membrane @@ -5929,7 +6017,6 @@ def: "A complex of collagen trimers such as a fibril or collagen network." [GOC: synonym: "Supramolecular aggregate of collagen" EXACT [PMID:19693541] synonym: "Supramolecular collagen assembly" EXACT [PMID:21421911] is_a: GO:0099080 ! supramolecular complex -is_a: PR:000050567 ! protein-containing material entity relationship: has_part GO:0005581 ! collagen trimer relationship: part_of GO:0062023 ! collagen-containing extracellular matrix @@ -6192,6 +6279,7 @@ id: GO:1901576 name: organic substance biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon." [GOC:pr, GOC:TermGenie] +subset: gocheck_do_not_annotate synonym: "organic molecular entity anabolism" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthesis" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthetic process" EXACT [] @@ -6203,6 +6291,7 @@ synonym: "organic substance formation" EXACT [] synonym: "organic substance synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0071704 ! organic substance metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI created_by: pr creation_date: 2012-11-05T11:04:40Z @@ -6563,7 +6652,6 @@ name: quality namespace: quality alt_id: PATO:0000072 def: "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities" [PATOC:GVG] -is_a: BFO:0000020 ! specifically dependent continuant [Term] id: PATO:0000051 @@ -7486,21 +7574,6 @@ comment: Category=family. synonym: "fam:angiotensinogenase" EXACT PRO-short-label [PRO:DAN] is_a: PR:000000001 ! protein -[Term] -id: PR:000050567 -name: protein-containing material entity -namespace: protein -def: "A material entity that minimally consists of a protein." [PRO:DAN] -comment: Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566). -synonym: "protein" NARROW [PRO:DAN] -synonym: "protein aggregate" NARROW [PRO:DAN] -synonym: "protein complex" NARROW [PRO:DAN] -synonym: "protein-containing complex" NARROW [PRO:DAN] -is_a: BFO:0000040 ! material entity -intersection_of: BFO:0000040 ! material entity -intersection_of: has_part PR:000000001 ! protein -relationship: has_part PR:000000001 ! protein - [Term] id: UBERON:0000000 name: processual entity @@ -7548,6 +7621,7 @@ xref: EFO:0000799 xref: EHDAA2:0003193 xref: EMAPA:37283 {source="MA:th"} xref: EV:0100155 +xref: FBbt:00007000 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: HAO:0000144 xref: MAT:0000023 xref: MESH:D005121 @@ -7668,6 +7742,7 @@ synonym: "ducts" RELATED OMO:0003004 [XAO:0004000] synonym: "exocrine duct" NARROW [] synonym: "exocrine gland duct" NARROW [] xref: AAO:0011123 +xref: FBbt:00100314 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:30320 xref: galen:Duct xref: NCIT:C12948 @@ -7677,7 +7752,6 @@ xref: UMLS:C0687028 {source="ncithesaurus:Duct"} xref: Wikipedia:Duct_(anatomy) xref: XAO:0004000 xref: ZFA:0005171 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000063 ! organ subunit relationship: has_part UBERON:0034969 ! epithelial layer of duct relationship: RO:0000086 PATO:0002299 ! has quality tubular @@ -7714,6 +7788,7 @@ xref: BILA:0000003 xref: CARO:0000003 xref: EHDAA2:0003003 xref: EMAPA:0 +xref: FBbt:00007001 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:305751 xref: FMA:67135 xref: GAID:781 @@ -7816,7 +7891,6 @@ xref: EFO:0001272 xref: FBdv:00005369 xref: WBls:0000041 xref: XtroDO:0000084 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000092 ! post-embryonic stage relationship: preceded_by UBERON:0000111 ! organogenesis stage @@ -7843,7 +7917,6 @@ xref: WBls:0000003 xref: WBls:0000092 xref: WBls:0000102 xref: XAO:1000012 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage disjoint_from: UBERON:0000092 ! post-embryonic stage relationship: precedes UBERON:0000066 ! fully formed stage @@ -7859,7 +7932,6 @@ subset: common_anatomy synonym: "death" RELATED [] xref: XAO:0000437 xref: XtroDO:0000085 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: RO:0002229 UBERON:0000104 ! ends life cycle property_value: RO:0002175 NCBITaxon:33090 @@ -8068,7 +8140,6 @@ xref: OGES:000024 xref: WBls:0000022 xref: WBls:0000093 xref: WBls:0000103 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: preceded_by UBERON:0000068 ! embryo stage relationship: RO:0002082 GO:0009791 ! simultaneous with post-embryonic development @@ -8090,7 +8161,6 @@ xref: HsapDv:0000001 xref: MmusDv:0000001 xref: ncithesaurus:Life xref: OGES:000011 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000000 ! processual entity relationship: ends_with UBERON:0000071 ! death stage relationship: has_part UBERON:0000105 ! life cycle stage @@ -8154,7 +8224,6 @@ xref: VHOG:0000745 xref: Wikipedia:Zygote xref: XAO:1000001 xref: ZFS:0000001 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: RO:0002223 UBERON:0000104 ! starts life cycle @@ -8178,7 +8247,6 @@ xref: PdumDv:0000200 xref: Wikipedia:Cleavage_(embryo) xref: XAO:1000004 xref: ZFS:0000046 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage intersection_of: UBERON:0000105 ! life cycle stage intersection_of: RO:0002082 GO:0040016 ! simultaneous with embryonic cleavage @@ -8204,7 +8272,6 @@ xref: WBls:0000005 xref: Wikipedia:Blastula xref: XAO:1000003 xref: ZFS:0000045 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000107 ! cleavage stage @@ -8234,7 +8301,6 @@ xref: OGES:000019 xref: WBls:0000010 xref: XAO:1000005 xref: ZFS:0000047 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000108 {source="BILS"} ! blastula stage @@ -8251,7 +8317,6 @@ xref: BILS:0000110 xref: HsapDv:0000012 xref: MmusDv:0000017 xref: XAO:1000006 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000109 ! gastrula stage @@ -8273,7 +8338,6 @@ xref: MmusDv:0000018 xref: OGES:000005 xref: OGES:000032 xref: Wikipedia:Organogenesis -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: RO:0002082 GO:0048513 ! simultaneous with animal organ development @@ -8427,6 +8491,7 @@ xref: EFO:0000825 xref: EHDAA2:0001326 xref: EHDAA:542 xref: EMAPA:16262 +xref: FBbt:00003126 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:49184 xref: GAID:75 xref: galen:Mouth @@ -8510,7 +8575,6 @@ xref: VHOG:0000224 xref: Wikipedia:Blood xref: XAO:0000124 xref: ZFA:0000007 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000179 ! haemolymphatic fluid relationship: has_part CL:0000232 {source="CL:tm"} ! erythrocyte relationship: has_part UBERON:0001969 ! blood plasma @@ -8684,6 +8748,7 @@ xref: CALOHA:TS-2101 xref: CARO:0000004 xref: EHDAA2:0003004 xref: EMAPA:35178 +xref: FBbt:00007019 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9669 xref: galen:BodySubstance xref: HAO:0000004 @@ -8718,6 +8783,7 @@ xref: AEO:0000005 xref: BILA:0000005 xref: CARO:0000005 xref: EHDAA2:0003005 +xref: FBbt:00007017 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:5897 xref: HAO:0000005 xref: NCIT:C94478 @@ -8745,12 +8811,12 @@ xref: AEO:0000006 xref: BILA:0000006 xref: CARO:0000006 xref: EHDAA2:0003006 +xref: FBbt:00007016 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67165 xref: HAO:0000006 xref: TAO:0001836 xref: TGMA:0001826 xref: VHOG:0001721 -is_a: BFO:0000040 ! material entity is_a: UBERON:0001062 ! anatomical entity disjoint_from: UBERON:0000466 ! immaterial anatomical entity property_value: RO:0002175 NCBITaxon:33090 @@ -8770,12 +8836,12 @@ xref: AEO:0000007 xref: BILA:0000007 xref: CARO:0000007 xref: EHDAA2:0003007 +xref: FBbt:00007015 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67112 xref: HAO:0000007 xref: TAO:0001835 xref: TGMA:0001827 xref: VHOG:0001727 -is_a: BFO:0000141 ! immaterial entity is_a: UBERON:0001062 ! anatomical entity property_value: RO:0002175 NCBITaxon:33090 property_value: RO:0002175 NCBITaxon:33208 @@ -8807,6 +8873,7 @@ xref: EHDAA2:0003011 xref: EHDAA:392 xref: EMAPA:16103 xref: EV:0100000 +xref: FBbt:00004856 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7149 xref: galen:AnatomicalSystem xref: HAO:0000011 @@ -8860,6 +8927,7 @@ xref: EHDAA2:0003191 xref: EHDAA:1 xref: EMAPA:25765 xref: EV:0100016 +xref: FBbt:00000001 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:256135 xref: galen:Organism xref: HAO:0000012 @@ -8923,6 +8991,7 @@ xref: CARO:0000032 xref: EFO:0000808 xref: EHDAA2:0003032 xref: EMAPA:36031 +xref: FBbt:00007009 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7153 xref: galen:BodyPart xref: HAO:0000032 @@ -8958,6 +9027,7 @@ xref: AEO:0000040 xref: BILA:0000040 xref: CARO:0000040 xref: EHDAA2:0003040 +xref: FBbt:00007013 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:63863 xref: HAO:0000040 xref: TAO:0000382 @@ -8977,6 +9047,7 @@ namespace: uberon def: "Anatomical group whose component anatomical structures lie in close proximity to each other." [FBbt:00007277] subset: common_anatomy subset: upper_level +xref: FBbt:00007277 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: VHOG:0001737 is_a: UBERON:0034923 ! disconnected anatomical group property_value: RO:0002175 NCBITaxon:33090 @@ -9003,6 +9074,7 @@ xref: CALOHA:TS-2090 xref: CARO:0000043 xref: EHDAA2:0003043 xref: EMAPA:35868 +xref: FBbt:00007003 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9637 xref: galen:Tissue xref: HAO:0000043 @@ -9037,6 +9109,7 @@ xref: AEO:0000055 xref: BILA:0000055 xref: CARO:0000055 xref: EHDAA2:0003055 +xref: FBbt:00007010 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: HAO:0000055 xref: TAO:0001488 xref: TGMA:0001847 @@ -9069,6 +9142,7 @@ xref: CALOHA:TS-0288 xref: CARO:0000066 xref: EHDAA2:0003066 xref: EMAPA:32738 +xref: FBbt:00007005 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9639 xref: GAID:402 xref: HAO:0000066 @@ -9082,7 +9156,6 @@ xref: VHOG:0000387 xref: Wikipedia:Epithelium xref: XAO:0003045 xref: ZFA:0001486 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000479 ! tissue intersection_of: UBERON:0000479 ! tissue intersection_of: RO:0002473 CL:0000066 ! composed primarily of epithelial cell @@ -9109,6 +9182,7 @@ xref: AEO:0000068 xref: BILA:0000068 xref: CARO:0000068 xref: EHDAA2_RETIRED:0003068 +xref: FBbt:00007027 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45567 xref: HAO:0000068 xref: NCIT:C33552 @@ -9278,6 +9352,7 @@ xref: EHDAA2:0000002 xref: EHDAA2_RETIRED:0003236 xref: EHDAA:38 xref: EMAPA:16039 +xref: FBbt:00000052 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69068 xref: GAID:963 xref: http://neurolex.org/wiki/Category\:Embryonic_organism @@ -9318,6 +9393,7 @@ xref: AAO:0000480 xref: BILA:0000035 xref: BTO:0000556 xref: EMAPA:36033 +xref: FBbt:00000110 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69069 xref: GAID:1303 xref: MESH:D005855 @@ -9351,6 +9427,7 @@ xref: EFO:0000414 xref: EHDAA2:0000428 xref: EMAPA:16069 xref: EV:0100003 +xref: FBbt:00000111 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69070 xref: GAID:1304 xref: MAT:0000155 @@ -9388,6 +9465,7 @@ xref: EFO:0002545 xref: EHDAA2:0000436 xref: EMAPA:16062 xref: EV:0100005 +xref: FBbt:00000125 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69071 xref: GAID:1305 xref: MAT:0000175 @@ -9431,6 +9509,7 @@ xref: EHDAA:160 xref: EHDAA:183 xref: EMAPA:16083 xref: EV:0100006 +xref: FBbt:00000126 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69072 xref: GAID:522 xref: MAT:0000174 @@ -9470,6 +9549,7 @@ synonym: "stomodeal-hypophyseal primordium" BROAD [XAO:0000269] xref: BTO:0004224 xref: EHDAA2:0001929 xref: EMAPA:16263 +xref: FBbt:00000439 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:295846 xref: NCIT:C34306 xref: TAO:0001290 @@ -9499,6 +9579,7 @@ synonym: "proctodaeum" EXACT [] xref: AAO:0011087 xref: EHDAA2:0000121 xref: EMAPA:25038 +xref: FBbt:00000123 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: NCIT:C34278 xref: TAO:0000066 xref: UMLS:C0231054 {source="ncithesaurus:Proctodeum"} @@ -9673,6 +9754,7 @@ xref: EHDAA2:0001603 xref: EHDAA:5923 xref: EMAPA:17381 xref: EV:0100100 +xref: FBbt:00004857 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7160 xref: GAID:363 xref: HAO:0000374 @@ -9690,7 +9772,7 @@ xref: XAO:0000142 xref: ZFA:0000632 is_a: UBERON:0000467 ! anatomical system intersection_of: UBERON:0000467 ! anatomical system -intersection_of: capable_of_part_of GO:0000003 ! reproduction +intersection_of: capable_of_part_of GO:0022414 ! reproductive process disjoint_from: UBERON:0001007 ! digestive system disjoint_from: UBERON:0001009 ! circulatory system disjoint_from: UBERON:0001016 ! nervous system @@ -9698,7 +9780,7 @@ disjoint_from: UBERON:0001434 ! skeletal system disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:8450002 ! excretory system -relationship: capable_of_part_of GO:0000003 ! reproduction +relationship: capable_of_part_of GO:0022414 ! reproductive process relationship: has_part UBERON:0000991 ! gonad relationship: RO:0002492 UBERON:0000066 ! existence ends during fully formed stage property_value: http://purl.org/dc/terms/date "2022-06-10T18:22:34Z" xsd:dateTime @@ -9763,6 +9845,7 @@ xref: BILA:0000082 xref: BTO:0000058 xref: CALOHA:TS-1293 xref: EFO:0000793 +xref: FBbt:00005055 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7152 xref: GAID:278 xref: galen:DigestiveSystem @@ -9819,6 +9902,7 @@ xref: EHDAA2:0001601 xref: EHDAA:5901 xref: EMAPA:17366 xref: EV:0100095 +xref: FBbt:00005056 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7159 xref: GAID:391 xref: galen:UrinaryTract @@ -9932,6 +10016,7 @@ xref: EHDAA2:0001246 xref: EHDAA:826 xref: EMAPA:16469 xref: EV:0100162 +xref: FBbt:00005093 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7157 xref: GAID:466 xref: MA:0000016 @@ -9991,6 +10076,7 @@ xref: EHDAA:828 xref: EMAPA:16470 xref: EMAPA:16754 xref: EV:0100163 +xref: FBbt:00005094 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:55675 xref: GAID:570 xref: MA:0000167 @@ -10029,6 +10115,7 @@ xref: BTO:0000507 xref: EHDAA2:0000557 xref: EHDAA:520 xref: EMAPA:16548 +xref: FBbt:00005379 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45616 xref: MA:0001526 xref: NCIT:C34180 @@ -10058,6 +10145,7 @@ xref: EFO:0001950 xref: EHDAA2:0001185 xref: EHDAA:983 xref: EMAPA:16255 +xref: FBbt:00005383 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45617 xref: MA:0001564 xref: NCIT:C34210 @@ -10087,6 +10175,7 @@ xref: BTO:0000510 xref: EHDAA2:0000779 xref: EHDAA:975 xref: EMAPA:16715 +xref: FBbt:00005384 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45618 xref: MA:0001527 xref: NCIT:C34188 @@ -10119,6 +10208,7 @@ xref: AEO:0000171 xref: BTO:0001886 xref: EFO:0001652 xref: EHDAA2:0003171 +xref: FBbt:00005495 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:86589 xref: MAT:0000482 xref: NCIT:C34275 @@ -10181,6 +10271,7 @@ xref: BILA:0000000 xref: BIRNLEX:6 xref: CARO:0000000 xref: EHDAA2:0002229 +xref: FBbt:10000000 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:62955 xref: HAO:0000000 xref: MA:0000001 @@ -10538,6 +10629,7 @@ synonym: "proctodeum" RELATED [] xref: BTO:0001680 xref: CALOHA:TS-2005 xref: EV:0100082 +xref: FBbt:00047153 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:15711 xref: GAID:312 xref: galen:Anus @@ -10956,6 +11048,7 @@ xref: BTO:0000545 xref: EHDAA2:0000726 xref: EHDAA:518 xref: EMAPA:16247 +xref: FBbt:00003125 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45615 xref: galen:AlimentaryTract xref: MA:0000917 @@ -11151,7 +11244,6 @@ xref: MIAA:0000052 xref: NCIT:C13356 xref: UMLS:C0032105 {source="ncithesaurus:Plasma"} xref: Wikipedia:Blood_plasma -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000179 ! haemolymphatic fluid intersection_of: UBERON:0000463 ! organism substance intersection_of: has_part GO:0005577 ! fibrinogen complex @@ -11261,7 +11353,6 @@ xref: VHOG:0001250 xref: Wikipedia:Blood_vessel xref: XAO:0001011 xref: ZFA:0005314 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000055 ! vessel is_a: UBERON:0004120 ! mesoderm-derived structure relationship: capable_of_part_of GO:0008015 ! blood circulation @@ -11383,6 +11474,7 @@ xref: BILA:0000034 xref: BTO:0000174 xref: CALOHA:TS-2110 xref: EFO:0000461 +xref: FBbt:00004208 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69067 xref: GAID:407 xref: MESH:D004628 @@ -11803,7 +11895,6 @@ xref: NCIT:C32891 xref: SCTID:362219002 xref: UMLS:C0022445 {source="ncithesaurus:Juxtaglomerular_Apparatus"} xref: Wikipedia:Juxtaglomerular_apparatus -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000061 ! anatomical structure relationship: capable_of GO:0003093 {source="GO"} ! regulation of glomerular filtration relationship: has_part CL:0000648 ! kidney granular cell @@ -11877,6 +11968,7 @@ synonym: "ventral body cavity" NARROW [NCBITaxon:7742] xref: AEO:0000186 xref: BTO:0001707 xref: EHDAA2:0000267 +xref: FBbt:00005060 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:85006 xref: galen:BodyCavity xref: NCIT:C25444 @@ -12061,6 +12153,7 @@ xref: EHDAA:1498 xref: EHDAA:255 xref: EMAPA:16073 xref: EV:0100004 +xref: FBbt:00001057 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:87657 xref: MAT:0000176 xref: MIAA:0000176 @@ -12680,8 +12773,8 @@ xref: WBbt:0008422 is_a: UBERON:0000062 ! organ is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0000062 ! organ -intersection_of: capable_of_part_of GO:0000003 ! reproduction -relationship: capable_of_part_of GO:0000003 ! reproduction +intersection_of: capable_of_part_of GO:0022414 ! reproductive process +relationship: capable_of_part_of GO:0022414 ! reproductive process [Term] id: UBERON:0003220 @@ -12921,6 +13014,7 @@ def: "Epithelial tubes transport gases, liquids and cells from one site to anoth synonym: "epithelial or endothelial tube" EXACT [] xref: AEO:0000114 xref: EHDAA2:0003114 +xref: FBbt:00007474 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000025 ! tube is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium @@ -13524,7 +13618,6 @@ xref: WikipediaCategory:Cardiovascular_system xref: XAO:0000100 xref: XAO:0001010 xref: ZFA:0000010 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000467 ! anatomical system intersection_of: UBERON:0000467 ! anatomical system intersection_of: has_part UBERON:0000948 ! heart @@ -13548,7 +13641,6 @@ synonym: "blood vessels" RELATED [TAO:0001079] synonym: "set of blood vessels" EXACT [] xref: TAO:0001079 xref: ZFA:0001079 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: RO:0002473 UBERON:0001981 ! composed primarily of blood vessel @@ -13572,7 +13664,6 @@ xref: EMAPA:16371 xref: MA:0002719 xref: SCTID:362030008 xref: VHOG:0000273 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0007798 {source="MA"} ! vascular system relationship: RO:0002351 UBERON:0001637 ! has member artery property_value: RO:0002175 NCBITaxon:9606 @@ -13593,7 +13684,6 @@ xref: NCIT:C33858 xref: SCTID:362060003 xref: UMLS:C1267406 {source="ncithesaurus:Venous_System"} xref: VHOG:0000277 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0007798 {source="MA"} ! vascular system relationship: RO:0002473 UBERON:0001638 ! composed primarily of vein property_value: RO:0002175 NCBITaxon:9606 @@ -13720,6 +13810,7 @@ synonym: "trilaminar disk" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar germ" RELATED [https://orcid.org/0000-0002-6601-2165] xref: BILA:0000060 xref: BTO:0001403 +xref: FBbt:00005317 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:293108 xref: GAID:1302 xref: MESH:D005775 @@ -13936,6 +14027,7 @@ namespace: uberon def: "Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "joint" NARROW [] +xref: FBbt:00005811 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0034921 ! multi organ part structure relationship: part_of UBERON:0004770 ! articular system @@ -13951,6 +14043,7 @@ synonym: "gut section" RELATED [FBbt:00100315] synonym: "intestinal tract" RELATED [] synonym: "segment of intestinal tract" RELATED [] synonym: "subdivision of alimentary system" RELATED [FMA:71131] +xref: FBbt:00100315 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:71131 is_a: UBERON:0013522 ! subdivision of tube intersection_of: UBERON:0013522 ! subdivision of tube @@ -14386,6 +14479,7 @@ synonym: "developmental tissue" RELATED [MIAA:0000019] xref: AEO:0000125 xref: CALOHA:TS-2122 xref: EHDAA2:0003125 +xref: FBbt:00007006 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:292313 xref: MIAA:0000019 is_a: UBERON:0000465 ! material anatomical entity @@ -14532,7 +14626,6 @@ xref: NCIT:C13191 xref: SCTID:68989006 xref: UMLS:C0004799 {source="ncithesaurus:Basement_Membrane"} xref: Wikipedia:Basement_membrane -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0005764 {source="FMA"} ! acellular membrane relationship: adjacent_to CL:0000066 ! epithelial cell relationship: has_part GO:0005587 ! collagen type IV trimer @@ -14886,6 +14979,7 @@ def: "The distalmost portion of the digestive tract, derived from the hindgut, a synonym: "rectal part of digestive tract" RELATED [] synonym: "rectum" NARROW [FBbt:00005756] synonym: "terminal section of digestive tract" RELATED [] +xref: FBbt:00005756 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: WBbt:0005773 is_a: UBERON:0004921 ! subdivision of digestive tract relationship: RO:0002150 UBERON:0001245 ! continuous with anus @@ -14929,7 +15023,6 @@ subset: efo_slim xref: EFO:0003709 xref: TAO:0005077 xref: ZFA:0005077 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0005423 ! developing anatomical structure relationship: has_part CL:0000115 ! endothelial cell relationship: has_part CL:0000566 ! angioblastic mesenchymal cell @@ -15218,6 +15311,7 @@ synonym: "organ field" RELATED [] xref: AEO:0000170 xref: EFO:0001649 xref: EHDAA2:0003170 +xref: FBbt:00005426 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: Wikipedia:Anlage_(biology) is_a: UBERON:0000479 {source="FBbt"} ! tissue is_a: UBERON:0005423 {source="AEO", source="FBbt"} ! developing anatomical structure @@ -15500,6 +15594,7 @@ subset: common_anatomy subset: upper_level synonym: "multicellular structure" EXACT [FBbt:00100313] xref: CARO:0010000 +xref: FBbt:00100313 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: RO:0000086 PATO:0001993 ! has quality multicellular @@ -15741,6 +15836,7 @@ def: "A subdivision of an anatomical system." [http://orcid.org/0000-0002-6601-2 subset: common_anatomy subset: human_reference_atlas subset: upper_level +xref: FBbt:00007330 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67509 xref: SCTID:91690000 is_a: UBERON:0010000 {source="FBbt"} ! multicellular anatomical structure @@ -16133,6 +16229,7 @@ namespace: uberon def: "Material anatomical entity consisting of multiple anatomical structures that are not connected to each other." [CARO:0020000] subset: common_anatomy xref: CARO:0020000 +xref: FBbt:00007276 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000465 {source="CARO"} ! material anatomical entity relationship: has_component UBERON:0000061 {minCardinality="2"} ! anatomical structure relationship: RO:0000086 PATO:0010001 ! has quality disconnected @@ -16317,15 +16414,6 @@ is_functional: true is_a: RO:0002314 ! characteristic of part of inverse_of: bearer_of ! bearer of -[Typedef] -id: RO:0000079 -name: function of -def: "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -property_value: IAO:0000116 "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." xsd:string -is_a: RO:0000052 ! characteristic of -inverse_of: RO:0000085 ! has function - [Typedef] id: RO:0000080 name: quality of @@ -16335,23 +16423,6 @@ property_value: IAO:0000116 "A quality inheres in its bearer at all times for wh is_a: RO:0000052 ! characteristic of inverse_of: RO:0000086 ! has quality -[Typedef] -id: RO:0000081 -name: role of -def: "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -property_value: IAO:0000116 "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." xsd:string -is_a: RO:0000052 ! characteristic of -inverse_of: RO:0000087 ! has role - -[Typedef] -id: RO:0000085 -name: has function -def: "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" [] -property_value: IAO:0000116 "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." xsd:string -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of - [Typedef] id: RO:0000086 name: has quality @@ -16359,30 +16430,6 @@ def: "a relation between an independent continuant (the bearer) and a quality, i property_value: IAO:0000116 "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." xsd:string is_a: bearer_of ! bearer of -[Typedef] -id: RO:0000087 -name: has role -def: "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" [] -property_value: IAO:0000116 "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." xsd:string -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of - -[Typedef] -id: RO:0000091 -name: has disposition -def: "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" [] -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of -inverse_of: RO:0000092 ! disposition of - -[Typedef] -id: RO:0000092 -name: disposition of -def: "inverse of has disposition" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -subset: RO:0002259 -is_a: RO:0000052 ! characteristic of - [Typedef] id: RO:0001000 name: derives from @@ -16414,8 +16461,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: IAO:0000116 "Location as a relation between instances: The primitive instance-level relation c located_in r at t reflects the fact that each continuant is at any given time associated with exactly one spatial region, namely its exact location. Following we can use this relation to define a further instance-level location relation - not between a continuant and the region which it exactly occupies, but rather between one continuant and another. c is located in c1, in this sense, whenever the spatial region occupied by c is part_of the spatial region occupied by c1. Note that this relation comprehends both the relation of exact location between one continuant and another which obtains when r and r1 are identical (for example, when a portion of fluid exactly fills a cavity), as well as those sorts of inexact location relations which obtain, for example, between brain and head or between ovum and uterus" xsd:string property_value: IAO:0000116 "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" xsd:string property_value: seeAlso "https://wiki.geneontology.org/Located_in" xsd:anyURI -domain: BFO:0000004 {IAO:0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant -range: BFO:0000004 {IAO:0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant is_transitive: true transitive_over: part_of ! part of @@ -16434,8 +16479,6 @@ name: has 2D boundary def: "a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity" [] property_value: IAO:0000116 "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." xsd:string property_value: IAO:0000116 "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." xsd:string -domain: BFO:0000040 ! material entity -range: BFO:0000141 ! immaterial entity is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -16450,34 +16493,6 @@ name: has synaptic terminal of is_a: overlaps ! overlaps inverse_of: RO:0002130 ! has synaptic terminal in -[Typedef] -id: RO:0002015 -name: has positive regulatory component activity -def: "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." [] -comment: By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'. -is_a: has_regulatory_component_activity ! has regulatory component activity -is_a: positively_regulated_by ! positively regulated by -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:31:17Z - -[Typedef] -id: RO:0002017 -name: has component activity -comment: A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B. -is_a: RO:0002018 ! has component process -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:44:33Z - -[Typedef] -id: RO:0002018 -name: has component process -def: "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." [] -domain: BFO:0000015 ! process -range: BFO:0000015 ! process -is_a: has_component ! has component -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:49:21Z - [Typedef] id: RO:0002021 name: occurs across @@ -16486,43 +16501,6 @@ is_a: RO:0002479 ! has part that occurs in created_by: https://orcid.org/0000-0002-7073-9172 creation_date: 2017-07-20T17:19:37Z -[Typedef] -id: RO:0002022 -name: directly regulated by -comment: Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. {xref="https://orcid.org/0000-0002-7073-9172"} -is_a: regulated_by ! regulated by -inverse_of: directly_regulates ! directly regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:24Z - -[Typedef] -id: RO:0002023 -name: directly negatively regulated by -def: "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1." [https://orcid.org/0000-0002-7073-9172] -is_a: RO:0002022 ! directly regulated by -inverse_of: directly_negatively_regulates ! directly negatively regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:38Z - -[Typedef] -id: RO:0002024 -name: directly positively regulated by -def: "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1." [https://orcid.org/0000-0002-7073-9172] -is_a: RO:0002022 ! directly regulated by -inverse_of: directly_positively_regulates ! directly positively regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:47Z - -[Typedef] -id: RO:0002025 -name: has effector activity -def: "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity." [https://orcid.org/0000-0002-7073-9172] -comment: This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations. -is_functional: true -is_a: RO:0002017 ! has component activity -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-22T14:14:36Z - [Typedef] id: RO:0002081 name: before or simultaneous with @@ -16646,8 +16624,6 @@ id: RO:0002150 name: continuous with def: "X continuous_with Y if and only if X and Y share a fiat boundary." [] property_value: seeAlso "FMA:85972" xsd:string -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_symmetric: true is_a: RO:0002323 ! mereotopologically related to @@ -16710,7 +16686,6 @@ name: connects def: "c connects a if and only if there exist some b such that a and b are similar parts of the same system, and c connects b, specifically, c connects a with b. When one structure connects two others it unites some aspect of the function or role they play within the system." [] property_value: seeAlso "https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern" xsd:anyURI property_value: seeAlso "https://github.com/obophenotype/uberon/wiki/Modeling-articulations-Design-Pattern" xsd:anyURI -domain: BFO:0000004 ! independent continuant is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -16741,8 +16716,6 @@ id: RO:0002202 name: develops from def: "x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y" [] comment: This is the transitive form of the develops from relation -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_transitive: true is_a: RO:0002254 ! has developmental contribution from is_a: RO:0002258 ! developmentally preceded by @@ -16762,7 +16735,6 @@ is_a: RO:0002388 ! has potential to directly develop into id: RO:0002206 name: expressed in def: "x expressed in y if and only if there is a gene expression process (GO:0010467) that occurs in y, and one of the following holds: (i) x is a gene, and x is transcribed into a transcript as part of the gene expression process (ii) x is a transcript, and the transcription of x is part of the gene expression process (iii) x is a mature gene product such as a protein, and x was translated or otherwise processes from a transcript that was transcribed as part of this gene expression process" [] -domain: BFO:0000002 ! continuant range: UBERON:0000465 ! material anatomical entity is_a: RO:0002330 ! genomically related to inverse_of: RO:0002292 ! expresses @@ -16803,8 +16775,6 @@ id: RO:0002222 name: temporally related to comment: A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. subset: ro-eco -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent [Typedef] id: RO:0002223 @@ -16896,8 +16866,6 @@ name: developmentally preceded by def: "Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p" [] comment: This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from property_value: IAO:0000116 "false" xsd:boolean -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant is_a: RO:0002324 ! developmentally related to inverse_of: RO:0002286 ! developmentally succeeded by @@ -16907,7 +16875,6 @@ name: acts upstream of def: "c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes." [] subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of -holds_over_chain: RO:0002327 causally_upstream_of is_a: RO:0002264 ! acts upstream of or within [Typedef] @@ -16917,7 +16884,6 @@ def: "c acts upstream of or within p if c is enables f, and f is causally upstre subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term synonym: "affects" RELATED [] property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of_or_within is_a: RO:0002500 ! causal agent in process [Typedef] @@ -16969,17 +16935,6 @@ id: RO:0002324 name: developmentally related to def: "A relationship that holds between entities participating in some developmental process (GO:0032502)" [] -[Typedef] -id: RO:0002327 -name: enables -def: "c enables p iff c is capable of p and c acts to execute p." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Enables" xsd:anyURI -is_a: capable_of ! capable of -inverse_of: RO:0002333 ! enabled by -transitive_over: has_part ! has part -transitive_over: RO:0002017 ! has component activity - [Typedef] id: RO:0002328 name: functionally related to @@ -16995,34 +16950,11 @@ is_a: RO:0002328 ! functionally related to id: RO:0002330 name: genomically related to def: "holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts." [] -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant - -[Typedef] -id: RO:0002331 -name: involved in -def: "c involved_in p if and only if c enables some process p', and p' is part of p" [] -property_value: seeAlso "https://wiki.geneontology.org/Involved_in" xsd:anyURI -holds_over_chain: RO:0002327 part_of -is_a: participates_in ! participates in -is_a: RO:0002431 ! involved in or involved in regulation of -transitive_over: part_of ! part of - -[Typedef] -id: RO:0002333 -name: enabled by -def: "inverse of enables" [] -subset: http://purl.obolibrary.org/obo/valid_for_gocam -property_value: seeAlso "https://wiki.geneontology.org/Enabled_by" xsd:anyURI -is_a: has_participant ! has participant -is_a: RO:0002328 ! functionally related to [Typedef] id: RO:0002337 name: related via localization to def: "A relationship that holds via some process of localization" [] -domain: BFO:0000015 ! process -range: BFO:0000002 ! continuant [Typedef] id: RO:0002350 @@ -17089,8 +17021,6 @@ name: in branching relationship with def: "A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network." [] property_value: seeAlso http://purl.obolibrary.org/obo/ro/docs/branching_part_of.png property_value: seeAlso "https://github.com/obophenotype/uberon/issues/170" xsd:anyURI -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -17152,31 +17082,6 @@ name: has potential to directly develop into def: "x has potential to directly develop into y iff x directly develops into y or x is capable of directly developing into y" [] is_a: RO:0002387 ! has potential to develop into -[Typedef] -id: RO:0002407 -name: indirectly positively regulates -def: "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." [] -property_value: seeAlso "https://wiki.geneontology.org/Indirectly_positively_regulates" xsd:anyURI -holds_over_chain: directly_positively_regulates directly_positively_regulates -holds_over_chain: directly_positively_regulates RO:0002407 -holds_over_chain: RO:0002409 RO:0002409 -is_transitive: true -is_a: positively_regulates ! positively regulates -is_a: RO:0012012 ! indirectly regulates -transitive_over: directly_positively_regulates ! directly positively regulates - -[Typedef] -id: RO:0002409 -name: indirectly negatively regulates -def: "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." [] -property_value: seeAlso "https://wiki.geneontology.org/Indirectly_negatively_regulates" xsd:anyURI -holds_over_chain: directly_negatively_regulates directly_negatively_regulates -holds_over_chain: directly_negatively_regulates RO:0002409 -is_transitive: true -is_a: negatively_regulates ! negatively regulates -is_a: RO:0012012 ! indirectly regulates -transitive_over: directly_negatively_regulates ! directly negatively regulates - [Typedef] id: RO:0002410 name: causally related to @@ -17187,28 +17092,9 @@ property_value: IAO:0000116 "This branch of the ontology deals with causal relat id: RO:0002428 name: involved in regulation of def: "c involved in regulation of p if c is involved in some p' and p' regulates some p" [] -holds_over_chain: RO:0002327 regulates -holds_over_chain: RO:0002331 regulates is_a: RO:0002263 ! acts upstream of is_a: RO:0002431 ! involved in or involved in regulation of -[Typedef] -id: RO:0002429 -name: involved in positive regulation of -def: "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" [] -holds_over_chain: RO:0002327 positively_regulates -holds_over_chain: RO:0002331 positively_regulates -is_a: RO:0002428 ! involved in regulation of - -[Typedef] -id: RO:0002430 -name: involved in negative regulation of -def: "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" [] -property_value: RO:0004050 RO:0002428 -holds_over_chain: RO:0002327 negatively_regulates -holds_over_chain: RO:0002331 negatively_regulates -is_a: RO:0002428 ! involved in regulation of - [Typedef] id: RO:0002431 name: involved in or involved in regulation of @@ -17218,87 +17104,17 @@ is_a: RO:0002264 ! acts upstream of or within is_a: RO:0002328 ! functionally related to is_a: RO:0002500 ! causal agent in process -[Typedef] -id: RO:0002432 -name: is active in -def: "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure." [https://orcid.org/0000-0002-6601-2165, https://orcid.org/0000-0002-7073-9172] -synonym: "enables activity in" EXACT [] -property_value: seeAlso "https://wiki.geneontology.org/Is_active_in" xsd:anyURI -is_a: overlaps ! overlaps -is_a: RO:0002328 ! functionally related to - [Typedef] id: RO:0002433 name: contributes to morphology of def: "p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm." [] is_a: overlaps ! overlaps -[Typedef] -id: RO:0002434 -name: interacts with -def: "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." [] -subset: ro-eco -synonym: "in pairwise interaction with" EXACT [] -property_value: IAO:0000116 "Considering relabeling as 'pairwise interacts with'" xsd:anyURI -property_value: IAO:0000116 "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." xsd:string -property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_symmetric: true - -[Typedef] -id: RO:0002436 -name: molecularly interacts with -def: "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." [] -property_value: seeAlso ECO:0000353 -is_symmetric: true -is_a: RO:0002434 ! interacts with - -[Typedef] -id: RO:0002447 -name: phosphorylates -property_value: IAO:0000116 "Axiomatization to GO to be added later" xsd:string -is_a: RO:0002436 ! molecularly interacts with - -[Typedef] -id: RO:0002448 -name: directly regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." [] -synonym: "molecularly controls" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002436 ! molecularly interacts with -is_a: RO:0011002 ! regulates activity of - -[Typedef] -id: RO:0002449 -name: directly negatively regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." [] -synonym: "molecularly decreases activity of" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002448 ! directly regulates activity of - -[Typedef] -id: RO:0002450 -name: directly positively regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." [] -synonym: "molecularly increases activity of" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002448 ! directly regulates activity of - -[Typedef] -id: RO:0002464 -name: helper property (not for use in curation) - [Typedef] id: RO:0002473 name: composed primarily of def: "x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y." [] subset: ro-eco -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: has_part ! has part [Typedef] @@ -17306,13 +17122,6 @@ id: RO:0002479 name: has part that occurs in def: "p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c." [] subset: ro-eco -domain: BFO:0000003 ! occurrent -range: BFO:0000004 ! independent continuant - -[Typedef] -id: RO:0002481 -name: is kinase activity -is_a: RO:0002564 ! molecular interaction relation helper property [Typedef] id: RO:0002485 @@ -17330,8 +17139,6 @@ is_a: RO:0002170 ! connected to [Typedef] id: RO:0002487 name: relation between physical entity and a process or stage -domain: BFO:0000004 ! independent continuant -range: BFO:0000003 ! occurrent [Typedef] id: RO:0002488 @@ -17428,8 +17235,6 @@ inverse_of: process_has_causal_agent ! process has causal agent id: RO:0002501 name: causal relation between processes def: "p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q." [] -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent is_a: RO:0002410 ! causally related to [Typedef] @@ -17437,14 +17242,6 @@ id: RO:0002502 name: depends on property_value: seeAlso BFO:0000169 -[Typedef] -id: RO:0002506 -name: causal relation between entities -property_value: IAO:0000116 "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" xsd:string -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant -is_a: RO:0002410 ! causally related to - [Typedef] id: RO:0002551 name: has skeleton @@ -17455,32 +17252,6 @@ is_a: has_part ! has part inverse_of: RO:0002576 ! skeleton of is_asymmetric: true -[Typedef] -id: RO:0002559 -name: causally influenced by -is_a: RO:0002506 ! causal relation between entities -inverse_of: RO:0002566 ! causally influences - -[Typedef] -id: RO:0002563 -name: interaction relation helper property -property_value: seeAlso http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29 -property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI -is_a: RO:0002464 ! helper property (not for use in curation) - -[Typedef] -id: RO:0002564 -name: molecular interaction relation helper property -is_a: RO:0002563 ! interaction relation helper property - -[Typedef] -id: RO:0002566 -name: causally influences -def: "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." [] -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant -is_a: RO:0002506 ! causal relation between entities - [Typedef] id: RO:0002567 name: biomechanically related to @@ -17510,8 +17281,6 @@ id: RO:0002570 name: conduit for def: "x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x." [] subset: ro-eco -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: overlaps ! overlaps [Typedef] @@ -17519,7 +17288,6 @@ id: RO:0002571 name: lumen of def: "x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull." [] subset: ro-eco -range: BFO:0000040 ! material entity is_a: part_of ! part of [Typedef] @@ -17527,7 +17295,6 @@ id: RO:0002572 name: luminal space of def: "s is luminal space of x iff s is lumen_of x and s is an immaterial entity" [] subset: ro-eco -domain: BFO:0000141 ! immaterial entity is_a: RO:0002571 ! lumen of [Typedef] @@ -17558,8 +17325,6 @@ id: RO:0002595 name: causal relation between material entity and a process def: "A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity." [] property_value: IAO:0000116 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string -domain: BFO:0000040 ! material entity -range: BFO:0000015 ! process is_a: RO:0002410 ! causally related to [Typedef] @@ -17583,61 +17348,6 @@ def: "Holds between c and p if and only if c is capable of some activity a, and holds_over_chain: capable_of positively_regulates is_a: RO:0002596 ! capable of regulating -[Typedef] -id: RO:0004031 -name: enables subfunction -def: "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." [] -holds_over_chain: RO:0002327 has_part -is_a: RO:0002328 ! functionally related to -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-25T23:20:13Z - -[Typedef] -id: RO:0004032 -name: acts upstream of or within, positive effect -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect" xsd:anyURI -holds_over_chain: RO:0002327 RO:0004047 -is_a: RO:0002264 ! acts upstream of or within -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:49:30Z - -[Typedef] -id: RO:0004033 -name: acts upstream of or within, negative effect -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: RO:0004050 RO:0002264 -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect" xsd:anyURI -holds_over_chain: RO:0002327 RO:0004046 -is_a: RO:0002264 ! acts upstream of or within -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:49:51Z - -[Typedef] -id: RO:0004034 -name: acts upstream of, positive effect -def: "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of,_positive_effect -is_a: RO:0002263 ! acts upstream of -is_a: RO:0004032 ! acts upstream of or within, positive effect -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:53:14Z - -[Typedef] -id: RO:0004035 -name: acts upstream of, negative effect -def: "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: RO:0004050 RO:0002263 -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of,_negative_effect -is_a: RO:0002263 ! acts upstream of -is_a: RO:0004033 ! acts upstream of or within, negative effect -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:53:22Z - [Typedef] id: RO:0004046 name: causally upstream of or within, negative effect @@ -17655,14 +17365,6 @@ is_a: causally_upstream_of_or_within ! causally upstream of or within created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-03-13T23:55:19Z -[Typedef] -id: RO:0011002 -name: regulates activity of -def: "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002566 ! causally influences - [Typedef] id: RO:0012000 name: has small molecule regulator @@ -17690,23 +17392,6 @@ is_a: RO:0012004 ! is small molecule regulator of created_by: https://orcid.org/0000-0003-1813-6857 creation_date: 2020-06-24T13:15:26Z -[Typedef] -id: RO:0012011 -name: indirectly causally upstream of -def: "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." [] -is_a: causally_upstream_of ! causally upstream of -created_by: https://orcid.org/0000-0003-1813-6857 -creation_date: 2022-09-26T06:07:17Z - -[Typedef] -id: RO:0012012 -name: indirectly regulates -def: "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." [] -is_a: regulates ! regulates -is_a: RO:0012011 ! indirectly causally upstream of -created_by: https://orcid.org/0000-0003-1813-6857 -creation_date: 2022-09-26T06:08:01Z - [Typedef] id: RO:0013001 name: has synaptic IO in region @@ -17787,6 +17472,8 @@ id: RO:0017001 name: device utilizes material def: "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y." [] synonym: "utilizes" BROAD [] +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-9625-1899 +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-2620-0345 holds_over_chain: capable_of has_input creation_date: 2021-11-08T12:00:00Z @@ -17813,8 +17500,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002220 property_value: IAO:0000116 "This relation acts as a join point with BSPO" xsd:string -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_a: RO:0002163 ! spatially disjoint from [Typedef] @@ -17833,7 +17518,6 @@ namespace: external def: "Inverse of characteristic_of" [] xref: RO:0000053 property_value: IAO:0000116 "A bearer can have many dependents, and its dependents can exist for different periods of time, but none of its dependents can exist when the bearer does not exist." xsd:string -range: BFO:0000020 ! specifically dependent continuant is_inverse_functional: true [Typedef] @@ -17844,7 +17528,6 @@ def: "X outer_layer_of Y iff:\n. X :continuant that bearer_of some PATO:laminar\ comment: A relationship that applies between a continuant and its outer, bounding layer. Examples include the relationship between a multicellular organism and its integument, between an animal cell and its plasma membrane, and between a membrane bound organelle and its outer/bounding membrane. subset: ro-eco xref: RO:0002007 -range: BFO:0000040 ! material entity is_a: part_of ! part of [Typedef] @@ -17854,8 +17537,6 @@ namespace: external def: "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. " [] subset: ro-eco xref: RO:0002215 -domain: BFO:0000004 ! independent continuant -range: BFO:0000015 ! process is_a: capable_of_part_of ! capable of part of [Typedef] @@ -17954,45 +17635,6 @@ id: channels_into name: channels_into namespace: uberon -[Typedef] -id: directly_negatively_regulates -name: directly negatively regulates -namespace: external -def: "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002630 -property_value: RO:0004050 RO:0002578 -property_value: seeAlso "https://wiki.geneontology.org/Directly_negatively_regulates" xsd:anyURI -is_a: directly_regulates ! directly regulates -is_a: negatively_regulates ! negatively regulates - -[Typedef] -id: directly_positively_regulates -name: directly positively regulates -namespace: external -def: "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002629 -property_value: seeAlso "https://wiki.geneontology.org/Directly_positively_regulates" xsd:anyURI -is_a: directly_regulates ! directly regulates -is_a: positively_regulates ! positively regulates - -[Typedef] -id: directly_regulates -name: directly regulates -namespace: external -def: "p directly regulates q iff p is immediately causally upstream of q and p regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002578 -is_a: immediately_causally_upstream_of ! immediately causally upstream of -is_a: regulates ! regulates - [Typedef] id: distally_connected_to name: distally connected to @@ -18044,8 +17686,6 @@ namespace: external def: "x 'has end location' y if and only if there exists some process z such that x 'ends with' z and z 'occurs in' y" [] subset: ro-eco xref: RO:0002232 -domain: BFO:0000015 ! process -range: BFO:0000004 ! independent continuant holds_over_chain: ends_with occurs_in is_a: RO:0002479 ! has part that occurs in @@ -18068,7 +17708,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_gocam subset: ro-eco xref: RO:0002233 property_value: seeAlso "https://wiki.geneontology.org/Has_input" xsd:anyURI -domain: BFO:0000015 ! process holds_over_chain: starts_with has_input is_a: has_participant ! has participant inverse_of: RO:0002352 ! input of @@ -18081,18 +17720,6 @@ property_value: term_tracker_item https://github.com/obophenotype/cell-ontology/ is_obsolete: true replaced_by: RO:0015016 -[Typedef] -id: has_negative_regulatory_component_activity -name: has negative regulatory component activity -namespace: external -def: "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." [] -comment: By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'. -xref: RO:0002014 -is_a: has_regulatory_component_activity ! has regulatory component activity -is_a: negatively_regulated_by ! negatively regulated by -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:31:01Z - [Typedef] id: has_ontology_root_term name: has ontology root term @@ -18141,8 +17768,6 @@ namespace: external def: "a relation between a process and a continuant, in which the continuant is somehow involved in the process" [] xref: RO:0000057 property_value: IAO:0000116 "Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time." xsd:string -domain: BFO:0000003 ! occurrent -range: BFO:0000002 ! continuant holds_over_chain: has_part has_participant [Typedef] @@ -18180,17 +17805,6 @@ is_a: has_primary_input_or_output ! has primary input or output created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-12-13T11:26:32Z -[Typedef] -id: has_regulatory_component_activity -name: has regulatory component activity -namespace: external -def: "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." [] -xref: RO:0002013 -is_a: regulated_by ! regulated by -is_a: RO:0002017 ! has component activity -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:30:46Z - [Typedef] id: has_small_molecule_activator name: has small molecule activator @@ -18209,8 +17823,6 @@ namespace: external def: "x 'has starts location' y if and only if there exists some process z such that x 'starts with' z and z 'occurs in' y" [] subset: ro-eco xref: RO:0002231 -domain: BFO:0000015 ! process -range: BFO:0000004 ! independent continuant holds_over_chain: starts_with occurs_in is_a: RO:0002479 ! has part that occurs in @@ -18238,24 +17850,6 @@ xref: RO:0002338 is_a: results_in_transport_to_from_or_in ! results in transport to from or in transitive_over: part_of ! part of -[Typedef] -id: immediately_causally_downstream_of -name: immediately causally downstream of -namespace: external -xref: RO:0002405 -is_a: causally_downstream_of ! causally downstream of -is_a: immediately_preceded_by ! immediately preceded by -inverse_of: immediately_causally_upstream_of ! immediately causally upstream of - -[Typedef] -id: immediately_causally_upstream_of -name: immediately causally upstream of -namespace: external -def: "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." [] -xref: RO:0002412 -is_a: causally_upstream_of ! causally upstream of -is_a: immediately_precedes ! immediately precedes - [Typedef] id: immediately_preceded_by name: immediately preceded by @@ -18314,17 +17908,6 @@ is_a: causally_upstream_of,_negative_effect ! causally upstream of, negative eff is_a: regulates ! regulates inverse_of: negatively_regulated_by ! negatively regulated by -[Typedef] -id: negatively_regulates_characteristic -name: negatively regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." [] -xref: RO:0019002 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -holds_over_chain: negatively_regulates positively_regulates_characteristic -holds_over_chain: positively_regulates negatively_regulates_characteristic -is_a: regulates_characteristic ! regulates characteristic - [Typedef] id: occurs_in name: occurs in @@ -18336,8 +17919,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: BFO:0000066 property_value: seeAlso "https://wiki.geneontology.org/Occurs_in" xsd:anyURI -domain: BFO:0000003 ! occurrent -range: BFO:0000004 ! independent continuant holds_over_chain: part_of occurs_in inverse_of: BFO:0000067 ! contains process transitive_over: part_of ! part of @@ -18398,8 +17979,6 @@ name: participates in namespace: external def: "a relation between a continuant and a process, in which the continuant is somehow involved in the process" [] xref: RO:0000056 -domain: BFO:0000002 ! continuant -range: BFO:0000003 ! occurrent inverse_of: has_participant ! has participant [Typedef] @@ -18427,16 +18006,6 @@ is_a: causally_upstream_of,_positive_effect ! causally upstream of, positive eff is_a: regulates ! regulates inverse_of: positively_regulated_by ! positively regulated by -[Typedef] -id: positively_regulates_characteristic -name: positively regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." [] -xref: RO:0019001 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -holds_over_chain: positively_regulates positively_regulates_characteristic -is_a: regulates_characteristic ! regulates characteristic - [Typedef] id: posteriorly_connected_to name: posteriorly connected to @@ -18452,8 +18021,6 @@ def: "x is preceded by y if and only if the time point at which y ends is before subset: ro-eco xref: BFO:0000062 property_value: IAO:0000116 "An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other." xsd:string -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent holds_over_chain: part_of preceded_by is_transitive: true is_a: RO:0002086 ! ends after @@ -18466,8 +18033,6 @@ namespace: external def: "x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." [] subset: ro-eco xref: BFO:0000063 -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent holds_over_chain: part_of precedes is_transitive: true is_a: RO:0002222 ! temporally related to @@ -18487,8 +18052,6 @@ namespace: external def: "a produced_by b iff some process that occurs_in b has_output a." [] subset: ro-eco xref: RO:0003001 -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity [Typedef] id: produces @@ -18498,8 +18061,6 @@ def: "a produces b if some process that occurs_in a has_output b, where a and b comment: Note that this definition doesn't quite distinguish the output of a transformation process from a production process, which is related to the identity/granularity issue. subset: ro-eco xref: RO:0003000 -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity inverse_of: produced_by ! produced by [Typedef] @@ -18522,8 +18083,6 @@ namespace: external def: "inverse of regulates" [] subset: RO:0002259 xref: RO:0002334 -domain: BFO:0000015 ! process -range: BFO:0000015 ! process is_transitive: true is_a: causally_downstream_of_or_within ! causally downstream of or within @@ -18536,26 +18095,10 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002211 -domain: BFO:0000015 ! process -range: BFO:0000015 ! process -holds_over_chain: directly_regulates directly_regulates holds_over_chain: ends_with regulates is_transitive: true is_a: causally_upstream_of ! causally upstream of inverse_of: regulated_by ! regulated by -transitive_over: RO:0002025 ! has effector activity - -[Typedef] -id: regulates_characteristic -name: regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." [] -xref: RO:0019000 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -domain: BFO:0000015 ! process -range: PATO:0000001 ! quality -holds_over_chain: regulates regulates_characteristic -is_a: RO:0002410 ! causally related to [Typedef] id: regulates_levels_of @@ -18563,8 +18106,6 @@ name: regulates levels of namespace: external def: "p regulates levels of c if p regulates some amount (PATO:0000070) of c" [] xref: RO:0002332 -domain: BFO:0000015 ! process -range: BFO:0000040 ! material entity is_a: RO:0002328 ! functionally related to [Typedef] diff --git a/src/ontology/subsets/kidney_upper_slim.owl b/src/ontology/subsets/kidney_upper_slim.owl index 4dc7611c9..d55f2848a 100644 --- a/src/ontology/subsets/kidney_upper_slim.owl +++ b/src/ontology/subsets/kidney_upper_slim.owl @@ -14,8 +14,7 @@ xmlns:foaf="http://xmlns.com/foaf/0.1/" xmlns:pato="http://purl.obolibrary.org/obo/pato#" xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#" - xmlns:swrl="http://www.w3.org/2003/11/swrl#" - xmlns:swrlb="http://www.w3.org/2003/11/swrlb#" + xmlns:sssom="https://w3id.org/sssom/" xmlns:terms="http://purl.org/dc/terms/" xmlns:uberon="http://purl.obolibrary.org/obo/uberon#" xmlns:ubprop="http://purl.obolibrary.org/obo/ubprop#" @@ -23,8 +22,8 @@ xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#" xmlns:ncbitaxon="http://purl.obolibrary.org/obo/ncbitaxon#"> - - 2024-04-05 + + 2024-05-15 @@ -393,14 +392,6 @@ WHERE { - - - - - - - - @@ -433,6 +424,14 @@ WHERE { + + + + + + + + @@ -481,6 +480,14 @@ WHERE { + + + + + + + + @@ -497,6 +504,14 @@ WHERE { + + + + + + + + @@ -1029,12 +1044,6 @@ WHERE { - - - - - - @@ -1237,6 +1246,12 @@ WHERE { + + + + + + - - @@ -1515,19 +1519,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence - A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists. - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - function of - - - - @@ -1541,31 +1532,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence - A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists. - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - role of - - - - - - - - - - a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence - A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists. - has function - - - - @@ -1577,42 +1543,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence - A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists. - has role - - - - - - - - - - - a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence - has disposition - - - - - - - - - inverse of has disposition - - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - disposition of - - - - @@ -1652,8 +1582,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - @@ -1665,18 +1593,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. located in https://wiki.geneontology.org/Located_in - - - - - This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation. - - - - - - This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation. - @@ -1697,8 +1613,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts. Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape. @@ -1731,18 +1645,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - - - - - - - X outer_layer_of Y iff: . X :continuant that bearer_of some PATO:laminar . X part_of Y @@ -1764,81 +1666,6 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 - - - - - - A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B. - - 2017-05-24T09:30:46Z - RO:0002013 - external - has_regulatory_component_activity - has_regulatory_component_activity - has regulatory component activity - - - - - - - - - - A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B. - - 2017-05-24T09:31:01Z - RO:0002014 - external - has_negative_regulatory_component_activity - has_negative_regulatory_component_activity - By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'. - has negative regulatory component activity - - - - - - - - - - A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B. - - 2017-05-24T09:31:17Z - By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'. - has positive regulatory component activity - - - - - - - - - - 2017-05-24T09:44:33Z - A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B. - has component activity - - - - - - - - - - - w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type. - - 2017-05-24T09:49:21Z - has component process - - - - @@ -1851,83 +1678,6 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 - - - - - - - 2017-09-17T13:52:24Z - Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. - directly regulated by - - - - - Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. - - - - - - - - - - - Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1. - - 2017-09-17T13:52:38Z - directly negatively regulated by - - - - - Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1. - - - - - - - - - - - Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1. - - 2017-09-17T13:52:47Z - directly positively regulated by - - - - - Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1. - - - - - - - - - - - A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity. - - 2017-09-22T14:14:36Z - This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations. - has effector activity - - - - - A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity. - - - - - @@ -2246,8 +1996,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - X continuous_with Y if and only if X and Y share a fiat boundary. continuous with FMA:85972 @@ -2367,7 +2115,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - c connects a if and only if there exist some b such that a and b are similar parts of the same system, and c connects b, specifically, c connects a with b. When one structure connects two others it unites some aspect of the function or role they play within the system. connects https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern @@ -2436,8 +2183,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y This is the transitive form of the develops from relation develops from @@ -2464,7 +2209,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - @@ -2522,20 +2266,10 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - - - - - p regulates q iff p is causally upstream of q, the execution of p is not constant and varies according to specific conditions, and p influences the rate or magnitude of execution of q due to an effect either on some enabler of q or some enabler of a part of q. RO:0002211 external @@ -2608,8 +2342,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. RO:0002215 external @@ -2654,8 +2386,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - x adjacent to y if and only if x and y share a boundary. This relation acts as a join point with BSPO RO:0002220 @@ -2685,8 +2415,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. temporally related to @@ -2789,8 +2517,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - @@ -2811,8 +2537,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - @@ -2834,7 +2558,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - @@ -2966,8 +2689,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p false This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from @@ -2980,10 +2701,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes. acts upstream of @@ -2996,10 +2713,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - c acts upstream of or within p if c is enables f, and f is causally upstream of or within p. c is a material entity and p is an process. affects @@ -3249,27 +2962,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - - - - - - - - c enables p iff c is capable of p and c acts to execute p. - - enables - https://wiki.geneontology.org/Enables - - - - @@ -3292,40 +2984,16 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts. genomically related to - - - - - - - - - - - - - - c involved_in p if and only if c enables some process p', and p' is part of p - involved in - https://wiki.geneontology.org/Involved_in - - - - - - p regulates levels of c if p regulates some amount (PATO:0000070) of c RO:0002332 external @@ -3337,26 +3005,11 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - inverse of enables - - enabled by - https://wiki.geneontology.org/Enabled_by - - - - - - inverse of regulates RO:0002334 external @@ -3404,8 +3057,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relationship that holds via some process of localization related via localization to @@ -3532,7 +3183,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - has member is a mereological relation between a collection and an item. has member @@ -3643,8 +3293,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network. in branching relationship with @@ -3773,76 +3421,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - RO:0002405 - external - immediately_causally_downstream_of - immediately_causally_downstream_of - immediately causally downstream of - immediately causally downstream of - - - - - - - - - - - - - - - - - - - - - - - - - - - p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q. - indirectly positively regulates - https://wiki.geneontology.org/Indirectly_positively_regulates - - - - - - - - - - - - - - - - - - - - - - - p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q. - indirectly negatively regulates - https://wiki.geneontology.org/Indirectly_negatively_regulates - - - - @@ -3892,22 +3470,6 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q. - RO:0002412 - external - immediately_causally_upstream_of - immediately_causally_upstream_of - immediately causally upstream of - immediately causally upstream of - - - - @@ -3947,57 +3509,12 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - - - c involved in regulation of p if c is involved in some p' and p' regulates some p involved in regulation of - - - - - - - - - - - - - c involved in regulation of p if c is involved in some p' and p' positively regulates some p - involved in positive regulation of - - - - - - - - - - - - - - - - - c involved in regulation of p if c is involved in some p' and p' negatively regulates some p - - involved in negative regulation of - - - - @@ -4011,27 +3528,6 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure. - enables activity in - - is active in - https://wiki.geneontology.org/Is_active_in - - - - - c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure. - - - - - - @@ -4042,118 +3538,10 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - - A relationship that holds between two entities in which the processes executed by the two entities are causally connected. - This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact. - Considering relabeling as 'pairwise interacts with' - in pairwise interaction with - - interacts with - http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ - - - - - - - - - - An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other. - molecularly interacts with - - - - - - - - - - Axiomatization to GO to be added later - phosphorylates - - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B. - -A and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B. - molecularly controls - directly regulates activity of - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. -For example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B. - molecularly decreases activity of - directly negatively regulates activity of - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. -For example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B. - molecularly increases activity of - directly positively regulates activity of - - - - - - - - helper property (not for use in curation) - - - - - - x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y. composed primarily of @@ -4164,8 +3552,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c. has part that occurs in @@ -4173,15 +3559,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - is kinase activity - - - - @@ -4206,8 +3583,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - relation between physical entity and a process or stage @@ -4388,8 +3763,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q. causal relation between processes @@ -4405,25 +3778,12 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch - causal relation between entities - - - - - A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision. @@ -4438,36 +3798,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - causally influenced by - - - - - - - - - interaction relation helper property - - http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ - - - - - - - - - molecular interaction relation helper property - - - - @@ -4485,28 +3815,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size). - causally influences - - - - @@ -4547,8 +3855,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x. conduit for @@ -4560,7 +3866,6 @@ For example, A and B may be gene products and binding of B by A positively regul - x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull. lumen of @@ -4572,7 +3877,6 @@ For example, A and B may be gene products and binding of B by A positively regul - s is luminal space of x iff s is lumen_of x and s is an immaterial entity luminal space of @@ -4593,24 +3897,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - p directly regulates q iff p is immediately causally upstream of q and p regulates q. - RO:0002578 - external - directly_regulates - - - - directly_regulates - directly regulates - - - - @@ -4686,8 +3972,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity. Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect. causal relation between material entity and a process @@ -4751,51 +4035,10 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q. - RO:0002629 - external - directly_positively_regulates - - - - directly_positively_regulates - directly positively regulates - https://wiki.geneontology.org/Directly_positively_regulates - - - - - - - - - - p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q. - - RO:0002630 - external - directly_negatively_regulates - - - - directly_negatively_regulates - directly negatively regulates - https://wiki.geneontology.org/Directly_negatively_regulates - - - - - - @@ -4818,8 +4061,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - a produced_by b iff some process that occurs_in b has_output a. RO:0003001 external @@ -4905,96 +4146,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P. - - 2018-01-25T23:20:13Z - enables subfunction - - - - - - - - - - - - - - 2018-01-26T23:49:30Z - - acts upstream of or within, positive effect - https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect - - - - - - - - - - - - - - - 2018-01-26T23:49:51Z - - acts upstream of or within, negative effect - https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect - - - - - - - - - - - - - - c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive - - 2018-01-26T23:53:14Z - - acts upstream of, positive effect - https://wiki.geneontology.org/Acts_upstream_of,_positive_effect - - - - - - - - - - - - - - c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative - - - 2018-01-26T23:53:22Z - - acts upstream of, negative effect - https://wiki.geneontology.org/Acts_upstream_of,_negative_effect - - - - @@ -5020,18 +4171,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B. - regulates activity of - - - - @@ -5128,31 +4267,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q. - - 2022-09-26T06:07:17Z - indirectly causally upstream of - - - - - - - - - - p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q. - - 2022-09-26T06:08:01Z - indirectly regulates - - - - @@ -5314,6 +4428,8 @@ For example, A and B may be gene products and binding of B by A positively regul X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y. + + 2021-11-08T12:00:00Z utilizes device utilizes material @@ -5321,69 +4437,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C. - - RO:0019000 - gene_ontology - regulates_characteristic - regulates_characteristic - regulates characteristic - - - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C. - - RO:0019001 - gene_ontology - positively_regulates_characteristic - positively_regulates_characteristic - positively regulates characteristic - - - - - - - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C. - - RO:0019002 - gene_ontology - negatively_regulates_characteristic - negatively_regulates_characteristic - negatively regulates characteristic - - - - @@ -5698,127 +4751,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts. - continuant - - - - - - - - - - - - - - - - - - - - An entity that has temporal parts and that happens, unfolds or develops through time. - occurrent - - - - - - - - - - - - - - - - b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002]) - A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. - independent continuant - - - - - - - - - p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003]) - An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. - process - - - - - - - - - - - - - - - b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003]) - A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. - specifically dependent continuant - - - - - - - - - - - - - - - - An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time. - material entity - - - - - - - - - - - - - - - immaterial entity - - - - @@ -5842,6 +4774,7 @@ For example, A and B may be gene products and binding of B by A positively regul VHOG:0001533 WBbt:0004017 XAO:0003012 + ZFA:0009000 The definition of cell is intended to represent all cells, and thus a cell is defined as a material entity and not an anatomical structure, which implies that it is part of an organism (or the entirety of one). @@ -5853,6 +4786,18 @@ For example, A and B may be gene products and binding of B by A positively regul A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane. CARO:mah + + + + FBbt:00007002 + + + + + + ZFA:0009000 + + @@ -5861,6 +4806,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found in the embryo before the formation of all the gem layers is complete. + ZFA:0009002 early embryonic cell (metazoa) @@ -5869,6 +4815,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found in the embryo before the formation of all the gem layers is complete. GOC:tfm + + + + ZFA:0009002 + + @@ -5903,6 +4855,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-2086 FMA:63368 + ZFA:0005957 animal stem cell @@ -5917,6 +4870,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D013234 + + + + ZFA:0005957 + + @@ -6080,6 +5039,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:86475 MESH:D006412 VHOG:0001485 + ZFA:0009014 blood forming stem cell hemopoietic stem cell HSC @@ -6100,6 +5060,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:19022770 http://en.wikipedia.org/wiki/Hematopoietic_stem_cell + + + + ZFA:0009014 + + @@ -6122,6 +5088,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell committed to the erythroid lineage. BTO:0004911 + ZFA:0009015 BFU-E CFU-E blast forming unit erythroid @@ -6145,6 +5112,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0721601464 + + + + ZFA:0009015 + + @@ -6171,6 +5144,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that is within the developmental lineage of gametes and is able to pass along its genetic material to offspring. + ZFA:0009016 Originally this term had some plant germ line cell children. @@ -6183,6 +5157,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721662544 + + + + ZFA:0009016 + + @@ -6213,6 +5193,7 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to multiple lineages of cells. FMA:84789 + ZFA:0009020 multi-fate stem cell multifate stem cell multipotent cell @@ -6225,6 +5206,12 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to multiple lineages of cells. GOC:add + + + + ZFA:0009020 + + @@ -6236,6 +5223,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell committed to myeloid lineage, including the megakaryocyte and erythroid lineages. BTO:0004730 + ZFA:0009021 common myeloid precursor CFU-GEMM CFU-S @@ -6263,6 +5251,12 @@ For example, A and B may be gene products and binding of B by A positively regul ISBN:0878932437 MESH:D023461 + + + + ZFA:0009021 + + @@ -6346,6 +5340,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell committed to the megakaryocyte and erythroid lineages. + ZFA:0009022 CFU-EM CFU-MegE MEP @@ -6375,6 +5370,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:16647566 http://en.wikipedia.org/wiki/Megakaryocyte-erythroid_progenitor_cell + + + + ZFA:0009022 + + @@ -6385,6 +5386,7 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell from which all cells of the body can form. FMA:84790 MESH:D039901 + ZFA:0009024 totipotential stem cell totipotent stem cell @@ -6395,6 +5397,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009024 + + @@ -6429,6 +5437,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005083 FMA:70335 VHOG:0001529 + ZFA:0009025 myoblast @@ -6439,6 +5448,18 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D032446 PMID:21849021 + + + + FBbt:00005083 + + + + + + ZFA:0009025 + + @@ -6459,6 +5480,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:63877 NCIT:C12482 VHOG:0001482 + ZFA:0009026 @@ -6473,6 +5495,12 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D005347 http://en.wikipedia.org/wiki/Fibroblast + + + + ZFA:0009026 + + @@ -6491,7 +5519,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -6501,6 +5528,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that has a filiform extrusion of the cell surface. VHOG:0001532 XAO:0000031 + ZFA:0009032 ciliated cell @@ -6510,6 +5538,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that has a filiform extrusion of the cell surface. GOC:tfm + + + + ZFA:0009032 + + @@ -6531,6 +5565,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00000124 FMA:66768 WBbt:0003672 + ZFA:0009034 epitheliocyte @@ -6546,6 +5581,18 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D004847 + + + + FBbt:00000124 + + + + + + ZFA:0009034 + + @@ -6567,6 +5614,7 @@ For example, A and B may be gene products and binding of B by A positively regul An epithelial cell that has a cilia. FMA:70605 + ZFA:0009035 ciliated epithelial cell @@ -6576,6 +5624,12 @@ For example, A and B may be gene products and binding of B by A positively regul An epithelial cell that has a cilia. GOC:tfm + + + + ZFA:0009035 + + @@ -6601,6 +5655,7 @@ For example, A and B may be gene products and binding of B by A positively regul An epithelial cell that is part of a duct. + ZFA:0009372 duct epithelial cell @@ -6610,6 +5665,12 @@ For example, A and B may be gene products and binding of B by A positively regul An epithelial cell that is part of a duct. https://orcid.org/0000-0001-5208-3432 + + + + ZFA:0009372 + + @@ -6643,6 +5704,7 @@ For example, A and B may be gene products and binding of B by A positively regul An endothelial cell that lines the vasculature. + ZFA:0009036 cuboidal endothelial cell of vascular tree @@ -6660,6 +5722,12 @@ For example, A and B may be gene products and binding of B by A positively regul An endothelial cell that lines the vasculature. GOC:tfm + + + + ZFA:0009036 + + @@ -6679,6 +5747,7 @@ For example, A and B may be gene products and binding of B by A positively regul A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube. + ZFA:0009038 columnar/cuboidal epithelial cell @@ -6690,6 +5759,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0002065 https://orcid.org/0000-0001-5208-3432 + + + + ZFA:0009038 + + @@ -6698,9 +5773,16 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-1249 + ZFA:0009039 squamous epithelial cell + + + + ZFA:0009039 + + @@ -6728,6 +5810,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found predominately in the blood. FMA:62844 MESH:D001773 + ZFA:0009044 blood cell @@ -6745,6 +5828,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009044 + + @@ -6758,6 +5847,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001176 CALOHA:TS-0278 FMA:66772 + ZFA:0009065 endotheliocyte @@ -6774,6 +5864,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://en.wikipedia.org/wiki/Endothelial_cell https://sourceforge.net/tracker/?func=detail&atid=440764&aid=3364936&group_id=36855 + + + + ZFA:0009065 + + @@ -6782,6 +5878,7 @@ For example, A and B may be gene products and binding of B by A positively regul Ectoderm destined to be nervous tissue. + ZFA:0009080 neurectoderm cell neurectodermal cell @@ -6792,6 +5889,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:068340007X + + + + ZFA:0009080 + + @@ -6804,6 +5907,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0002625 BTO:0003298 FMA:70546 + ZFA:0009081 bone marrow stromal cells colony-forming unit-fibroblast marrow stromal cells @@ -6841,6 +5945,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://en.wikipedia.org/wiki/Mesenchymal_stem_cell http://www.copewithcytokines.de/cope.cgi?key=mesenchymal%20stem%20cells + + + + ZFA:0009081 + + @@ -6947,8 +6057,15 @@ For example, A and B may be gene products and binding of B by A positively regul + Any secretory cell that is capable of some protein secretion. protein secreting cell + + + + Any secretory cell that is capable of some protein secretion. + FBC:Autogenerated + @@ -6987,6 +6104,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005074 FMA:67328 WBbt:0003675 + ZFA:0009114 muscle fiber myocyte @@ -6999,6 +6117,18 @@ For example, A and B may be gene products and binding of B by A positively regul A mature contractile cell, commonly known as a myocyte. This cell has as part of its cytoplasm myofibrils organized in various patterns. MESH:D032342 + + + + FBbt:00005074 + + + + + + ZFA:0009114 + + @@ -7019,6 +6149,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004576 CALOHA:TS-2159 FMA:14072 + ZFA:0009118 SMCs myocytes, smooth muscle smooth muscle fiber @@ -7035,6 +6166,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:9315361 http://en.wikipedia.org/wiki/Smooth_muscle_cell + + + + ZFA:0009118 + + @@ -7055,6 +6192,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by the generation or the reception of an electric signal. + ZFA:0009128 electrically active cell @@ -7063,6 +6201,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by the generation or the reception of an electric signal. FB:ma + + + + ZFA:0009128 + + @@ -7071,6 +6215,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism. + ZFA:0009130 boundary cell lining cell @@ -7080,6 +6225,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism. JB:jb + + + + ZFA:0009130 + + @@ -7088,6 +6239,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose primary function is to prevent the transport of stuff across compartments. + ZFA:0009132 barrier cell @@ -7096,6 +6248,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose primary function is to prevent the transport of stuff across compartments. JB:jb + + + + ZFA:0009132 + + @@ -7121,6 +6279,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that moves by its own activities. + ZFA:0009136 motile cell @@ -7129,6 +6288,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that moves by its own activities. FB:ma + + + + ZFA:0009136 + + @@ -7144,6 +6309,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the outer of the three germ layers of the embryo. FMA:72549 + ZFA:0009137 ectoderm cell ectodermal cell @@ -7153,6 +6319,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the outer of the three germ layers of the embryo. MESH:D004475 + + + + ZFA:0009137 + + @@ -7168,6 +6340,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the middle germ layer of the embryo. FMA:72554 + ZFA:0009138 mesoblast mesoderm cell @@ -7179,6 +6352,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the middle germ layer of the embryo. MESH:D008648 + + + + ZFA:0009138 + + @@ -7194,6 +6373,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the inner of the three germ layers of the embryo. FMA:72555 + ZFA:0009139 endoderm cell endodermal cell @@ -7203,6 +6383,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the inner of the three germ layers of the embryo. MESH:D004707 + + + + ZFA:0009139 + + @@ -7296,8 +6482,15 @@ For example, A and B may be gene products and binding of B by A positively regul + ZFA:0009143 brush border epithelial cell + + + + ZFA:0009143 + + @@ -7322,10 +6515,17 @@ For example, A and B may be gene products and binding of B by A positively regul + Any cell that only exists in Eukaryota. MESH:D005057 eukaryotic cell + + + + Any cell that only exists in Eukaryota. + FBC:Autogenerated + @@ -7350,8 +6550,22 @@ For example, A and B may be gene products and binding of B by A positively regul + Any cell that is capable of some oxygen transport. + ZFA:0009164 oxygen accumulating cell + + + + Any cell that is capable of some oxygen transport. + FBC:Autogenerated + + + + + ZFA:0009164 + + @@ -7369,6 +6583,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body. FMA:86667 + ZFA:0007086 migratory neural crest cell @@ -7377,6 +6592,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body. doi:10.1016/j.stem.2015.02.017 + + + + ZFA:0007086 + + @@ -7385,6 +6606,7 @@ For example, A and B may be gene products and binding of B by A positively regul A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors. + ZFA:0009166 mesenchyme condensation cell @@ -7394,6 +6616,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:5025404 + + + + ZFA:0009166 + + @@ -7458,6 +6686,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by its response to an electric signal. + ZFA:0009190 electrically responsive cell @@ -7466,6 +6695,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by its response to an electric signal. FB:ma + + + + ZFA:0009190 + + @@ -7474,6 +6709,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that initiates an electrical signal and passes that signal to another cell. + ZFA:0009193 electrically signaling cell @@ -7482,6 +6718,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that initiates an electrical signal and passes that signal to another cell. FB:ma + + + + ZFA:0009193 + + @@ -7508,6 +6750,7 @@ For example, A and B may be gene products and binding of B by A positively regul A precursor cell destined to differentiate into smooth muscle myocytes. FMA:84798 + ZFA:0009235 myoblast, smooth muscle satellite cell @@ -7520,6 +6763,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D032390 + + + + ZFA:0009235 + + @@ -7549,6 +6798,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:54527 VHOG:0001483 WBbt:0003679 + ZFA:0009248 nerve cell @@ -7564,6 +6814,18 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D009474 http://en.wikipedia.org/wiki/Neuron + + + + FBbt:00005106 + + + + + + ZFA:0009248 + + @@ -7643,7 +6905,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -7793,7 +7054,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -7814,6 +7074,7 @@ For example, A and B may be gene products and binding of B by A positively regul A nucleated immature erythrocyte, having cytoplasm generally similar to that of the earlier proerythroblast but sometimes even more basophilic, and usually regular in outline. The nucleus is still relatively large, but the chromatin strands are thicker and more deeply staining, giving a coarser appearance; the nucleoli have disappeared. This cell is CD71-positive and lacks hematopoeitic lineage markers. FMA:83505 + ZFA:0005236 basophilic normoblast early erythroblast early normoblast @@ -7833,6 +7094,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721601464 + + + + ZFA:0005236 + + @@ -7883,7 +7150,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -7910,6 +7176,7 @@ For example, A and B may be gene products and binding of B by A positively regul A nucleated, immature erythrocyte in which the nucleus occupies a relatively smaller part of the cell than in its precursor, the basophilic erythroblast. The cytoplasm is beginning to acquire hemoglobin and thus is no longer a purely basophilic, but takes on acidophilic aspects, which becomes progressively more marked as the cell matures. The chromatin of the nucleus is arranged in coarse, deeply staining clumps. This cell is CD71-positive and lacks hematopoeitic lineage markers. FMA:83506 + ZFA:0005241 intermediate erythroblast intermediate normoblast polychromatic erythroblast @@ -7930,6 +7197,12 @@ For example, A and B may be gene products and binding of B by A positively regul A nucleated, immature erythrocyte in which the nucleus occupies a relatively smaller part of the cell than in its precursor, the basophilic erythroblast. The cytoplasm is beginning to acquire hemoglobin and thus is no longer a purely basophilic, but takes on acidophilic aspects, which becomes progressively more marked as the cell matures. The chromatin of the nucleus is arranged in coarse, deeply staining clumps. This cell is CD71-positive and lacks hematopoeitic lineage markers. ISBN:0721601464 + + + + ZFA:0005241 + + @@ -8387,7 +7660,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8476,6 +7748,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001173 CALOHA:TS-0864 MESH:D012156 + ZFA:0009252 reticulocyte @@ -8495,6 +7768,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:15946868 PMID:2037622 + + + + ZFA:0009252 + + @@ -8522,7 +7801,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8548,6 +7826,7 @@ For example, A and B may be gene products and binding of B by A positively regul A mesenchymal stem cell capable of developing into blood vessel endothelium. + ZFA:0009258 angioblast chondroplast These cells are reportedly CD31-positive, CD34-positive, CD144-positive, CD309-positive, and TAL1-positive. @@ -8567,6 +7846,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:12768659 + + + + ZFA:0009258 + + @@ -8609,6 +7894,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose primary function is to support other cell types. BTO:0002315 + ZFA:0009387 supportive cell supporting cell @@ -8620,6 +7906,12 @@ For example, A and B may be gene products and binding of B by A positively regul FB:ma GOC:tfm + + + + ZFA:0009387 + + @@ -8654,6 +7946,7 @@ For example, A and B may be gene products and binding of B by A positively regul juxtaglomerular cell FMA:84138 + ZFA:0005238 JG cell renin secreting cell @@ -8667,6 +7960,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:11457727 + + + + ZFA:0005238 + + @@ -8685,6 +7984,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0617 FMA:70972 MESH:D050527 + ZFA:0009283 kidney mesangial cell Do all of these cells really develop from some mesenchymal stem cell? @@ -8697,6 +7997,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm http://www.copewithcytokines.de/cope.cgi?key=mesangial%20cells + + + + ZFA:0009283 + + @@ -8704,10 +8010,17 @@ For example, A and B may be gene products and binding of B by A positively regul + ZFA:0009286 window cell fenestrated cell + + + + ZFA:0009286 + + @@ -8722,6 +8035,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0002441 FMA:63174 + ZFA:0009112 ARC adventitial reticular cell cell of Rouget @@ -8745,6 +8059,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:17986482 PMID:20024907 + + + + ZFA:0009112 + + @@ -8782,6 +8102,7 @@ For example, A and B may be gene products and binding of B by A positively regul A non-terminally differentiated cell that is capable of developing into a muscle cell. + ZFA:0009291 muscle precursor cell @@ -8791,6 +8112,12 @@ For example, A and B may be gene products and binding of B by A positively regul A non-terminally differentiated cell that is capable of developing into a muscle cell. GOC:add + + + + ZFA:0009291 + + @@ -8818,6 +8145,7 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to cell types of the body other than those of the germ-line. CALOHA:TS-2086 MESH:D053687 + ZFA:0009307 somatic stem cell @@ -8826,6 +8154,12 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to cell types of the body other than those of the germ-line. GO:0048103 + + + + ZFA:0009307 + + @@ -8854,6 +8188,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001441 CALOHA:TS-0647 MESH:D022423 + ZFA:0009324 myeloid cell @@ -8869,6 +8204,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the monocyte, granulocyte, mast cell, megakaryocyte, or erythroid lineage. GOC:add + + + + ZFA:0009324 + + @@ -8881,6 +8222,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0290 FMA:62845 FMA:83516 + ZFA:0009325 erythropoietic cell @@ -8894,6 +8236,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009325 + + @@ -9060,6 +8408,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0289 FMA:83504 MESH:D004900 + ZFA:0005237 normoblast @@ -9079,6 +8428,12 @@ For example, A and B may be gene products and binding of B by A positively regul ISBN:0721601464 PMID:18174176 + + + + ZFA:0005237 + + @@ -9153,7 +8508,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9255,6 +8609,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000725 CALOHA:TS-0448 + ZFA:0009354 MPP hemopoietic progenitor cell @@ -9271,6 +8626,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:19022770 + + + + ZFA:0009354 + + @@ -9302,6 +8663,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004730 CALOHA:TS-2099 FMA:70339 + ZFA:0009356 Note that this is a class of cell types, not an identified single cell type. @@ -9321,6 +8683,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:19022770 + + + + ZFA:0009356 + + @@ -9333,6 +8701,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-2017 FMA:70366 FMA:83598 + ZFA:0005830 haematopoietic cell haemopoietic cell hemopoietic cell @@ -9346,6 +8715,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GO_REF:0000031 + + + + ZFA:0005830 + + @@ -9463,6 +8838,7 @@ For example, A and B may be gene products and binding of B by A positively regul 2010-06-29T03:38:22Z FMA:69074 + ZFA:0009385 ecto-epithelial cell @@ -9472,6 +8848,12 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:69074 GOC:tfm + + + + ZFA:0009385 + + @@ -9500,6 +8882,7 @@ For example, A and B may be gene products and binding of B by A positively regul 2010-06-29T03:49:14Z FMA:69076 + ZFA:0009388 epithelial mesenchymal cell meso-epithelial cell @@ -9510,6 +8893,12 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:69076 GOC:tfm + + + + ZFA:0009388 + + @@ -9830,6 +9219,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-2096 FMA:63875 MESH:D003239 + ZFA:0009392 connective tissue cell @@ -9840,6 +9230,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0618947256 + + + + ZFA:0009392 + + @@ -9853,6 +9249,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0263 FMA:82840 WBbt:0007028 + ZFA:0007089 embryonic cell (metazoa) @@ -9861,6 +9258,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the embryo. FMA:0618947256 + + + + ZFA:0007089 + + @@ -9925,6 +9328,7 @@ For example, A and B may be gene products and binding of B by A positively regul 2011-02-08T10:46:34Z KUPO:0001019 + ZFA:0009374 kidney epithelial cell @@ -9941,6 +9345,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm KUPO:SJ + + + + ZFA:0009374 + + @@ -9951,6 +9361,7 @@ For example, A and B may be gene products and binding of B by A positively regul An endothelial progenitor cell that participates in angiogenesis during development. 2011-02-28T04:20:39Z + ZFA:0005773 See CL:0002619. embryonic blood vessel endothelial progenitor cell @@ -9960,6 +9371,12 @@ For example, A and B may be gene products and binding of B by A positively regul An endothelial progenitor cell that participates in angiogenesis during development. GOC:tfm + + + + ZFA:0005773 + + @@ -10039,6 +9456,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cuboidal epithelial cell of the kidney which regulates sodium and potassium balance. The activity of sodium and potassium channels on the apical membrane of the cell is regulated by aldosterone and vasopressin. In mammals this cell type is located in the renal collecting duct system. + ZFA:0005322 renal principal cell @@ -10048,6 +9466,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cuboidal epithelial cell of the kidney which regulates sodium and potassium balance. The activity of sodium and potassium channels on the apical membrane of the cell is regulated by aldosterone and vasopressin. In mammals this cell type is located in the renal collecting duct system. CL:CVS + + + + ZFA:0005322 + + @@ -10070,6 +9494,7 @@ For example, A and B may be gene products and binding of B by A positively regul Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells. 2012-06-27T08:27:35Z + ZFA:0007084 premigratory neural crest cell @@ -10078,6 +9503,12 @@ For example, A and B may be gene products and binding of B by A positively regul Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells. UBERONREF:0000002 + + + + ZFA:0007084 + + @@ -10145,6 +9576,12 @@ For example, A and B may be gene products and binding of B by A positively regul A muscle cell that is part of some visceral muscle. GOC:dos + + + + FBbt:00005070 + + @@ -10182,6 +9619,7 @@ For example, A and B may be gene products and binding of B by A positively regul 2020-02-29T17:33:55Z + ZFA:0005944 @@ -10193,6 +9631,12 @@ For example, A and B may be gene products and binding of B by A positively regul Mural cells are pericytes and the vascular smooth muscle cells (vSMCs) of the microcirculation. Wiki:Mural_cell&oldid=930603194 + + + + ZFA:0005944 + + @@ -10600,9 +10044,16 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that is part of a kidney. KUPO:0001010 + ZFA:0009389 kidney cell + + + + ZFA:0009389 + + @@ -10630,10 +10081,17 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that is part of kidney interstitium. KUPO:0001013 + ZFA:0009390 kidney interstitial cell + + + + ZFA:0009390 + + @@ -10660,6 +10118,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that is part of a renal medulla. KUPO:0001017 + ZFA:0009391 kidney medulla cell @@ -10668,6 +10127,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that is part of a renal medulla. PMID:22343825 + + + + ZFA:0009391 + + @@ -10750,10 +10215,17 @@ For example, A and B may be gene products and binding of B by A positively regul + Any kidney epithelial cell that is part of some glomerular epithelium. KUPO:0001023 kidney glomerular epithelial cell + + + + Any kidney epithelial cell that is part of some glomerular epithelium. + FBC:Autogenerated + @@ -10808,10 +10280,17 @@ For example, A and B may be gene products and binding of B by A positively regul + Any kidney cell that is part of some papillary duct. KUPO:0001064 kidney papillary duct principal epithelial cell + + + + Any kidney cell that is part of some papillary duct. + FBC:Autogenerated + @@ -10837,6 +10316,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any renal cortical epithelial cell that is part of some renal corpuscle. KUPO:0001021 kidney corpuscule cell @@ -10847,6 +10327,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any renal cortical epithelial cell that is part of some renal corpuscle. + FBC:Autogenerated + @@ -10873,6 +10359,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any kidney tubule cell that is part of some renal cortex tubule. KUPO:0001024 kidney cortex tubule cell @@ -10883,6 +10370,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any kidney tubule cell that is part of some renal cortex tubule. + FBC:Autogenerated + @@ -10907,6 +10400,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any kidney cortical cell that is part of some juxtaglomerular apparatus. KUPO:0001028 juxtaglomerulus cell @@ -10918,6 +10412,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any kidney cortical cell that is part of some juxtaglomerular apparatus. + FBC:Autogenerated + @@ -10980,6 +10480,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any kidney corpuscule cell that is part of some renal glomerulus. KUPO:0001036 glomerular cell @@ -10989,6 +10490,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any kidney corpuscule cell that is part of some renal glomerulus. + FBC:Autogenerated + @@ -11014,6 +10521,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any nephron tubule epithelial cell that is part of some renal connecting tubule. KUPO:0001058 @@ -11027,6 +10535,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any nephron tubule epithelial cell that is part of some renal connecting tubule. + FBC:Autogenerated + @@ -11051,6 +10565,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any epithelial cell of distal tubule that is part of some distal convoluted tubule. KUPO:0001056 @@ -11064,6 +10579,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any epithelial cell of distal tubule that is part of some distal convoluted tubule. + FBC:Autogenerated + @@ -11135,6 +10656,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any kidney blood vessel cell that is part of some kidney arterial blood vessel. KUPO:0001029 kidney arterial blood vessel cell @@ -11145,6 +10667,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any kidney blood vessel cell that is part of some kidney arterial blood vessel. + FBC:Autogenerated + @@ -11170,11 +10698,18 @@ For example, A and B may be gene products and binding of B by A positively regul + Any kidney blood vessel cell that is part of some kidney capillary. KUPO:0001030 kidney capillary endothelial cell + + + + Any kidney blood vessel cell that is part of some kidney capillary. + FBC:Autogenerated + @@ -11199,6 +10734,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any kidney blood vessel cell that is part of some renal vein. KUPO:0001031 kidney venous blood vessel cell @@ -11209,6 +10745,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any kidney blood vessel cell that is part of some renal vein. + FBC:Autogenerated + @@ -11233,6 +10775,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any nephron tubule epithelial cell that is part of some loop of Henle. KUPO:0001047 kidney loop of Henle epithelial cell @@ -11243,6 +10786,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any nephron tubule epithelial cell that is part of some loop of Henle. + FBC:Autogenerated + @@ -11268,6 +10817,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any kidney loop of Henle epithelial cell that is part of some ascending limb of loop of Henle. KUPO:0001048 @@ -11279,6 +10829,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any kidney loop of Henle epithelial cell that is part of some ascending limb of loop of Henle. + FBC:Autogenerated + @@ -11303,6 +10859,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any kidney loop of Henle epithelial cell that is part of some descending limb of loop of Henle. KUPO:0001053 kidney loop of Henle descending limb epithelial cell @@ -11313,6 +10870,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any kidney loop of Henle epithelial cell that is part of some descending limb of loop of Henle. + FBC:Autogenerated + @@ -11448,36 +11011,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms. - GO:0019952 - GO:0050876 - Wikipedia:Reproduction - reproductive physiological process - biological_process - GO:0000003 - - - - - - reproduction - - - - - The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms. - GOC:go_curators - GOC:isa_complete - GOC:jl - ISBN:0198506732 - - - - @@ -12687,7 +12220,6 @@ For example, A and B may be gene products and binding of B by A positively regul - A location, relative to cellular compartments and structures, occupied by a macromolecular machine. There are three types of cellular components described in the gene ontology: (1) the cellular anatomical entity where a gene product carries out a molecular function (e.g., plasma membrane, cytoskeleton) or membrane-enclosed compartments (e.g., mitochondrion); (2) virion components, where viral proteins act, and (3) the stable macromolecular complexes of which gene product are parts (e.g., the clathrin complex). https://github.com/geneontology/go-ontology/issues/17729 @@ -12734,13 +12266,16 @@ For example, A and B may be gene products and binding of B by A positively regul + + + Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'. extracellular region @@ -12786,32 +12321,32 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + A protein complex consisting of three collagen chains assembled into a left-handed triple helix. These trimers typically assemble into higher order structures. Wikipedia:Collagen cellular_component GO:0005581 collagen trimer - + - + - + PMID:12382326 - + PMID:12382326 @@ -12893,7 +12428,6 @@ For example, A and B may be gene products and binding of B by A positively regul - Note that for multicellular organisms, the extracellular space refers to everything outside a cell, but still within the organism (excluding the extracellular matrix). Gene products from a multi-cellular organism that are secreted from a cell into the interstitial fluid or blood can therefore be annotated to this term. extracellular space @@ -12987,12 +12521,14 @@ For example, A and B may be gene products and binding of B by A positively regul + + nucleus @@ -13034,6 +12570,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore. chromosome @@ -13100,7 +12637,9 @@ For example, A and B may be gene products and binding of B by A positively regul + + cytoplasm @@ -13132,11 +12671,13 @@ For example, A and B may be gene products and binding of B by A positively regul + + vacuole @@ -13190,10 +12731,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + Note that the Golgi apparatus can be located in various places in the cytoplasm. In plants and lower animal cells, the Golgi apparatus exists as many copies of discrete stacks dispersed throughout the cytoplasm, while the Golgi apparatus of interphase mammalian cells is a juxtanuclear, often pericentriolar reticulum, where the discrete Golgi stacks are stitched together to form a compact and interconnected ribbon, sometimes called the Golgi ribbon. Golgi apparatus @@ -13239,7 +12782,12 @@ For example, A and B may be gene products and binding of B by A positively regul - + + + + + + @@ -13257,11 +12805,14 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0005840 + + + ribosome @@ -13298,11 +12849,13 @@ For example, A and B may be gene products and binding of B by A positively regul + + cytoskeleton @@ -13385,11 +12938,14 @@ For example, A and B may be gene products and binding of B by A positively regul + + + plasma membrane @@ -13454,7 +13010,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -13605,10 +13160,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + translation @@ -13736,7 +13293,9 @@ For example, A and B may be gene products and binding of B by A positively regul + + Note that this term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term, for e.g. to transmembrane transport, to microtubule-based transport or to vesicle-mediated transport. transport @@ -13997,6 +13556,7 @@ For example, A and B may be gene products and binding of B by A positively regul A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane. + https://github.com/geneontology/go-ontology/issues/27189 jl 2013-12-19T15:25:51Z GO:1902589 @@ -14006,8 +13566,10 @@ For example, A and B may be gene products and binding of B by A positively regul organelle organization and biogenesis single-organism organelle organization GO:0006996 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. organelle organization @@ -14159,13 +13721,14 @@ For example, A and B may be gene products and binding of B by A positively regul cell-division cycle biological_process GO:0007049 - + + cell cycle @@ -14252,10 +13815,6 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0023033 GO:0023045 Wikipedia:Signal_transduction - signal transduction by cis-phosphorylation - signal transduction by conformational transition - signal transduction by protein phosphorylation - signal transduction by trans-phosphorylation signaling cascade signalling cascade biological_process @@ -14266,6 +13825,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Note that signal transduction is defined broadly to include a ligand interacting with a receptor, downstream signaling steps and a response being triggered. A change in form of the signal in every step is not necessary. Note that in many cases the end of this process is regulation of the initiation of transcription. Note that specific transcription factors may be annotated to this term, but core/general transcription machinery such as RNA polymerase should not. signal transduction @@ -14276,12 +13836,6 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:go_curators GOC:mtg_signaling_feb11 - - - - signalling pathway - GOC:mah - @@ -14741,7 +14295,6 @@ For example, A and B may be gene products and binding of B by A positively regul - A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence. https://github.com/geneontology/go-ontology/issues/24968 jl @@ -14781,6 +14334,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation. + https://github.com/geneontology/go-ontology/issues/26424 jl 2012-10-17T15:46:40Z GO:0044236 @@ -14793,11 +14347,13 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process single-organism metabolic process GO:0008152 - + + + Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions. metabolic process @@ -14887,6 +14443,7 @@ For example, A and B may be gene products and binding of B by A positively regul + biosynthetic process @@ -14908,6 +14465,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass. https://github.com/geneontology/go-ontology/issues/15249 https://github.com/geneontology/go-ontology/issues/25418 + https://github.com/geneontology/go-ontology/issues/27189 GO:0043284 biopolymer biosynthetic process macromolecule anabolism @@ -14916,7 +14474,9 @@ For example, A and B may be gene products and binding of B by A positively regul macromolecule synthesis biological_process GO:0009059 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. macromolecule biosynthetic process @@ -15084,7 +14644,7 @@ For example, A and B may be gene products and binding of B by A positively regul embryonal development biological_process GO:0009790 - + embryo development @@ -15355,9 +14915,11 @@ For example, A and B may be gene products and binding of B by A positively regul + + Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children. programmed cell death @@ -15581,10 +15143,12 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process cell organization and biogenesis GO:0016043 + + cellular component organization @@ -15696,6 +15260,7 @@ For example, A and B may be gene products and binding of B by A positively regul + @@ -15867,6 +15432,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways involving a protein. Includes protein modification. https://github.com/geneontology/go-ontology/issues/23112 + https://github.com/geneontology/go-ontology/issues/27189 GO:0006411 GO:0044267 GO:0044268 @@ -15879,11 +15445,14 @@ For example, A and B may be gene products and binding of B by A positively regul multicellular organismal protein metabolic process biological_process GO:0019538 + + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. protein metabolic process @@ -15898,7 +15467,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A type of reproduction that combines the genetic material of two gametes (such as a sperm or egg cell or fungal spores). The gametes have an haploid genome (with a single set of chromosomes, the product of a meiotic division) and combines with one another to produce a zygote (diploid). https://github.com/geneontology/go-ontology/issues/22929 Wikipedia:Sexual_reproduction @@ -15993,6 +15562,7 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process GO:0022402 + cell cycle process @@ -16048,12 +15618,15 @@ For example, A and B may be gene products and binding of B by A positively regul A cellular process that results in the breakdown of a cellular component. + https://github.com/geneontology/go-ontology/issues/27189 GO:0071845 cell structure disassembly cellular component disassembly at cellular level biological_process GO:0022411 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular component disassembly @@ -16068,32 +15641,24 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents. + https://github.com/geneontology/go-ontology/issues/27054 jl 2012-09-19T15:56:06Z GO:0044702 + Wikipedia:Reproduction biological_process single organism reproductive process GO:0022414 + + + + + + + reproductive process @@ -16178,6 +15743,7 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process GO:0022607 + cellular component assembly @@ -16286,11 +15852,13 @@ For example, A and B may be gene products and binding of B by A positively regul single organism signaling GO:0023052 + + Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change. signaling @@ -16499,12 +16067,24 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + The process whose specific outcome is the progression of the myeloid and lymphoid derived organ/tissue systems of the blood and other parts of the body over time, from formation to the mature structure. The site of hemopoiesis is variable during development, but occurs primarily in bone marrow or kidney in many adult vertebrates. https://github.com/geneontology/go-ontology/issues/22178 Wikipedia:Haematopoiesis @@ -16600,6 +16180,7 @@ For example, A and B may be gene products and binding of B by A positively regul + cell differentiation @@ -16921,6 +16502,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0031012 + @@ -17218,6 +16800,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any biological process, occurring at the level of a multicellular organism, pertinent to its function. + https://github.com/geneontology/go-ontology/issues/27189 @@ -17232,6 +16815,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0032501 + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. multicellular organismal process @@ -17272,27 +16856,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - The biological process in which new individuals are produced by one or two multicellular organisms. The new individuals inherit some proportion of their genetic material from the parent or parents. - biological_process - GO:0032504 - - multicellular organism reproduction - - - - - The biological process in which new individuals are produced by one or two multicellular organisms. The new individuals inherit some proportion of their genetic material from the parent or parents. - GOC:isa_complete - GOC:jid - - - - @@ -17398,7 +16961,12 @@ For example, A and B may be gene products and binding of B by A positively regul - + + + + + + A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together. GO:0043234 @@ -17411,6 +16979,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0032991 + @@ -18082,7 +17651,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -18154,10 +17722,12 @@ For example, A and B may be gene products and binding of B by A positively regul cellular_component GO:0042995 + + cell projection @@ -18284,6 +17854,7 @@ For example, A and B may be gene products and binding of B by A positively regul + organelle @@ -18711,7 +18282,10 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process GO:0044238 + + + primary metabolic process @@ -18730,12 +18304,15 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells. + https://github.com/geneontology/go-ontology/issues/27052 cellular anabolism cellular biosynthesis cellular formation cellular synthesis biological_process GO:0044249 + + This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. cellular biosynthetic process @@ -18856,6 +18433,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0045202 + @@ -19278,17 +18856,14 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - The process, occurring above the cellular level, that is pertinent to the reproductive function of a multicellular organism. This includes the integrated processes at the level of tissues and organs. + https://github.com/geneontology/go-ontology/issues/27054 organismal reproductive process reproductive process in a multicellular organism biological_process GO:0048609 + + multicellular organismal reproductive process @@ -19499,6 +19074,7 @@ For example, A and B may be gene products and binding of B by A positively regul + anatomical structure development @@ -19535,6 +19111,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another. https://github.com/geneontology/go-ontology/issues/19809 + cell locomotion movement of a cell biological_process @@ -19542,6 +19119,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0048870 + cell motility @@ -19821,12 +19399,13 @@ For example, A and B may be gene products and binding of B by A positively regul physiological response to stimulus biological_process GO:0050896 - + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. response to stimulus @@ -19845,6 +19424,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation. + https://github.com/geneontology/go-ontology/issues/27052 jl 2013-12-18T13:51:04Z GO:1902578 @@ -19858,6 +19438,7 @@ For example, A and B may be gene products and binding of B by A positively regul single organism localization single-organism localization GO:0051179 + localization @@ -20098,6 +19679,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cellular localization process whereby a substance or cellular entity, such as a protein complex or organelle, is transported to, and/or maintained in, a specific location within a cell including the localization of substances or cellular entities to the cell membrane. + https://github.com/geneontology/go-ontology/issues/27189 jl 2013-12-18T14:04:32Z GO:1902580 @@ -20110,7 +19692,9 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process single-organism cellular localization GO:0051641 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular localization @@ -20336,7 +19920,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus by a cell and ends with a change in state or activity or the cell. biological_process GO:0051716 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular response to stimulus @@ -20382,6 +19966,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0055085 + @@ -21252,6 +20837,7 @@ For example, A and B may be gene products and binding of B by A positively regul A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component. + https://github.com/geneontology/go-ontology/issues/27189 mah 2010-09-10T01:39:16Z GO:0071841 @@ -21260,8 +20846,10 @@ For example, A and B may be gene products and binding of B by A positively regul cellular component organization or biogenesis at cellular level biological_process GO:0071840 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular component organization or biogenesis @@ -21757,7 +21345,7 @@ For example, A and B may be gene products and binding of B by A positively regul region of plasma membrane cellular_component GO:0098590 - + Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass. plasma membrane region @@ -21809,7 +21397,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -22607,6 +22194,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon. + https://github.com/geneontology/go-ontology/issues/26424 pr 2012-11-05T11:04:40Z organic molecular entity anabolism @@ -22620,6 +22208,7 @@ For example, A and B may be gene products and binding of B by A positively regul organic substance synthesis biological_process GO:1901576 + organic substance biosynthetic process @@ -23587,7 +23176,6 @@ For example, A and B may be gene products and binding of B by A positively regul - A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities PATO:0000072 quality @@ -25769,70 +25357,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - - - - - - A material entity that minimally consists of a protein. - protein - protein aggregate - protein complex - protein-containing complex - protein - PR:000050567 - Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566). - protein-containing material entity - - - - - A material entity that minimally consists of a protein. - PRO:DAN - - - - - protein - PRO:DAN - - - - - protein aggregate - PRO:DAN - - - - - protein complex - PRO:DAN - - - - - protein-containing complex - PRO:DAN - - - - @@ -25920,6 +25444,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0003193 EMAPA:37283 EV:0100155 + FBbt:00007000 HAO:0000144 MAT:0000023 MESH:D005121 @@ -25952,6 +25477,12 @@ For example, A and B may be gene products and binding of B by A positively regul EMAPA:37283 MA:th + + + + FBbt:00007000 + + @@ -26021,7 +25552,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -26075,14 +25606,14 @@ For example, A and B may be gene products and binding of B by A positively regul ureter https://upload.wikimedia.org/wikipedia/commons/3/30/Urinary_system.svg - + - + GO @@ -26132,7 +25663,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -26180,14 +25711,14 @@ For example, A and B may be gene products and binding of B by A positively regul urethra https://upload.wikimedia.org/wikipedia/commons/c/cb/Female_anatomy.png - + - + Wikipedia @@ -26209,7 +25740,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26231,6 +25761,7 @@ For example, A and B may be gene products and binding of B by A positively regul A tubular structure that transports secreted or excreted substances. AAO:0011123 + FBbt:00100314 FMA:30320 NCIT:C12948 SCTID:91726008 @@ -26256,6 +25787,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://orcid.org/0000-0002-6601-2165 http://www.siumed.edu/~dking2/intro/glands.htm#ducts + + + + FBbt:00100314 + + @@ -26341,6 +25878,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000003 EHDAA2:0003003 EMAPA:0 + FBbt:00007001 FMA:305751 FMA:67135 GAID:781 @@ -26368,6 +25906,12 @@ For example, A and B may be gene products and binding of B by A positively regul Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome. CARO:0000003 + + + + FBbt:00007001 + + @@ -26549,7 +26093,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26597,7 +26140,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26650,7 +26192,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26684,7 +26225,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -26734,14 +26275,14 @@ For example, A and B may be gene products and binding of B by A positively regul http://upload.wikimedia.org/wikipedia/commons/3/30/Gray1130.svg https://upload.wikimedia.org/wikipedia/commons/2/22/Renal_corpuscle.svg - + - + FMA MA @@ -27004,14 +26545,14 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + @@ -27043,24 +26584,24 @@ For example, A and B may be gene products and binding of B by A positively regul metanephros - + - + - + GO - + ISBN:9780878932504 @@ -27175,8 +26716,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + An epithelial swelling on the Wolffian duct that elongates to invade the adjacent metanephric mesenchyme[MP]. BTO:0001646 EHDAA2:0002140 @@ -27200,11 +26741,11 @@ For example, A and B may be gene products and binding of B by A positively regul ureteric bud - + - + @@ -27217,13 +26758,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 - + ISBN:9780878932504 @@ -27283,7 +26824,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -27325,7 +26865,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -27418,7 +26957,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -27505,7 +27043,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -27556,7 +27093,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -27602,7 +27138,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -27610,7 +27145,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -27646,14 +27181,14 @@ For example, A and B may be gene products and binding of B by A positively regul gastrula stage - + - + BILS @@ -27704,7 +27239,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -27754,7 +27288,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -27915,8 +27448,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + @@ -27942,24 +27475,24 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0000162 cloaca - + - + - + ZFA - + AAO @@ -28000,8 +27533,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + @@ -28019,24 +27552,24 @@ For example, A and B may be gene products and binding of B by A positively regul embryonic cloaca - + - + - + EHDAA2 - + EHDAA2 @@ -28059,7 +27592,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -28098,14 +27631,14 @@ For example, A and B may be gene products and binding of B by A positively regul primitive urogenital sinus http://upload.wikimedia.org/wikipedia/commons/6/6d/Gray1109.png - + - + MP-def @@ -28173,6 +27706,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0001326 EHDAA:542 EMAPA:16262 + FBbt:00003126 FMA:49184 GAID:75 MA:0000341 @@ -28225,6 +27759,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Mouth https://github.com/obophenotype/uberon/wiki/The-digestive-tract + + + + FBbt:00003126 + + @@ -28373,7 +27913,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -28381,15 +27920,15 @@ For example, A and B may be gene products and binding of B by A positively regul - + - - + + A fluid that is composed of blood plasma and erythrocytes. AAO:0000046 @@ -28426,34 +27965,34 @@ For example, A and B may be gene products and binding of B by A positively regul blood - + - + - + - + CL:tm - + https://github.com/obophenotype/uberon/issues/1330 - + Bgee:AN @@ -28939,6 +28478,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000004 EHDAA2:0003004 EMAPA:35178 + FBbt:00007019 FMA:9669 HAO:0000004 MA:0002450 @@ -28968,6 +28508,12 @@ For example, A and B may be gene products and binding of B by A positively regul Material anatomical entity in a gaseous, liquid, semisolid or solid state; produced by anatomical structures or derived from inhaled and ingested substances that have been modified by anatomical structures as they pass through the body. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007019 + + @@ -29022,6 +28568,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000005 CARO:0000005 EHDAA2:0003005 + FBbt:00007017 FMA:5897 HAO:0000005 NCIT:C94478 @@ -29045,6 +28592,12 @@ For example, A and B may be gene products and binding of B by A positively regul Non-material anatomical entity of three dimensions, that is generated by morphogenetic or other physiologic processes; is surrounded by one or more anatomical structures; contains one or more organism substances or anatomical structures. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007017 + + @@ -29064,7 +28617,6 @@ For example, A and B may be gene products and binding of B by A positively regul - Anatomical entity that has mass. @@ -29076,6 +28628,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000006 CARO:0000006 EHDAA2:0003006 + FBbt:00007016 FMA:67165 HAO:0000006 TAO:0001836 @@ -29093,13 +28646,18 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical entity that has mass. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007016 + + - Anatomical entity that has no mass. @@ -29110,6 +28668,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000007 CARO:0000007 EHDAA2:0003007 + FBbt:00007015 FMA:67112 HAO:0000007 TAO:0001835 @@ -29128,6 +28687,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical entity that has no mass. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007015 + + @@ -29170,6 +28735,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:392 EMAPA:16103 EV:0100000 + FBbt:00004856 FMA:7149 HAO:0000011 MA:0000003 @@ -29211,6 +28777,12 @@ For example, A and B may be gene products and binding of B by A positively regul system GO:0048731 + + + + FBbt:00004856 + + @@ -29262,6 +28834,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:1 EMAPA:25765 EV:0100016 + FBbt:00000001 FMA:256135 HAO:0000012 NCIT:C13041 @@ -29306,6 +28879,12 @@ For example, A and B may be gene products and binding of B by A positively regul VHOG:0000671 WBbt:0007833 + + + + FBbt:00000001 + + @@ -29410,6 +28989,7 @@ For example, A and B may be gene products and binding of B by A positively regul EFO:0000808 EHDAA2:0003032 EMAPA:36031 + FBbt:00007009 FMA:7153 HAO:0000032 MA:0002433 @@ -29452,6 +29032,12 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:DOS http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007009 + + @@ -29493,6 +29079,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000040 CARO:0000040 EHDAA2:0003040 + FBbt:00007013 FMA:63863 HAO:0000040 TAO:0000382 @@ -29518,6 +29105,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical structure that consists of cell parts and cell substances and together does not constitute a cell or a tissue. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007013 + + @@ -29536,6 +29129,7 @@ For example, A and B may be gene products and binding of B by A positively regul + FBbt:00007277 VHOG:0001737 uberon UBERON:0000477 @@ -29549,6 +29143,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical group whose component anatomical structures lie in close proximity to each other. FBbt:00007277 + + + + FBbt:00007277 + + @@ -29582,6 +29182,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000043 EHDAA2:0003043 EMAPA:35868 + FBbt:00007003 FMA:9637 HAO:0000043 MA:0003002 @@ -29617,6 +29218,12 @@ For example, A and B may be gene products and binding of B by A positively regul Multicellular anatomical structure that consists of many cells of one or a few types, arranged in an extracellular matrix such that their long-range organisation is at least partly a repetition of their short-range organisation. CARO:0000043 + + + + FBbt:00007003 + + @@ -29657,6 +29264,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000055 CARO:0000055 EHDAA2:0003055 + FBbt:00007010 HAO:0000055 TAO:0001488 TGMA:0001847 @@ -29683,6 +29291,12 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000055 http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007010 + + @@ -29707,7 +29321,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -29721,7 +29334,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -29738,6 +29351,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000066 EHDAA2:0003066 EMAPA:32738 + FBbt:00007005 FMA:9639 GAID:402 HAO:0000066 @@ -29762,14 +29376,14 @@ For example, A and B may be gene products and binding of B by A positively regul epithelium https://upload.wikimedia.org/wikipedia/commons/8/8f/Illu_epithelium.jpg - + - + http://palaeos.com/metazoa/porifera/homoscleromorpha.html @@ -29779,6 +29393,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Epithelium http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007005 + + @@ -29807,6 +29427,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000068 CARO:0000068 EHDAA2_RETIRED:0003068 + FBbt:00007027 FMA:45567 HAO:0000068 NCIT:C33552 @@ -29846,6 +29467,12 @@ For example, A and B may be gene products and binding of B by A positively regul columnar epithlium AEO:0000068 + + + + FBbt:00007027 + + @@ -30223,6 +29850,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2_RETIRED:0003236 EHDAA:38 EMAPA:16039 + FBbt:00000052 FMA:69068 GAID:963 MAT:0000226 @@ -30260,6 +29888,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0009790 Wikipedia:Embryo + + + + FBbt:00000052 + + @@ -30297,6 +29931,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000035 BTO:0000556 EMAPA:36033 + FBbt:00000110 FMA:69069 GAID:1303 MESH:D005855 @@ -30333,6 +29968,12 @@ For example, A and B may be gene products and binding of B by A positively regul embryonic tissue FMA:69069 + + + + FBbt:00000110 + + @@ -30371,7 +30012,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue. AAO:0000137 BILA:0000036 @@ -30381,6 +30022,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000428 EMAPA:16069 EV:0100003 + FBbt:00000111 FMA:69070 GAID:1304 MAT:0000155 @@ -30405,14 +30047,14 @@ For example, A and B may be gene products and binding of B by A positively regul ectoderm http://upload.wikimedia.org/wikipedia/commons/1/19/Gray32.png - + - + Bgee:AN @@ -30421,6 +30063,12 @@ For example, A and B may be gene products and binding of B by A positively regul Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue. Wikipedia:Ectoderm + + + + FBbt:00000111 + + @@ -30446,7 +30094,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut. AAO:0000139 BILA:0000038 @@ -30456,6 +30104,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000436 EMAPA:16062 EV:0100005 + FBbt:00000125 FMA:69071 GAID:1305 MAT:0000175 @@ -30480,14 +30129,14 @@ For example, A and B may be gene products and binding of B by A positively regul http://upload.wikimedia.org/wikipedia/commons/c/c0/Endoderm2.png http://upload.wikimedia.org/wikipedia/commons/d/df/Gray10.png - + - + Bgee:AN @@ -30496,6 +30145,12 @@ For example, A and B may be gene products and binding of B by A positively regul Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut. Wikipedia:Endoderm + + + + FBbt:00000125 + + @@ -30522,7 +30177,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The middle germ layer of the embryo, between the endoderm and ectoderm. UBERON:0003263 @@ -30537,6 +30192,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:183 EMAPA:16083 EV:0100006 + FBbt:00000126 FMA:69072 GAID:522 MAT:0000174 @@ -30562,14 +30218,14 @@ For example, A and B may be gene products and binding of B by A positively regul mesoderm http://upload.wikimedia.org/wikipedia/commons/e/e8/Mesoderm.png - + - + Bgee:AN @@ -30578,6 +30234,12 @@ For example, A and B may be gene products and binding of B by A positively regul The middle germ layer of the embryo, between the endoderm and ectoderm. Wikipedia:Mesoderm + + + + FBbt:00000126 + + @@ -30628,6 +30290,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004224 EHDAA2:0001929 EMAPA:16263 + FBbt:00000439 FMA:295846 NCIT:C34306 TAO:0001290 @@ -30666,6 +30329,12 @@ For example, A and B may be gene products and binding of B by A positively regul stomodeal-hypophyseal primordium XAO:0000269 + + + + FBbt:00000439 + + @@ -30722,7 +30391,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -30746,6 +30415,7 @@ For example, A and B may be gene products and binding of B by A positively regul AAO:0011087 EHDAA2:0000121 EMAPA:25038 + FBbt:00000123 NCIT:C34278 TAO:0000066 UMLS:C0231054 @@ -30764,7 +30434,7 @@ For example, A and B may be gene products and binding of B by A positively regul proctodeum https://github.com/obophenotype/uberon/issues/685 - + @@ -30777,7 +30447,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 @@ -30788,6 +30458,12 @@ For example, A and B may be gene products and binding of B by A positively regul https://github.com/obophenotype/uberon/issues/685 https://sourceforge.net/p/fbbtdv/tickets/52 + + + + FBbt:00000123 + + @@ -30833,7 +30509,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -30905,14 +30581,14 @@ For example, A and B may be gene products and binding of B by A positively regul https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_F_Heart.glb https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_M_Heart.glb - + - + MA @@ -31136,7 +30812,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -31151,7 +30827,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -31180,6 +30856,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:5923 EMAPA:17381 EV:0100100 + FBbt:00004857 FMA:7160 GAID:363 HAO:0000374 @@ -31221,6 +30898,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical system that has as its parts the organs concerned with reproduction. Wikipedia:Reproductive_system + + + + FBbt:00004857 + + @@ -31396,6 +31079,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000058 CALOHA:TS-1293 EFO:0000793 + FBbt:00005055 FMA:7152 GAID:278 MA:0002431 @@ -31432,6 +31116,12 @@ For example, A and B may be gene products and binding of B by A positively regul NLM:alimentary+system Wikipedia:Digestive_system + + + + FBbt:00005055 + + @@ -31483,6 +31173,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:5901 EMAPA:17366 EV:0100095 + FBbt:00005056 FMA:7159 GAID:391 MA:0000325 @@ -31535,6 +31226,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Acoelomorpha + + + + FBbt:00005056 + + @@ -31745,7 +31442,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -31763,6 +31460,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:826 EMAPA:16469 EV:0100162 + FBbt:00005093 FMA:7157 GAID:466 MA:0000016 @@ -31794,14 +31492,14 @@ For example, A and B may be gene products and binding of B by A positively regul http://upload.wikimedia.org/wikipedia/commons/b/b2/TE-Nervous_system_diagram.svg http://upload.wikimedia.org/wikipedia/commons/b/ba/Nervous_system_diagram.png - + - + Bgee:AN @@ -31816,6 +31514,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Nervous_system ZFIN:curator + + + + FBbt:00005093 + + @@ -31861,7 +31565,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the neural tube derivatives: the brain and spinal cord. In invertebrates it includes central ganglia plus nerve cord. @@ -31877,6 +31581,7 @@ For example, A and B may be gene products and binding of B by A positively regul EMAPA:16470 EMAPA:16754 EV:0100163 + FBbt:00005094 FMA:55675 GAID:570 MA:0000167 @@ -31905,7 +31610,7 @@ For example, A and B may be gene products and binding of B by A positively regul central nervous system - + @@ -31919,7 +31624,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Bgee:AN @@ -31936,6 +31641,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Acoelomorpha + + + + FBbt:00005094 + + @@ -31984,6 +31695,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000557 EHDAA:520 EMAPA:16548 + FBbt:00005379 FMA:45616 MA:0001526 NCIT:C34180 @@ -32009,6 +31721,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anterior subdivision of a digestive tract. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005379 + + @@ -32050,6 +31768,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0001185 EHDAA:983 EMAPA:16255 + FBbt:00005383 FMA:45617 MA:0001564 NCIT:C34210 @@ -32076,6 +31795,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0007494 Wikipedia:Midgut + + + + FBbt:00005383 + + @@ -32096,7 +31821,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -32111,6 +31836,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000779 EHDAA:975 EMAPA:16715 + FBbt:00005384 FMA:45618 MA:0001527 NCIT:C34188 @@ -32129,14 +31855,14 @@ For example, A and B may be gene products and binding of B by A positively regul hindgut http://upload.wikimedia.org/wikipedia/commons/f/f7/Gray472.png - + - + Wikipedia @@ -32145,6 +31871,12 @@ For example, A and B may be gene products and binding of B by A positively regul The caudalmost subdivision of a digestive tract. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005384 + + @@ -32176,6 +31908,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001886 EFO:0001652 EHDAA2:0003171 + FBbt:00005495 FMA:86589 MAT:0000482 NCIT:C34275 @@ -32209,6 +31942,12 @@ For example, A and B may be gene products and binding of B by A positively regul FB:FBrf0089570 http://flybase.org/reports/FBrf0178740.html + + + + FBbt:00005495 + + @@ -32319,6 +32058,7 @@ For example, A and B may be gene products and binding of B by A positively regul BIRNLEX:6 CARO:0000000 EHDAA2:0002229 + FBbt:10000000 FMA:62955 HAO:0000000 MA:0000001 @@ -32342,6 +32082,12 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62955 http://orcid.org/0000-0001-9114-8737 + + + + FBbt:10000000 + + @@ -32614,14 +32360,14 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + @@ -32673,24 +32419,24 @@ For example, A and B may be gene products and binding of B by A positively regul renal pelvis https://upload.wikimedia.org/wikipedia/commons/c/c0/Illu_kidney2.jpg - + - + - + MA - + FMA @@ -32736,7 +32482,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -32772,14 +32518,14 @@ For example, A and B may be gene products and binding of B by A positively regul https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_M_Kidney_R.glb https://upload.wikimedia.org/wikipedia/commons/6/69/Illu_kidney.jpg - + - + FMA @@ -32815,7 +32561,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -32860,14 +32606,14 @@ For example, A and B may be gene products and binding of B by A positively regul renal corpuscle https://upload.wikimedia.org/wikipedia/commons/2/22/Renal_corpuscle.svg - + - + MA ZFA @@ -32941,7 +32687,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -32983,14 +32729,14 @@ For example, A and B may be gene products and binding of B by A positively regul glomerular capsule http://upload.wikimedia.org/wikipedia/commons/3/30/Gray1130.svg - + - + Wikipedia @@ -33080,10 +32826,10 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + @@ -33127,7 +32873,7 @@ For example, A and B may be gene products and binding of B by A positively regul nephron tubule - + @@ -33136,14 +32882,14 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + GO MA ZFA @@ -33157,7 +32903,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + ZFA @@ -33318,6 +33064,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001680 CALOHA:TS-2005 EV:0100082 + FBbt:00047153 FMA:15711 GAID:312 MA:0000331 @@ -33349,6 +33096,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Anus ZFIN:curator + + + + FBbt:00047153 + + @@ -33364,7 +33117,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -33411,7 +33164,7 @@ For example, A and B may be gene products and binding of B by A positively regul https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_M_Urinary_Bladder.glb https://upload.wikimedia.org/wikipedia/commons/3/30/Urinary_system.svg - + @@ -33424,7 +33177,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + FMA @@ -33554,7 +33307,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -33567,7 +33320,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The basic functional unit of the kidney. its chief function is to regulate the concentration of water and soluble substances like sodium salts by filtering the blood, reabsorbing what is needed and excreting the rest as urine. A nephron eliminates wastes from the body, regulates blood volume and blood pressure, controls levels of electrolytes and metabolites, and regulates blood pH. Its functions are vital to life and are regulated by the endocrine system by hormones such as antidiuretic hormone, aldosterone, and parathyroid hormone.[WP]. kidney terms require review for cross-vertebrate compatibility and developmental relationships. @@ -33598,24 +33351,24 @@ For example, A and B may be gene products and binding of B by A positively regul nephron http://upload.wikimedia.org/wikipedia/commons/0/02/Gray1128.png - + - + - + FMA - + Bgee:AN @@ -33666,14 +33419,14 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + @@ -33709,11 +33462,11 @@ For example, A and B may be gene products and binding of B by A positively regul proximal convoluted tubule http://upload.wikimedia.org/wikipedia/commons/0/02/Gray1128.png - + - + @@ -33726,13 +33479,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + GO - + Wikipedia @@ -33864,7 +33617,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -33891,7 +33644,7 @@ For example, A and B may be gene products and binding of B by A positively regul descending limb of loop of Henle http://upload.wikimedia.org/wikipedia/commons/0/02/Gray1128.png - + @@ -33904,7 +33657,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + FMA @@ -33928,14 +33681,14 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + @@ -33974,11 +33727,11 @@ For example, A and B may be gene products and binding of B by A positively regul proximal straight tubule - + - + @@ -33991,13 +33744,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + MA - + MA @@ -34039,7 +33792,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -34075,7 +33828,7 @@ For example, A and B may be gene products and binding of B by A positively regul distal convoluted tubule https://upload.wikimedia.org/wikipedia/commons/2/21/Kidney_nephron.png - + @@ -34088,7 +33841,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EMAPA GO MA-modified-from-isa @@ -34363,7 +34116,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -34386,14 +34139,14 @@ For example, A and B may be gene products and binding of B by A positively regul kidney arcuate artery https://upload.wikimedia.org/wikipedia/commons/8/87/2610_The_Kidney.jpg - + - + MA @@ -34434,7 +34187,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A tube extending from the mouth to the anus. @@ -34447,6 +34200,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000726 EHDAA:518 EMAPA:16247 + FBbt:00003125 FMA:45615 MA:0000917 NCIT:C34082 @@ -34470,14 +34224,14 @@ For example, A and B may be gene products and binding of B by A positively regul digestive tract - + - + NCBIBook:NBK10107 @@ -34499,6 +34253,12 @@ For example, A and B may be gene products and binding of B by A positively regul DOI:10.1371/journal.pone.0016309 + + + + FBbt:00003125 + + @@ -34872,7 +34632,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35100,7 +34859,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35109,8 +34867,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + @@ -35123,7 +34881,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -35177,34 +34935,34 @@ For example, A and B may be gene products and binding of B by A positively regul blood vessel http://upload.wikimedia.org/wikipedia/commons/2/29/Circulatory_System_en.svg - + - + - + - + AEO - + EHDAA2 - + GO:0072360 @@ -35488,6 +35246,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000174 CALOHA:TS-2110 EFO:0000461 + FBbt:00004208 FMA:69067 GAID:407 MESH:D004628 @@ -35518,6 +35277,12 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000174 ZFIN:curator + + + + FBbt:00004208 + + @@ -36054,7 +35819,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -36106,14 +35871,14 @@ For example, A and B may be gene products and binding of B by A positively regul kidney - + - + FMA @@ -36148,8 +35913,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + @@ -36187,11 +35952,11 @@ For example, A and B may be gene products and binding of B by A positively regul Once the more complex mesonephros forms the pronephros undergoes apoptosis in amphibians. In fishes the nephron degenerates but the organ remains and becomes a component of the immune system[Wikipedia:Pronephros]. // TODO - check developmental relationships. Note that we previously include the ZFA/XAO terms under the more specific 'pronephric kidney', but these are now merged. TODO GCI: relationship: capable_of GO:0030104 pronephros - + - + @@ -36204,13 +35969,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + OG - + ZFA @@ -36536,9 +36301,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + @@ -36557,7 +36321,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + An anatomical structure which consists of juxtaglomerular cells, extraglomerular mesangial cells and the macula densa. The juxtaglomerular apparatus lies adjacent to the glomerulus and regulates kidney function by maintaining the blood flow to the kidney and the filtration rate[GO]. a microscopic structure in the kidney, which regulates the function of each nephron. The juxtaglomerular apparatus is named for its proximity to the glomerulus: it is found between the vascular pole of the renal corpuscle and the returning distal convoluted tubule of the same nephron. This location is critical to its function in regulating renal blood flow and glomerular filtration rate. The three cellular components of the apparatus are the macula densa, extraglomerular mesangial cells, and juxtaglomerular cells (also known as granular cells)[WP]. BTO:0005157 @@ -36579,24 +36343,24 @@ For example, A and B may be gene products and binding of B by A positively regul juxtaglomerular apparatus - + - + - + MA - + GO @@ -36720,8 +36484,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + @@ -36738,24 +36502,24 @@ For example, A and B may be gene products and binding of B by A positively regul EDITOR_NOTE check MA part_ofs - should be spatially disjoint from renal glomerulus? extraglomerular mesangium - + - + - + MA - + MA @@ -36790,6 +36554,7 @@ For example, A and B may be gene products and binding of B by A positively regul AEO:0000186 BTO:0001707 EHDAA2:0000267 + FBbt:00005060 FMA:85006 NCIT:C25444 RETIRED_EHDAA2:0003186 @@ -36826,6 +36591,12 @@ For example, A and B may be gene products and binding of B by A positively regul body cavity BTO:0001707 + + + + FBbt:00005060 + + @@ -36890,9 +36661,9 @@ For example, A and B may be gene products and binding of B by A positively regul - - - + + + @@ -36940,15 +36711,15 @@ For example, A and B may be gene products and binding of B by A positively regul notochord http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + - + @@ -36967,19 +36738,19 @@ For example, A and B may be gene products and binding of B by A positively regul - + http://tolweb.org/Chordata/2499 - + ZFA - + EHDAA2 @@ -37019,8 +36790,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + Somites are spheres of epithelial cells that form sequentially along the anterior-posterior axis of the embryo through mesenchymal to epithelial transition of the presomitic mesoderm. mesodermal cluster @@ -37058,11 +36829,11 @@ For example, A and B may be gene products and binding of B by A positively regul somite http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + @@ -37075,13 +36846,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + GOTAX:0000352 - + ZFA @@ -37141,8 +36912,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + The macula densa is an area of specialized cells in the distal tubule that makes contact with the vascular pole of the glomerulus[GO]. BTO:0003940 @@ -37160,24 +36931,24 @@ For example, A and B may be gene products and binding of B by A positively regul macula densa - + - + - + MA - + GO @@ -37202,22 +36973,22 @@ For example, A and B may be gene products and binding of B by A positively regul - + - - + + - + A specialized region of ectoderm found between the neural ectoderm (neural plate) and non-neural ectoderm and composed of highly migratory pluripotent cells that delaminate in early embryonic development from the dorsal neural tube and give rise to an astounding variety of differentiated cell types[MP]. AAO:0010578 BTO:0001764 @@ -37250,45 +37021,45 @@ For example, A and B may be gene products and binding of B by A positively regul http://upload.wikimedia.org/wikipedia/commons/5/5f/Gray644.png https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png - + - + - + - + - + XAO https://github.com/obophenotype/uberon/wiki/The-neural-crest - + BTO - + PMID:11523831 - + PMID:11523831 @@ -37346,6 +37117,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:255 EMAPA:16073 EV:0100004 + FBbt:00001057 FMA:87657 MAT:0000176 MIAA:0000176 @@ -37374,6 +37146,12 @@ For example, A and B may be gene products and binding of B by A positively regul Embryonic ectoderm that gives rise to nervous tissue. Wikipedia:Neuroectoderm + + + + FBbt:00001057 + + @@ -37645,7 +37423,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -37698,14 +37476,14 @@ For example, A and B may be gene products and binding of B by A positively regul hematopoietic system - + - + FMA @@ -37923,7 +37701,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form. AAO:0011086 EFO:0001982 @@ -37946,14 +37724,14 @@ For example, A and B may be gene products and binding of B by A positively regul presomitic mesoderm - + - + Bgee:AN @@ -37994,8 +37772,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + In mammals, the pronephric duct is the predecessor of the Wolffian duct[WP]. AAO:0011088 NCIT:C34279 @@ -38014,11 +37792,11 @@ For example, A and B may be gene products and binding of B by A positively regul The pronephric duct collects the filtrate from the pronephric tubules and opens to the exterior of the pronephric kidney[GOC:mtg_kidney_jan10, PMID:15647339, XAO:0000063, ZFA:0000150] pronephric duct - + - + @@ -38031,13 +37809,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + Wikipedia - + XAO @@ -38143,9 +37921,9 @@ For example, A and B may be gene products and binding of B by A positively regul - - - + + + @@ -38184,34 +37962,34 @@ For example, A and B may be gene products and binding of B by A positively regul intermediate mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + - + - + AAO - + EMAPA - + XAO @@ -38320,7 +38098,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Paired organ that connects the primitive kidney Wolffian body (or mesonephros) to the cloaca and serves as the anlage for certain male reproductive organs. the Wolffian duct is what remains of the pronephric duct after the atrophy of the pronephros[WP]. In Zebrafish: Duct of the adult kidney (mesonephros), present bilaterally ventral to the somites and leading to the cloacal chamber[ZFA]. Consider adding subclasses for male and female specific variants TODO - mesonephric portion of the nephric duct @@ -38349,7 +38127,7 @@ For example, A and B may be gene products and binding of B by A positively regul mesonephric duct http://upload.wikimedia.org/wikipedia/commons/6/6d/Gray1109.png - + @@ -38362,7 +38140,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 @@ -38416,9 +38194,9 @@ For example, A and B may be gene products and binding of B by A positively regul - - - + + + A region of embryonic ectodermal cells that lie directly above the notochord. During neurulation, they change shape and produce an infolding of the neural plate (the neural fold) that then seals to form the neural tube[XAO]. The earliest recognizable dorsal ectodermal primordium of the central nervous system present near the end of gastrulation before infolding to form the neural keel; consists of a thickened pseudostratified epithelium[ZFA]. AAO:0011072 BTO:0001765 @@ -38447,34 +38225,34 @@ For example, A and B may be gene products and binding of B by A positively regul neural plate https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png - + - + - + - + GOTAX:0000352 - + Wikipedia - + Bgee:AN @@ -38514,7 +38292,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The paraxial mesoderm is the mesoderm located bilaterally adjacent to the notochord and neural tube[GO]. AAO:0010568 EFO:0003515 @@ -38540,7 +38318,7 @@ For example, A and B may be gene products and binding of B by A positively regul paraxial mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + @@ -38553,7 +38331,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Bgee:AN @@ -38600,7 +38378,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -38640,7 +38418,7 @@ For example, A and B may be gene products and binding of B by A positively regul lateral plate mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + @@ -38653,7 +38431,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 VHOG @@ -38703,15 +38481,15 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + - + Bilateral groups of cells consisting of three rows: one row of endocardial precursors medially and two rows of myocardical precursors laterally. The two populations fuse at the midline to form the heart rudiment or cone. should probably be merged with heart rudiment. AAO:0011044 @@ -38728,15 +38506,15 @@ For example, A and B may be gene products and binding of B by A positively regul heart primordium - + - + - + @@ -38749,19 +38527,19 @@ For example, A and B may be gene products and binding of B by A positively regul - + ZFA - + ZFA - + XAO @@ -38790,8 +38568,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + Ventral somitic compartment that is a precursor of the axial skeleton[XAO]. Sclerotomes eventually differentiate into the vertebrae and most of the skull. The caudal (posterior) half of one sclerotome fuses with the rostral (anterior) half of the adjacent one to form each vertebra. From their initial location within the somite, the sclerotome cells migrate medially towards the notochord. These cells meet the sclerotome cells from the other side to form the vertebral body. From this vertebral body, sclerotome cells move dorsally and surround the developing spinal cord, forming the vertebral arch[WP]. AAO:0010571 AEO:0000212 @@ -38815,11 +38593,11 @@ For example, A and B may be gene products and binding of B by A positively regul sclerotome http://upload.wikimedia.org/wikipedia/commons/9/96/Gray65.png - + - + @@ -38838,13 +38616,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + VHOG:0000680 - + ZFA @@ -39005,7 +38783,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -39015,7 +38793,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + An organ involved in reproduction. @@ -39089,7 +38867,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -39115,14 +38893,14 @@ For example, A and B may be gene products and binding of B by A positively regul Genes: The positional specification of the metanephrogenic mesenchyme is negatively regulated by Foxc1 and Foxc2. Next the permanent kidney forming metanephrogenic mesenchyme is specified by Hox11 genes. The competence to respond to ureteric bud inducers is regulated by WT1. GDNF secretion restricted to posterior region by Robo2 and Sprouty1. The receptors for GDNF are synthesized in the nephric ducts and later in ureteric buds [ISBN:9780878932504 "Developmental Biology"] metanephric mesenchyme - + - + ISBN:9780878932504 @@ -39810,7 +39588,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The part of the coelom in the embryo between the somatopleuric and splanchnopleuric mesoderm; the principal body cavities of the trunk (thoracic, abdominal, and pelvic) arise from this embryonic part of the coelom. consider merging with coelom. TODO - add spatial relationships to halves of LPM. Note the OG places XAO and ZFA coelem terms here. editor note: TODO check ZFA, which appears to be a structure present in adults EHDAA:251 @@ -39825,14 +39603,14 @@ For example, A and B may be gene products and binding of B by A positively regul intraembryonic coelom - + - + Wikipedia @@ -39917,6 +39695,7 @@ For example, A and B may be gene products and binding of B by A positively regul Epithelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues, with tube shape and organization varying from the single-celled excretory organ in Caenorhabditis elegans to the branching trees of the mammalian kidney and insect tracheal system. AEO:0000114 EHDAA2:0003114 + FBbt:00007474 epithelial or endothelial tube uberon UBERON:0003914 @@ -39929,6 +39708,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0060562 PMID:12526790 + + + + FBbt:00007474 + + @@ -40405,8 +40190,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + In mammals, the proximal tubule is a nephron tubule that connects Bowman's capsule to the loop of Henle. It has a brush border epithelial morphology[GO]. TODO - ensure definition works across species. @@ -40423,24 +40208,24 @@ For example, A and B may be gene products and binding of B by A positively regul proximal tubule - + - + - + GO - + GO @@ -40499,7 +40284,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The intermediate tubule is a nephron tubule that lies between the proximal and distal tubules. TODO - check for applicability across species FMA:17718 @@ -40509,14 +40294,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0004136 intermediate tubule - + - + FMA @@ -40592,8 +40377,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + A specific region of the lateral mesoderm that will form the primary beating heart tube. In mammals the primary heart field gives rise to the left ventricle. XAO:0004185 first heart field @@ -40605,24 +40390,24 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0004140 primary heart field - + - + - + GO:0003128 - + https://orcid.org/0000-0003-3308-6245 @@ -40675,7 +40460,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + An epithelial tube that will give rise to the mature heart. AAO:0010411 EFO:0003526 @@ -40694,14 +40479,14 @@ For example, A and B may be gene products and binding of B by A positively regul heart tube - + - + ZFA-modified @@ -40923,8 +40708,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + The comma-shaped body is the precursor structure to the S-shaped body that contributes to the morphogenesis of the nephron. EMAPA:27681 ZFA:0005588 @@ -40934,24 +40719,24 @@ For example, A and B may be gene products and binding of B by A positively regul comma-shaped body - + - + - + cjm - + ZFA @@ -40973,8 +40758,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + The S-shaped body is the successor of the comma-shaped body that contributes to the morphogenesis of the nephron. TODO EMAPA:27756 @@ -40986,24 +40771,24 @@ For example, A and B may be gene products and binding of B by A positively regul S-shaped body - + - + - + cjm - + GO @@ -41415,7 +41200,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -41453,14 +41238,14 @@ For example, A and B may be gene products and binding of B by A positively regul glomerular capillary - + - + https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -41706,7 +41491,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -41803,7 +41587,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -41845,7 +41628,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -41887,7 +41669,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -42004,7 +41785,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -42041,14 +41822,14 @@ For example, A and B may be gene products and binding of B by A positively regul renal afferent arteriole http://upload.wikimedia.org/wikipedia/commons/0/02/Gray1128.png - + - + Wikipedia @@ -42297,6 +42078,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0007012 BILA:0000060 BTO:0001403 + FBbt:00005317 FMA:293108 GAID:1302 MESH:D005775 @@ -42328,6 +42110,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Gastrula Wikipedia:Trilaminar_blastocyst + + + + FBbt:00005317 + + @@ -42401,7 +42189,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Organ consisting of skeletal tissue. Encompasses whole bones, fused bones, cartilaginious elements, teeth, dermal denticles. AAO:0011129 TAO:0001890 @@ -42415,14 +42203,14 @@ For example, A and B may be gene products and binding of B by A positively regul skeletal element - + - + VSAO @@ -42449,7 +42237,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -42488,14 +42276,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0004770 articular system - + - + FMA @@ -42793,7 +42581,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -42814,14 +42602,14 @@ For example, A and B may be gene products and binding of B by A positively regul somatopleure http://upload.wikimedia.org/wikipedia/commons/2/28/Gray16.png - + - + EHDAA2 @@ -42887,9 +42675,9 @@ For example, A and B may be gene products and binding of B by A positively regul - - - + + + @@ -42909,34 +42697,34 @@ For example, A and B may be gene products and binding of B by A positively regul urogenital fold - + - + - + - + EHDAA2 - + Wikipedia - + EHDAA2 @@ -43039,6 +42827,7 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts. + FBbt:00005811 joint uberon UBERON:0004905 @@ -43051,6 +42840,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005811 + + @@ -43083,6 +42878,7 @@ For example, A and B may be gene products and binding of B by A positively regul A proximal-distal subdivision of the digestive tract. + FBbt:00100315 FMA:71131 uberon alimentary system subdivision @@ -43101,6 +42897,12 @@ For example, A and B may be gene products and binding of B by A positively regul A proximal-distal subdivision of the digestive tract. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00100315 + + @@ -43397,7 +43199,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Missing definition for term UBERON:0005095. Please replace it using linked reference. class added for consistency with GO - consider merging with kidney mesenchyme. uberon @@ -43405,14 +43207,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0005095 kidney rudiment - + - + GO @@ -43528,7 +43330,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The connecting tubule is a tubular segment of the nephron; it connects the distal convoluted tubule to the collecting duct[GO]. BTO:0004539 @@ -43546,14 +43348,14 @@ For example, A and B may be gene products and binding of B by A positively regul renal connecting tubule http://upload.wikimedia.org/wikipedia/commons/0/02/Gray1128.png - + - + Wikipedia @@ -44284,7 +44086,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Mesenchyme that is part of a developing trunk. EFO:0003485 EHDAA2:0002092 @@ -44300,14 +44102,14 @@ For example, A and B may be gene products and binding of B by A positively regul trunk mesenchyme - + - + EHDAA2 @@ -44387,6 +44189,7 @@ For example, A and B may be gene products and binding of B by A positively regul AEO:0000125 CALOHA:TS-2122 EHDAA2:0003125 + FBbt:00007006 FMA:292313 MIAA:0000019 uberon @@ -44397,6 +44200,12 @@ For example, A and B may be gene products and binding of B by A positively regul developing anatomical structure + + + + FBbt:00007006 + + @@ -44417,7 +44226,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Multi-tissue structure that arises from the heart rudiment and will become the heart tube. EHDAA2:0001512 EHDAA:424 @@ -44435,14 +44244,14 @@ For example, A and B may be gene products and binding of B by A positively regul primitive heart tube - + - + ZFA @@ -44470,7 +44279,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -44497,7 +44306,7 @@ For example, A and B may be gene products and binding of B by A positively regul gonad primordium - + @@ -44510,7 +44319,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + ZFA @@ -44569,14 +44378,14 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + A mesoderm that has the potential to develop into a pronephros. AAO:0011090 EFO:0003479 @@ -44594,24 +44403,24 @@ For example, A and B may be gene products and binding of B by A positively regul the intermediate mesoderm of the chick embryo acquires its ability to form kidneys through its interactions with the paraxial mesoderm [ISBN:9780878932504 "Developmental Biology", PMID:10720431 "Signals from trunk paraxial mesoderm induce pronephros formation in chick intermediate mesoderm"]. These interactions induce the expression of TFs including Lim1, Pax2 and Pax6 that cause the intermediate mesoderm to form the kidney pronephric mesoderm - + - + - + ZFA - + Bgee:AN @@ -44658,7 +44467,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -44675,14 +44484,14 @@ For example, A and B may be gene products and binding of B by A positively regul glomerular tuft - + - + Wikipedia @@ -44822,7 +44631,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -44933,7 +44741,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -44961,14 +44769,14 @@ For example, A and B may be gene products and binding of B by A positively regul glomerular basement membrane http://upload.wikimedia.org/wikipedia/commons/d/de/PhysiologieGlom%C3%A9rulaire.png - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -45053,7 +44861,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A delimited region of dense mesenchyme within looser mesenchyme. AEO:0000148 EHDAA2_RETIRED:0003148 @@ -45063,7 +44871,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0005856 developing mesenchymal condensation - + @@ -45082,7 +44890,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + AEO-modified-relation @@ -45179,7 +44987,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -45218,14 +45026,14 @@ For example, A and B may be gene products and binding of B by A positively regul cloacal membrane http://upload.wikimedia.org/wikipedia/commons/d/d2/Gray991.png - + - + Wikipedia @@ -45259,7 +45067,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The notochordal plate is the dorsal part of the notochordal process when the ventral portion breaks down. It is continuous laterally with the endoderm that composes the roof of the primitive foregut and is in contact dorsally with the neural tube. The folding off of the notochordal plate gives rise to the notochord. TODO - check ordering; awaiting confirmation from JB EHDAA2:0001278 @@ -45273,7 +45081,7 @@ For example, A and B may be gene products and binding of B by A positively regul notochordal plate - + @@ -45286,7 +45094,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 @@ -45314,7 +45122,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A midline cellular cord formed from the migration of mesenchymal cells from the primitive knot. EHDAA2:0001279 EHDAA:224 @@ -45331,14 +45139,14 @@ For example, A and B may be gene products and binding of B by A positively regul The notochordal process grows cranially until it reaches the prechordal plate, the future site of the mouth. In this area the ectoderm is attached directly to the endoderm without intervening mesoderm. This area is known as the oropharyngeal membrane, and it will break down to become the mouth. At the other end of the primitive streak the ectoderm is also fused directly to the endoderm; this is known as the cloacal membrane (proctodeum), or primordial anus. notochordal process - + - + EHDAA2 @@ -45882,7 +45690,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A region of nephron tubule that is part of a cortex of kidney. EMAPA:18976 MA:0002609 @@ -45892,14 +45700,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0006853 renal cortex tubule - + - + MA @@ -45940,6 +45748,7 @@ For example, A and B may be gene products and binding of B by A positively regul The distalmost portion of the digestive tract, derived from the hindgut, and terminating with the anus. + FBbt:00005756 WBbt:0005773 rectum uberon @@ -45954,6 +45763,12 @@ For example, A and B may be gene products and binding of B by A positively regul The distalmost portion of the digestive tract, derived from the hindgut, and terminating with the anus. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005756 + + @@ -46063,7 +45878,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -46565,7 +46379,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -46591,7 +46405,7 @@ For example, A and B may be gene products and binding of B by A positively regul presumptive paraxial mesoderm - + @@ -46607,7 +46421,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + https://github.com/obophenotype/uberon/issues/1277 @@ -46768,7 +46582,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Mesenchyme with little extracellular matrix. AEO:0000146 EHDAA2:0003146 @@ -46776,7 +46590,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0007524 dense mesenchyme tissue - + @@ -46789,7 +46603,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + AEO @@ -46960,6 +46774,7 @@ For example, A and B may be gene products and binding of B by A positively regul AEO:0000170 EFO:0001649 EHDAA2:0003170 + FBbt:00005426 Wikipedia:Anlage_(biology) developmental field uberon @@ -46989,6 +46804,12 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005426 http://flybase.org/reports/FBrf0178740.html + + + + FBbt:00005426 + + @@ -46996,7 +46817,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Anatomical system that consists of all blood and lymph vessels. consider merging with vasculature @@ -47013,14 +46834,14 @@ For example, A and B may be gene products and binding of B by A positively regul vascular system - + - + MA @@ -47158,7 +46979,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -47196,14 +47017,14 @@ For example, A and B may be gene products and binding of B by A positively regul pelvic girdle skeleton http://upload.wikimedia.org/wikipedia/commons/f/fe/Gray242.png - + - + PMID:21455939 @@ -47256,7 +47077,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The functional tissue of the kidney, consisting of the nephrons. BTO:0003604 FMA:15574 @@ -47267,7 +47088,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0008987 renal parenchyma - + @@ -47280,7 +47101,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + FMA @@ -47350,7 +47171,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -47367,14 +47188,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0009142 entire embryonic mesenchyme - + - + EHDAA2 @@ -47493,7 +47314,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2:0002094 trunk and cervical paraxial mesenchyme uberon @@ -47501,14 +47322,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0009618 trunk paraxial mesoderm - + - + EHDAA2 @@ -47607,7 +47428,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EFO:0003704 TAO:0005041 ZFA:0005041 @@ -47617,14 +47438,14 @@ For example, A and B may be gene products and binding of B by A positively regul anterior lateral plate mesoderm - + - + ZFA @@ -47885,6 +47706,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0010000 + FBbt:00100313 multicellular structure uberon UBERON:0010000 @@ -47898,6 +47720,12 @@ For example, A and B may be gene products and binding of B by A positively regul An anatomical structure that has more than one cell as a part. CARO:0010000 + + + + FBbt:00100313 + + @@ -47938,7 +47766,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -47956,14 +47784,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0010227 future cardiac atrium - + - + ZFA @@ -48106,7 +47934,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -48120,7 +47948,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0010377 mesenchyme from somatopleure - + @@ -48133,7 +47961,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 @@ -48149,7 +47977,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A vessel of the microcirculature, lying between the arterioles and venules; includes capillaries (blood and lymphatic), metarterioles and arteriovenous anastomoses. MESH:D055806 TAO:0005251 @@ -48159,14 +47987,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0010523 microcirculatory vessel - + - + ZFA @@ -48199,7 +48027,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -48215,7 +48043,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0010532 primitive nephron - + @@ -48228,7 +48056,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 @@ -48244,7 +48072,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -48255,7 +48083,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0010536 nephron progenitor - + @@ -48268,7 +48096,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + cjm @@ -48511,8 +48339,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + Anatomical cluster consisting of the skeletal elements (i.e. bone elements, cartilage elements, cartilage condensations) that are part of an individual subdivision of the organism. Excludes joints. FMA:23879 SCTID:129140006 @@ -48524,11 +48352,11 @@ For example, A and B may be gene products and binding of B by A positively regul subdivision of skeleton - + - + @@ -48541,13 +48369,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + UBERONREF:0000003 - + VSAO @@ -48608,7 +48436,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Subdivision of the skeletal system which consists of the postcranial axial skeleton plus associated joints. axial skeletal system FMA:302077 @@ -48618,7 +48446,7 @@ For example, A and B may be gene products and binding of B by A positively regul postcranial axial skeletal system http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton - + @@ -48631,7 +48459,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + cjm @@ -48655,7 +48483,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -48680,14 +48508,14 @@ For example, A and B may be gene products and binding of B by A positively regul upper urinary tract - + - + FMA @@ -48714,6 +48542,7 @@ For example, A and B may be gene products and binding of B by A positively regul + FBbt:00007330 FMA:67509 SCTID:91690000 uberon @@ -48735,6 +48564,12 @@ For example, A and B may be gene products and binding of B by A positively regul A subdivision of an anatomical system. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00007330 + + @@ -48998,7 +48833,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -49013,14 +48848,14 @@ For example, A and B may be gene products and binding of B by A positively regul We presume this is distinct from AAO:0001003, an external integumentary structure - check with amphibian anatomy ontology developers. AO notes: the text def states mesenchymal swelling, EHDAA2 splits into mesenchymal and epithelial parts embryonic cloacal fold - + - + EHDAA2 @@ -49043,20 +48878,20 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2:0004588 uberon UBERON:0012361 internal anal region - + - + EHDAA2 @@ -49066,20 +48901,20 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2:0004589 uberon UBERON:0012469 external anal region - + - + EHDAA2 @@ -49106,7 +48941,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -49126,14 +48961,14 @@ For example, A and B may be gene products and binding of B by A positively regul skeleton of pelvic complex - + - + FMA @@ -49185,7 +49020,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The precursor of the urethra. SCTID:361531004 Wikipedia:Urethral_groove @@ -49196,14 +49031,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0013241 embryonic urethral groove - + - + Wikipedia @@ -49774,7 +49609,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -49797,7 +49632,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0016887 entire extraembryonic component - + @@ -49810,7 +49645,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + AEO @@ -49938,6 +49773,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0020000 + FBbt:00007276 uberon UBERON:0034923 @@ -49955,6 +49791,12 @@ For example, A and B may be gene products and binding of B by A positively regul Material anatomical entity consisting of multiple anatomical structures that are not connected to each other. CARO:0020000 + + + + FBbt:00007276 + + @@ -50214,7 +50056,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The upper tract of the renal system. The renal pelvis is the large cavity in the middle of each kidney. Urine drains from each kidney through a long tube called the ureter, into the bladder, where it is stored until it is passed from the body through the urethra. NCIT:C54419 @@ -50225,14 +50067,14 @@ For example, A and B may be gene products and binding of B by A positively regul renal pelvis/ureter - + - + NCIT @@ -50573,781 +50415,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - If a molecular function (X) has a regulatory subfunction, then any gene product which is an input to that subfunction has an activity that directly_regulates X. Note: this is intended for cases where the regaultory subfunction is protein binding, so it could be tightened with an additional clause to specify this. - inferring direct reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - inferring direct neg reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - inferring direct positive reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - effector input is compound function input - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Input of effector is input of its parent MF - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly regulates X, its parent MF directly regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly positively regulates X, its parent MF directly positively regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly negatively regulates X, its parent MF directly negatively regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - 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+_:B17b7fe0dX2D5a3aX2D4b6fX2D8abfX2D380bcf1f27e6genid876 +_:B17b7fe0dX2D5a3aX2D4b6fX2D8abfX2D380bcf1f27e6genid883 +_:B17b7fe0dX2D5a3aX2D4b6fX2D8abfX2D380bcf1f27e6genid889 +_:B17b7fe0dX2D5a3aX2D4b6fX2D8abfX2D380bcf1f27e6genid898 +_:B17b7fe0dX2D5a3aX2D4b6fX2D8abfX2D380bcf1f27e6genid904 +_:B17b7fe0dX2D5a3aX2D4b6fX2D8abfX2D380bcf1f27e6genid913 +_:B17b7fe0dX2D5a3aX2D4b6fX2D8abfX2D380bcf1f27e6genid920 +_:B17b7fe0dX2D5a3aX2D4b6fX2D8abfX2D380bcf1f27e6genid933 +_:B17b7fe0dX2D5a3aX2D4b6fX2D8abfX2D380bcf1f27e6genid945 +_:B17b7fe0dX2D5a3aX2D4b6fX2D8abfX2D380bcf1f27e6genid951 +_:B17b7fe0dX2D5a3aX2D4b6fX2D8abfX2D380bcf1f27e6genid957 +_:B17b7fe0dX2D5a3aX2D4b6fX2D8abfX2D380bcf1f27e6genid963 +_:B17b7fe0dX2D5a3aX2D4b6fX2D8abfX2D380bcf1f27e6genid969 +_:B17b7fe0dX2D5a3aX2D4b6fX2D8abfX2D380bcf1f27e6genid975 +_:B17b7fe0dX2D5a3aX2D4b6fX2D8abfX2D380bcf1f27e6genid981 +_:B17b7fe0dX2D5a3aX2D4b6fX2D8abfX2D380bcf1f27e6genid988 +_:B17b7fe0dX2D5a3aX2D4b6fX2D8abfX2D380bcf1f27e6genid996 "cell" "early embryonic cell (metazoa)" "stem cell" @@ -502,7 +492,6 @@ _:B54f689ccX2D0367X2D4df3X2DaeacX2D9aa5d0817600genid994 "renal interstitial pericyte" "interstitial cell" "perivascular cell" - "reproduction" "microtubule cytoskeleton organization" "mitotic cell cycle" "nuclear division" @@ -660,7 +649,6 @@ _:B54f689ccX2D0367X2D4df3X2DaeacX2D9aa5d0817600genid994 "bleb assembly" "multicellular organismal process" "developmental process" - "multicellular organism reproduction" "plasma membrane bounded cell projection cytoplasm" "secretion by cell" "protein-containing complex disassembly" @@ -927,7 +915,6 @@ _:B54f689ccX2D0367X2D4df3X2DaeacX2D9aa5d0817600genid994 "Mus musculus protein" "eukaryotic protein" "angiotensinogenase" - "protein-containing material entity" "processual entity" "tube" "appendage" diff --git a/subsets/blood_and_immune_upper_slim.json b/subsets/blood_and_immune_upper_slim.json index fe2c37d13..bb7421769 100644 --- a/subsets/blood_and_immune_upper_slim.json +++ b/subsets/blood_and_immune_upper_slim.json @@ -4,68 +4,11 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", - "val" : "2024-04-05" + "val" : "2024-05-15" } ], - "version" : "http://purl.obolibrary.org/obo/cl/releases/2024-04-05/subsets/blood_and_immune_upper_slim.owl" + "version" : "http://purl.obolibrary.org/obo/cl/releases/2024-05-15/subsets/blood_and_immune_upper_slim.owl" }, "nodes" : [ { - "id" : "http://purl.obolibrary.org/obo/BFO_0000002", - "lbl" : "continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000003", - "lbl" : "occurrent", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An entity that has temporal parts and that happens, unfolds or develops through time." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000004", - "lbl" : "independent continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" - }, - "comments" : [ "A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000015", - "lbl" : "process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" - }, - "comments" : [ "An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000020", - "lbl" : "specifically dependent continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" - }, - "comments" : [ "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000040", - "lbl" : "material entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." - } - } - }, { "id" : "http://purl.obolibrary.org/obo/BFO_0000050", "lbl" : "part_of", "type" : "PROPERTY", @@ -218,10 +161,6 @@ }, "comments" : [ "Paraphrase of definition: a relation between an independent continuant and a process, in which the process takes place entirely within the independent continuant" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000141", - "lbl" : "immaterial entity", - "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/CL_0000000", "lbl" : "cell", @@ -251,6 +190,8 @@ "val" : "WBbt:0004017" }, { "val" : "XAO:0003012" + }, { + "val" : "ZFA:0009000" } ] } }, { @@ -261,7 +202,10 @@ "definition" : { "val" : "A cell found in the embryo before the formation of all the gem layers is complete.", "xrefs" : [ "GOC:tfm" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009002" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000034", @@ -282,6 +226,8 @@ "val" : "CALOHA:TS-2086" }, { "val" : "FMA:63368" + }, { + "val" : "ZFA:0005957" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -323,6 +269,8 @@ "val" : "MESH:D006412" }, { "val" : "VHOG:0001485" + }, { + "val" : "ZFA:0009014" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -362,6 +310,8 @@ } ], "xrefs" : [ { "val" : "BTO:0004911" + }, { + "val" : "ZFA:0009015" } ] } }, { @@ -392,6 +342,8 @@ "val" : "CALOHA:TS-1195" }, { "val" : "FMA:83553" + }, { + "val" : "ZFA:0009017" } ] } }, { @@ -418,6 +370,8 @@ } ], "xrefs" : [ { "val" : "FMA:84789" + }, { + "val" : "ZFA:0009020" } ] } }, { @@ -468,6 +422,8 @@ } ], "xrefs" : [ { "val" : "BTO:0004730" + }, { + "val" : "ZFA:0009021" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -507,6 +463,9 @@ "pred" : "hasExactSynonym", "val" : "megakaryocyte/erythroid progenitor cell" } ], + "xrefs" : [ { + "val" : "ZFA:0009022" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -553,6 +512,9 @@ "pred" : "hasRelatedSynonym", "val" : "lymphopoietic stem cell" } ], + "xrefs" : [ { + "val" : "ZFA:0009023" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -575,6 +537,8 @@ "val" : "FMA:84790" }, { "val" : "MESH:D039901" + }, { + "val" : "ZFA:0009024" } ] } }, { @@ -617,6 +581,8 @@ "val" : "FMA:70335" }, { "val" : "VHOG:0001529" + }, { + "val" : "ZFA:0009025" } ] } }, { @@ -640,6 +606,8 @@ "val" : "NCIT:C12482" }, { "val" : "VHOG:0001482" + }, { + "val" : "ZFA:0009026" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -672,6 +640,8 @@ "val" : "FMA:66768" }, { "val" : "WBbt:0003672" + }, { + "val" : "ZFA:0009034" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -695,6 +665,9 @@ "pred" : "hasExactSynonym", "val" : "cuboidal endothelial cell of vascular tree" } ], + "xrefs" : [ { + "val" : "ZFA:0009036" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -708,6 +681,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "CALOHA:TS-1249" + }, { + "val" : "ZFA:0009039" } ] } }, { @@ -718,7 +693,10 @@ "definition" : { "val" : "A cell which moves among different tissues of the body, via blood, lymph, or other medium.", "xrefs" : [ "GOC:add" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009043" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000081", @@ -734,6 +712,8 @@ "val" : "FMA:62844" }, { "val" : "MESH:D001773" + }, { + "val" : "ZFA:0009044" } ] } }, { @@ -772,6 +752,8 @@ "val" : "MESH:D013601" }, { "val" : "VHOG:0001479" + }, { + "val" : "ZFA:0009046" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -801,6 +783,8 @@ "val" : "FMA:66781" }, { "val" : "MESH:D010010" + }, { + "val" : "ZFA:0009047" } ] } }, { @@ -831,6 +815,8 @@ "val" : "CALOHA:TS-0422" }, { "val" : "FMA:62854" + }, { + "val" : "ZFA:0009048" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -888,6 +874,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "xrefs" : [ { "val" : "BTO:0001433" + }, { + "val" : "ZFA:0009064" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -915,6 +903,8 @@ "val" : "CALOHA:TS-0278" }, { "val" : "FMA:66772" + }, { + "val" : "ZFA:0009065" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -933,6 +923,9 @@ "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "neurectoderm cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009080" } ] } }, { @@ -999,6 +992,8 @@ "val" : "BTO:0003298" }, { "val" : "FMA:70546" + }, { + "val" : "ZFA:0009081" } ], "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", @@ -1020,6 +1015,9 @@ "synonymType" : "http://purl.obolibrary.org/obo/OMO_0003000", "pred" : "hasRelatedSynonym", "val" : "APC" + } ], + "xrefs" : [ { + "val" : "ZFA:0009088" } ] } }, { @@ -1078,6 +1076,8 @@ "val" : "FMA:67328" }, { "val" : "WBbt:0003675" + }, { + "val" : "ZFA:0009114" } ], "basicPropertyValues" : [ { "pred" : "http://xmlns.com/foaf/0.1/depiction", @@ -1092,7 +1092,10 @@ "definition" : { "val" : "A cell whose function is determined by the generation or the reception of an electric signal.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009128" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000213", @@ -1106,6 +1109,9 @@ "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "boundary cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009130" } ] } }, { @@ -1116,7 +1122,10 @@ "definition" : { "val" : "A cell whose primary function is to prevent the transport of stuff across compartments.", "xrefs" : [ "JB:jb" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009132" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000219", @@ -1126,7 +1135,10 @@ "definition" : { "val" : "A cell that moves by its own activities.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009136" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000221", @@ -1143,6 +1155,8 @@ } ], "xrefs" : [ { "val" : "FMA:72549" + }, { + "val" : "ZFA:0009137" } ] } }, { @@ -1164,6 +1178,8 @@ } ], "xrefs" : [ { "val" : "FMA:72554" + }, { + "val" : "ZFA:0009138" } ] } }, { @@ -1181,6 +1197,8 @@ } ], "xrefs" : [ { "val" : "FMA:72555" + }, { + "val" : "ZFA:0009139" } ] } }, { @@ -1313,6 +1331,8 @@ "val" : "FMA:83806" }, { "val" : "MESH:D010586" + }, { + "val" : "ZFA:0009140" } ] } }, { @@ -1340,6 +1360,8 @@ "val" : "FMA:83585" }, { "val" : "MESH:D008264" + }, { + "val" : "ZFA:0009141" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1376,6 +1398,8 @@ "val" : "MESH:D001402" }, { "val" : "VHOG:0001480" + }, { + "val" : "ZFA:0009142" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1387,6 +1411,10 @@ "lbl" : "eukaryotic cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any cell that only exists in Eukaryota.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "MESH:D005057" @@ -1406,7 +1434,16 @@ }, { "id" : "http://purl.obolibrary.org/obo/CL_0000329", "lbl" : "oxygen accumulating cell", - "type" : "CLASS" + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any cell that is capable of some oxygen transport.", + "xrefs" : [ "FBC:Autogenerated" ] + }, + "xrefs" : [ { + "val" : "ZFA:0009164" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000333", "lbl" : "migratory neural crest cell", @@ -1418,6 +1455,8 @@ }, "xrefs" : [ { "val" : "FMA:86667" + }, { + "val" : "ZFA:0007086" } ] } }, { @@ -1428,7 +1467,10 @@ "definition" : { "val" : "A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors.", "xrefs" : [ "GOC:tfm", "PMID:5025404" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009166" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000352", @@ -1469,7 +1511,10 @@ "definition" : { "val" : "A cell whose function is determined by its response to an electric signal.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009190" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000404", @@ -1479,7 +1524,10 @@ "definition" : { "val" : "A cell that initiates an electrical signal and passes that signal to another cell.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009193" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000451", @@ -1506,6 +1554,8 @@ "val" : "FMA:83036" }, { "val" : "MESH:D003713" + }, { + "val" : "ZFA:0009209" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1515,7 +1565,12 @@ }, { "id" : "http://purl.obolibrary.org/obo/CL_0000457", "lbl" : "biogenic amine secreting cell", - "type" : "CLASS" + "type" : "CLASS", + "meta" : { + "xrefs" : [ { + "val" : "ZFA:0009212" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000458", "lbl" : "serotonin secreting cell", @@ -1531,6 +1586,9 @@ }, { "pred" : "hasExactSynonym", "val" : "5-Hydroxytryptamine secreting cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009213" } ] } }, { @@ -1580,6 +1638,8 @@ "val" : "VHOG:0001483" }, { "val" : "WBbt:0003679" + }, { + "val" : "ZFA:0009248" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1610,6 +1670,8 @@ "val" : "MESH:D008214" }, { "val" : "VHOG:0001535" + }, { + "val" : "ZFA:0009250" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1666,6 +1728,8 @@ } ], "xrefs" : [ { "val" : "FMA:83505" + }, { + "val" : "ZFA:0005236" } ] } }, { @@ -1704,6 +1768,8 @@ } ], "xrefs" : [ { "val" : "FMA:83506" + }, { + "val" : "ZFA:0005241" } ] } }, { @@ -1872,6 +1938,9 @@ "val" : "GMP", "xrefs" : [ "ISBN:0721601464", "PMCID:PMC2213186", "PMCID:PMC548021" ] } ], + "xrefs" : [ { + "val" : "ZFA:0009251" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -1893,6 +1962,8 @@ "val" : "CALOHA:TS-0864" }, { "val" : "MESH:D012156" + }, { + "val" : "ZFA:0009252" } ] } }, { @@ -1910,6 +1981,8 @@ "val" : "BTO:0004657" }, { "val" : "FMA:83551" + }, { + "val" : "ZFA:0009253" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1932,6 +2005,9 @@ }, { "pred" : "hasExactSynonym", "val" : "chondroplast" + } ], + "xrefs" : [ { + "val" : "ZFA:0009258" } ] } }, { @@ -1951,6 +2027,8 @@ "val" : "CALOHA:TS-0638" }, { "val" : "FMA:62864" + }, { + "val" : "ZFA:0009265" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2006,7 +2084,10 @@ "val" : "A non-terminally differentiated cell that is capable of developing into a muscle cell.", "xrefs" : [ "GOC:add" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], + "xrefs" : [ { + "val" : "ZFA:0009291" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000723", @@ -2021,6 +2102,8 @@ "val" : "CALOHA:TS-2086" }, { "val" : "MESH:D053687" + }, { + "val" : "ZFA:0009307" } ] } }, { @@ -2053,6 +2136,8 @@ "val" : "MESH:D007962" }, { "val" : "NCIT:C12529" + }, { + "val" : "ZFA:0009309" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2069,7 +2154,10 @@ "xrefs" : [ "GOC:add", "GOC:tfm", "PMID:16360205" ] }, "comments" : [ "Note that this is a non-mammalian cell type. Use platelet ; CL:0000233 for thrombocytes (platelets) in mammals." ], - "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim" ], + "xrefs" : [ { + "val" : "ZFA:0009323" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000763", @@ -2087,6 +2175,8 @@ "val" : "CALOHA:TS-0647" }, { "val" : "MESH:D022423" + }, { + "val" : "ZFA:0009324" } ] } }, { @@ -2110,6 +2200,8 @@ "val" : "FMA:62845" }, { "val" : "FMA:83516" + }, { + "val" : "ZFA:0009325" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2138,6 +2230,8 @@ "val" : "FMA:83504" }, { "val" : "MESH:D004900" + }, { + "val" : "ZFA:0005237" } ] } }, { @@ -2149,7 +2243,10 @@ "val" : "A cell of the monocyte, granulocyte, or mast cell lineage.", "xrefs" : [ "GOC:add" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], + "xrefs" : [ { + "val" : "ZFA:0009326" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000767", @@ -2286,6 +2383,8 @@ "val" : "FMA:62860" }, { "val" : "MESH:D009504" + }, { + "val" : "ZFA:0009327" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2386,6 +2485,9 @@ }, { "pred" : "hasExactSynonym", "val" : "mature B-lymphocyte" + } ], + "xrefs" : [ { + "val" : "ZFA:0009331" } ] } }, { @@ -2424,6 +2526,8 @@ "val" : "FMA:70574" }, { "val" : "MESH:D010950" + }, { + "val" : "ZFA:0009332" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2449,6 +2553,9 @@ }, { "pred" : "hasExactSynonym", "val" : "alpha-beta T-lymphocyte" + } ], + "xrefs" : [ { + "val" : "ZFA:0009335" } ] } }, { @@ -2479,6 +2586,9 @@ "pred" : "hasRelatedSynonym", "val" : "gd T cell" } ], + "xrefs" : [ { + "val" : "ZFA:0009336" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -2509,6 +2619,9 @@ "val" : "newly formed B cell", "xrefs" : [ "ISBN:781735149" ] } ], + "xrefs" : [ { + "val" : "ZFA:0009343" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -2532,6 +2645,8 @@ "val" : "BTO:0001133" }, { "val" : "CALOHA:TS-0819" + }, { + "val" : "ZFA:0009344" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2572,6 +2687,9 @@ "pred" : "hasNarrowSynonym", "val" : "T3 B cell" } ], + "xrefs" : [ { + "val" : "ZFA:0009345" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -2620,6 +2738,8 @@ } ], "xrefs" : [ { "val" : "BTO:0003104" + }, { + "val" : "ZFA:0009349" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2651,6 +2771,9 @@ }, { "pred" : "hasNarrowSynonym", "val" : "TN1 cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009350" } ] } }, { @@ -2662,7 +2785,10 @@ "val" : "A progenitor cell of the thrombocyte, a nucleated blood cell involved in coagulation typically seen in birds and other non-mammalian vertebrates.", "xrefs" : [ "GOC:add", "GOC:tfm", "PMID:7758949" ] }, - "comments" : [ "Note that this is a non-mammalian cell type." ] + "comments" : [ "Note that this is a non-mammalian cell type." ], + "xrefs" : [ { + "val" : "ZFA:0009351" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000831", @@ -2710,6 +2836,8 @@ "val" : "BTO:0000725" }, { "val" : "CALOHA:TS-0448" + }, { + "val" : "ZFA:0009354" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2737,6 +2865,8 @@ "val" : "CALOHA:TS-2025" }, { "val" : "FMA:70338" + }, { + "val" : "ZFA:0009355" } ] } }, { @@ -2760,6 +2890,8 @@ "val" : "CALOHA:TS-2099" }, { "val" : "FMA:70339" + }, { + "val" : "ZFA:0009356" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2789,6 +2921,8 @@ "val" : "CALOHA:TS-0768" }, { "val" : "FMA:86713" + }, { + "val" : "ZFA:0009357" } ] } }, { @@ -2922,6 +3056,8 @@ "val" : "FMA:70366" }, { "val" : "FMA:83598" + }, { + "val" : "ZFA:0005830" } ] } }, { @@ -3166,6 +3302,8 @@ }, "xrefs" : [ { "val" : "FMA:69074" + }, { + "val" : "ZFA:0009385" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -3190,6 +3328,8 @@ } ], "xrefs" : [ { "val" : "FMA:69076" + }, { + "val" : "ZFA:0009388" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -3400,6 +3540,8 @@ "val" : "FMA:63875" }, { "val" : "MESH:D003239" + }, { + "val" : "ZFA:0009392" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -3424,6 +3566,8 @@ "val" : "FMA:82840" }, { "val" : "WBbt:0007028" + }, { + "val" : "ZFA:0007089" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -3501,6 +3645,9 @@ "xrefs" : [ "GOC:tfm" ] }, "comments" : [ "See CL:0002619." ], + "xrefs" : [ { + "val" : "ZFA:0005773" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0003-1980-3228" @@ -3559,6 +3706,9 @@ "val" : "Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells.", "xrefs" : [ "UBERONREF:0000002" ] }, + "xrefs" : [ { + "val" : "ZFA:0007084" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0001-9114-8737" @@ -5904,7 +6054,7 @@ "xrefs" : [ "GOC:go_curators" ] }, "comments" : [ "Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "extracellular" @@ -6022,7 +6172,7 @@ "xrefs" : [ "ISBN:0198547684" ] }, "comments" : [ "Note that for multicellular organisms, the extracellular space refers to everything outside a cell, but still within the organism (excluding the extracellular matrix). Gene products from a multi-cellular organism that are secreted from a cell into the interstitial fluid or blood can therefore be annotated to this term." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "intercellular space" @@ -6083,7 +6233,7 @@ "val" : "A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell nucleus" @@ -6112,7 +6262,7 @@ "xrefs" : [ "ISBN:0198547684" ] }, "comments" : [ "Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "interphase chromosome" @@ -6160,7 +6310,7 @@ "val" : "The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.", "xrefs" : [ "ISBN:0198547684" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "xrefs" : [ { "val" : "Wikipedia:Cytoplasm" } ], @@ -6221,7 +6371,7 @@ "val" : "A closed structure, found only in eukaryotic cells, that is completely surrounded by unit membrane and contains liquid material. Cells contain one or several vacuoles, that may have different functions from each other. Vacuoles have a diverse array of functions. They can act as a storage organelle for nutrients or waste products, as a degradative compartment, as a cost-effective way of increasing cell size, and as a homeostatic regulator controlling both turgor pressure and pH of the cytosol.", "xrefs" : [ "GOC:mtg_sensu", "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "vacuolar carboxypeptidase Y" @@ -6244,7 +6394,7 @@ "xrefs" : [ "ISBN:0198506732" ] }, "comments" : [ "Note that the Golgi apparatus can be located in various places in the cytoplasm. In plants and lower animal cells, the Golgi apparatus exists as many copies of discrete stacks dispersed throughout the cytoplasm, while the Golgi apparatus of interphase mammalian cells is a juxtanuclear, often pericentriolar reticulum, where the discrete Golgi stacks are stitched together to form a compact and interconnected ribbon, sometimes called the Golgi ribbon." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "Golgi" @@ -6274,7 +6424,7 @@ "val" : "An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "free ribosome", @@ -6309,7 +6459,7 @@ "val" : "The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.", "xrefs" : [ "ISBN:0716731363" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "juxtamembrane" @@ -6399,7 +6549,7 @@ "val" : "Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "DNA metabolism" @@ -6424,7 +6574,7 @@ "val" : "Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Interchromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -6439,7 +6589,7 @@ "val" : "The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "protein anabolism" @@ -6578,7 +6728,7 @@ "xrefs" : [ "GOC:dos", "GOC:dph", "GOC:jl", "GOC:mah" ] }, "comments" : [ "Note that this term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term, for e.g. to transmembrane transport, to microtubule-based transport or to vesicle-mediated transport." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "single-organism transport" @@ -6955,7 +7105,7 @@ "xrefs" : [ "GOC:mah" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "response to abiotic stress" @@ -7047,7 +7197,8 @@ "val" : "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "organelle organisation" @@ -7064,6 +7215,9 @@ "val" : "single-organism organelle organization" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -7086,7 +7240,7 @@ "val" : "The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.", "xrefs" : [ "GOC:go_curators", "GOC:mtg_cell_cycle" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell-division cycle" @@ -7149,20 +7303,8 @@ "xrefs" : [ "GOC:go_curators", "GOC:mtg_signaling_feb11" ] }, "comments" : [ "Note that signal transduction is defined broadly to include a ligand interacting with a receptor, downstream signaling steps and a response being triggered. A change in form of the signal in every step is not necessary. Note that in many cases the end of this process is regulation of the initiation of transcription. Note that specific transcription factors may be annotated to this term, but core/general transcription machinery such as RNA polymerase should not." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by cis-phosphorylation" - }, { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by conformational transition" - }, { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by protein phosphorylation" - }, { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by trans-phosphorylation" - }, { "pred" : "hasNarrowSynonym", "val" : "signaling cascade" }, { @@ -7173,8 +7315,7 @@ "val" : "signaling pathway" }, { "pred" : "hasRelatedSynonym", - "val" : "signalling pathway", - "xrefs" : [ "GOC:mah" ] + "val" : "signalling pathway" } ], "xrefs" : [ { "val" : "Wikipedia:Signal_transduction" @@ -7539,7 +7680,7 @@ "xrefs" : [ "GOC:go_curators", "ISBN:0198547684" ] }, "comments" : [ "Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "metabolism" @@ -7560,6 +7701,9 @@ "val" : "Wikipedia:Metabolism" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/26424" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -7611,7 +7755,7 @@ "val" : "The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.", "xrefs" : [ "GOC:curators", "ISBN:0198547684" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "formation" @@ -7660,7 +7804,8 @@ "val" : "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "biopolymer biosynthetic process", @@ -7684,6 +7829,9 @@ }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/25418" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0043284" @@ -7702,7 +7850,7 @@ "xrefs" : [ "GOC:hb" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "response to environmental stimulus" @@ -7722,7 +7870,7 @@ "xrefs" : [ "GOC:hb" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "response to biotic stress" @@ -7789,7 +7937,7 @@ "val" : "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant.", "xrefs" : [ "GOC:go_curators", "GOC:isa_complete", "GOC:mtg_sensu" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "embryogenesis and morphogenesis" @@ -7989,7 +8137,7 @@ "xrefs" : [ "GOC:lr", "GOC:mtg_apoptosis" ] }, "comments" : [ "Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "regulated cell death" @@ -8151,7 +8299,7 @@ "val" : "A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component.", "xrefs" : [ "GOC:ai", "GOC:jl", "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell organisation" @@ -8235,7 +8383,7 @@ "val" : "A cellular transport process in which transported substances are moved in membrane-bounded vesicles; transported substances are enclosed in the vesicle lumen or located in the vesicle membrane. The process begins with a step that directs a substance to the forming vesicle, and includes vesicle budding and coating. Vesicles are then targeted to, and fuse with, an acceptor membrane.", "xrefs" : [ "GOC:ai", "GOC:mah", "ISBN:08789310662000" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_pombe" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_pombe" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "vesicle transport" @@ -8288,6 +8436,9 @@ "xrefs" : [ "GOC:ma" ] }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002161", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_4751" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -8400,7 +8551,8 @@ "val" : "The chemical reactions and pathways involving a protein. Includes protein modification.", "xrefs" : [ "GOC:ma" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular protein metabolic process" @@ -8426,6 +8578,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/23112" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0006411" @@ -8584,7 +8739,7 @@ "val" : "The cellular process that ensures successive accurate and complete genome replication and chromosome segregation.", "xrefs" : [ "GOC:isa_complete", "GOC:mtg_cell_cycle" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -8599,7 +8754,8 @@ "val" : "A cellular process that results in the breakdown of a cellular component.", "xrefs" : [ "GOC:isa_complete" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell structure disassembly" @@ -8608,6 +8764,9 @@ "val" : "cellular component disassembly at cellular level" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0071845" }, { @@ -8639,7 +8798,7 @@ "val" : "The aggregation, arrangement and bonding together of a cellular component.", "xrefs" : [ "GOC:isa_complete" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell structure assembly" @@ -8713,7 +8872,7 @@ "xrefs" : [ "GOC:mtg_signal", "GOC:mtg_signaling_feb11", "GOC:signaling" ] }, "comments" : [ "Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "biological signaling" @@ -8981,7 +9140,7 @@ "val" : "The cellular developmental process in which a relatively unspecialized cell, e.g. embryonic or regenerative cell, acquires specialized structural and/or functional features that characterize a specific cell. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "xrefs" : [ { "val" : "Wikipedia:Cellular_differentiation" } ], @@ -9414,7 +9573,7 @@ "val" : "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues.", "xrefs" : [ "GOC:BHF", "GOC:mah", "GOC:rph", "NIF_Subcellular:nlx_subcell_20090513", "PMID:21123617", "PMID:28089324" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "proteinaceous extracellular matrix" @@ -9692,7 +9851,7 @@ "xrefs" : [ "GOC:mah" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -9708,7 +9867,7 @@ "xrefs" : [ "GOC:mah" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "up regulation of response to external stimulus" @@ -9739,6 +9898,7 @@ "val" : "Any biological process, occurring at the level of a multicellular organism, pertinent to its function.", "xrefs" : [ "GOC:curators", "GOC:dph", "GOC:isa_complete", "GOC:tb" ] }, + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", @@ -9748,6 +9908,9 @@ "val" : "single-multicellular organism process" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://purl.obolibrary.org/obo/RO_0002161", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_2" }, { @@ -9913,7 +10076,7 @@ "xrefs" : [ "GOC:dos", "GOC:mah" ] }, "comments" : [ "A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "macromolecular complex" @@ -10167,7 +10330,7 @@ "val" : "Receiving a signal and transmitting it in the cell to initiate a change in cell activity. A signal is a physical entity or change in state that is used to transfer information in order to trigger a response.", "xrefs" : [ "GOC:bf", "GOC:signaling" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "receptor activity" @@ -10486,7 +10649,7 @@ "xrefs" : [ "GOC:jl" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "response to chemical stimulus", @@ -10581,14 +10744,17 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Primary lysosomal granule found in neutrophil granulocytes. Contains a wide range of hydrolytic enzymes and is released into the extracellular fluid.", - "xrefs" : [ "GOC:jl", "PMID:17152095" ] + "val" : "Primary lysosomal granule readily stainable with a Romanowsky stain.", + "xrefs" : [ "GOC:jl", "PMID:17152095", "PMID:28717070", "PMID:5914694", "WIKIPEDIA:Azurophilic_granule" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "primary granule" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27231" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] @@ -10674,7 +10840,7 @@ "val" : "A prolongation or process extending from a cell, e.g. a flagellum or axon.", "xrefs" : [ "GOC:jl", "http://www.cogsci.princeton.edu/~wn/" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "cell process" @@ -10785,7 +10951,7 @@ "val" : "Organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton, and prokaryotic structures such as anammoxosomes and pirellulosomes. Excludes the plasma membrane.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "xrefs" : [ { "val" : "NIF_Subcellular:sao1539965131" }, { @@ -11086,7 +11252,7 @@ "val" : "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism.", "xrefs" : [ "GOC:go_curators", "http://www.metacyc.org" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "primary metabolism" @@ -11108,6 +11274,8 @@ "val" : "The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells.", "xrefs" : [ "GOC:jl" ] }, + "comments" : [ "This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular anabolism" @@ -11122,6 +11290,9 @@ "val" : "cellular synthesis" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27052" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -11252,7 +11423,7 @@ "val" : "The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane.", "xrefs" : [ "GOC:aruk", "ISBN:0198506732", "PMID:24619342", "PMID:29383328", "PMID:31998110" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_synapse" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_synapse" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "synaptic junction" @@ -11659,7 +11830,7 @@ "xrefs" : [ "GOC:jid" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -11675,7 +11846,7 @@ "xrefs" : [ "GOC:jid" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "up regulation of response to stimulus" @@ -11707,7 +11878,7 @@ "xrefs" : [ "GOC:jid" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "down regulation of response to stimulus" @@ -11859,7 +12030,7 @@ "val" : "The biological process whose specific outcome is the progression of an anatomical structure from an initial condition to its mature state. This process begins with the formation of the structure and ends with the mature structure, whatever form that may be including its natural destruction. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome.", "xrefs" : [ "GO_REF:0000021" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "development of an anatomical structure" @@ -11895,7 +12066,7 @@ "val" : "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another.", "xrefs" : [ "GOC:dgh", "GOC:dph", "GOC:isa_complete", "GOC:mlg" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell locomotion" @@ -11909,6 +12080,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/19809" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002161", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_4890" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -12132,6 +12306,9 @@ "xrefs" : [ "GOC:ai" ] }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002161", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_4890" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -12189,7 +12366,7 @@ "xrefs" : [ "GOC:ai", "GOC:bf" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "physiological response to stimulus" @@ -12285,7 +12462,7 @@ "val" : "Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation.", "xrefs" : [ "GOC:ai", "GOC:dos" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "establishment and maintenance of localization" @@ -12314,6 +12491,9 @@ "val" : "single-organism localization" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27052" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -12521,7 +12701,7 @@ "xrefs" : [ "GOC:bf", "GOC:jl" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -12537,7 +12717,7 @@ "xrefs" : [ "GOC:dph", "GOC:jid" ] }, "comments" : [ "Transmembrane transport is the transport of a solute across a lipid bilayer. Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane and is not traversed. For transport through the nuclear pore, consider instead the term 'nucleocytoplasmic transport ; GO:0006913' and its children. Note also that this term is not intended for use in annotating lateral movement within membranes." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "membrane transport" @@ -12568,7 +12748,7 @@ "val" : "A compound molecular function in which an effector function is controlled by one or more regulatory components.", "xrefs" : [ "GOC:dos", "GOC:pdt" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" @@ -12969,7 +13149,7 @@ "xrefs" : [ "GOC:mah" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "mah" @@ -13192,7 +13372,8 @@ "val" : "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular component organisation or biogenesis", @@ -13206,6 +13387,9 @@ "val" : "cellular component organization or biogenesis at cellular level" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "mah" }, { @@ -13494,7 +13678,7 @@ "xrefs" : [ "GOC:dos" ] }, "comments" : [ "Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "region of plasma membrane" @@ -13666,7 +13850,7 @@ "xrefs" : [ "GOC:dos" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" @@ -14006,6 +14190,7 @@ "val" : "The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon.", "xrefs" : [ "GOC:TermGenie", "GOC:pr" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "organic molecular entity anabolism", @@ -14039,6 +14224,9 @@ "val" : "organic substance synthesis" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/26424" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "pr" }, { @@ -19350,38 +19538,6 @@ "val" : "protein" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/PR_000050567", - "lbl" : "protein-containing material entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A material entity that minimally consists of a protein.", - "xrefs" : [ "PRO:DAN" ] - }, - "comments" : [ "Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566)." ], - "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "protein", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein aggregate", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein complex", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein-containing complex", - "xrefs" : [ "PRO:DAN" ] - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "protein" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000052", "lbl" : "characteristic of", @@ -19455,20 +19611,6 @@ "val" : "has_participant" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000079", - "lbl" : "function of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000080", "lbl" : "quality of", @@ -19483,33 +19625,6 @@ "val" : "A quality inheres in its bearer at all times for which the quality exists." } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000081", - "lbl" : "role of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000085", - "lbl" : "has function", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000086", "lbl" : "has quality", @@ -19523,39 +19638,6 @@ "val" : "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000087", - "lbl" : "has role", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000091", - "lbl" : "has disposition", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000092", - "lbl" : "disposition of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "inverse of has disposition" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0001000", "lbl" : "derives from", @@ -19678,104 +19760,6 @@ "val" : "bounding_layer_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002013", - "lbl" : "has regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." - }, - "xrefs" : [ { - "val" : "RO:0002013" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:30:46Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "has_regulatory_component_activity" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002014", - "lbl" : "has negative regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." - }, - "comments" : [ "By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'." ], - "xrefs" : [ { - "val" : "RO:0002014" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:31:01Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "has_negative_regulatory_component_activity" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002015", - "lbl" : "has positive regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." - }, - "comments" : [ "By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:31:17Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002017", - "lbl" : "has component activity", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:44:33Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002018", - "lbl" : "has component process", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:49:21Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002021", "lbl" : "occurs across", @@ -19792,72 +19776,6 @@ "val" : "2017-07-20T17:19:37Z" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002022", - "lbl" : "directly regulated by", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:24Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002023", - "lbl" : "directly negatively regulated by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:38Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002024", - "lbl" : "directly positively regulated by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:47Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002025", - "lbl" : "has effector activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "comments" : [ "This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-22T14:14:36Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002081", "lbl" : "before or simultaneous with", @@ -21007,20 +20925,6 @@ "val" : "A relationship that holds between entities participating in some developmental process (GO:0032502)" } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002327", - "lbl" : "enables", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c enables p iff c is capable of p and c acts to execute p." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Enables" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002328", "lbl" : "functionally related to", @@ -21048,19 +20952,6 @@ "val" : "holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002331", - "lbl" : "involved in", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved_in p if and only if c enables some process p', and p' is part of p" - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Involved_in" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002332", "lbl" : "regulates levels of", @@ -21080,20 +20971,6 @@ "val" : "regulates_levels_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002333", - "lbl" : "enabled by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "inverse of enables" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Enabled_by" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002334", "lbl" : "regulated by", @@ -21489,48 +21366,6 @@ "val" : "causally_downstream_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002405", - "lbl" : "immediately causally downstream of", - "type" : "PROPERTY", - "meta" : { - "xrefs" : [ { - "val" : "RO:0002405" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "immediately_causally_downstream_of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002407", - "lbl" : "indirectly positively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Indirectly_positively_regulates" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002409", - "lbl" : "indirectly negatively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Indirectly_negatively_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002410", "lbl" : "causally related to", @@ -21565,25 +21400,6 @@ "val" : "causally_upstream_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002412", - "lbl" : "immediately causally upstream of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." - }, - "xrefs" : [ { - "val" : "RO:0002412" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "immediately_causally_upstream_of" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002418", "lbl" : "causally upstream of or within", @@ -21639,28 +21455,6 @@ "val" : "c involved in regulation of p if c is involved in some p' and p' regulates some p" } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002429", - "lbl" : "involved in positive regulation of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002430", - "lbl" : "involved in negative regulation of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002428" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002431", "lbl" : "involved in or involved in regulation of", @@ -21674,25 +21468,6 @@ "val" : "OWL does not allow defining object properties via a Union" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002432", - "lbl" : "is active in", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure.", - "xrefs" : [ "https://orcid.org/0000-0002-6601-2165", "https://orcid.org/0000-0002-7073-9172" ] - }, - "comments" : [ "" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "enables activity in" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Is_active_in" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002433", "lbl" : "contributes to morphology of", @@ -21702,96 +21477,6 @@ "val" : "p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002434", - "lbl" : "interacts with", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "in pairwise interaction with" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Considering relabeling as 'pairwise interacts with'" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002436", - "lbl" : "molecularly interacts with", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ECO_0000353" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002447", - "lbl" : "phosphorylates", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Axiomatization to GO to be added later" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002448", - "lbl" : "directly regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly controls" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002449", - "lbl" : "directly negatively regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly decreases activity of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002450", - "lbl" : "directly positively regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly increases activity of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002464", - "lbl" : "helper property (not for use in curation)", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002473", "lbl" : "composed primarily of", @@ -21812,10 +21497,6 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002481", - "lbl" : "is kinase activity", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002485", "lbl" : "receives input from", @@ -21968,16 +21649,6 @@ "val" : "http://purl.obolibrary.org/obo/BFO_0000169" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002506", - "lbl" : "causal relation between entities", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002551", "lbl" : "has skeleton", @@ -21987,27 +21658,6 @@ "val" : "A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002559", - "lbl" : "causally influenced by", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002563", - "lbl" : "interaction relation helper property", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002564", - "lbl" : "molecular interaction relation helper property", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002565", "lbl" : "results in movement of", @@ -22028,15 +21678,6 @@ "val" : "results_in_movement_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002566", - "lbl" : "causally influences", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." - } - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002567", "lbl" : "biomechanically related to", @@ -22105,26 +21746,6 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002578", - "lbl" : "directly regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly regulates q iff p is immediately causally upstream of q and p regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002578" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002584", "lbl" : "has part structure that is capable of", @@ -22254,55 +21875,6 @@ "val" : "process_has_causal_agent" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002629", - "lbl" : "directly positively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002629" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_positively_regulates" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Directly_positively_regulates" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002630", - "lbl" : "directly negatively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002630" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_negatively_regulates" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Directly_negatively_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0003000", "lbl" : "produces", @@ -22424,102 +21996,6 @@ "val" : "has_primary_input" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004031", - "lbl" : "enables subfunction", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-25T23:20:13Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004032", - "lbl" : "acts upstream of or within, positive effect", - "type" : "PROPERTY", - "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:49:30Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004033", - "lbl" : "acts upstream of or within, negative effect", - "type" : "PROPERTY", - "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:49:51Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004034", - "lbl" : "acts upstream of, positive effect", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:53:14Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004035", - "lbl" : "acts upstream of, negative effect", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:53:22Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0004046", "lbl" : "causally upstream of or within, negative effect", @@ -22568,15 +22044,6 @@ "val" : "2018-03-14T00:03:24Z" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0011002", - "lbl" : "regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." - } - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0012000", "lbl" : "has small molecule regulator", @@ -22702,38 +22169,6 @@ "val" : "results_in_fusion_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0012011", - "lbl" : "indirectly causally upstream of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0003-1813-6857" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2022-09-26T06:07:17Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0012012", - "lbl" : "indirectly regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0003-1813-6857" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2022-09-26T06:08:01Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0013001", "lbl" : "has synaptic IO in region", @@ -22873,75 +22308,15 @@ "pred" : "hasBroadSynonym", "val" : "utilizes" } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2021-11-08T12:00:00Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019000", - "lbl" : "regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019000" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "regulates_characteristic" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019001", - "lbl" : "positively regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019001" - } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" + "val" : "https://orcid.org/0000-0001-9625-1899" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "positively_regulates_characteristic" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019002", - "lbl" : "negatively regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019002" - } ], - "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" + "val" : "https://orcid.org/0000-0003-2620-0345" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "negatively_regulates_characteristic" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2021-11-08T12:00:00Z" } ] } }, { @@ -23103,6 +22478,8 @@ "val" : "EHDAA2:0003003" }, { "val" : "EMAPA:0" + }, { + "val" : "FBbt:00007001" }, { "val" : "FMA:305751" }, { @@ -23938,6 +23315,8 @@ "val" : "EHDAA:542" }, { "val" : "EMAPA:16262" + }, { + "val" : "FBbt:00003126" }, { "val" : "FMA:49184" }, { @@ -24263,6 +23642,8 @@ "val" : "EHDAA2:0003004" }, { "val" : "EMAPA:35178" + }, { + "val" : "FBbt:00007019" }, { "val" : "FMA:9669" }, { @@ -24335,6 +23716,8 @@ "val" : "CARO:0000005" }, { "val" : "EHDAA2:0003005" + }, { + "val" : "FBbt:00007017" }, { "val" : "FMA:5897" }, { @@ -24388,6 +23771,8 @@ "val" : "CARO:0000006" }, { "val" : "EHDAA2:0003006" + }, { + "val" : "FBbt:00007016" }, { "val" : "FMA:67165" }, { @@ -24438,6 +23823,8 @@ "val" : "CARO:0000007" }, { "val" : "EHDAA2:0003007" + }, { + "val" : "FBbt:00007015" }, { "val" : "FMA:67112" }, { @@ -24516,6 +23903,8 @@ "val" : "EMAPA:16103" }, { "val" : "EV:0100000" + }, { + "val" : "FBbt:00004856" }, { "val" : "FMA:7149" }, { @@ -24628,6 +24017,8 @@ "val" : "EMAPA:25765" }, { "val" : "EV:0100016" + }, { + "val" : "FBbt:00000001" }, { "val" : "FMA:256135" }, { @@ -24718,6 +24109,8 @@ "val" : "EHDAA2:0003032" }, { "val" : "EMAPA:36031" + }, { + "val" : "FBbt:00007009" }, { "val" : "FMA:7153" }, { @@ -24792,6 +24185,8 @@ "val" : "CARO:0000040" }, { "val" : "EHDAA2:0003040" + }, { + "val" : "FBbt:00007013" }, { "val" : "FMA:63863" }, { @@ -24830,6 +24225,8 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy", "http://purl.obolibrary.org/obo/uberon/core#upper_level" ], "xrefs" : [ { + "val" : "FBbt:00007277" + }, { "val" : "VHOG:0001737" } ], "basicPropertyValues" : [ { @@ -24886,6 +24283,8 @@ "val" : "EHDAA2:0003043" }, { "val" : "EMAPA:35868" + }, { + "val" : "FBbt:00007003" }, { "val" : "FMA:9637" }, { @@ -24956,6 +24355,8 @@ "val" : "CARO:0000055" }, { "val" : "EHDAA2:0003055" + }, { + "val" : "FBbt:00007010" }, { "val" : "HAO:0000055" }, { @@ -25020,6 +24421,8 @@ "val" : "EHDAA2:0003066" }, { "val" : "EMAPA:32738" + }, { + "val" : "FBbt:00007005" }, { "val" : "FMA:9639" }, { @@ -25253,6 +24656,8 @@ "val" : "EHDAA:38" }, { "val" : "EMAPA:16039" + }, { + "val" : "FBbt:00000052" }, { "val" : "FMA:69068" }, { @@ -25331,6 +24736,8 @@ "val" : "BTO:0000556" }, { "val" : "EMAPA:36033" + }, { + "val" : "FBbt:00000110" }, { "val" : "FMA:69069" }, { @@ -25392,6 +24799,8 @@ "val" : "EMAPA:16069" }, { "val" : "EV:0100003" + }, { + "val" : "FBbt:00000111" }, { "val" : "FMA:69070" }, { @@ -25461,6 +24870,8 @@ "val" : "EMAPA:16062" }, { "val" : "EV:0100005" + }, { + "val" : "FBbt:00000125" }, { "val" : "FMA:69071" }, { @@ -25543,6 +24954,8 @@ "val" : "EMAPA:16083" }, { "val" : "EV:0100006" + }, { + "val" : "FBbt:00000126" }, { "val" : "FMA:69072" }, { @@ -25632,6 +25045,8 @@ "val" : "EHDAA2:0001929" }, { "val" : "EMAPA:16263" + }, { + "val" : "FBbt:00000439" }, { "val" : "FMA:295846" }, { @@ -25870,6 +25285,8 @@ "val" : "CALOHA:TS-1293" }, { "val" : "EFO:0000793" + }, { + "val" : "FBbt:00005055" }, { "val" : "FMA:7152" }, { @@ -26073,6 +25490,8 @@ "val" : "EMAPA:16469" }, { "val" : "EV:0100162" + }, { + "val" : "FBbt:00005093" }, { "val" : "FMA:7157" }, { @@ -26175,6 +25594,8 @@ "val" : "EMAPA:16754" }, { "val" : "EV:0100163" + }, { + "val" : "FBbt:00005094" }, { "val" : "FMA:55675" }, { @@ -26252,6 +25673,8 @@ "val" : "EFO:0001652" }, { "val" : "EHDAA2:0003171" + }, { + "val" : "FBbt:00005495" }, { "val" : "FMA:86589" }, { @@ -26367,6 +25790,8 @@ "val" : "CARO:0000000" }, { "val" : "EHDAA2:0002229" + }, { + "val" : "FBbt:10000000" }, { "val" : "FMA:62955" }, { @@ -26591,6 +26016,8 @@ "val" : "EHDAA:518" }, { "val" : "EMAPA:16247" + }, { + "val" : "FBbt:00003125" }, { "val" : "FMA:45615" }, { @@ -26936,6 +26363,8 @@ "val" : "CALOHA:TS-2110" }, { "val" : "EFO:0000461" + }, { + "val" : "FBbt:00004208" }, { "val" : "FMA:69067" }, { @@ -27357,6 +26786,8 @@ "val" : "BTO:0001707" }, { "val" : "EHDAA2:0000267" + }, { + "val" : "FBbt:00005060" }, { "val" : "FMA:85006" }, { @@ -27670,6 +27101,8 @@ "val" : "EMAPA:16073" }, { "val" : "EV:0100004" + }, { + "val" : "FBbt:00001057" }, { "val" : "FMA:87657" }, { @@ -28820,6 +28253,8 @@ "val" : "AEO:0000114" }, { "val" : "EHDAA2:0003114" + }, { + "val" : "FBbt:00007474" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -29403,6 +28838,8 @@ "val" : "BILA:0000060" }, { "val" : "BTO:0001403" + }, { + "val" : "FBbt:00005317" }, { "val" : "FMA:293108" }, { @@ -29673,6 +29110,9 @@ "pred" : "hasNarrowSynonym", "val" : "joint" } ], + "xrefs" : [ { + "val" : "FBbt:00005811" + } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -29708,6 +29148,8 @@ "xrefs" : [ "FMA:71131" ] } ], "xrefs" : [ { + "val" : "FBbt:00100315" + }, { "val" : "FMA:71131" } ], "basicPropertyValues" : [ { @@ -30034,6 +29476,8 @@ "val" : "CALOHA:TS-2122" }, { "val" : "EHDAA2:0003125" + }, { + "val" : "FBbt:00007006" }, { "val" : "FMA:292313" }, { @@ -30944,6 +30388,8 @@ "val" : "EFO:0001649" }, { "val" : "EHDAA2:0003170" + }, { + "val" : "FBbt:00005426" }, { "val" : "Wikipedia:Anlage_(biology)" } ], @@ -31102,6 +30548,8 @@ } ], "xrefs" : [ { "val" : "CARO:0010000" + }, { + "val" : "FBbt:00100313" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -31311,6 +30759,8 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#upper_level" ], "xrefs" : [ { + "val" : "FBbt:00007330" + }, { "val" : "FMA:67509" }, { "val" : "SCTID:91690000" @@ -31679,6 +31129,8 @@ }, "xrefs" : [ { "val" : "AEO:0000093" + }, { + "val" : "FBbt:00007278" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -31910,6 +31362,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy" ], "xrefs" : [ { "val" : "CARO:0020000" + }, { + "val" : "FBbt:00007276" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -32447,26 +31901,6 @@ } } ], "edges" : [ { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000004", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000015", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000020", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000040", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000141", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000000", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" @@ -32590,10 +32024,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000040", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000040", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -32794,10 +32224,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000092", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000092", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -32848,10 +32274,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000094", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000094", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -32898,10 +32320,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000097", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0002274" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000097", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000097", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -33294,10 +32712,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000451", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000145" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000451", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000451", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -33378,10 +32792,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000542", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000842" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000542", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000542", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -33412,10 +32822,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000547", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0002242" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000547", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000547", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -33490,10 +32896,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000549", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000549", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -33516,10 +32918,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000550", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000550", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -33666,10 +33064,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000557", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_1001610" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000557", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000557", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -33708,10 +33102,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000558", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000558", "pred" : "http://purl.obolibrary.org/obo/CL_4030046", @@ -33782,10 +33172,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000559", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000559", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -33812,10 +33198,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000566", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0011026" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000566", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000566", "pred" : "http://purl.obolibrary.org/obo/RO_0002104", @@ -34370,10 +33752,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000826", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000826", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -34448,10 +33826,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000831", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000831", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -34556,10 +33930,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000837", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0008001" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000837", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000837", "pred" : "http://purl.obolibrary.org/obo/CL_4030046", @@ -34684,10 +34054,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000889", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000889", "pred" : "http://purl.obolibrary.org/obo/RO_0000053", @@ -34982,10 +34348,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0002028", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0002191" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0002028", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002028", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -36106,10 +35468,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0003013", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0003008" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0003674", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000015" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0004888", "pred" : "is_a", @@ -36122,10 +35480,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0004930", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/GO_0007186" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0005575", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005576", "pred" : "is_a", @@ -36246,8 +35600,8 @@ "obj" : "http://purl.obolibrary.org/obo/GO_0043232" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005840", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", + "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005840", "pred" : "http://purl.obolibrary.org/obo/RO_0002216", @@ -36267,7 +35621,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006259", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0043170" + "obj" : "http://purl.obolibrary.org/obo/GO_0008152" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006310", "pred" : "is_a", @@ -36620,10 +35974,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0008015", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0003013" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0008150", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000015" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0008152", "pred" : "is_a", @@ -37000,6 +36350,10 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0030097", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0048468" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0030097", + "pred" : "http://purl.obolibrary.org/obo/RO_0002160", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0030097", "pred" : "http://purl.obolibrary.org/obo/RO_0002296", @@ -37334,8 +36688,8 @@ "obj" : "http://purl.obolibrary.org/obo/GO_0005575" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0032991", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", + "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0032993", "pred" : "is_a", @@ -37516,10 +36870,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0042330", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/GO_0009605" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0042391", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0042391", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -37544,10 +36894,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0042582", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0030141" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0042582", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/CL_0000775" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0042592", "pred" : "is_a", @@ -38572,10 +37918,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0098644", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0099080" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0098644", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0098644", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -39020,10 +38362,6 @@ "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_9989", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_314147" - }, { - "sub" : "http://purl.obolibrary.org/obo/PATO_0000001", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000020" }, { "sub" : "http://purl.obolibrary.org/obo/PATO_0000051", "pred" : "is_a", @@ -39588,14 +38926,6 @@ "sub" : "http://purl.obolibrary.org/obo/PR_000040662", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_33208" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000050567", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000050567", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", - "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000025", "pred" : "is_a", @@ -39660,10 +38990,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000064", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000062" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", "pred" : "is_a", @@ -39680,10 +39006,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", "pred" : "http://purl.obolibrary.org/obo/BFO_0000063", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000071" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", "pred" : "is_a", @@ -39700,10 +39022,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", "pred" : "http://purl.obolibrary.org/obo/RO_0002082", "obj" : "http://purl.obolibrary.org/obo/GO_0009790" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000071", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000071", "pred" : "is_a", @@ -39734,10 +39052,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000075", "pred" : "http://purl.obolibrary.org/obo/RO_0002473", "obj" : "http://purl.obolibrary.org/obo/UBERON_0004765" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", "pred" : "is_a", @@ -39750,10 +39064,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", "pred" : "http://purl.obolibrary.org/obo/RO_0002082", "obj" : "http://purl.obolibrary.org/obo/GO_0009791" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", "pred" : "is_a", @@ -39774,10 +39084,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000105", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000104" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", "pred" : "is_a", @@ -39790,10 +39096,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", "pred" : "http://purl.obolibrary.org/obo/RO_0002223", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000104" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", "pred" : "is_a", @@ -39810,10 +39112,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", "pred" : "http://purl.obolibrary.org/obo/RO_0002087", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000106" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", "pred" : "is_a", @@ -39826,10 +39124,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", "pred" : "http://purl.obolibrary.org/obo/BFO_0000062", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000107" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", "pred" : "is_a", @@ -39856,10 +39150,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", "pred" : "is_a", @@ -39880,10 +39170,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000111", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000111", "pred" : "is_a", @@ -39912,10 +39198,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000165", "pred" : "http://purl.obolibrary.org/obo/RO_0002202", "obj" : "http://purl.obolibrary.org/obo/UBERON_0035804" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000178", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000178", "pred" : "is_a", @@ -40018,18 +39300,10 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000464", "pred" : "http://purl.obolibrary.org/obo/RO_0002219", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000465", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000465", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001062" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000466", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000141" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000466", "pred" : "is_a", @@ -40104,10 +39378,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000481", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000479" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000483", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000483", "pred" : "is_a", @@ -40537,10 +39807,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0001630", "pred" : "http://purl.obolibrary.org/obo/RO_0002473", "obj" : "http://purl.obolibrary.org/obo/UBERON_0002385" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0001969", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0001969", "pred" : "is_a", @@ -40557,10 +39823,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0001969", "pred" : "http://purl.obolibrary.org/obo/RO_0002221", "obj" : "http://purl.obolibrary.org/obo/CL_0000232" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0001981", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0001981", "pred" : "is_a", @@ -41535,10 +40797,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0004291", "pred" : "http://purl.obolibrary.org/obo/RO_0002202", "obj" : "http://purl.obolibrary.org/obo/UBERON_0004139" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0004535", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0004535", "pred" : "is_a", @@ -41555,10 +40813,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0004535", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001981" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0004537", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0004537", "pred" : "is_a", @@ -41885,10 +41139,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0005764", "pred" : "http://purl.obolibrary.org/obo/RO_0002007", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0005769", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0005769", "pred" : "is_a", @@ -42095,10 +41345,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0006914", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/CL_0000076" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0006965", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0006965", "pred" : "is_a", @@ -42412,10 +41658,6 @@ "val" : "CARO" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0010210", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0010210", "pred" : "is_a", @@ -42926,38 +42168,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0000052", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002314" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000079", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000080", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000052" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000081", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000085", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000086", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000087", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000091", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000092", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002000", "pred" : "subPropertyOf", @@ -42974,58 +42192,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002007", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000050" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002013", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002017" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002013", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002334" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002014", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002013" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002014", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002335" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002015", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002013" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002015", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002336" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002017", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002018" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002018", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002180" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002021", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002479" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002022", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002334" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002023", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002022" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002024", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002022" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002025", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002017" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002081", "pred" : "subPropertyOf", @@ -43398,34 +42568,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002315", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0040036" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002327", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002215" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002329", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002331", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000056" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002331", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002431" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002332", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002333", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000057" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002333", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002334", "pred" : "subPropertyOf", @@ -43578,30 +42728,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002404", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002427" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002087" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002404" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002407", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002213" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002407", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012012" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002409", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002212" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002409", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012012" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002411", "pred" : "subPropertyOf", @@ -43610,14 +42736,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002411", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002418" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002412", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002090" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002412", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002411" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002418", "pred" : "subPropertyOf", @@ -43634,14 +42752,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002428", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002431" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002429", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002428" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002430", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002428" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002431", "pred" : "subPropertyOf", @@ -43654,50 +42764,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002431", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002500" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002432", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002131" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002432", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002433", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002131" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002436", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002434" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002447", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002436" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002448", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002436" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002448", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0011002" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002449", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002448" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002450", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002448" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002473", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000051" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002481", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002564" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002485", "pred" : "subPropertyOf", @@ -43770,34 +42844,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002501", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002410" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002506", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002410" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002551", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000051" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002559", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002506" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002563", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002464" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002564", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002563" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002565", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0040036" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002566", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002506" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002567", "pred" : "subPropertyOf", @@ -43830,14 +42884,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002576", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000050" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002578", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002211" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002578", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002412" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002584", "pred" : "subPropertyOf", @@ -43894,22 +42940,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002608", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002410" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002629", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002213" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002629", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002630", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002212" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002630", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002578" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0004007", "pred" : "subPropertyOf", @@ -43930,34 +42960,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0004009", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0004007" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004031", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004032", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004033", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004034", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004034", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0004032" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004035", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004035", - "pred" : 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"http://purl.obolibrary.org/obo/BFO_0000040" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0011002", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0015006", "domainClassIds" : [ "http://purl.obolibrary.org/obo/PATO_0000001" ], @@ -48105,21 +46851,11 @@ "predicateId" : "http://purl.obolibrary.org/obo/RO_0015016", "domainClassIds" : [ "http://purl.obolibrary.org/obo/CL_0000000" ] }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019000", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/PATO_0000001" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0000053", - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000020" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002007", - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] + "predicateId" : "http://purl.obolibrary.org/obo/RO_0002206", + "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000465" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002315", "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002571", - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] } ], "propertyChainAxioms" : [ { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002131", @@ -48205,24 +46941,9 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002226", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002207", "http://purl.obolibrary.org/obo/RO_0001025" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002211", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0002025" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019000", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0019000" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002213", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002212", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019002", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002212", "http://purl.obolibrary.org/obo/RO_0019001" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019001", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002213", "http://purl.obolibrary.org/obo/RO_0019001" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019002", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002213", "http://purl.obolibrary.org/obo/RO_0019002" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002162", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002215", "http://purl.obolibrary.org/obo/RO_0002162" ] @@ -48283,87 +47004,12 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002314", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002314", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002331", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002327", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000051" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004031", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000051" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002327", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002017" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002428", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002211" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002448", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002430", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002429", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002213" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004034", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002304" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004035", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002305" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002263", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002566", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411", "http://purl.obolibrary.org/obo/RO_0002233" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002566", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002264", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002418" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002450", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002449", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004033", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0004046" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004032", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0004047" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002331", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002428", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002211" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002430", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002429", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002213" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002338", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002338", "http://purl.obolibrary.org/obo/BFO_0000050" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002339", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002339", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002407", "http://purl.obolibrary.org/obo/RO_0002629" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002409", "http://purl.obolibrary.org/obo/RO_0002409" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002409", "http://purl.obolibrary.org/obo/RO_0002630" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002488", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002488", "http://purl.obolibrary.org/obo/BFO_0000050" ] @@ -48391,21 +47037,6 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/uberon/core#indirectly_supplies", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002569", "http://purl.obolibrary.org/obo/uberon/core#indirectly_supplies" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002211", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002578", "http://purl.obolibrary.org/obo/RO_0002578" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002407" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002629" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002409" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002630" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0013001", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0013001", "http://purl.obolibrary.org/obo/BFO_0000050" ] diff --git a/subsets/blood_and_immune_upper_slim.obo b/subsets/blood_and_immune_upper_slim.obo index 671299a14..5f0fdb066 100644 --- a/subsets/blood_and_immune_upper_slim.obo +++ b/subsets/blood_and_immune_upper_slim.obo @@ -1,5 +1,5 @@ format-version: 1.2 -data-version: cl/releases/2024-04-05/subsets/blood_and_immune_upper_slim.owl +data-version: cl/releases/2024-05-15/subsets/blood_and_immune_upper_slim.owl subsetdef: abnormal_slim "" subsetdef: added_for_HCA "" subsetdef: attribute_slim "" @@ -19,19 +19,21 @@ subsetdef: eye_upper_slim "a subset of general classes related to specific cell subsetdef: functional_classification "" subsetdef: general_cell_types_upper_slim "a subset of general classes of cell types in the cell ontology." subsetdef: gocheck_do_not_annotate "" -subsetdef: gocheck_do_not_manually_annotate "" subsetdef: goslim_agr "" subsetdef: goslim_candida "" subsetdef: goslim_chembl "" subsetdef: goslim_drosophila "" +subsetdef: goslim_euk_cellular_processes_ribbon "" subsetdef: goslim_flybase_ribbon "" subsetdef: goslim_generic "" subsetdef: goslim_metagenomics "" subsetdef: goslim_mouse "" subsetdef: goslim_pir "" subsetdef: goslim_plant "" +subsetdef: goslim_plant_ribbon "" subsetdef: goslim_pombe "" subsetdef: goslim_prokaryote "" +subsetdef: goslim_prokaryote_ribbon "" subsetdef: goslim_synapse "" subsetdef: goslim_yeast "" subsetdef: grouping_class "" @@ -88,56 +90,7 @@ synonymtypedef: synonym "" synonymtypedef: SYSTEMATIC "" synonymtypedef: systematic_synonym "" ontology: cl/subsets/blood_and_immune_upper_slim -property_value: owl:versionInfo "2024-04-05" xsd:string - -[Term] -id: BFO:0000002 -name: continuant -def: "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." [] -disjoint_from: BFO:0000003 ! occurrent -relationship: part_of BFO:0000002 {all_only="true"} ! continuant - -[Term] -id: BFO:0000003 -name: occurrent -def: "An entity that has temporal parts and that happens, unfolds or develops through time." [] -relationship: part_of BFO:0000003 {all_only="true"} ! occurrent - -[Term] -id: BFO:0000004 -name: independent continuant -def: "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" [] -comment: A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. -is_a: BFO:0000002 ! continuant -disjoint_from: BFO:0000020 ! specifically dependent continuant -relationship: part_of BFO:0000004 {all_only="true"} ! independent continuant - -[Term] -id: BFO:0000015 -name: process -def: "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" [] -comment: An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. -is_a: BFO:0000003 ! occurrent - -[Term] -id: BFO:0000020 -name: specifically dependent continuant -def: "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" [] -comment: A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. -is_a: BFO:0000002 ! continuant -relationship: part_of BFO:0000020 {all_only="true"} ! specifically dependent continuant - -[Term] -id: BFO:0000040 -name: material entity -def: "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." [] -is_a: BFO:0000004 ! independent continuant -disjoint_from: BFO:0000141 ! immaterial entity - -[Term] -id: BFO:0000141 -name: immaterial entity -is_a: BFO:0000004 ! independent continuant +property_value: owl:versionInfo "2024-05-15" xsd:string [Term] id: CL:0000000 @@ -147,7 +100,7 @@ comment: The definition of cell is intended to represent all cells, and thus a c subset: cellxgene_subset subset: ubprop:upper_level xref: CALOHA:TS-2035 -xref: FBbt:00007002 +xref: FBbt:00007002 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:68646 xref: GO:0005623 xref: KUPO:0000002 @@ -155,6 +108,7 @@ xref: MESH:D002477 xref: VHOG:0001533 xref: WBbt:0004017 xref: XAO:0003012 +xref: ZFA:0009000 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: UBERON:0000061 ! anatomical structure disjoint_from: GO:0031012 ! extracellular matrix disjoint_from: GO:0032991 ! protein-containing complex @@ -165,6 +119,7 @@ relationship: RO:0002160 NCBITaxon:131567 ! only in taxon cellular organisms id: CL:0000007 name: early embryonic cell (metazoa) def: "A cell found in the embryo before the formation of all the gem layers is complete." [GOC:tfm] +xref: ZFA:0009002 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) [Term] @@ -178,6 +133,7 @@ subset: human_reference_atlas synonym: "animal stem cell" EXACT [] xref: CALOHA:TS-2086 xref: FMA:63368 +xref: ZFA:0005957 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0011115 ! precursor cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0017145 ! stem cell division @@ -202,6 +158,7 @@ xref: CALOHA:TS-0448 xref: FMA:86475 xref: MESH:D006412 xref: VHOG:0001485 +xref: ZFA:0009014 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000723 ! somatic stem cell is_a: CL:0008001 ! hematopoietic precursor cell is_a: CL:0011026 ! progenitor cell @@ -249,6 +206,7 @@ synonym: "CFU-E" RELATED OMO:0003000 [] synonym: "colony forming unit erythroid" RELATED [] synonym: "erythroid stem cell" RELATED [] xref: BTO:0004911 +xref: ZFA:0009015 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000764 ! erythroid lineage cell is_a: CL:0000839 {is_inferred="true"} ! myeloid lineage restricted progenitor cell relationship: RO:0002202 CL:0000050 ! develops from megakaryocyte-erythroid progenitor cell @@ -264,9 +222,9 @@ synonym: "colony forming unit monocyte" RELATED [] synonym: "monocyte stem cell" RELATED [] xref: CALOHA:TS-1195 xref: FMA:83553 +xref: ZFA:0009017 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0002194 {is_inferred="true"} ! monopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002194 ! monopoietic cell intersection_of: capable_of GO:0030224 ! monocyte differentiation intersection_of: has_part CL:0017503 ! basophilic cytoplasm @@ -288,6 +246,7 @@ synonym: "multifate stem cell" EXACT [] synonym: "multipotent cell" EXACT [] synonym: "multipotent stem cell" EXACT [] xref: FMA:84789 +xref: ZFA:0009020 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000034 ! stem cell intersection_of: CL:0000000 ! cell intersection_of: bearer_of PATO:0001402 ! multipotent @@ -310,6 +269,7 @@ synonym: "multipotential myeloid stem cell" RELATED [ISBN:0878932437] synonym: "myeloid stem cell" RELATED [ISBN:0878932437] synonym: "pluripotent stem cell (bone marrow)" RELATED [ISBN:0878932437] xref: BTO:0004730 +xref: ZFA:0009021 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell disjoint_from: CL:0000050 ! megakaryocyte-erythroid progenitor cell disjoint_from: CL:0000051 ! common lymphoid progenitor @@ -330,6 +290,7 @@ synonym: "Meg/E progenitor" EXACT [] synonym: "megakaryocyte/erythrocyte progenitor" EXACT [] synonym: "megakaryocyte/erythroid progenitor cell" EXACT [] synonym: "MEP" EXACT [] +xref: ZFA:0009022 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell is_a: CL:0011026 ! progenitor cell @@ -358,6 +319,7 @@ synonym: "early lymphocyte progenitor" RELATED [] synonym: "ELP" RELATED OMO:0003000 [] synonym: "lymphoid stem cell" RELATED [] synonym: "lymphopoietic stem cell" RELATED [] +xref: ZFA:0009023 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0002032 ! hematopoietic oligopotent progenitor cell @@ -372,6 +334,7 @@ def: "A stem cell from which all cells of the body can form." [GOC:add, GOC:tfm] synonym: "totipotential stem cell" EXACT [] xref: FMA:84790 xref: MESH:D039901 +xref: ZFA:0009024 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000723 ! somatic stem cell [Term] @@ -391,9 +354,10 @@ name: myoblast def: "A cell that is commited to differentiating into a muscle cell. Embryonic myoblasts develop from the mesoderm. They undergo proliferation, migrate to their various sites, and then differentiate into the appropriate form of myocytes. Myoblasts also occur as transient populations of cells in muscles undergoing repair." [GOC:tfm, MESH:D032446, PMID:21849021] xref: BTO:0000222 xref: CALOHA:TS-0650 -xref: FBbt:00005083 +xref: FBbt:00005083 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:70335 xref: VHOG:0001529 +xref: ZFA:0009025 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000680 ! muscle precursor cell [Term] @@ -409,6 +373,7 @@ xref: CALOHA:TS-0362 xref: FMA:63877 xref: NCIT:C12482 xref: VHOG:0001482 +xref: ZFA:0009026 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002320 ! connective tissue cell relationship: RO:0002202 CL:0000134 ! develops from mesenchymal stem cell property_value: RO:0002175 NCBITaxon:9606 @@ -424,9 +389,10 @@ synonym: "epitheliocyte" EXACT [] xref: BTO:0000414 xref: CALOHA:TS-2026 xref: CARO:0000077 -xref: FBbt:00000124 +xref: FBbt:00000124 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:66768 xref: WBbt:0003672 +xref: ZFA:0009034 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell disjoint_from: CL:0000738 ! leukocyte relationship: part_of UBERON:0000483 ! epithelium @@ -440,6 +406,7 @@ def: "An endothelial cell that lines the vasculature." [GOC:tfm] subset: cellxgene_subset subset: human_reference_atlas synonym: "cuboidal endothelial cell of vascular tree" EXACT [] +xref: ZFA:0009036 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000076 {is_inferred="true"} ! squamous epithelial cell is_a: CL:0002139 ! endothelial cell of vascular tree intersection_of: CL:0000076 ! squamous epithelial cell @@ -453,12 +420,14 @@ id: CL:0000076 name: squamous epithelial cell subset: cellxgene_subset xref: CALOHA:TS-1249 +xref: ZFA:0009039 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell [Term] id: CL:0000080 name: circulating cell def: "A cell which moves among different tissues of the body, via blood, lymph, or other medium." [GOC:add] +xref: ZFA:0009043 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0000179 ! haemolymphatic fluid @@ -472,6 +441,7 @@ subset: cellxgene_subset subset: general_cell_types_upper_slim xref: FMA:62844 xref: MESH:D001773 +xref: ZFA:0009044 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: capable_of GO:0008015 ! blood circulation @@ -494,6 +464,7 @@ xref: CALOHA:TS-1001 xref: FMA:62870 xref: MESH:D013601 xref: VHOG:0001479 +xref: ZFA:0009046 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000542 {is_inferred="true"} ! lymphocyte intersection_of: CL:0000542 ! lymphocyte intersection_of: capable_of GO:0002456 ! T cell mediated immunity @@ -513,10 +484,10 @@ xref: BTO:0000968 xref: CALOHA:TS-0721 xref: FMA:66781 xref: MESH:D010010 +xref: ZFA:0009047 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000518 ! phagocyte (sensu Vertebrata) is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte is_a: CL:0001035 {is_inferred="true"} ! bone cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000766 ! myeloid leukocyte intersection_of: capable_of GO:0045453 ! bone resorption intersection_of: has_part PR:000001850 ! cathepsin K @@ -550,9 +521,9 @@ xref: BTO:0000539 xref: BTO:0001026 xref: CALOHA:TS-0422 xref: FMA:62854 +xref: ZFA:0009048 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000081 ! blood cell is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000766 ! myeloid leukocyte intersection_of: capable_of GO:0008015 ! blood circulation intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -590,7 +561,6 @@ xref: CALOHA:TS-0603 xref: FMA:66784 is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte is_a: CL:0002274 ! histamine secreting cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000766 ! myeloid leukocyte intersection_of: capable_of GO:0002349 ! histamine production involved in inflammatory response intersection_of: capable_of GO:0002539 ! prostaglandin production involved in inflammatory response @@ -626,6 +596,7 @@ def: "A vertebrate phagocyte with a single nucleus." [GOC:add, GOC:tfm, ISBN:078 subset: cellxgene_subset subset: human_reference_atlas xref: BTO:0001433 +xref: ZFA:0009064 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000518 {is_inferred="true"} ! phagocyte (sensu Vertebrata) is_a: CL:0000842 ! mononuclear cell intersection_of: CL:0000518 ! phagocyte (sensu Vertebrata) @@ -643,6 +614,7 @@ synonym: "endotheliocyte" EXACT [] xref: BTO:0001176 xref: CALOHA:TS-0278 xref: FMA:66772 +xref: ZFA:0009065 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000213 ! lining cell is_a: CL:0002078 ! meso-epithelial cell property_value: RO:0002175 NCBITaxon:9606 @@ -652,6 +624,7 @@ id: CL:0000133 name: neurectodermal cell def: "Ectoderm destined to be nervous tissue." [GOC:tfm, ISBN:068340007X] synonym: "neurectoderm cell" EXACT [] +xref: ZFA:0009080 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000221 ! ectodermal cell [Term] @@ -675,6 +648,7 @@ synonym: "stem cells, mesenchymal" RELATED OMO:0003004 [MESH:D044982] xref: BTO:0002625 xref: BTO:0003298 xref: FMA:70546 +xref: ZFA:0009081 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000048 ! multi fate stem cell is_a: CL:0002320 {is_inferred="true"} ! connective tissue cell property_value: seeAlso "https://github.com/obophenotype/cell-ontology/issues/474" xsd:string @@ -687,6 +661,7 @@ comment: Note change of name; nearly all somatic cells can present antigens to T subset: blood_and_immune_upper_slim subset: cellxgene_subset synonym: "APC" RELATED OMO:0003000 [] +xref: ZFA:0009088 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000738 ! leukocyte intersection_of: CL:0000738 ! leukocyte intersection_of: capable_of GO:0002504 ! antigen processing and presentation of peptide or polysaccharide antigen via MHC class II @@ -721,9 +696,10 @@ synonym: "myocyte" EXACT [] xref: BTO:0000888 xref: BTO:0000902 xref: CALOHA:TS-2032 -xref: FBbt:00005074 +xref: FBbt:00005074 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67328 xref: WBbt:0003675 +xref: ZFA:0009114 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000183 ! contractile cell is_a: CL:0000393 ! electrically responsive cell relationship: RO:0002202 CL:0000056 ! develops from myoblast @@ -733,6 +709,7 @@ property_value: http://xmlns.com/foaf/0.1/depiction "https://www.swissbiopics.or id: CL:0000211 name: electrically active cell def: "A cell whose function is determined by the generation or the reception of an electric signal." [FB:ma] +xref: ZFA:0009128 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -740,18 +717,21 @@ id: CL:0000213 name: lining cell def: "A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism." [JB:jb] synonym: "boundary cell" EXACT [] +xref: ZFA:0009130 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000215 ! barrier cell [Term] id: CL:0000215 name: barrier cell def: "A cell whose primary function is to prevent the transport of stuff across compartments." [JB:jb] +xref: ZFA:0009132 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] id: CL:0000219 name: motile cell def: "A cell that moves by its own activities." [FB:ma] +xref: ZFA:0009136 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0048870 ! cell motility @@ -763,6 +743,7 @@ name: ectodermal cell def: "A cell of the outer of the three germ layers of the embryo." [MESH:D004475] synonym: "ectoderm cell" EXACT [] xref: FMA:72549 +xref: ZFA:0009137 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000924 ! ectoderm @@ -774,6 +755,7 @@ subset: cellxgene_subset synonym: "mesoblast" EXACT [] synonym: "mesoderm cell" EXACT [] xref: FMA:72554 +xref: ZFA:0009138 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000926 ! mesoderm @@ -783,6 +765,7 @@ name: endodermal cell def: "A cell of the inner of the three germ layers of the embryo." [MESH:D004707] synonym: "endoderm cell" EXACT [] xref: FMA:72555 +xref: ZFA:0009139 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000925 ! endoderm @@ -879,6 +862,7 @@ subset: cellxgene_subset xref: BTO:0001044 xref: FMA:83806 xref: MESH:D010586 +xref: ZFA:0009140 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000219 ! motile cell is_a: CL:0000325 ! stuff accumulating cell is_a: CL:0000473 ! defensive cell @@ -901,6 +885,7 @@ xref: CALOHA:TS-0587 xref: FMA:63261 xref: FMA:83585 xref: MESH:D008264 +xref: ZFA:0009141 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000113 ! mononuclear phagocyte is_a: CL:0000145 ! professional antigen presenting cell is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte @@ -928,6 +913,7 @@ xref: CALOHA:TS-0068 xref: FMA:62869 xref: MESH:D001402 xref: VHOG:0001480 +xref: ZFA:0009142 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000945 {is_inferred="true"} ! lymphocyte of B lineage intersection_of: CL:0000945 ! lymphocyte of B lineage intersection_of: capable_of GO:0019724 ! B cell mediated immunity @@ -937,6 +923,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000255 name: eukaryotic cell +def: "Any cell that only exists in Eukaryota." [FBC:Autogenerated] subset: cellxgene_subset xref: MESH:D005057 is_a: CL:0000000 ! cell @@ -954,6 +941,8 @@ is_a: CL:0000000 ! cell [Term] id: CL:0000329 name: oxygen accumulating cell +def: "Any cell that is capable of some oxygen transport." [FBC:Autogenerated] +xref: ZFA:0009164 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0015671 ! oxygen transport @@ -964,6 +953,7 @@ id: CL:0000333 name: migratory neural crest cell def: "A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body." [doi:10.1016/j.stem.2015.02.017] xref: FMA:86667 +xref: ZFA:0007086 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000219 ! motile cell is_a: CL:0011012 ! neural crest cell is_a: CL:0011026 ! progenitor cell @@ -973,6 +963,7 @@ relationship: RO:0002202 CL:0007004 ! develops from premigratory neural crest ce id: CL:0000335 name: mesenchyme condensation cell def: "A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors." [GOC:tfm, PMID:5025404] +xref: ZFA:0009166 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008019 ! mesenchymal cell [Term] @@ -1000,12 +991,14 @@ relationship: RO:0002160 NCBITaxon:33208 ! only in taxon Metazoa id: CL:0000393 name: electrically responsive cell def: "A cell whose function is determined by its response to an electric signal." [FB:ma] +xref: ZFA:0009190 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000211 ! electrically active cell [Term] id: CL:0000404 name: electrically signaling cell def: "A cell that initiates an electrical signal and passes that signal to another cell." [FB:ma] +xref: ZFA:0009193 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000211 ! electrically active cell [Term] @@ -1021,9 +1014,9 @@ xref: BTO:0002042 xref: CALOHA:TS-0194 xref: FMA:83036 xref: MESH:D003713 +xref: ZFA:0009209 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000113 ! mononuclear phagocyte is_a: CL:0000145 ! professional antigen presenting cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000738 ! leukocyte intersection_of: bearer_of PATO:0001407 ! mononucleate intersection_of: capable_of GO:0001816 ! cytokine production @@ -1050,6 +1043,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000457 name: biogenic amine secreting cell +xref: ZFA:0009212 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell [Term] @@ -1058,6 +1052,7 @@ name: serotonin secreting cell def: "A cell type that secretes 5-Hydroxytryptamine (serotonin)." [GOC:tfm, PMID:19630576] synonym: "5-HT secreting cell" EXACT [] synonym: "5-Hydroxytryptamine secreting cell" EXACT [] +xref: ZFA:0009213 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000457 ! biogenic amine secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0001820 ! serotonin secretion @@ -1088,10 +1083,11 @@ subset: human_reference_atlas synonym: "nerve cell" EXACT [] xref: BTO:0000938 xref: CALOHA:TS-0683 -xref: FBbt:00005106 +xref: FBbt:00005106 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:54527 xref: VHOG:0001483 xref: WBbt:0003679 +xref: ZFA:0009248 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000393 ! electrically responsive cell is_a: CL:0000404 ! electrically signaling cell is_a: CL:0002319 ! neural cell @@ -1111,8 +1107,8 @@ xref: CALOHA:TS-0583 xref: FMA:62863 xref: MESH:D008214 xref: VHOG:0001535 +xref: ZFA:0009250 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000842 ! mononuclear cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000738 ! leukocyte intersection_of: bearer_of PATO:0001407 ! mononucleate intersection_of: bearer_of PATO:0040072 ! high nuclear/cytoplasmic ratio @@ -1136,7 +1132,6 @@ synonym: "rubriblast" EXACT [ISBN:0721601464] xref: FMA:83518 is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell is_a: CL:0002242 ! nucleate cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: bearer_of PATO:0002505 ! nucleated intersection_of: bearer_of PATO:0040072 ! high nuclear/cytoplasmic ratio @@ -1180,8 +1175,8 @@ synonym: "early erythroblast" EXACT [ISBN:0721601464] synonym: "early normoblast" EXACT [ISBN:0721601464] synonym: "prorubricyte" EXACT [ISBN:0721601464] xref: FMA:83505 +xref: ZFA:0005236 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000765 {is_inferred="true"} ! erythroblast -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000765 ! erythroblast intersection_of: has_part CL:0017503 ! basophilic cytoplasm intersection_of: has_part GO:0000792 ! heterochromatin @@ -1201,8 +1196,8 @@ synonym: "polychromatic normoblast" EXACT [ISBN:0721601464] synonym: "polychromatophilic normoblast" EXACT [ISBN:0721601464] synonym: "rubricyte" EXACT [ISBN:0721601464] xref: FMA:83506 +xref: ZFA:0005241 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000765 {is_inferred="true"} ! erythroblast -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000765 ! erythroblast intersection_of: has_part CL:0017504 ! polychromatophilic cytoplasm intersection_of: has_part GO:0000792 ! heterochromatin @@ -1319,11 +1314,11 @@ synonym: "GMP" RELATED OMO:0003000 [ISBN:0721601464, PMCID:PMC2213186, PMCID:PMC synonym: "granulocyte-macrophage progenitor" EXACT [ISBN:0721601464, PMCID:PMC2213186, PMCID:PMC548021] synonym: "granulocyte/monocyte precursor" EXACT [] synonym: "granulocyte/monocyte progenitor" EXACT [] +xref: ZFA:0009251 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0001012 ! CD7-negative lymphoid progenitor OR granulocyte monocyte progenitor is_a: CL:0011026 ! progenitor cell is_a: CL:1001610 ! bone marrow hematopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002032 ! hematopoietic oligopotent progenitor cell intersection_of: capable_of GO:0030225 ! macrophage differentiation intersection_of: capable_of GO:0030851 ! granulocyte differentiation @@ -1351,8 +1346,8 @@ subset: cellxgene_subset xref: BTO:0001173 xref: CALOHA:TS-0864 xref: MESH:D012156 +xref: ZFA:0009252 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: capable_of GO:0071971 ! extracellular exosome assembly intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -1391,9 +1386,9 @@ subset: cellxgene_subset subset: human_reference_atlas xref: BTO:0004657 xref: FMA:83551 +xref: ZFA:0009253 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0002194 {is_inferred="true"} ! monopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002194 ! monopoietic cell intersection_of: capable_of GO:0030224 ! monocyte differentiation intersection_of: has_part GO:0042582 ! azurophil granule @@ -1410,9 +1405,9 @@ def: "A mesenchymal stem cell capable of developing into blood vessel endotheliu comment: These cells are reportedly CD31-positive, CD34-positive, CD144-positive, CD309-positive, and TAL1-positive. synonym: "angioblast" EXACT [] synonym: "chondroplast" EXACT [] +xref: ZFA:0009258 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000134 {is_inferred="true"} ! mesenchymal stem cell is_a: CL:0011026 ! progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000134 ! mesenchymal stem cell intersection_of: RO:0002104 PR:000001444 ! has plasma membrane part cadherin-5 intersection_of: RO:0002104 PR:000002112 ! has plasma membrane part vascular endothelial growth factor receptor 2 @@ -1434,6 +1429,7 @@ subset: human_reference_atlas xref: BTO:0000876 xref: CALOHA:TS-0638 xref: FMA:62864 +xref: ZFA:0009265 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000113 ! mononuclear phagocyte is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte is_a: CL:0011026 ! progenitor cell @@ -1477,6 +1473,7 @@ id: CL:0000680 name: muscle precursor cell def: "A non-terminally differentiated cell that is capable of developing into a muscle cell." [GOC:add] subset: cellxgene_subset +xref: ZFA:0009291 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell intersection_of: CL:0011115 ! precursor cell intersection_of: RO:0002203 CL:0000187 ! develops into muscle cell @@ -1489,6 +1486,7 @@ name: somatic stem cell def: "A stem cell that can give rise to cell types of the body other than those of the germ-line." [GO:0048103] xref: CALOHA:TS-2086 xref: MESH:D053687 +xref: ZFA:0009307 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000034 ! stem cell intersection_of: CL:0000034 ! stem cell intersection_of: capable_of GO:0048103 ! somatic stem cell division @@ -1508,6 +1506,7 @@ xref: CALOHA:TS-0549 xref: FMA:62852 xref: MESH:D007962 xref: NCIT:C12529 +xref: ZFA:0009309 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000219 ! motile cell is_a: CL:0000255 ! eukaryotic cell is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell @@ -1527,6 +1526,7 @@ name: nucleated thrombocyte def: "A nucleated blood cell involved in coagulation, typically seen in birds and other non-mammalian vertebrates." [GOC:add, GOC:tfm, PMID:16360205] comment: Note that this is a non-mammalian cell type. Use platelet ; CL:0000233 for thrombocytes (platelets) in mammals. subset: blood_and_immune_upper_slim +xref: ZFA:0009323 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000226 ! single nucleate cell is_a: CL:0000763 {is_inferred="true"} ! myeloid cell intersection_of: CL:0000763 ! myeloid cell @@ -1543,6 +1543,7 @@ subset: cellxgene_subset xref: BTO:0001441 xref: CALOHA:TS-0647 xref: MESH:D022423 +xref: ZFA:0009324 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: RO:0002202 CL:0000049 ! develops from common myeloid progenitor @@ -1559,6 +1560,7 @@ synonym: "erythropoietic cell" EXACT [] xref: CALOHA:TS-0290 xref: FMA:62845 xref: FMA:83516 +xref: ZFA:0009325 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell property_value: RO:0002175 NCBITaxon:9606 @@ -1573,6 +1575,7 @@ xref: BTO:0001571 xref: CALOHA:TS-0289 xref: FMA:83504 xref: MESH:D004900 +xref: ZFA:0005237 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0000764 ! erythroid lineage cell @@ -1611,6 +1614,7 @@ id: CL:0000766 name: myeloid leukocyte def: "A cell of the monocyte, granulocyte, or mast cell lineage." [GOC:add] subset: cellxgene_subset +xref: ZFA:0009326 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000738 {is_inferred="true"} ! leukocyte is_a: CL:0000763 ! myeloid cell intersection_of: CL:0000738 ! leukocyte @@ -1700,6 +1704,7 @@ xref: BTO:0000130 xref: CALOHA:TS-0688 xref: FMA:62860 xref: MESH:D009504 +xref: ZFA:0009327 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000094 {is_inferred="true"} ! granulocyte intersection_of: CL:0000094 ! granulocyte intersection_of: RO:0002104 PR:000001479 ! has plasma membrane part low affinity immunoglobulin gamma Fc region receptor II @@ -1759,6 +1764,7 @@ subset: cellxgene_subset synonym: "mature B lymphocyte" EXACT [] synonym: "mature B-cell" EXACT [] synonym: "mature B-lymphocyte" EXACT [] +xref: ZFA:0009331 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000145 ! professional antigen presenting cell is_a: CL:0001201 {is_inferred="true"} ! B cell, CD19-positive intersection_of: CL:0001201 ! B cell, CD19-positive @@ -1789,6 +1795,7 @@ synonym: "plasmocyte" EXACT [] xref: BTO:0000392 xref: FMA:70574 xref: MESH:D010950 +xref: ZFA:0009332 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000946 {is_inferred="true"} ! antibody secreting cell intersection_of: CL:0000946 ! antibody secreting cell intersection_of: CL:4030046 GO:0019814 ! lacks_plasma_membrane_part immunoglobulin complex @@ -1815,6 +1822,7 @@ subset: cellxgene_subset synonym: "alpha-beta T lymphocyte" EXACT [] synonym: "alpha-beta T-cell" EXACT [] synonym: "alpha-beta T-lymphocyte" EXACT [] +xref: ZFA:0009335 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000084 {is_inferred="true"} ! T cell intersection_of: CL:0000084 ! T cell intersection_of: RO:0002104 GO:0042105 ! has plasma membrane part alpha-beta T cell receptor complex @@ -1834,6 +1842,7 @@ synonym: "gamma-delta T-cell" EXACT [] synonym: "gamma-delta T-lymphocyte" EXACT [] synonym: "gammadelta T cell" EXACT [] synonym: "gd T cell" RELATED OMO:0003000 [] +xref: ZFA:0009336 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000084 {is_inferred="true"} ! T cell intersection_of: CL:0000084 ! T cell intersection_of: RO:0002104 GO:0042106 ! has plasma membrane part gamma-delta T cell receptor complex @@ -1852,6 +1861,7 @@ synonym: "immature B lymphocyte" EXACT [] synonym: "immature B-cell" EXACT [] synonym: "immature B-lymphocyte" EXACT [] synonym: "newly formed B cell" EXACT [ISBN:781735149] +xref: ZFA:0009343 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0001201 ! B cell, CD19-positive intersection_of: CL:0001201 ! B cell, CD19-positive intersection_of: CL:4030044 GO:0045190 ! has_not_completed isotype switching @@ -1874,6 +1884,7 @@ subset: human_reference_atlas synonym: "pre-B cell" RELATED [] xref: BTO:0001133 xref: CALOHA:TS-0819 +xref: ZFA:0009344 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0001201 {is_inferred="true"} ! B cell, CD19-positive intersection_of: CL:0001201 ! B cell, CD19-positive intersection_of: CL:4030046 GO:0071753 ! lacks_plasma_membrane_part IgM immunoglobulin complex @@ -1897,6 +1908,7 @@ synonym: "transitional B cell" EXACT [PMID:22343568] synonym: "transitional stage B lymphocyte" EXACT [] synonym: "transitional stage B-cell" EXACT [] synonym: "transitional stage B-lymphocyte" EXACT [] +xref: ZFA:0009345 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0001201 {is_inferred="true"} ! B cell, CD19-positive intersection_of: CL:0001201 ! B cell, CD19-positive intersection_of: CL:4030044 GO:0002335 ! has_not_completed mature B cell differentiation @@ -1929,8 +1941,8 @@ synonym: "progenitor B lymphocyte" EXACT [] synonym: "progenitor B-cell" EXACT [] synonym: "progenitor B-lymphocyte" EXACT [] xref: BTO:0003104 +xref: ZFA:0009349 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000838 {is_inferred="true"} ! lymphoid lineage restricted progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000838 ! lymphoid lineage restricted progenitor cell intersection_of: has_part PR:000001903 ! paired box protein PAX-5 intersection_of: has_part PR:000006611 ! DNA nucleotidylexotransferase @@ -1951,6 +1963,7 @@ synonym: "DN1 thymocyte" NARROW [] synonym: "pro-T lymphocyte" EXACT [] synonym: "progenitor T cell" EXACT [] synonym: "TN1 cell" NARROW [] +xref: ZFA:0009350 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000838 {is_inferred="true"} ! lymphoid lineage restricted progenitor cell intersection_of: CL:0000838 ! lymphoid lineage restricted progenitor cell intersection_of: capable_of GO:0030217 ! T cell differentiation @@ -1962,6 +1975,7 @@ id: CL:0000828 name: thromboblast def: "A progenitor cell of the thrombocyte, a nucleated blood cell involved in coagulation typically seen in birds and other non-mammalian vertebrates." [GOC:add, GOC:tfm, PMID:7758949] comment: Note that this is a non-mammalian cell type. +xref: ZFA:0009351 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000226 ! single nucleate cell is_a: CL:0000763 ! myeloid cell is_a: CL:0000839 {is_inferred="true"} ! myeloid lineage restricted progenitor cell @@ -1982,7 +1996,6 @@ synonym: "colony forming unit mast cell" RELATED [] synonym: "MCP" EXACT [] is_a: CL:0000763 ! myeloid cell is_a: CL:0000839 {is_inferred="true"} ! myeloid lineage restricted progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000839 ! myeloid lineage restricted progenitor cell intersection_of: capable_of GO:0060374 ! mast cell differentiation intersection_of: CL:4030045 PR:000005307 ! lacks_part CCAAT/enhancer-binding protein alpha @@ -2046,8 +2059,8 @@ synonym: "hemopoietic progenitor cell" EXACT [] synonym: "MPP" EXACT [] xref: BTO:0000725 xref: CALOHA:TS-0448 +xref: ZFA:0009354 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008001 ! hematopoietic precursor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000988 ! hematopoietic cell intersection_of: bearer_of PATO:0001402 ! multipotent intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -2093,6 +2106,7 @@ synonym: "lymphoid progenitor cell" BROAD [] xref: BTO:0004731 xref: CALOHA:TS-2025 xref: FMA:70338 +xref: ZFA:0009355 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002031 {is_inferred="true"} ! hematopoietic lineage restricted progenitor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0002031 ! hematopoietic lineage restricted progenitor cell @@ -2111,6 +2125,7 @@ synonym: "myeloid progenitor cell" BROAD [] xref: BTO:0004730 xref: CALOHA:TS-2099 xref: FMA:70339 +xref: ZFA:0009356 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002031 {is_inferred="true"} ! hematopoietic lineage restricted progenitor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0002031 ! hematopoietic lineage restricted progenitor cell @@ -2129,6 +2144,7 @@ synonym: "peripheral blood mononuclear cell" NARROW [] xref: BTO:0000878 xref: CALOHA:TS-0768 xref: FMA:86713 +xref: ZFA:0009357 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000226 ! single nucleate cell is_a: CL:0000738 {is_inferred="true"} ! leukocyte intersection_of: CL:0000738 ! leukocyte @@ -2141,7 +2157,6 @@ def: "An immature myeloid leukocyte of heterogeneous phenotype found particularl comment: Markers: Mouse: CD11b+GR1+CD31+; Human: CD34+ CD33+CD15-CD13+. (According to some reports in humans these cells are iNOS+ARG1+IL13+IFNg+); location: In cancerous tissue; in the blood and lymphoid organs in sepsis. subset: blood_and_immune_upper_slim is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000766 ! myeloid leukocyte intersection_of: bearer_of PATO:0001501 ! immature intersection_of: capable_of GO:0050777 ! negative regulation of immune response @@ -2246,6 +2261,7 @@ xref: BTO:0000574 xref: CALOHA:TS-2017 xref: FMA:70366 xref: FMA:83598 +xref: ZFA:0005830 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -2403,7 +2419,6 @@ subset: cellxgene_subset synonym: "BMCP" EXACT [] is_a: CL:0000763 ! myeloid cell is_a: CL:0002191 ! granulocytopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000839 ! myeloid lineage restricted progenitor cell intersection_of: capable_of GO:0030221 ! basophil differentiation intersection_of: capable_of GO:0060374 ! mast cell differentiation @@ -2458,6 +2473,7 @@ id: CL:0002077 name: ecto-epithelial cell def: "An epithelial cell derived from ectoderm." [FMA:69074, GOC:tfm] xref: FMA:69074 +xref: ZFA:0009385 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: RO:0002202 CL:0000221 ! develops from ectodermal cell @@ -2471,6 +2487,7 @@ name: meso-epithelial cell def: "Epithelial cell derived from mesoderm or mesenchyme." [FMA:69076, GOC:tfm] synonym: "epithelial mesenchymal cell" EXACT [] xref: FMA:69076 +xref: ZFA:0009388 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: RO:0002202 CL:0000222 ! develops from mesodermal cell @@ -2593,6 +2610,7 @@ subset: cellxgene_subset xref: CALOHA:TS-2096 xref: FMA:63875 xref: MESH:D003239 +xref: ZFA:0009392 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0002384 ! connective tissue @@ -2607,6 +2625,7 @@ def: "A cell of the embryo." [FMA:0618947256] xref: CALOHA:TS-0263 xref: FMA:82840 xref: WBbt:0007028 +xref: ZFA:0007089 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 creation_date: 2010-09-15T03:39:21Z @@ -2649,6 +2668,7 @@ id: CL:0002546 name: embryonic blood vessel endothelial progenitor cell def: "An endothelial progenitor cell that participates in angiogenesis during development." [GOC:tfm] comment: See CL:0002619. +xref: ZFA:0005773 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000222 ! mesodermal cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 creation_date: 2011-02-28T04:20:39Z @@ -2697,6 +2717,7 @@ creation_date: 2012-06-15T02:51:27Z id: CL:0007004 name: premigratory neural crest cell def: "Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells." [UBERONREF:0000002] +xref: ZFA:0007084 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0011012 ! neural crest cell relationship: part_of UBERON:0002342 ! neural crest relationship: RO:0002202 CL:0000133 ! develops from neurectodermal cell @@ -3882,7 +3903,6 @@ subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "molecular function" EXACT [] -is_a: BFO:0000015 ! process disjoint_from: GO:0005575 ! cellular_component disjoint_from: GO:0008150 ! biological_process @@ -3951,7 +3971,6 @@ synonym: "cell or subcellular entity" EXACT [] synonym: "cellular component" EXACT [] synonym: "subcellular entity" RELATED [NIF_Subcellular:nlx_subcell_100315] xref: NIF_Subcellular:sao1337158144 -is_a: BFO:0000040 ! material entity disjoint_from: GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/17729" xsd:anyURI @@ -3964,13 +3983,16 @@ comment: Note that this term is intended to annotate gene products that are not subset: goslim_agr subset: goslim_candida subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "extracellular" EXACT [] xref: Wikipedia:Extracellular @@ -4030,7 +4052,6 @@ comment: Note that for multicellular organisms, the extracellular space refers t subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic -subset: goslim_prokaryote synonym: "intercellular space" RELATED [] xref: NIF_Subcellular:sao1425028079 is_a: GO:0110165 ! cellular anatomical entity @@ -4064,12 +4085,14 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "cell nucleus" EXACT [] synonym: "horsetail nucleus" NARROW [GOC:al, GOC:mah, GOC:vw, PMID:15030757] @@ -4095,6 +4118,7 @@ subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "chromatid" RELATED [] synonym: "interphase chromosome" NARROW [] @@ -4129,7 +4153,9 @@ subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast xref: Wikipedia:Cytoplasm is_a: GO:0110165 ! cellular anatomical entity @@ -4166,11 +4192,13 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "vacuolar carboxypeptidase Y" RELATED [] xref: Wikipedia:Vacuole @@ -4187,10 +4215,12 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "Golgi" BROAD [] synonym: "Golgi complex" EXACT [] @@ -4211,11 +4241,14 @@ alt_id: GO:0033279 def: "An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins." [ISBN:0198506732] subset: goslim_candida subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "free ribosome" NARROW [NIF_Subcellular:sao1139385046] synonym: "membrane bound ribosome" NARROW [NIF_Subcellular:sao1291545653] @@ -4223,8 +4256,8 @@ synonym: "ribosomal RNA" RELATED [] xref: NIF_Subcellular:sao1429207766 xref: Wikipedia:Ribosome is_a: GO:0043232 ! intracellular non-membrane-bounded organelle -is_a: PR:000050567 ! protein-containing material entity relationship: capable_of_part_of GO:0006412 ! translation +relationship: has_part PR:000000001 ! protein [Term] id: GO:0005886 @@ -4237,11 +4270,14 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "bacterial inner membrane" NARROW [] synonym: "cell membrane" EXACT [] @@ -4283,9 +4319,11 @@ subset: goslim_flybase_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon +subset: goslim_prokaryote_ribbon synonym: "cellular DNA metabolism" EXACT [] synonym: "DNA metabolism" EXACT [] -is_a: GO:0043170 ! macromolecule metabolic process +is_a: GO:0008152 ! metabolic process [Term] id: GO:0006310 @@ -4293,6 +4331,7 @@ name: DNA recombination namespace: biological_process def: "Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Interchromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction." [ISBN:0198506732] subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pombe subset: goslim_prokaryote @@ -4310,10 +4349,12 @@ def: "The cellular metabolic process in which a protein is formed, using the seq subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "protein anabolism" EXACT [] synonym: "protein biosynthesis" EXACT [] synonym: "protein biosynthetic process" EXACT [] @@ -4385,7 +4426,9 @@ subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "single-organism transport" RELATED [] is_a: GO:0051234 ! establishment of localization property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20292" xsd:anyURI @@ -4563,12 +4606,12 @@ name: response to stress namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation)." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_metagenomics subset: goslim_plant +subset: goslim_plant_ribbon synonym: "response to abiotic stress" RELATED [] synonym: "response to biotic stress" RELATED [] is_a: GO:0050896 ! response to stimulus @@ -4613,6 +4656,8 @@ name: organelle organization namespace: biological_process alt_id: GO:1902589 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_candida subset: goslim_pir synonym: "organelle organisation" EXACT [] @@ -4623,6 +4668,7 @@ is_a: GO:0016043 ! cellular component organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0043226 ! organelle relationship: results_in_organization_of GO:0043226 ! organelle +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2013-12-19T15:25:51Z @@ -4631,13 +4677,14 @@ id: GO:0007049 name: cell cycle namespace: biological_process def: "The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division." [GOC:go_curators, GOC:mtg_cell_cycle] -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cell-division cycle" EXACT [] xref: Wikipedia:Cell_cycle is_a: GO:0009987 ! cellular process @@ -4677,14 +4724,11 @@ subset: goslim_candida subset: goslim_chembl subset: goslim_metagenomics subset: goslim_plant -synonym: "signal transduction by cis-phosphorylation" NARROW [] -synonym: "signal transduction by conformational transition" NARROW [] -synonym: "signal transduction by protein phosphorylation" NARROW [] -synonym: "signal transduction by trans-phosphorylation" NARROW [] +subset: goslim_plant_ribbon synonym: "signaling cascade" NARROW [] synonym: "signaling pathway" RELATED [] synonym: "signalling cascade" NARROW [] -synonym: "signalling pathway" RELATED [GOC:mah] +synonym: "signalling pathway" RELATED [] xref: Wikipedia:Signal_transduction is_a: GO:0009987 ! cellular process is_a: GO:0050794 ! regulation of cellular process @@ -4873,7 +4917,6 @@ synonym: "physiological process" EXACT [] synonym: "single organism process" RELATED [] synonym: "single-organism process" RELATED [] xref: Wikipedia:Biological_process -is_a: BFO:0000015 ! process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24968" xsd:anyURI created_by: jl creation_date: 2012-09-19T15:05:24Z @@ -4886,11 +4929,13 @@ alt_id: GO:0044236 alt_id: GO:0044710 def: "The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation." [GOC:go_curators, ISBN:0198547684] comment: Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_prokaryote_ribbon synonym: "metabolic process resulting in cell growth" NARROW [] synonym: "metabolism" EXACT [] synonym: "metabolism resulting in cell growth" NARROW [] @@ -4899,6 +4944,7 @@ synonym: "single-organism metabolic process" RELATED [] xref: Wikipedia:Metabolism is_a: GO:0008150 ! biological_process disjoint_from: GO:0051179 ! localization +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI created_by: jl creation_date: 2012-10-17T15:46:40Z @@ -4924,6 +4970,7 @@ def: "The chemical reactions and pathways resulting in the formation of substanc subset: goslim_chembl subset: goslim_metagenomics subset: goslim_plant +subset: goslim_plant_ribbon synonym: "anabolism" EXACT [] synonym: "biosynthesis" EXACT [] synonym: "formation" BROAD [] @@ -4941,6 +4988,8 @@ name: macromolecule biosynthetic process namespace: biological_process alt_id: GO:0043284 def: "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "biopolymer biosynthetic process" EXACT [GOC:mtg_chebi_dec09] synonym: "macromolecule anabolism" EXACT [] @@ -4952,6 +5001,7 @@ is_a: GO:0044249 ! cellular biosynthetic process is_a: GO:1901576 ! organic substance biosynthetic process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/15249" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25418" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0009605 @@ -4959,7 +5009,7 @@ name: response to external stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an external stimulus." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_drosophila subset: goslim_plant synonym: "response to environmental stimulus" EXACT [] @@ -4971,7 +5021,7 @@ name: response to biotic stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a biotic stimulus, a stimulus caused or produced by a living organism." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_metagenomics subset: goslim_plant synonym: "response to biotic stress" NARROW [] @@ -5005,7 +5055,7 @@ name: embryo development namespace: biological_process alt_id: GO:0009795 def: "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant." [GOC:go_curators, GOC:isa_complete, GOC:mtg_sensu] -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_plant synonym: "embryogenesis" EXACT [] @@ -5108,9 +5158,11 @@ comment: Note that this term should be used to annotate gene products in the org subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote synonym: "caspase-independent apoptosis" RELATED [] synonym: "caspase-independent cell death" NARROW [] @@ -5200,10 +5252,12 @@ namespace: biological_process alt_id: GO:0044235 alt_id: GO:0071842 def: "A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:ai, GOC:jl, GOC:mah] +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cell organisation" EXACT [] synonym: "cell organization and biogenesis" RELATED [GOC:mah] synonym: "cellular component organisation at cellular level" EXACT [GOC:mah] @@ -5246,6 +5300,7 @@ def: "A cellular transport process in which transported substances are moved in subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pir subset: goslim_pombe @@ -5275,6 +5330,7 @@ name: somatic cell DNA recombination namespace: biological_process def: "Recombination occurring within or between DNA molecules in somatic cells." [GOC:ma] is_a: GO:0006310 ! DNA recombination +property_value: RO:0002161 NCBITaxon:4751 [Term] id: GO:0016445 @@ -5335,11 +5391,14 @@ alt_id: GO:0006411 alt_id: GO:0044267 alt_id: GO:0044268 def: "The chemical reactions and pathways involving a protein. Includes protein modification." [GOC:ma] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cellular protein metabolic process" EXACT [] synonym: "cellular protein metabolism" EXACT [] synonym: "multicellular organismal protein metabolic process" NARROW [] @@ -5352,6 +5411,7 @@ intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output PR:000000001 ! protein relationship: has_primary_input_or_output PR:000000001 ! protein property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23112" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0019724 @@ -5427,6 +5487,7 @@ name: cell cycle process namespace: biological_process def: "The cellular process that ensures successive accurate and complete genome replication and chromosome segregation." [GOC:isa_complete, GOC:mtg_cell_cycle] subset: gocheck_do_not_annotate +subset: goslim_euk_cellular_processes_ribbon is_a: GO:0009987 ! cellular process intersection_of: GO:0009987 ! cellular process intersection_of: part_of GO:0007049 ! cell cycle @@ -5438,6 +5499,8 @@ name: cellular component disassembly namespace: biological_process alt_id: GO:0071845 def: "A cellular process that results in the breakdown of a cellular component." [GOC:isa_complete] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "cell structure disassembly" EXACT [] synonym: "cellular component disassembly at cellular level" EXACT [] @@ -5446,6 +5509,7 @@ intersection_of: GO:0009987 ! cellular process intersection_of: results_in_disassembly_of GO:0005575 ! cellular_component disjoint_from: GO:0022607 ! cellular component assembly relationship: results_in_disassembly_of GO:0005575 ! cellular_component +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0022600 @@ -5465,6 +5529,7 @@ namespace: biological_process alt_id: GO:0071844 def: "The aggregation, arrangement and bonding together of a cellular component." [GOC:isa_complete] subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_pir synonym: "cell structure assembly" EXACT [] synonym: "cellular component assembly at cellular level" EXACT [] @@ -5508,11 +5573,13 @@ alt_id: GO:0044700 def: "The entirety of a process in which information is transmitted within a biological system. This process begins with an active signal and ends when a cellular response has been triggered." [GOC:mtg_signal, GOC:mtg_signaling_feb11, GOC:signaling] comment: Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change. subset: goslim_agr +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pombe subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "biological signaling" EXACT [] synonym: "signaling process" EXACT [] @@ -5589,6 +5656,8 @@ is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000988 ! hematopoietic cell relationship: results_in_development_of CL:0000988 ! hematopoietic cell +relationship: RO:0002160 NCBITaxon:6072 ! only in taxon Eumetazoa +relationship: RO:0002162 NCBITaxon:6072 {all_only="true"} ! in taxon Eumetazoa property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22178" xsd:anyURI [Term] @@ -5654,6 +5723,7 @@ subset: goslim_drosophila subset: goslim_generic subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon xref: Wikipedia:Cellular_differentiation is_a: GO:0048869 ! cellular developmental process intersection_of: GO:0048869 ! cellular developmental process @@ -5893,6 +5963,7 @@ alt_id: GO:0005578 def: "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues." [GOC:BHF, GOC:mah, GOC:rph, NIF_Subcellular:nlx_subcell_20090513, PMID:21123617, PMID:28089324] subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote @@ -6033,7 +6104,7 @@ name: regulation of response to external stimulus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a response to an external stimulus." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0048583 ! regulation of response to stimulus intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0009605 ! response to external stimulus @@ -6045,7 +6116,7 @@ name: positive regulation of response to external stimulus namespace: biological_process def: "Any process that activates, maintains or increases the rate of a response to an external stimulus." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "activation of response to external stimulus" NARROW [] synonym: "stimulation of response to external stimulus" NARROW [] synonym: "up regulation of response to external stimulus" EXACT [] @@ -6064,6 +6135,7 @@ namespace: biological_process alt_id: GO:0044707 alt_id: GO:0050874 def: "Any biological process, occurring at the level of a multicellular organism, pertinent to its function." [GOC:curators, GOC:dph, GOC:isa_complete, GOC:tb] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate subset: goslim_pir synonym: "organismal physiological process" EXACT [] @@ -6073,6 +6145,7 @@ property_value: RO:0002161 NCBITaxon:2 property_value: RO:0002161 NCBITaxon:2157 property_value: RO:0002161 NCBITaxon:4896 property_value: RO:0002161 NCBITaxon:4932 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2012-09-19T16:07:47Z @@ -6144,6 +6217,7 @@ def: "A stable assembly of two or more macromolecules, i.e. proteins, nucleic ac comment: A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole. subset: goslim_agr subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir @@ -6153,8 +6227,8 @@ synonym: "protein complex" NARROW [] synonym: "protein containing complex" EXACT [] synonym: "protein-protein complex" NARROW [] is_a: GO:0005575 ! cellular_component -is_a: PR:000050567 ! protein-containing material entity disjoint_from: GO:0110165 ! cellular anatomical entity +relationship: has_part PR:000000001 ! protein [Term] id: GO:0032993 @@ -6279,6 +6353,7 @@ subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "receptor activity" BROAD [] synonym: "receptor activity involved in signal transduction" EXACT [GOC:bf] synonym: "signalling receptor activity" EXACT [] @@ -6433,11 +6508,12 @@ name: response to chemical namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a chemical stimulus." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_candida subset: goslim_drosophila subset: goslim_metagenomics subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "response to chemical stimulus" EXACT [GOC:dos] synonym: "response to chemical substance" EXACT [] @@ -6470,7 +6546,6 @@ id: GO:0042391 name: regulation of membrane potential namespace: biological_process def: "Any process that modulates the establishment or extent of a membrane potential, the electric potential existing across any membrane arising from charges in the membrane itself and from the charges present in the media on either side of the membrane." [GOC:jl, GOC:mtg_cardio, GOC:tb, ISBN:0198506732] -is_a: BFO:0000003 ! occurrent relationship: has_part GO:0034220 ! monoatomic ion transmembrane transport [Term] @@ -6491,11 +6566,11 @@ relationship: part_of GO:0005615 ! extracellular space id: GO:0042582 name: azurophil granule namespace: cellular_component -def: "Primary lysosomal granule found in neutrophil granulocytes. Contains a wide range of hydrolytic enzymes and is released into the extracellular fluid." [GOC:jl, PMID:17152095] +def: "Primary lysosomal granule readily stainable with a Romanowsky stain." [GOC:jl, PMID:17152095, PMID:28717070, PMID:5914694, WIKIPEDIA:Azurophilic_granule] synonym: "primary granule" EXACT [] is_a: GO:0005766 ! primary lysosome is_a: GO:0030141 ! secretory granule -relationship: part_of CL:0000775 ! neutrophil +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27231" xsd:anyURI [Term] id: GO:0042592 @@ -6537,10 +6612,12 @@ name: cell projection namespace: cellular_component def: "A prolongation or process extending from a cell, e.g. a flagellum or axon." [GOC:jl, http://www.cogsci.princeton.edu/~wn/] subset: goslim_agr +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "cell process" BROAD [] synonym: "cellular process" BROAD [] synonym: "cellular projection" EXACT [] @@ -6603,6 +6680,7 @@ subset: goslim_chembl subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon xref: NIF_Subcellular:sao1539965131 xref: Wikipedia:Organelle is_a: GO:0110165 ! cellular anatomical entity @@ -6766,7 +6844,10 @@ name: primary metabolic process namespace: biological_process def: "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism." [GOC:go_curators, http://www.metacyc.org] subset: gocheck_do_not_annotate +subset: goslim_euk_cellular_processes_ribbon subset: goslim_pir +subset: goslim_plant_ribbon +subset: goslim_prokaryote_ribbon synonym: "primary metabolism" EXACT [] is_a: GO:0008152 ! metabolic process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI @@ -6776,12 +6857,15 @@ id: GO:0044249 name: cellular biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:jl] +comment: This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. +subset: gocheck_do_not_annotate synonym: "cellular anabolism" EXACT [] synonym: "cellular biosynthesis" EXACT [] synonym: "cellular formation" EXACT [] synonym: "cellular synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0044237 ! cellular metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27052" xsd:anyURI [Term] id: GO:0044419 @@ -6844,6 +6928,7 @@ namespace: cellular_component def: "The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane." [GOC:aruk, ISBN:0198506732, PMID:24619342, PMID:29383328, PMID:31998110] subset: goslim_agr subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir @@ -7081,7 +7166,7 @@ name: regulation of response to stimulus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus." [GOC:jid] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0050896 ! response to stimulus @@ -7093,7 +7178,7 @@ name: positive regulation of response to stimulus namespace: biological_process def: "Any process that activates, maintains or increases the rate of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus." [GOC:jid] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "activation of response to stimulus" NARROW [] synonym: "stimulation of response to stimulus" NARROW [] synonym: "up regulation of response to stimulus" EXACT [] @@ -7111,7 +7196,7 @@ name: negative regulation of response to stimulus namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus." [GOC:jid] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "down regulation of response to stimulus" EXACT [] synonym: "down-regulation of response to stimulus" EXACT [] synonym: "downregulation of response to stimulus" EXACT [] @@ -7206,6 +7291,7 @@ subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_generic subset: goslim_plant +subset: goslim_plant_ribbon synonym: "development of an anatomical structure" EXACT [] is_a: GO:0032502 ! developmental process intersection_of: GO:0032502 ! developmental process @@ -7228,12 +7314,14 @@ namespace: biological_process def: "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another." [GOC:dgh, GOC:dph, GOC:isa_complete, GOC:mlg] subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_prokaryote synonym: "cell locomotion" EXACT [] synonym: "cell movement" RELATED [] synonym: "movement of a cell" EXACT [] is_a: GO:0009987 ! cellular process +property_value: RO:0002161 NCBITaxon:4890 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19809" xsd:anyURI [Term] @@ -7367,6 +7455,7 @@ is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001775 ! cell activation relationship: regulates GO:0001775 ! cell activation +property_value: RO:0002161 NCBITaxon:4890 [Term] id: GO:0050877 @@ -7403,12 +7492,13 @@ namespace: biological_process alt_id: GO:0051869 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism." [GOC:ai, GOC:bf] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "physiological response to stimulus" EXACT [] is_a: GO:0008150 ! biological_process @@ -7464,6 +7554,7 @@ name: localization namespace: biological_process alt_id: GO:1902578 def: "Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation." [GOC:ai, GOC:dos] +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "establishment and maintenance of cellular component location" NARROW [] synonym: "establishment and maintenance of localization" EXACT [] @@ -7474,6 +7565,7 @@ synonym: "localisation" EXACT [GOC:mah] synonym: "single organism localization" RELATED [GOC:TermGenie] synonym: "single-organism localization" RELATED [] is_a: GO:0008150 ! biological_process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27052" xsd:anyURI created_by: jl creation_date: 2013-12-18T13:51:04Z @@ -7586,7 +7678,7 @@ name: cellular response to stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus by a cell and ends with a change in state or activity or the cell." [GOC:bf, GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0009987 ! cellular process is_a: GO:0050896 ! response to stimulus @@ -7599,6 +7691,7 @@ def: "The process in which a solute is transported across a lipid bilayer, from comment: Transmembrane transport is the transport of a solute across a lipid bilayer. Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane and is not traversed. For transport through the nuclear pore, consider instead the term 'nucleocytoplasmic transport ; GO:0006913' and its children. Note also that this term is not intended for use in annotating lateral movement within membranes. subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pombe subset: goslim_yeast @@ -7617,7 +7710,7 @@ id: GO:0060089 name: molecular transducer activity namespace: molecular_function def: "A compound molecular function in which an effector function is controlled by one or more regulatory components." [GOC:dos, GOC:pdt] -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote @@ -7848,7 +7941,7 @@ name: cellular response to chemical stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a chemical stimulus." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0042221 ! response to chemical is_a: GO:0051716 ! cellular response to stimulus created_by: mah @@ -7949,12 +8042,15 @@ name: cellular component organization or biogenesis namespace: biological_process alt_id: GO:0071841 def: "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_flybase_ribbon subset: goslim_metagenomics synonym: "cellular component organisation or biogenesis" EXACT [GOC:mah] synonym: "cellular component organisation or biogenesis at cellular level" EXACT [GOC:mah] synonym: "cellular component organization or biogenesis at cellular level" EXACT [] is_a: GO:0009987 ! cellular process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: mah creation_date: 2010-09-10T01:39:16Z @@ -8099,7 +8195,7 @@ name: plasma membrane region namespace: cellular_component def: "A membrane that is a (regional) part of the plasma membrane." [GOC:dos] comment: Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "region of plasma membrane" EXACT [] is_a: GO:0016020 ! membrane intersection_of: GO:0016020 ! membrane @@ -8126,7 +8222,6 @@ def: "A complex of collagen trimers such as a fibril or collagen network." [GOC: synonym: "Supramolecular aggregate of collagen" EXACT [PMID:19693541] synonym: "Supramolecular collagen assembly" EXACT [PMID:21421911] is_a: GO:0099080 ! supramolecular complex -is_a: PR:000050567 ! protein-containing material entity relationship: has_part GO:0005581 ! collagen trimer relationship: part_of GO:0062023 ! collagen-containing extracellular matrix @@ -8206,7 +8301,7 @@ name: plasma membrane signaling receptor complex namespace: cellular_component def: "Any protein complex that is part of the plasma membrane and which functions as a signaling receptor." [GOC:dos] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0043235 ! receptor complex is_a: GO:0098797 ! plasma membrane protein complex intersection_of: GO:0032991 ! protein-containing complex @@ -8414,6 +8509,7 @@ id: GO:1901576 name: organic substance biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon." [GOC:pr, GOC:TermGenie] +subset: gocheck_do_not_annotate synonym: "organic molecular entity anabolism" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthesis" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthetic process" EXACT [] @@ -8425,6 +8521,7 @@ synonym: "organic substance formation" EXACT [] synonym: "organic substance synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0071704 ! organic substance metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI created_by: pr creation_date: 2012-11-05T11:04:40Z @@ -8858,7 +8955,6 @@ name: quality namespace: quality alt_id: PATO:0000072 def: "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities" [PATOC:GVG] -is_a: BFO:0000020 ! specifically dependent continuant [Term] id: PATO:0000051 @@ -10552,21 +10648,6 @@ synonym: "fam:CTS" EXACT PRO-short-label [PRO:DNx] is_a: PR:000036194 ! eukaryotic protein relationship: RO:0002160 NCBITaxon:33208 ! only in taxon Metazoa -[Term] -id: PR:000050567 -name: protein-containing material entity -namespace: protein -def: "A material entity that minimally consists of a protein." [PRO:DAN] -comment: Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566). -synonym: "protein" NARROW [PRO:DAN] -synonym: "protein aggregate" NARROW [PRO:DAN] -synonym: "protein complex" NARROW [PRO:DAN] -synonym: "protein-containing complex" NARROW [PRO:DAN] -is_a: BFO:0000040 ! material entity -intersection_of: BFO:0000040 ! material entity -intersection_of: has_part PR:000000001 ! protein -relationship: has_part PR:000000001 ! protein - [Term] id: UBERON:0000000 name: processual entity @@ -10637,6 +10718,7 @@ xref: BILA:0000003 xref: CARO:0000003 xref: EHDAA2:0003003 xref: EMAPA:0 +xref: FBbt:00007001 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:305751 xref: FMA:67135 xref: GAID:781 @@ -10726,7 +10808,6 @@ xref: EFO:0001272 xref: FBdv:00005369 xref: WBls:0000041 xref: XtroDO:0000084 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000092 ! post-embryonic stage relationship: preceded_by UBERON:0000111 ! organogenesis stage @@ -10753,7 +10834,6 @@ xref: WBls:0000003 xref: WBls:0000092 xref: WBls:0000102 xref: XAO:1000012 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage disjoint_from: UBERON:0000092 ! post-embryonic stage relationship: precedes UBERON:0000066 ! fully formed stage @@ -10769,7 +10849,6 @@ subset: common_anatomy synonym: "death" RELATED [] xref: XAO:0000437 xref: XtroDO:0000085 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: RO:0002229 UBERON:0000104 ! ends life cycle property_value: RO:0002175 NCBITaxon:33090 @@ -10810,7 +10889,6 @@ xref: OGES:000024 xref: WBls:0000022 xref: WBls:0000093 xref: WBls:0000103 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: preceded_by UBERON:0000068 ! embryo stage relationship: RO:0002082 GO:0009791 ! simultaneous with post-embryonic development @@ -10832,7 +10910,6 @@ xref: HsapDv:0000001 xref: MmusDv:0000001 xref: ncithesaurus:Life xref: OGES:000011 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000000 ! processual entity relationship: ends_with UBERON:0000071 ! death stage relationship: has_part UBERON:0000105 ! life cycle stage @@ -10896,7 +10973,6 @@ xref: VHOG:0000745 xref: Wikipedia:Zygote xref: XAO:1000001 xref: ZFS:0000001 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: RO:0002223 UBERON:0000104 ! starts life cycle @@ -10920,7 +10996,6 @@ xref: PdumDv:0000200 xref: Wikipedia:Cleavage_(embryo) xref: XAO:1000004 xref: ZFS:0000046 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage intersection_of: UBERON:0000105 ! life cycle stage intersection_of: RO:0002082 GO:0040016 ! simultaneous with embryonic cleavage @@ -10946,7 +11021,6 @@ xref: WBls:0000005 xref: Wikipedia:Blastula xref: XAO:1000003 xref: ZFS:0000045 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000107 ! cleavage stage @@ -10976,7 +11050,6 @@ xref: OGES:000019 xref: WBls:0000010 xref: XAO:1000005 xref: ZFS:0000047 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000108 {source="BILS"} ! blastula stage @@ -10993,7 +11066,6 @@ xref: BILS:0000110 xref: HsapDv:0000012 xref: MmusDv:0000017 xref: XAO:1000006 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000109 ! gastrula stage @@ -11015,7 +11087,6 @@ xref: MmusDv:0000018 xref: OGES:000005 xref: OGES:000032 xref: Wikipedia:Organogenesis -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: RO:0002082 GO:0048513 ! simultaneous with animal organ development @@ -11055,6 +11126,7 @@ xref: EFO:0000825 xref: EHDAA2:0001326 xref: EHDAA:542 xref: EMAPA:16262 +xref: FBbt:00003126 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:49184 xref: GAID:75 xref: galen:Mouth @@ -11116,7 +11188,6 @@ xref: VHOG:0000224 xref: Wikipedia:Blood xref: XAO:0000124 xref: ZFA:0000007 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000179 ! haemolymphatic fluid relationship: has_part CL:0000232 {source="CL:tm"} ! erythrocyte relationship: has_part UBERON:0001969 ! blood plasma @@ -11221,6 +11292,7 @@ xref: CALOHA:TS-2101 xref: CARO:0000004 xref: EHDAA2:0003004 xref: EMAPA:35178 +xref: FBbt:00007019 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9669 xref: galen:BodySubstance xref: HAO:0000004 @@ -11255,6 +11327,7 @@ xref: AEO:0000005 xref: BILA:0000005 xref: CARO:0000005 xref: EHDAA2:0003005 +xref: FBbt:00007017 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:5897 xref: HAO:0000005 xref: NCIT:C94478 @@ -11282,12 +11355,12 @@ xref: AEO:0000006 xref: BILA:0000006 xref: CARO:0000006 xref: EHDAA2:0003006 +xref: FBbt:00007016 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67165 xref: HAO:0000006 xref: TAO:0001836 xref: TGMA:0001826 xref: VHOG:0001721 -is_a: BFO:0000040 ! material entity is_a: UBERON:0001062 ! anatomical entity disjoint_from: UBERON:0000466 ! immaterial anatomical entity property_value: RO:0002175 NCBITaxon:33090 @@ -11307,12 +11380,12 @@ xref: AEO:0000007 xref: BILA:0000007 xref: CARO:0000007 xref: EHDAA2:0003007 +xref: FBbt:00007015 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67112 xref: HAO:0000007 xref: TAO:0001835 xref: TGMA:0001827 xref: VHOG:0001727 -is_a: BFO:0000141 ! immaterial entity is_a: UBERON:0001062 ! anatomical entity property_value: RO:0002175 NCBITaxon:33090 property_value: RO:0002175 NCBITaxon:33208 @@ -11344,6 +11417,7 @@ xref: EHDAA2:0003011 xref: EHDAA:392 xref: EMAPA:16103 xref: EV:0100000 +xref: FBbt:00004856 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7149 xref: galen:AnatomicalSystem xref: HAO:0000011 @@ -11397,6 +11471,7 @@ xref: EHDAA2:0003191 xref: EHDAA:1 xref: EMAPA:25765 xref: EV:0100016 +xref: FBbt:00000001 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:256135 xref: galen:Organism xref: HAO:0000012 @@ -11440,6 +11515,7 @@ xref: CARO:0000032 xref: EFO:0000808 xref: EHDAA2:0003032 xref: EMAPA:36031 +xref: FBbt:00007009 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7153 xref: galen:BodyPart xref: HAO:0000032 @@ -11475,6 +11551,7 @@ xref: AEO:0000040 xref: BILA:0000040 xref: CARO:0000040 xref: EHDAA2:0003040 +xref: FBbt:00007013 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:63863 xref: HAO:0000040 xref: TAO:0000382 @@ -11494,6 +11571,7 @@ namespace: uberon def: "Anatomical group whose component anatomical structures lie in close proximity to each other." [FBbt:00007277] subset: common_anatomy subset: upper_level +xref: FBbt:00007277 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: VHOG:0001737 is_a: UBERON:0034923 ! disconnected anatomical group property_value: RO:0002175 NCBITaxon:33090 @@ -11520,6 +11598,7 @@ xref: CALOHA:TS-2090 xref: CARO:0000043 xref: EHDAA2:0003043 xref: EMAPA:35868 +xref: FBbt:00007003 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9637 xref: galen:Tissue xref: HAO:0000043 @@ -11554,6 +11633,7 @@ xref: AEO:0000055 xref: BILA:0000055 xref: CARO:0000055 xref: EHDAA2:0003055 +xref: FBbt:00007010 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: HAO:0000055 xref: TAO:0001488 xref: TGMA:0001847 @@ -11586,6 +11666,7 @@ xref: CALOHA:TS-0288 xref: CARO:0000066 xref: EHDAA2:0003066 xref: EMAPA:32738 +xref: FBbt:00007005 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9639 xref: GAID:402 xref: HAO:0000066 @@ -11599,7 +11680,6 @@ xref: VHOG:0000387 xref: Wikipedia:Epithelium xref: XAO:0003045 xref: ZFA:0001486 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000479 ! tissue intersection_of: UBERON:0000479 ! tissue intersection_of: RO:0002473 CL:0000066 ! composed primarily of epithelial cell @@ -11707,6 +11787,7 @@ xref: EHDAA2:0000002 xref: EHDAA2_RETIRED:0003236 xref: EHDAA:38 xref: EMAPA:16039 +xref: FBbt:00000052 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69068 xref: GAID:963 xref: http://neurolex.org/wiki/Category\:Embryonic_organism @@ -11747,6 +11828,7 @@ xref: AAO:0000480 xref: BILA:0000035 xref: BTO:0000556 xref: EMAPA:36033 +xref: FBbt:00000110 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69069 xref: GAID:1303 xref: MESH:D005855 @@ -11780,6 +11862,7 @@ xref: EFO:0000414 xref: EHDAA2:0000428 xref: EMAPA:16069 xref: EV:0100003 +xref: FBbt:00000111 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69070 xref: GAID:1304 xref: MAT:0000155 @@ -11817,6 +11900,7 @@ xref: EFO:0002545 xref: EHDAA2:0000436 xref: EMAPA:16062 xref: EV:0100005 +xref: FBbt:00000125 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69071 xref: GAID:1305 xref: MAT:0000175 @@ -11860,6 +11944,7 @@ xref: EHDAA:160 xref: EHDAA:183 xref: EMAPA:16083 xref: EV:0100006 +xref: FBbt:00000126 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69072 xref: GAID:522 xref: MAT:0000174 @@ -11899,6 +11984,7 @@ synonym: "stomodeal-hypophyseal primordium" BROAD [XAO:0000269] xref: BTO:0004224 xref: EHDAA2:0001929 xref: EMAPA:16263 +xref: FBbt:00000439 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:295846 xref: NCIT:C34306 xref: TAO:0001290 @@ -12033,6 +12119,7 @@ xref: BILA:0000082 xref: BTO:0000058 xref: CALOHA:TS-1293 xref: EFO:0000793 +xref: FBbt:00005055 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7152 xref: GAID:278 xref: galen:DigestiveSystem @@ -12147,6 +12234,7 @@ xref: EHDAA2:0001246 xref: EHDAA:826 xref: EMAPA:16469 xref: EV:0100162 +xref: FBbt:00005093 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7157 xref: GAID:466 xref: MA:0000016 @@ -12206,6 +12294,7 @@ xref: EHDAA:828 xref: EMAPA:16470 xref: EMAPA:16754 xref: EV:0100163 +xref: FBbt:00005094 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:55675 xref: GAID:570 xref: MA:0000167 @@ -12245,6 +12334,7 @@ xref: AEO:0000171 xref: BTO:0001886 xref: EFO:0001652 xref: EHDAA2:0003171 +xref: FBbt:00005495 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:86589 xref: MAT:0000482 xref: NCIT:C34275 @@ -12307,6 +12397,7 @@ xref: BILA:0000000 xref: BIRNLEX:6 xref: CARO:0000000 xref: EHDAA2:0002229 +xref: FBbt:10000000 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:62955 xref: HAO:0000000 xref: MA:0000001 @@ -12431,6 +12522,7 @@ xref: BTO:0000545 xref: EHDAA2:0000726 xref: EHDAA:518 xref: EMAPA:16247 +xref: FBbt:00003125 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45615 xref: galen:AlimentaryTract xref: MA:0000917 @@ -12503,7 +12595,6 @@ xref: MIAA:0000052 xref: NCIT:C13356 xref: UMLS:C0032105 {source="ncithesaurus:Plasma"} xref: Wikipedia:Blood_plasma -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000179 ! haemolymphatic fluid intersection_of: UBERON:0000463 ! organism substance intersection_of: has_part GO:0005577 ! fibrinogen complex @@ -12552,7 +12643,6 @@ xref: VHOG:0001250 xref: Wikipedia:Blood_vessel xref: XAO:0001011 xref: ZFA:0005314 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000055 ! vessel is_a: UBERON:0004120 ! mesoderm-derived structure relationship: capable_of_part_of GO:0008015 ! blood circulation @@ -12634,6 +12724,7 @@ xref: BILA:0000034 xref: BTO:0000174 xref: CALOHA:TS-2110 xref: EFO:0000461 +xref: FBbt:00004208 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69067 xref: GAID:407 xref: MESH:D004628 @@ -12850,6 +12941,7 @@ synonym: "ventral body cavity" NARROW [NCBITaxon:7742] xref: AEO:0000186 xref: BTO:0001707 xref: EHDAA2:0000267 +xref: FBbt:00005060 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:85006 xref: galen:BodyCavity xref: NCIT:C25444 @@ -13013,6 +13105,7 @@ xref: EHDAA:1498 xref: EHDAA:255 xref: EMAPA:16073 xref: EV:0100004 +xref: FBbt:00001057 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:87657 xref: MAT:0000176 xref: MIAA:0000176 @@ -13623,6 +13716,7 @@ def: "Epithelial tubes transport gases, liquids and cells from one site to anoth synonym: "epithelial or endothelial tube" EXACT [] xref: AEO:0000114 xref: EHDAA2:0003114 +xref: FBbt:00007474 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000025 ! tube is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium @@ -13831,7 +13925,6 @@ xref: WikipediaCategory:Cardiovascular_system xref: XAO:0000100 xref: XAO:0001010 xref: ZFA:0000010 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000467 ! anatomical system intersection_of: UBERON:0000467 ! anatomical system intersection_of: has_part UBERON:0000948 ! heart @@ -13855,7 +13948,6 @@ synonym: "blood vessels" RELATED [TAO:0001079] synonym: "set of blood vessels" EXACT [] xref: TAO:0001079 xref: ZFA:0001079 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: RO:0002473 UBERON:0001981 ! composed primarily of blood vessel @@ -13926,6 +14018,7 @@ synonym: "trilaminar disk" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar germ" RELATED [https://orcid.org/0000-0002-6601-2165] xref: BILA:0000060 xref: BTO:0001403 +xref: FBbt:00005317 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:293108 xref: GAID:1302 xref: MESH:D005775 @@ -14065,6 +14158,7 @@ namespace: uberon def: "Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "joint" NARROW [] +xref: FBbt:00005811 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0034921 ! multi organ part structure relationship: part_of UBERON:0004770 ! articular system @@ -14080,6 +14174,7 @@ synonym: "gut section" RELATED [FBbt:00100315] synonym: "intestinal tract" RELATED [] synonym: "segment of intestinal tract" RELATED [] synonym: "subdivision of alimentary system" RELATED [FMA:71131] +xref: FBbt:00100315 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:71131 is_a: UBERON:0013522 ! subdivision of tube intersection_of: UBERON:0013522 ! subdivision of tube @@ -14265,6 +14360,7 @@ synonym: "developmental tissue" RELATED [MIAA:0000019] xref: AEO:0000125 xref: CALOHA:TS-2122 xref: EHDAA2:0003125 +xref: FBbt:00007006 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:292313 xref: MIAA:0000019 is_a: UBERON:0000465 ! material anatomical entity @@ -14325,7 +14421,6 @@ xref: NCIT:C13191 xref: SCTID:68989006 xref: UMLS:C0004799 {source="ncithesaurus:Basement_Membrane"} xref: Wikipedia:Basement_membrane -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0005764 {source="FMA"} ! acellular membrane relationship: adjacent_to CL:0000066 ! epithelial cell relationship: has_part GO:0005587 ! collagen type IV trimer @@ -14544,7 +14639,6 @@ subset: efo_slim xref: EFO:0003709 xref: TAO:0005077 xref: ZFA:0005077 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0005423 ! developing anatomical structure relationship: has_part CL:0000115 ! endothelial cell relationship: has_part CL:0000566 ! angioblastic mesenchymal cell @@ -14771,6 +14865,7 @@ synonym: "organ field" RELATED [] xref: AEO:0000170 xref: EFO:0001649 xref: EHDAA2:0003170 +xref: FBbt:00005426 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: Wikipedia:Anlage_(biology) is_a: UBERON:0000479 {source="FBbt"} ! tissue is_a: UBERON:0005423 {source="AEO", source="FBbt"} ! developing anatomical structure @@ -14854,6 +14949,7 @@ subset: common_anatomy subset: upper_level synonym: "multicellular structure" EXACT [FBbt:00100313] xref: CARO:0010000 +xref: FBbt:00100313 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: RO:0000086 PATO:0001993 ! has quality multicellular @@ -14886,7 +14982,6 @@ synonym: "thrombus" EXACT [BTO:0000102] xref: BTO:0000102 xref: galen:BloodClot xref: Wikipedia:Thrombus -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000463 ! organism substance intersection_of: UBERON:0000463 ! organism substance intersection_of: output_of GO:0007596 ! blood coagulation @@ -14974,6 +15069,7 @@ def: "A subdivision of an anatomical system." [http://orcid.org/0000-0002-6601-2 subset: common_anatomy subset: human_reference_atlas subset: upper_level +xref: FBbt:00007330 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67509 xref: SCTID:91690000 is_a: UBERON:0010000 {source="FBbt"} ! multicellular anatomical structure @@ -15159,6 +15255,7 @@ name: non-connected functional system namespace: uberon def: "An anatomical group whose component structures share a common function." [AEO:0000093, AEO:JB, FBbt:00007278, FBC:DOS] xref: AEO:0000093 +xref: FBbt:00007278 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0034923 ! disconnected anatomical group [Term] @@ -15279,6 +15376,7 @@ namespace: uberon def: "Material anatomical entity consisting of multiple anatomical structures that are not connected to each other." [CARO:0020000] subset: common_anatomy xref: CARO:0020000 +xref: FBbt:00007276 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000465 {source="CARO"} ! material anatomical entity relationship: has_component UBERON:0000061 {minCardinality="2"} ! anatomical structure relationship: RO:0000086 PATO:0010001 ! has quality disconnected @@ -15352,15 +15450,6 @@ is_functional: true is_a: RO:0002314 ! characteristic of part of inverse_of: bearer_of ! bearer of -[Typedef] -id: RO:0000079 -name: function of -def: "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -property_value: IAO:0000116 "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." xsd:string -is_a: RO:0000052 ! characteristic of -inverse_of: RO:0000085 ! has function - [Typedef] id: RO:0000080 name: quality of @@ -15370,23 +15459,6 @@ property_value: IAO:0000116 "A quality inheres in its bearer at all times for wh is_a: RO:0000052 ! characteristic of inverse_of: RO:0000086 ! has quality -[Typedef] -id: RO:0000081 -name: role of -def: "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -property_value: IAO:0000116 "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." xsd:string -is_a: RO:0000052 ! characteristic of -inverse_of: RO:0000087 ! has role - -[Typedef] -id: RO:0000085 -name: has function -def: "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" [] -property_value: IAO:0000116 "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." xsd:string -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of - [Typedef] id: RO:0000086 name: has quality @@ -15394,30 +15466,6 @@ def: "a relation between an independent continuant (the bearer) and a quality, i property_value: IAO:0000116 "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." xsd:string is_a: bearer_of ! bearer of -[Typedef] -id: RO:0000087 -name: has role -def: "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" [] -property_value: IAO:0000116 "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." xsd:string -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of - -[Typedef] -id: RO:0000091 -name: has disposition -def: "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" [] -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of -inverse_of: RO:0000092 ! disposition of - -[Typedef] -id: RO:0000092 -name: disposition of -def: "inverse of has disposition" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -subset: RO:0002259 -is_a: RO:0000052 ! characteristic of - [Typedef] id: RO:0001000 name: derives from @@ -15449,8 +15497,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: IAO:0000116 "Location as a relation between instances: The primitive instance-level relation c located_in r at t reflects the fact that each continuant is at any given time associated with exactly one spatial region, namely its exact location. Following we can use this relation to define a further instance-level location relation - not between a continuant and the region which it exactly occupies, but rather between one continuant and another. c is located in c1, in this sense, whenever the spatial region occupied by c is part_of the spatial region occupied by c1. Note that this relation comprehends both the relation of exact location between one continuant and another which obtains when r and r1 are identical (for example, when a portion of fluid exactly fills a cavity), as well as those sorts of inexact location relations which obtain, for example, between brain and head or between ovum and uterus" xsd:string property_value: IAO:0000116 "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" xsd:string property_value: seeAlso "https://wiki.geneontology.org/Located_in" xsd:anyURI -domain: BFO:0000004 {IAO:0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant -range: BFO:0000004 {IAO:0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant is_transitive: true transitive_over: part_of ! part of @@ -15469,8 +15515,6 @@ name: has 2D boundary def: "a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity" [] property_value: IAO:0000116 "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." xsd:string property_value: IAO:0000116 "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." xsd:string -domain: BFO:0000040 ! material entity -range: BFO:0000141 ! immaterial entity is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -15485,34 +15529,6 @@ name: has synaptic terminal of is_a: overlaps ! overlaps inverse_of: RO:0002130 ! has synaptic terminal in -[Typedef] -id: RO:0002015 -name: has positive regulatory component activity -def: "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." [] -comment: By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'. -is_a: has_regulatory_component_activity ! has regulatory component activity -is_a: positively_regulated_by ! positively regulated by -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:31:17Z - -[Typedef] -id: RO:0002017 -name: has component activity -comment: A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B. -is_a: RO:0002018 ! has component process -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:44:33Z - -[Typedef] -id: RO:0002018 -name: has component process -def: "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." [] -domain: BFO:0000015 ! process -range: BFO:0000015 ! process -is_a: has_component ! has component -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:49:21Z - [Typedef] id: RO:0002021 name: occurs across @@ -15521,43 +15537,6 @@ is_a: RO:0002479 ! has part that occurs in created_by: https://orcid.org/0000-0002-7073-9172 creation_date: 2017-07-20T17:19:37Z -[Typedef] -id: RO:0002022 -name: directly regulated by -comment: Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. {xref="https://orcid.org/0000-0002-7073-9172"} -is_a: regulated_by ! regulated by -inverse_of: directly_regulates ! directly regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:24Z - -[Typedef] -id: RO:0002023 -name: directly negatively regulated by -def: "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1." [https://orcid.org/0000-0002-7073-9172] -is_a: RO:0002022 ! directly regulated by -inverse_of: directly_negatively_regulates ! directly negatively regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:38Z - -[Typedef] -id: RO:0002024 -name: directly positively regulated by -def: "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1." [https://orcid.org/0000-0002-7073-9172] -is_a: RO:0002022 ! directly regulated by -inverse_of: directly_positively_regulates ! directly positively regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:47Z - -[Typedef] -id: RO:0002025 -name: has effector activity -def: "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity." [https://orcid.org/0000-0002-7073-9172] -comment: This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations. -is_functional: true -is_a: RO:0002017 ! has component activity -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-22T14:14:36Z - [Typedef] id: RO:0002081 name: before or simultaneous with @@ -15681,8 +15660,6 @@ id: RO:0002150 name: continuous with def: "X continuous_with Y if and only if X and Y share a fiat boundary." [] property_value: seeAlso "FMA:85972" xsd:string -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_symmetric: true is_a: RO:0002323 ! mereotopologically related to @@ -15745,7 +15722,6 @@ name: connects def: "c connects a if and only if there exist some b such that a and b are similar parts of the same system, and c connects b, specifically, c connects a with b. When one structure connects two others it unites some aspect of the function or role they play within the system." [] property_value: seeAlso "https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern" xsd:anyURI property_value: seeAlso "https://github.com/obophenotype/uberon/wiki/Modeling-articulations-Design-Pattern" xsd:anyURI -domain: BFO:0000004 ! independent continuant is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -15776,8 +15752,6 @@ id: RO:0002202 name: develops from def: "x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y" [] comment: This is the transitive form of the develops from relation -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_transitive: true is_a: RO:0002254 ! has developmental contribution from is_a: RO:0002258 ! developmentally preceded by @@ -15797,7 +15771,6 @@ is_a: RO:0002388 ! has potential to directly develop into id: RO:0002206 name: expressed in def: "x expressed in y if and only if there is a gene expression process (GO:0010467) that occurs in y, and one of the following holds: (i) x is a gene, and x is transcribed into a transcript as part of the gene expression process (ii) x is a transcript, and the transcription of x is part of the gene expression process (iii) x is a mature gene product such as a protein, and x was translated or otherwise processes from a transcript that was transcribed as part of this gene expression process" [] -domain: BFO:0000002 ! continuant range: UBERON:0000465 ! material anatomical entity is_a: RO:0002330 ! genomically related to inverse_of: RO:0002292 ! expresses @@ -15838,8 +15811,6 @@ id: RO:0002222 name: temporally related to comment: A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. subset: ro-eco -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent [Typedef] id: RO:0002223 @@ -15931,8 +15902,6 @@ name: developmentally preceded by def: "Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p" [] comment: This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from property_value: IAO:0000116 "false" xsd:boolean -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant is_a: RO:0002324 ! developmentally related to inverse_of: RO:0002286 ! developmentally succeeded by @@ -15942,7 +15911,6 @@ name: acts upstream of def: "c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes." [] subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of -holds_over_chain: RO:0002327 causally_upstream_of is_a: RO:0002264 ! acts upstream of or within [Typedef] @@ -15952,7 +15920,6 @@ def: "c acts upstream of or within p if c is enables f, and f is causally upstre subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term synonym: "affects" RELATED [] property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of_or_within is_a: RO:0002500 ! causal agent in process [Typedef] @@ -16004,17 +15971,6 @@ id: RO:0002324 name: developmentally related to def: "A relationship that holds between entities participating in some developmental process (GO:0032502)" [] -[Typedef] -id: RO:0002327 -name: enables -def: "c enables p iff c is capable of p and c acts to execute p." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Enables" xsd:anyURI -is_a: capable_of ! capable of -inverse_of: RO:0002333 ! enabled by -transitive_over: has_part ! has part -transitive_over: RO:0002017 ! has component activity - [Typedef] id: RO:0002328 name: functionally related to @@ -16030,34 +15986,11 @@ is_a: RO:0002328 ! functionally related to id: RO:0002330 name: genomically related to def: "holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts." [] -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant - -[Typedef] -id: RO:0002331 -name: involved in -def: "c involved_in p if and only if c enables some process p', and p' is part of p" [] -property_value: seeAlso "https://wiki.geneontology.org/Involved_in" xsd:anyURI -holds_over_chain: RO:0002327 part_of -is_a: participates_in ! participates in -is_a: RO:0002431 ! involved in or involved in regulation of -transitive_over: part_of ! part of - -[Typedef] -id: RO:0002333 -name: enabled by -def: "inverse of enables" [] -subset: http://purl.obolibrary.org/obo/valid_for_gocam -property_value: seeAlso "https://wiki.geneontology.org/Enabled_by" xsd:anyURI -is_a: has_participant ! has participant -is_a: RO:0002328 ! functionally related to [Typedef] id: RO:0002337 name: related via localization to def: "A relationship that holds via some process of localization" [] -domain: BFO:0000015 ! process -range: BFO:0000002 ! continuant [Typedef] id: RO:0002350 @@ -16124,8 +16057,6 @@ name: in branching relationship with def: "A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network." [] property_value: seeAlso http://purl.obolibrary.org/obo/ro/docs/branching_part_of.png property_value: seeAlso "https://github.com/obophenotype/uberon/issues/170" xsd:anyURI -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -16187,31 +16118,6 @@ name: has potential to directly develop into def: "x has potential to directly develop into y iff x directly develops into y or x is capable of directly developing into y" [] is_a: RO:0002387 ! has potential to develop into -[Typedef] -id: RO:0002407 -name: indirectly positively regulates -def: "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." [] -property_value: seeAlso "https://wiki.geneontology.org/Indirectly_positively_regulates" xsd:anyURI -holds_over_chain: directly_positively_regulates directly_positively_regulates -holds_over_chain: directly_positively_regulates RO:0002407 -holds_over_chain: RO:0002409 RO:0002409 -is_transitive: true -is_a: positively_regulates ! positively regulates -is_a: RO:0012012 ! indirectly regulates -transitive_over: directly_positively_regulates ! directly positively regulates - -[Typedef] -id: RO:0002409 -name: indirectly negatively regulates -def: "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." [] -property_value: seeAlso "https://wiki.geneontology.org/Indirectly_negatively_regulates" xsd:anyURI -holds_over_chain: directly_negatively_regulates directly_negatively_regulates -holds_over_chain: directly_negatively_regulates RO:0002409 -is_transitive: true -is_a: negatively_regulates ! negatively regulates -is_a: RO:0012012 ! indirectly regulates -transitive_over: directly_negatively_regulates ! directly negatively regulates - [Typedef] id: RO:0002410 name: causally related to @@ -16222,28 +16128,9 @@ property_value: IAO:0000116 "This branch of the ontology deals with causal relat id: RO:0002428 name: involved in regulation of def: "c involved in regulation of p if c is involved in some p' and p' regulates some p" [] -holds_over_chain: RO:0002327 regulates -holds_over_chain: RO:0002331 regulates is_a: RO:0002263 ! acts upstream of is_a: RO:0002431 ! involved in or involved in regulation of -[Typedef] -id: RO:0002429 -name: involved in positive regulation of -def: "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" [] -holds_over_chain: RO:0002327 positively_regulates -holds_over_chain: RO:0002331 positively_regulates -is_a: RO:0002428 ! involved in regulation of - -[Typedef] -id: RO:0002430 -name: involved in negative regulation of -def: "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" [] -property_value: RO:0004050 RO:0002428 -holds_over_chain: RO:0002327 negatively_regulates -holds_over_chain: RO:0002331 negatively_regulates -is_a: RO:0002428 ! involved in regulation of - [Typedef] id: RO:0002431 name: involved in or involved in regulation of @@ -16253,87 +16140,17 @@ is_a: RO:0002264 ! acts upstream of or within is_a: RO:0002328 ! functionally related to is_a: RO:0002500 ! causal agent in process -[Typedef] -id: RO:0002432 -name: is active in -def: "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure." [https://orcid.org/0000-0002-6601-2165, https://orcid.org/0000-0002-7073-9172] -synonym: "enables activity in" EXACT [] -property_value: seeAlso "https://wiki.geneontology.org/Is_active_in" xsd:anyURI -is_a: overlaps ! overlaps -is_a: RO:0002328 ! functionally related to - [Typedef] id: RO:0002433 name: contributes to morphology of def: "p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm." [] is_a: overlaps ! overlaps -[Typedef] -id: RO:0002434 -name: interacts with -def: "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." [] -subset: ro-eco -synonym: "in pairwise interaction with" EXACT [] -property_value: IAO:0000116 "Considering relabeling as 'pairwise interacts with'" xsd:anyURI -property_value: IAO:0000116 "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." xsd:string -property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_symmetric: true - -[Typedef] -id: RO:0002436 -name: molecularly interacts with -def: "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." [] -property_value: seeAlso ECO:0000353 -is_symmetric: true -is_a: RO:0002434 ! interacts with - -[Typedef] -id: RO:0002447 -name: phosphorylates -property_value: IAO:0000116 "Axiomatization to GO to be added later" xsd:string -is_a: RO:0002436 ! molecularly interacts with - -[Typedef] -id: RO:0002448 -name: directly regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." [] -synonym: "molecularly controls" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002436 ! molecularly interacts with -is_a: RO:0011002 ! regulates activity of - -[Typedef] -id: RO:0002449 -name: directly negatively regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." [] -synonym: "molecularly decreases activity of" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002448 ! directly regulates activity of - -[Typedef] -id: RO:0002450 -name: directly positively regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." [] -synonym: "molecularly increases activity of" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002448 ! directly regulates activity of - -[Typedef] -id: RO:0002464 -name: helper property (not for use in curation) - [Typedef] id: RO:0002473 name: composed primarily of def: "x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y." [] subset: ro-eco -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: has_part ! has part [Typedef] @@ -16341,13 +16158,6 @@ id: RO:0002479 name: has part that occurs in def: "p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c." [] subset: ro-eco -domain: BFO:0000003 ! occurrent -range: BFO:0000004 ! independent continuant - -[Typedef] -id: RO:0002481 -name: is kinase activity -is_a: RO:0002564 ! molecular interaction relation helper property [Typedef] id: RO:0002485 @@ -16365,8 +16175,6 @@ is_a: RO:0002170 ! connected to [Typedef] id: RO:0002487 name: relation between physical entity and a process or stage -domain: BFO:0000004 ! independent continuant -range: BFO:0000003 ! occurrent [Typedef] id: RO:0002488 @@ -16463,8 +16271,6 @@ inverse_of: process_has_causal_agent ! process has causal agent id: RO:0002501 name: causal relation between processes def: "p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q." [] -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent is_a: RO:0002410 ! causally related to [Typedef] @@ -16472,14 +16278,6 @@ id: RO:0002502 name: depends on property_value: seeAlso BFO:0000169 -[Typedef] -id: RO:0002506 -name: causal relation between entities -property_value: IAO:0000116 "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" xsd:string -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant -is_a: RO:0002410 ! causally related to - [Typedef] id: RO:0002551 name: has skeleton @@ -16490,32 +16288,6 @@ is_a: has_part ! has part inverse_of: RO:0002576 ! skeleton of is_asymmetric: true -[Typedef] -id: RO:0002559 -name: causally influenced by -is_a: RO:0002506 ! causal relation between entities -inverse_of: RO:0002566 ! causally influences - -[Typedef] -id: RO:0002563 -name: interaction relation helper property -property_value: seeAlso http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29 -property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI -is_a: RO:0002464 ! helper property (not for use in curation) - -[Typedef] -id: RO:0002564 -name: molecular interaction relation helper property -is_a: RO:0002563 ! interaction relation helper property - -[Typedef] -id: RO:0002566 -name: causally influences -def: "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." [] -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant -is_a: RO:0002506 ! causal relation between entities - [Typedef] id: RO:0002567 name: biomechanically related to @@ -16545,8 +16317,6 @@ id: RO:0002570 name: conduit for def: "x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x." [] subset: ro-eco -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: overlaps ! overlaps [Typedef] @@ -16554,7 +16324,6 @@ id: RO:0002571 name: lumen of def: "x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull." [] subset: ro-eco -range: BFO:0000040 ! material entity is_a: part_of ! part of [Typedef] @@ -16562,7 +16331,6 @@ id: RO:0002572 name: luminal space of def: "s is luminal space of x iff s is lumen_of x and s is an immaterial entity" [] subset: ro-eco -domain: BFO:0000141 ! immaterial entity is_a: RO:0002571 ! lumen of [Typedef] @@ -16593,8 +16361,6 @@ id: RO:0002595 name: causal relation between material entity and a process def: "A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity." [] property_value: IAO:0000116 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string -domain: BFO:0000040 ! material entity -range: BFO:0000015 ! process is_a: RO:0002410 ! causally related to [Typedef] @@ -16618,61 +16384,6 @@ def: "Holds between c and p if and only if c is capable of some activity a, and holds_over_chain: capable_of positively_regulates is_a: RO:0002596 ! capable of regulating -[Typedef] -id: RO:0004031 -name: enables subfunction -def: "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." [] -holds_over_chain: RO:0002327 has_part -is_a: RO:0002328 ! functionally related to -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-25T23:20:13Z - -[Typedef] -id: RO:0004032 -name: acts upstream of or within, positive effect -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect" xsd:anyURI -holds_over_chain: RO:0002327 RO:0004047 -is_a: RO:0002264 ! acts upstream of or within -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:49:30Z - -[Typedef] -id: RO:0004033 -name: acts upstream of or within, negative effect -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: RO:0004050 RO:0002264 -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect" xsd:anyURI -holds_over_chain: RO:0002327 RO:0004046 -is_a: RO:0002264 ! acts upstream of or within -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:49:51Z - -[Typedef] -id: RO:0004034 -name: acts upstream of, positive effect -def: "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of,_positive_effect -is_a: RO:0002263 ! acts upstream of -is_a: RO:0004032 ! acts upstream of or within, positive effect -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:53:14Z - -[Typedef] -id: RO:0004035 -name: acts upstream of, negative effect -def: "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: RO:0004050 RO:0002263 -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of,_negative_effect -is_a: RO:0002263 ! acts upstream of -is_a: RO:0004033 ! acts upstream of or within, negative effect -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:53:22Z - [Typedef] id: RO:0004046 name: causally upstream of or within, negative effect @@ -16690,14 +16401,6 @@ is_a: causally_upstream_of_or_within ! causally upstream of or within created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-03-13T23:55:19Z -[Typedef] -id: RO:0011002 -name: regulates activity of -def: "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002566 ! causally influences - [Typedef] id: RO:0012000 name: has small molecule regulator @@ -16725,23 +16428,6 @@ is_a: RO:0012004 ! is small molecule regulator of created_by: https://orcid.org/0000-0003-1813-6857 creation_date: 2020-06-24T13:15:26Z -[Typedef] -id: RO:0012011 -name: indirectly causally upstream of -def: "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." [] -is_a: causally_upstream_of ! causally upstream of -created_by: https://orcid.org/0000-0003-1813-6857 -creation_date: 2022-09-26T06:07:17Z - -[Typedef] -id: RO:0012012 -name: indirectly regulates -def: "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." [] -is_a: regulates ! regulates -is_a: RO:0012011 ! indirectly causally upstream of -created_by: https://orcid.org/0000-0003-1813-6857 -creation_date: 2022-09-26T06:08:01Z - [Typedef] id: RO:0013001 name: has synaptic IO in region @@ -16822,6 +16508,8 @@ id: RO:0017001 name: device utilizes material def: "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y." [] synonym: "utilizes" BROAD [] +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-9625-1899 +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-2620-0345 holds_over_chain: capable_of has_input creation_date: 2021-11-08T12:00:00Z @@ -16848,8 +16536,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002220 property_value: IAO:0000116 "This relation acts as a join point with BSPO" xsd:string -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_a: RO:0002163 ! spatially disjoint from [Typedef] @@ -16868,7 +16554,6 @@ namespace: external def: "Inverse of characteristic_of" [] xref: RO:0000053 property_value: IAO:0000116 "A bearer can have many dependents, and its dependents can exist for different periods of time, but none of its dependents can exist when the bearer does not exist." xsd:string -range: BFO:0000020 ! specifically dependent continuant is_inverse_functional: true [Typedef] @@ -16879,7 +16564,6 @@ def: "X outer_layer_of Y iff:\n. X :continuant that bearer_of some PATO:laminar\ comment: A relationship that applies between a continuant and its outer, bounding layer. Examples include the relationship between a multicellular organism and its integument, between an animal cell and its plasma membrane, and between a membrane bound organelle and its outer/bounding membrane. subset: ro-eco xref: RO:0002007 -range: BFO:0000040 ! material entity is_a: part_of ! part of [Typedef] @@ -16889,8 +16573,6 @@ namespace: external def: "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. " [] subset: ro-eco xref: RO:0002215 -domain: BFO:0000004 ! independent continuant -range: BFO:0000015 ! process is_a: capable_of_part_of ! capable of part of [Typedef] @@ -16989,45 +16671,6 @@ id: channels_into name: channels_into namespace: uberon -[Typedef] -id: directly_negatively_regulates -name: directly negatively regulates -namespace: external -def: "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002630 -property_value: RO:0004050 RO:0002578 -property_value: seeAlso "https://wiki.geneontology.org/Directly_negatively_regulates" xsd:anyURI -is_a: directly_regulates ! directly regulates -is_a: negatively_regulates ! negatively regulates - -[Typedef] -id: directly_positively_regulates -name: directly positively regulates -namespace: external -def: "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002629 -property_value: seeAlso "https://wiki.geneontology.org/Directly_positively_regulates" xsd:anyURI -is_a: directly_regulates ! directly regulates -is_a: positively_regulates ! positively regulates - -[Typedef] -id: directly_regulates -name: directly regulates -namespace: external -def: "p directly regulates q iff p is immediately causally upstream of q and p regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002578 -is_a: immediately_causally_upstream_of ! immediately causally upstream of -is_a: regulates ! regulates - [Typedef] id: distally_connected_to name: distally connected to @@ -17079,8 +16722,6 @@ namespace: external def: "x 'has end location' y if and only if there exists some process z such that x 'ends with' z and z 'occurs in' y" [] subset: ro-eco xref: RO:0002232 -domain: BFO:0000015 ! process -range: BFO:0000004 ! independent continuant holds_over_chain: ends_with occurs_in is_a: RO:0002479 ! has part that occurs in @@ -17103,7 +16744,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_gocam subset: ro-eco xref: RO:0002233 property_value: seeAlso "https://wiki.geneontology.org/Has_input" xsd:anyURI -domain: BFO:0000015 ! process holds_over_chain: starts_with has_input is_a: has_participant ! has participant inverse_of: RO:0002352 ! input of @@ -17116,18 +16756,6 @@ property_value: term_tracker_item https://github.com/obophenotype/cell-ontology/ is_obsolete: true replaced_by: RO:0015016 -[Typedef] -id: has_negative_regulatory_component_activity -name: has negative regulatory component activity -namespace: external -def: "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." [] -comment: By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'. -xref: RO:0002014 -is_a: has_regulatory_component_activity ! has regulatory component activity -is_a: negatively_regulated_by ! negatively regulated by -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:31:01Z - [Typedef] id: has_ontology_root_term name: has ontology root term @@ -17176,8 +16804,6 @@ namespace: external def: "a relation between a process and a continuant, in which the continuant is somehow involved in the process" [] xref: RO:0000057 property_value: IAO:0000116 "Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time." xsd:string -domain: BFO:0000003 ! occurrent -range: BFO:0000002 ! continuant holds_over_chain: has_part has_participant [Typedef] @@ -17215,17 +16841,6 @@ is_a: has_primary_input_or_output ! has primary input or output created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-12-13T11:26:32Z -[Typedef] -id: has_regulatory_component_activity -name: has regulatory component activity -namespace: external -def: "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." [] -xref: RO:0002013 -is_a: regulated_by ! regulated by -is_a: RO:0002017 ! has component activity -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:30:46Z - [Typedef] id: has_small_molecule_activator name: has small molecule activator @@ -17244,8 +16859,6 @@ namespace: external def: "x 'has starts location' y if and only if there exists some process z such that x 'starts with' z and z 'occurs in' y" [] subset: ro-eco xref: RO:0002231 -domain: BFO:0000015 ! process -range: BFO:0000004 ! independent continuant holds_over_chain: starts_with occurs_in is_a: RO:0002479 ! has part that occurs in @@ -17273,24 +16886,6 @@ xref: RO:0002338 is_a: results_in_transport_to_from_or_in ! results in transport to from or in transitive_over: part_of ! part of -[Typedef] -id: immediately_causally_downstream_of -name: immediately causally downstream of -namespace: external -xref: RO:0002405 -is_a: causally_downstream_of ! causally downstream of -is_a: immediately_preceded_by ! immediately preceded by -inverse_of: immediately_causally_upstream_of ! immediately causally upstream of - -[Typedef] -id: immediately_causally_upstream_of -name: immediately causally upstream of -namespace: external -def: "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." [] -xref: RO:0002412 -is_a: causally_upstream_of ! causally upstream of -is_a: immediately_precedes ! immediately precedes - [Typedef] id: immediately_preceded_by name: immediately preceded by @@ -17349,17 +16944,6 @@ is_a: causally_upstream_of,_negative_effect ! causally upstream of, negative eff is_a: regulates ! regulates inverse_of: negatively_regulated_by ! negatively regulated by -[Typedef] -id: negatively_regulates_characteristic -name: negatively regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." [] -xref: RO:0019002 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -holds_over_chain: negatively_regulates positively_regulates_characteristic -holds_over_chain: positively_regulates negatively_regulates_characteristic -is_a: regulates_characteristic ! regulates characteristic - [Typedef] id: occurs_in name: occurs in @@ -17371,8 +16955,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: BFO:0000066 property_value: seeAlso "https://wiki.geneontology.org/Occurs_in" xsd:anyURI -domain: BFO:0000003 ! occurrent -range: BFO:0000004 ! independent continuant holds_over_chain: part_of occurs_in inverse_of: BFO:0000067 ! contains process transitive_over: part_of ! part of @@ -17433,8 +17015,6 @@ name: participates in namespace: external def: "a relation between a continuant and a process, in which the continuant is somehow involved in the process" [] xref: RO:0000056 -domain: BFO:0000002 ! continuant -range: BFO:0000003 ! occurrent inverse_of: has_participant ! has participant [Typedef] @@ -17462,16 +17042,6 @@ is_a: causally_upstream_of,_positive_effect ! causally upstream of, positive eff is_a: regulates ! regulates inverse_of: positively_regulated_by ! positively regulated by -[Typedef] -id: positively_regulates_characteristic -name: positively regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." [] -xref: RO:0019001 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -holds_over_chain: positively_regulates positively_regulates_characteristic -is_a: regulates_characteristic ! regulates characteristic - [Typedef] id: posteriorly_connected_to name: posteriorly connected to @@ -17487,8 +17057,6 @@ def: "x is preceded by y if and only if the time point at which y ends is before subset: ro-eco xref: BFO:0000062 property_value: IAO:0000116 "An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other." xsd:string -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent holds_over_chain: part_of preceded_by is_transitive: true is_a: RO:0002086 ! ends after @@ -17501,8 +17069,6 @@ namespace: external def: "x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." [] subset: ro-eco xref: BFO:0000063 -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent holds_over_chain: part_of precedes is_transitive: true is_a: RO:0002222 ! temporally related to @@ -17522,8 +17088,6 @@ namespace: external def: "a produced_by b iff some process that occurs_in b has_output a." [] subset: ro-eco xref: RO:0003001 -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity [Typedef] id: produces @@ -17533,8 +17097,6 @@ def: "a produces b if some process that occurs_in a has_output b, where a and b comment: Note that this definition doesn't quite distinguish the output of a transformation process from a production process, which is related to the identity/granularity issue. subset: ro-eco xref: RO:0003000 -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity inverse_of: produced_by ! produced by [Typedef] @@ -17557,8 +17119,6 @@ namespace: external def: "inverse of regulates" [] subset: RO:0002259 xref: RO:0002334 -domain: BFO:0000015 ! process -range: BFO:0000015 ! process is_transitive: true is_a: causally_downstream_of_or_within ! causally downstream of or within @@ -17571,26 +17131,10 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002211 -domain: BFO:0000015 ! process -range: BFO:0000015 ! process -holds_over_chain: directly_regulates directly_regulates holds_over_chain: ends_with regulates is_transitive: true is_a: causally_upstream_of ! causally upstream of inverse_of: regulated_by ! regulated by -transitive_over: RO:0002025 ! has effector activity - -[Typedef] -id: regulates_characteristic -name: regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." [] -xref: RO:0019000 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -domain: BFO:0000015 ! process -range: PATO:0000001 ! quality -holds_over_chain: regulates regulates_characteristic -is_a: RO:0002410 ! causally related to [Typedef] id: regulates_levels_of @@ -17598,8 +17142,6 @@ name: regulates levels of namespace: external def: "p regulates levels of c if p regulates some amount (PATO:0000070) of c" [] xref: RO:0002332 -domain: BFO:0000015 ! process -range: BFO:0000040 ! material entity is_a: RO:0002328 ! functionally related to [Typedef] diff --git a/subsets/blood_and_immune_upper_slim.owl b/subsets/blood_and_immune_upper_slim.owl index 75f5291d1..2a51bb253 100644 --- a/subsets/blood_and_immune_upper_slim.owl +++ b/subsets/blood_and_immune_upper_slim.owl @@ -14,8 +14,7 @@ xmlns:foaf="http://xmlns.com/foaf/0.1/" xmlns:pato="http://purl.obolibrary.org/obo/pato#" xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#" - xmlns:swrl="http://www.w3.org/2003/11/swrl#" - xmlns:swrlb="http://www.w3.org/2003/11/swrlb#" + xmlns:sssom="https://w3id.org/sssom/" xmlns:terms="http://purl.org/dc/terms/" xmlns:uberon="http://purl.obolibrary.org/obo/uberon#" xmlns:ubprop="http://purl.obolibrary.org/obo/ubprop#" @@ -23,8 +22,8 @@ xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#" xmlns:ncbitaxon="http://purl.obolibrary.org/obo/ncbitaxon#"> - - 2024-04-05 + + 2024-05-15 @@ -393,14 +392,6 @@ WHERE { - - - - - - - - @@ -433,6 +424,14 @@ WHERE { + + + + + + + + @@ -481,6 +480,14 @@ WHERE { + + + + + + + + @@ -497,6 +504,14 @@ WHERE { + + + + + + + + @@ -1029,12 +1044,6 @@ WHERE { - - - - - - @@ -1237,6 +1246,12 @@ WHERE { + + + + + + - - @@ -1515,19 +1519,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence - A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists. - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - function of - - - - @@ -1541,31 +1532,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence - A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists. - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - role of - - - - - - - - - - a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence - A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists. - has function - - - - @@ -1577,42 +1543,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence - A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists. - has role - - - - - - - - - - - a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence - has disposition - - - - - - - - - inverse of has disposition - - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - disposition of - - - - @@ -1652,8 +1582,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - @@ -1665,18 +1593,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. located in https://wiki.geneontology.org/Located_in - - - - - This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation. - - - - - - This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation. - @@ -1697,8 +1613,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts. Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape. @@ -1731,7 +1645,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - X outer_layer_of Y iff: . X :continuant that bearer_of some PATO:laminar . X part_of Y @@ -1753,81 +1666,6 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 - - - - - - A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B. - - 2017-05-24T09:30:46Z - RO:0002013 - external - has_regulatory_component_activity - has_regulatory_component_activity - has regulatory component activity - - - - - - - - - - A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B. - - 2017-05-24T09:31:01Z - RO:0002014 - external - has_negative_regulatory_component_activity - has_negative_regulatory_component_activity - By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'. - has negative regulatory component activity - - - - - - - - - - A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B. - - 2017-05-24T09:31:17Z - By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'. - has positive regulatory component activity - - - - - - - - - - 2017-05-24T09:44:33Z - A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B. - has component activity - - - - - - - - - - - w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type. - - 2017-05-24T09:49:21Z - has component process - - - - @@ -1840,83 +1678,6 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 - - - - - - - 2017-09-17T13:52:24Z - Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. - directly regulated by - - - - - Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. - - - - - - - - - - - Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1. - - 2017-09-17T13:52:38Z - directly negatively regulated by - - - - - Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1. - - - - - - - - - - - Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1. - - 2017-09-17T13:52:47Z - directly positively regulated by - - - - - Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1. - - - - - - - - - - - A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity. - - 2017-09-22T14:14:36Z - This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations. - has effector activity - - - - - A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity. - - - - - @@ -2235,8 +1996,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - X continuous_with Y if and only if X and Y share a fiat boundary. continuous with FMA:85972 @@ -2356,7 +2115,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - c connects a if and only if there exist some b such that a and b are similar parts of the same system, and c connects b, specifically, c connects a with b. When one structure connects two others it unites some aspect of the function or role they play within the system. connects https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern @@ -2425,8 +2183,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y This is the transitive form of the develops from relation develops from @@ -2453,7 +2209,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - @@ -2511,20 +2266,10 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - - - - - p regulates q iff p is causally upstream of q, the execution of p is not constant and varies according to specific conditions, and p influences the rate or magnitude of execution of q due to an effect either on some enabler of q or some enabler of a part of q. RO:0002211 external @@ -2597,8 +2342,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. RO:0002215 external @@ -2643,8 +2386,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - x adjacent to y if and only if x and y share a boundary. This relation acts as a join point with BSPO RO:0002220 @@ -2674,8 +2415,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. temporally related to @@ -2778,8 +2517,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - @@ -2800,8 +2537,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - @@ -2823,7 +2558,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - @@ -2955,8 +2689,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p false This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from @@ -2969,10 +2701,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes. acts upstream of @@ -2985,10 +2713,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - c acts upstream of or within p if c is enables f, and f is causally upstream of or within p. c is a material entity and p is an process. affects @@ -3238,27 +2962,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - - - - - - - - c enables p iff c is capable of p and c acts to execute p. - - enables - https://wiki.geneontology.org/Enables - - - - @@ -3281,40 +2984,16 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts. genomically related to - - - - - - - - - - - - - - c involved_in p if and only if c enables some process p', and p' is part of p - involved in - https://wiki.geneontology.org/Involved_in - - - - - - p regulates levels of c if p regulates some amount (PATO:0000070) of c RO:0002332 external @@ -3326,26 +3005,11 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - inverse of enables - - enabled by - https://wiki.geneontology.org/Enabled_by - - - - - - inverse of regulates RO:0002334 external @@ -3393,8 +3057,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relationship that holds via some process of localization related via localization to @@ -3521,7 +3183,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - has member is a mereological relation between a collection and an item. has member @@ -3632,8 +3293,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network. in branching relationship with @@ -3762,76 +3421,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - RO:0002405 - external - immediately_causally_downstream_of - immediately_causally_downstream_of - immediately causally downstream of - immediately causally downstream of - - - - - - - - - - - - - - - - - - - - - - - - - - - p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q. - indirectly positively regulates - https://wiki.geneontology.org/Indirectly_positively_regulates - - - - - - - - - - - - - - - - - - - - - - - p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q. - indirectly negatively regulates - https://wiki.geneontology.org/Indirectly_negatively_regulates - - - - @@ -3881,22 +3470,6 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q. - RO:0002412 - external - immediately_causally_upstream_of - immediately_causally_upstream_of - immediately causally upstream of - immediately causally upstream of - - - - @@ -3936,57 +3509,12 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - - - c involved in regulation of p if c is involved in some p' and p' regulates some p involved in regulation of - - - - - - - - - - - - - c involved in regulation of p if c is involved in some p' and p' positively regulates some p - involved in positive regulation of - - - - - - - - - - - - - - - - - c involved in regulation of p if c is involved in some p' and p' negatively regulates some p - - involved in negative regulation of - - - - @@ -4000,27 +3528,6 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure. - enables activity in - - is active in - https://wiki.geneontology.org/Is_active_in - - - - - c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure. - - - - - - @@ -4031,118 +3538,10 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - - A relationship that holds between two entities in which the processes executed by the two entities are causally connected. - This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact. - Considering relabeling as 'pairwise interacts with' - in pairwise interaction with - - interacts with - http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ - - - - - - - - - - An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other. - molecularly interacts with - - - - - - - - - - Axiomatization to GO to be added later - phosphorylates - - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B. - -A and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B. - molecularly controls - directly regulates activity of - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. -For example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B. - molecularly decreases activity of - directly negatively regulates activity of - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. -For example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B. - molecularly increases activity of - directly positively regulates activity of - - - - - - - - helper property (not for use in curation) - - - - - - x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y. composed primarily of @@ -4153,8 +3552,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c. has part that occurs in @@ -4162,15 +3559,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - is kinase activity - - - - @@ -4195,8 +3583,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - relation between physical entity and a process or stage @@ -4377,8 +3763,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q. causal relation between processes @@ -4394,25 +3778,12 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch - causal relation between entities - - - - - A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision. @@ -4427,36 +3798,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - causally influenced by - - - - - - - - - interaction relation helper property - - http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ - - - - - - - - - molecular interaction relation helper property - - - - @@ -4474,28 +3815,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size). - causally influences - - - - @@ -4536,8 +3855,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x. conduit for @@ -4549,7 +3866,6 @@ For example, A and B may be gene products and binding of B by A positively regul - x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull. lumen of @@ -4561,7 +3877,6 @@ For example, A and B may be gene products and binding of B by A positively regul - s is luminal space of x iff s is lumen_of x and s is an immaterial entity luminal space of @@ -4582,24 +3897,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - p directly regulates q iff p is immediately causally upstream of q and p regulates q. - RO:0002578 - external - directly_regulates - - - - directly_regulates - directly regulates - - - - @@ -4675,8 +3972,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity. Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect. causal relation between material entity and a process @@ -4740,51 +4035,10 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q. - RO:0002629 - external - directly_positively_regulates - - - - directly_positively_regulates - directly positively regulates - https://wiki.geneontology.org/Directly_positively_regulates - - - - - - - - - - p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q. - - RO:0002630 - external - directly_negatively_regulates - - - - directly_negatively_regulates - directly negatively regulates - https://wiki.geneontology.org/Directly_negatively_regulates - - - - - - @@ -4807,8 +4061,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - a produced_by b iff some process that occurs_in b has_output a. RO:0003001 external @@ -4894,96 +4146,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P. - - 2018-01-25T23:20:13Z - enables subfunction - - - - - - - - - - - - - - 2018-01-26T23:49:30Z - - acts upstream of or within, positive effect - https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect - - - - - - - - - - - - - - - 2018-01-26T23:49:51Z - - acts upstream of or within, negative effect - https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect - - - - - - - - - - - - - - c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive - - 2018-01-26T23:53:14Z - - acts upstream of, positive effect - https://wiki.geneontology.org/Acts_upstream_of,_positive_effect - - - - - - - - - - - - - - c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative - - - 2018-01-26T23:53:22Z - - acts upstream of, negative effect - https://wiki.geneontology.org/Acts_upstream_of,_negative_effect - - - - @@ -5009,18 +4171,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B. - regulates activity of - - - - @@ -5117,31 +4267,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q. - - 2022-09-26T06:07:17Z - indirectly causally upstream of - - - - - - - - - - p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q. - - 2022-09-26T06:08:01Z - indirectly regulates - - - - @@ -5303,6 +4428,8 @@ For example, A and B may be gene products and binding of B by A positively regul X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y. + + 2021-11-08T12:00:00Z utilizes device utilizes material @@ -5310,69 +4437,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C. - - RO:0019000 - gene_ontology - regulates_characteristic - regulates_characteristic - regulates characteristic - - - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C. - - RO:0019001 - gene_ontology - positively_regulates_characteristic - positively_regulates_characteristic - positively regulates characteristic - - - - - - - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C. - - RO:0019002 - gene_ontology - negatively_regulates_characteristic - negatively_regulates_characteristic - negatively regulates characteristic - - - - @@ -5687,127 +4751,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts. - continuant - - - - - - - - - - - - - - - - - - - - An entity that has temporal parts and that happens, unfolds or develops through time. - occurrent - - - - - - - - - - - - - - - - b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002]) - A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. - independent continuant - - - - - - - - - p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003]) - An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. - process - - - - - - - - - - - - - - - b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003]) - A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. - specifically dependent continuant - - - - - - - - - - - - - - - - An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time. - material entity - - - - - - - - - - - - - - - immaterial entity - - - - @@ -5831,6 +4774,7 @@ For example, A and B may be gene products and binding of B by A positively regul VHOG:0001533 WBbt:0004017 XAO:0003012 + ZFA:0009000 The definition of cell is intended to represent all cells, and thus a cell is defined as a material entity and not an anatomical structure, which implies that it is part of an organism (or the entirety of one). @@ -5842,6 +4786,18 @@ For example, A and B may be gene products and binding of B by A positively regul A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane. CARO:mah + + + + FBbt:00007002 + + + + + + ZFA:0009000 + + @@ -5850,6 +4806,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found in the embryo before the formation of all the gem layers is complete. + ZFA:0009002 early embryonic cell (metazoa) @@ -5858,6 +4815,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found in the embryo before the formation of all the gem layers is complete. GOC:tfm + + + + ZFA:0009002 + + @@ -5892,6 +4855,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-2086 FMA:63368 + ZFA:0005957 animal stem cell @@ -5906,6 +4870,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D013234 + + + + ZFA:0005957 + + @@ -6069,6 +5039,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:86475 MESH:D006412 VHOG:0001485 + ZFA:0009014 blood forming stem cell hemopoietic stem cell HSC @@ -6089,6 +5060,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:19022770 http://en.wikipedia.org/wiki/Hematopoietic_stem_cell + + + + ZFA:0009014 + + @@ -6111,6 +5088,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell committed to the erythroid lineage. BTO:0004911 + ZFA:0009015 BFU-E CFU-E blast forming unit erythroid @@ -6134,6 +5112,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0721601464 + + + + ZFA:0009015 + + @@ -6181,7 +5165,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -6215,6 +5198,7 @@ For example, A and B may be gene products and binding of B by A positively regul A myeloid progenitor cell committed to the monocyte lineage. This cell is CD11b-positive, has basophilic cytoplasm, euchromatin, and the presence of a nucleolus. CALOHA:TS-1195 FMA:83553 + ZFA:0009017 CFU-M colony forming unit macrophage colony forming unit monocyte @@ -6237,6 +5221,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://en.wikipedia.org/wiki/Monoblast http://www.copewithcytokines.de + + + + ZFA:0009017 + + @@ -6273,6 +5263,7 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to multiple lineages of cells. FMA:84789 + ZFA:0009020 multi-fate stem cell multifate stem cell multipotent cell @@ -6285,6 +5276,12 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to multiple lineages of cells. GOC:add + + + + ZFA:0009020 + + @@ -6298,6 +5295,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell committed to myeloid lineage, including the megakaryocyte and erythroid lineages. BTO:0004730 + ZFA:0009021 common myeloid precursor CFU-GEMM CFU-S @@ -6325,6 +5323,12 @@ For example, A and B may be gene products and binding of B by A positively regul ISBN:0878932437 MESH:D023461 + + + + ZFA:0009021 + + @@ -6410,6 +5414,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell committed to the megakaryocyte and erythroid lineages. + ZFA:0009022 CFU-EM CFU-MegE MEP @@ -6439,6 +5444,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:16647566 http://en.wikipedia.org/wiki/Megakaryocyte-erythroid_progenitor_cell + + + + ZFA:0009022 + + @@ -6466,6 +5477,7 @@ For example, A and B may be gene products and binding of B by A positively regul A oligopotent progenitor cell committed to the lymphoid lineage. + ZFA:0009023 common lymphocyte precursor common lymphocyte progenitor common lymphoid precursor @@ -6496,6 +5508,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:10407577 PMID:16551251 + + + + ZFA:0009023 + + @@ -6518,6 +5536,7 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell from which all cells of the body can form. FMA:84790 MESH:D039901 + ZFA:0009024 totipotential stem cell totipotent stem cell @@ -6528,6 +5547,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009024 + + @@ -6562,6 +5587,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005083 FMA:70335 VHOG:0001529 + ZFA:0009025 myoblast @@ -6572,6 +5598,18 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D032446 PMID:21849021 + + + + FBbt:00005083 + + + + + + ZFA:0009025 + + @@ -6592,6 +5630,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:63877 NCIT:C12482 VHOG:0001482 + ZFA:0009026 @@ -6606,6 +5645,12 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D005347 http://en.wikipedia.org/wiki/Fibroblast + + + + ZFA:0009026 + + @@ -6628,6 +5673,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00000124 FMA:66768 WBbt:0003672 + ZFA:0009034 epitheliocyte @@ -6643,6 +5689,18 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D004847 + + + + FBbt:00000124 + + + + + + ZFA:0009034 + + @@ -6676,6 +5734,7 @@ For example, A and B may be gene products and binding of B by A positively regul An endothelial cell that lines the vasculature. + ZFA:0009036 cuboidal endothelial cell of vascular tree @@ -6693,6 +5752,12 @@ For example, A and B may be gene products and binding of B by A positively regul An endothelial cell that lines the vasculature. GOC:tfm + + + + ZFA:0009036 + + @@ -6701,9 +5766,16 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-1249 + ZFA:0009039 squamous epithelial cell + + + + ZFA:0009039 + + @@ -6729,6 +5801,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell which moves among different tissues of the body, via blood, lymph, or other medium. + ZFA:0009043 circulating cell @@ -6737,6 +5810,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell which moves among different tissues of the body, via blood, lymph, or other medium. GOC:add + + + + ZFA:0009043 + + @@ -6764,6 +5843,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found predominately in the blood. FMA:62844 MESH:D001773 + ZFA:0009044 blood cell @@ -6781,6 +5861,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009044 + + @@ -6819,6 +5905,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62870 MESH:D013601 VHOG:0001479 + ZFA:0009046 T lymphocyte T-cell T-lymphocyte @@ -6843,6 +5930,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0781735149 + + + + ZFA:0009046 + + @@ -6895,7 +5988,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -6955,6 +6047,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0721 FMA:66781 MESH:D010010 + ZFA:0009047 chondroclast Morphology: Highly vesicular; markers: Surface: RANK, cFMS (MCSF receptor); Secreted: cathepsin K and TRAP (tartate resistant acid phosphatase); transcription factors: PU.1, cFOS, MITF, NFkB (p52); role or process: tissue remodelling: bone resorption; lineage: hematopoietic, myeloid. @@ -6984,6 +6077,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:15055519 PMID:17380158 + + + + ZFA:0009047 + + @@ -7035,7 +6134,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -7090,6 +6188,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001026 CALOHA:TS-0422 FMA:62854 + ZFA:0009048 granular leucocyte granular leukocyte polymorphonuclear leukocyte @@ -7112,6 +6211,12 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D006098 http://en.wikipedia.org/wiki/Granulocyte + + + + ZFA:0009048 + + @@ -7175,7 +6280,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -7332,6 +6436,7 @@ For example, A and B may be gene products and binding of B by A positively regul A vertebrate phagocyte with a single nucleus. BTO:0001433 + ZFA:0009064 mononuclear phagocyte @@ -7350,6 +6455,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0781735149 + + + + ZFA:0009064 + + @@ -7363,6 +6474,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001176 CALOHA:TS-0278 FMA:66772 + ZFA:0009065 endotheliocyte @@ -7379,6 +6491,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://en.wikipedia.org/wiki/Endothelial_cell https://sourceforge.net/tracker/?func=detail&atid=440764&aid=3364936&group_id=36855 + + + + ZFA:0009065 + + @@ -7387,6 +6505,7 @@ For example, A and B may be gene products and binding of B by A positively regul Ectoderm destined to be nervous tissue. + ZFA:0009080 neurectoderm cell neurectodermal cell @@ -7397,6 +6516,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:068340007X + + + + ZFA:0009080 + + @@ -7409,6 +6534,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0002625 BTO:0003298 FMA:70546 + ZFA:0009081 bone marrow stromal cells colony-forming unit-fibroblast marrow stromal cells @@ -7446,6 +6572,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://en.wikipedia.org/wiki/Mesenchymal_stem_cell http://www.copewithcytokines.de/cope.cgi?key=mesenchymal%20stem%20cells + + + + ZFA:0009081 + + @@ -7516,6 +6648,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell capable of processing and presenting lipid and protein antigens to T cells in order to initiate an immune response. + ZFA:0009088 APC @@ -7529,6 +6662,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0781735149 + + + + ZFA:0009088 + + @@ -7610,6 +6749,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005074 FMA:67328 WBbt:0003675 + ZFA:0009114 muscle fiber myocyte @@ -7622,6 +6762,18 @@ For example, A and B may be gene products and binding of B by A positively regul A mature contractile cell, commonly known as a myocyte. This cell has as part of its cytoplasm myofibrils organized in various patterns. MESH:D032342 + + + + FBbt:00005074 + + + + + + ZFA:0009114 + + @@ -7630,6 +6782,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by the generation or the reception of an electric signal. + ZFA:0009128 electrically active cell @@ -7638,6 +6791,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by the generation or the reception of an electric signal. FB:ma + + + + ZFA:0009128 + + @@ -7646,6 +6805,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism. + ZFA:0009130 boundary cell lining cell @@ -7655,6 +6815,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism. JB:jb + + + + ZFA:0009130 + + @@ -7663,6 +6829,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose primary function is to prevent the transport of stuff across compartments. + ZFA:0009132 barrier cell @@ -7671,6 +6838,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose primary function is to prevent the transport of stuff across compartments. JB:jb + + + + ZFA:0009132 + + @@ -7696,6 +6869,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that moves by its own activities. + ZFA:0009136 motile cell @@ -7704,6 +6878,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that moves by its own activities. FB:ma + + + + ZFA:0009136 + + @@ -7719,6 +6899,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the outer of the three germ layers of the embryo. FMA:72549 + ZFA:0009137 ectoderm cell ectodermal cell @@ -7728,6 +6909,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the outer of the three germ layers of the embryo. MESH:D004475 + + + + ZFA:0009137 + + @@ -7743,6 +6930,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the middle germ layer of the embryo. FMA:72554 + ZFA:0009138 mesoblast mesoderm cell @@ -7754,6 +6942,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the middle germ layer of the embryo. MESH:D008648 + + + + ZFA:0009138 + + @@ -7769,6 +6963,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the inner of the three germ layers of the embryo. FMA:72555 + ZFA:0009139 endoderm cell endodermal cell @@ -7778,6 +6973,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the inner of the three germ layers of the embryo. MESH:D004707 + + + + ZFA:0009139 + + @@ -8064,6 +7265,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001044 FMA:83806 MESH:D010586 + ZFA:0009140 phagocyte @@ -8074,6 +7276,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0721601464 + + + + ZFA:0009140 + + @@ -8121,6 +7329,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:63261 FMA:83585 MESH:D008264 + ZFA:0009141 histiocyte @@ -8145,6 +7354,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:16213494 PMID:1919437 + + + + ZFA:0009141 + + @@ -8176,6 +7391,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62869 MESH:D001402 VHOG:0001480 + ZFA:0009142 B lymphocyte B-cell B-lymphocyte @@ -8200,6 +7416,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO_REF:0000031 ISBN:0781735149 + + + + ZFA:0009142 + + @@ -8224,10 +7446,17 @@ For example, A and B may be gene products and binding of B by A positively regul + Any cell that only exists in Eukaryota. MESH:D005057 eukaryotic cell + + + + Any cell that only exists in Eukaryota. + FBC:Autogenerated + @@ -8269,8 +7498,22 @@ For example, A and B may be gene products and binding of B by A positively regul + Any cell that is capable of some oxygen transport. + ZFA:0009164 oxygen accumulating cell + + + + Any cell that is capable of some oxygen transport. + FBC:Autogenerated + + + + + ZFA:0009164 + + @@ -8288,6 +7531,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body. FMA:86667 + ZFA:0007086 migratory neural crest cell @@ -8296,6 +7540,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body. doi:10.1016/j.stem.2015.02.017 + + + + ZFA:0007086 + + @@ -8304,6 +7554,7 @@ For example, A and B may be gene products and binding of B by A positively regul A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors. + ZFA:0009166 mesenchyme condensation cell @@ -8313,6 +7564,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:5025404 + + + + ZFA:0009166 + + @@ -8377,6 +7634,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by its response to an electric signal. + ZFA:0009190 electrically responsive cell @@ -8385,6 +7643,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by its response to an electric signal. FB:ma + + + + ZFA:0009190 + + @@ -8393,6 +7657,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that initiates an electrical signal and passes that signal to another cell. + ZFA:0009193 electrically signaling cell @@ -8401,6 +7666,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that initiates an electrical signal and passes that signal to another cell. FB:ma + + + + ZFA:0009193 + + @@ -8460,7 +7731,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8516,6 +7786,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0194 FMA:83036 MESH:D003713 + ZFA:0009209 interdigitating cell veiled cell @@ -8530,6 +7801,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0781735149 + + + + ZFA:0009209 + + @@ -8537,8 +7814,15 @@ For example, A and B may be gene products and binding of B by A positively regul + ZFA:0009212 biogenic amine secreting cell + + + + ZFA:0009212 + + @@ -8564,6 +7848,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell type that secretes 5-Hydroxytryptamine (serotonin). + ZFA:0009213 5-HT secreting cell 5-Hydroxytryptamine secreting cell serotonin secreting cell @@ -8575,6 +7860,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:19630576 + + + + ZFA:0009213 + + @@ -8637,6 +7928,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:54527 VHOG:0001483 WBbt:0003679 + ZFA:0009248 nerve cell @@ -8652,6 +7944,18 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D009474 http://en.wikipedia.org/wiki/Neuron + + + + FBbt:00005106 + + + + + + ZFA:0009248 + + @@ -8682,7 +7986,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8715,6 +8018,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62863 MESH:D008214 VHOG:0001535 + ZFA:0009250 Editors note: consider adding taxon constraint to vertebrata (PMID:18025161) @@ -8728,6 +8032,12 @@ For example, A and B may be gene products and binding of B by A positively regul ISBN:0683073696 ISBN:0781735149 + + + + ZFA:0009250 + + @@ -8807,7 +8117,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8957,7 +8266,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8978,6 +8286,7 @@ For example, A and B may be gene products and binding of B by A positively regul A nucleated immature erythrocyte, having cytoplasm generally similar to that of the earlier proerythroblast but sometimes even more basophilic, and usually regular in outline. The nucleus is still relatively large, but the chromatin strands are thicker and more deeply staining, giving a coarser appearance; the nucleoli have disappeared. This cell is CD71-positive and lacks hematopoeitic lineage markers. FMA:83505 + ZFA:0005236 basophilic normoblast early erythroblast early normoblast @@ -8997,6 +8306,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721601464 + + + + ZFA:0005236 + + @@ -9047,7 +8362,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9074,6 +8388,7 @@ For example, A and B may be gene products and binding of B by A positively regul A nucleated, immature erythrocyte in which the nucleus occupies a relatively smaller part of the cell than in its precursor, the basophilic erythroblast. The cytoplasm is beginning to acquire hemoglobin and thus is no longer a purely basophilic, but takes on acidophilic aspects, which becomes progressively more marked as the cell matures. The chromatin of the nucleus is arranged in coarse, deeply staining clumps. This cell is CD71-positive and lacks hematopoeitic lineage markers. FMA:83506 + ZFA:0005241 intermediate erythroblast intermediate normoblast polychromatic erythroblast @@ -9094,6 +8409,12 @@ For example, A and B may be gene products and binding of B by A positively regul A nucleated, immature erythrocyte in which the nucleus occupies a relatively smaller part of the cell than in its precursor, the basophilic erythroblast. The cytoplasm is beginning to acquire hemoglobin and thus is no longer a purely basophilic, but takes on acidophilic aspects, which becomes progressively more marked as the cell matures. The chromatin of the nucleus is arranged in coarse, deeply staining clumps. This cell is CD71-positive and lacks hematopoeitic lineage markers. ISBN:0721601464 + + + + ZFA:0005241 + + @@ -9534,7 +8855,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9580,6 +8900,7 @@ For example, A and B may be gene products and binding of B by A positively regul A hematopoietic progenitor cell that is committed to the granulocyte and monocyte lineages. These cells are CD123-positive, and do not express Gata1 or Gata2 but do express C/EBPa, and Pu.1. CFU-C , Colony forming unit in culture + ZFA:0009251 colony forming unit granulocyte macrophage granulocyte-macrophage progenitor granulocyte/monocyte precursor @@ -9614,6 +8935,12 @@ For example, A and B may be gene products and binding of B by A positively regul CFU-C , Colony forming unit in culture http://www.copewithcytokines.de + + + + ZFA:0009251 + + @@ -9714,7 +9041,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9803,6 +9129,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001173 CALOHA:TS-0864 MESH:D012156 + ZFA:0009252 reticulocyte @@ -9822,6 +9149,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:15946868 PMID:2037622 + + + + ZFA:0009252 + + @@ -9849,7 +9182,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9872,6 +9204,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004657 FMA:83551 + ZFA:0009253 Morphology: Mononuclear cell, diameter 14-18 _M, fine azurophilic granules; markers: CD11b (shared with many other myeloid cells); location: Adult: bone marrow; Fetal: Liver, Yolk Sac; role or process: hematopoiesis, monocyte development; lineage: hematopoietic, myeloid. @@ -9890,6 +9223,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721601464 + + + + ZFA:0009253 + + @@ -9917,7 +9256,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9943,6 +9281,7 @@ For example, A and B may be gene products and binding of B by A positively regul A mesenchymal stem cell capable of developing into blood vessel endothelium. + ZFA:0009258 angioblast chondroplast These cells are reportedly CD31-positive, CD34-positive, CD144-positive, CD309-positive, and TAL1-positive. @@ -9962,6 +9301,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:12768659 + + + + ZFA:0009258 + + @@ -10023,6 +9368,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000876 CALOHA:TS-0638 FMA:62864 + ZFA:0009265 @@ -10043,6 +9389,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO_REF:0000031 MESH:D009000 + + + + ZFA:0009265 + + @@ -10182,6 +9534,7 @@ For example, A and B may be gene products and binding of B by A positively regul A non-terminally differentiated cell that is capable of developing into a muscle cell. + ZFA:0009291 muscle precursor cell @@ -10191,6 +9544,12 @@ For example, A and B may be gene products and binding of B by A positively regul A non-terminally differentiated cell that is capable of developing into a muscle cell. GOC:add + + + + ZFA:0009291 + + @@ -10218,8 +9577,15 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to cell types of the body other than those of the germ-line. CALOHA:TS-2086 MESH:D053687 + ZFA:0009307 somatic stem cell + + + + ZFA:0009307 + + @@ -10282,6 +9648,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62852 MESH:D007962 NCIT:C12529 + ZFA:0009309 leucocyte white blood cell immune cell @@ -10303,6 +9670,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:978-0-323-05290-0 + + + + ZFA:0009309 + + @@ -10339,6 +9712,7 @@ For example, A and B may be gene products and binding of B by A positively regul A nucleated blood cell involved in coagulation, typically seen in birds and other non-mammalian vertebrates. + ZFA:0009323 Note that this is a non-mammalian cell type. Use platelet ; CL:0000233 for thrombocytes (platelets) in mammals. nucleated thrombocyte @@ -10357,6 +9731,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:16360205 + + + + ZFA:0009323 + + @@ -10385,6 +9765,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001441 CALOHA:TS-0647 MESH:D022423 + ZFA:0009324 myeloid cell @@ -10400,6 +9781,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the monocyte, granulocyte, mast cell, megakaryocyte, or erythroid lineage. GOC:add + + + + ZFA:0009324 + + @@ -10412,6 +9799,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0290 FMA:62845 FMA:83516 + ZFA:0009325 erythropoietic cell @@ -10425,6 +9813,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009325 + + @@ -10591,6 +9985,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0289 FMA:83504 MESH:D004900 + ZFA:0005237 normoblast @@ -10610,6 +10005,12 @@ For example, A and B may be gene products and binding of B by A positively regul ISBN:0721601464 PMID:18174176 + + + + ZFA:0005237 + + @@ -10630,6 +10031,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the monocyte, granulocyte, or mast cell lineage. + ZFA:0009326 myeloid leukocyte @@ -10645,6 +10047,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the monocyte, granulocyte, or mast cell lineage. GOC:add + + + + ZFA:0009326 + + @@ -10894,6 +10302,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0688 FMA:62860 MESH:D009504 + ZFA:0009327 neutrocyte neutrophil leucocyte neutrophil leukocyte @@ -10919,6 +10328,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721601464 + + + + ZFA:0009327 + + @@ -11088,6 +10503,7 @@ For example, A and B may be gene products and binding of B by A positively regul A B cell that is mature, having left the bone marrow. Initially, these cells are IgM-positive and IgD-positive, and they can be activated by antigen. + ZFA:0009331 mature B lymphocyte mature B-cell mature B-lymphocyte @@ -11109,6 +10525,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:dsd ISBN:0781735149 + + + + ZFA:0009331 + + @@ -11194,6 +10616,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000392 FMA:70574 MESH:D010950 + ZFA:0009332 plasma B cell plasma B-cell plasmacyte @@ -11227,6 +10650,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:20951740 http://en.wikipedia.org/wiki/Plasma_cell + + + + ZFA:0009332 + + @@ -11253,6 +10682,7 @@ For example, A and B may be gene products and binding of B by A positively regul A T cell that expresses an alpha-beta T cell receptor complex. + ZFA:0009335 alpha-beta T lymphocyte alpha-beta T-cell alpha-beta T-lymphocyte @@ -11274,6 +10704,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0781735149 + + + + ZFA:0009335 + + @@ -11300,6 +10736,7 @@ For example, A and B may be gene products and binding of B by A positively regul A T cell that expresses a gamma-delta T cell receptor complex. + ZFA:0009336 gamma-delta T lymphocyte gamma-delta T-cell gamma-delta T-lymphocyte @@ -11325,6 +10762,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0781735149 + + + + ZFA:0009336 + + @@ -11393,6 +10836,7 @@ For example, A and B may be gene products and binding of B by A positively regul An immature B cell is a B cell that has the phenotype surface IgM-positive and surface IgD-negative, and have not undergone class immunoglobulin class switching or peripheral encounter with antigen and activation. + ZFA:0009343 immature B lymphocyte immature B-cell immature B-lymphocyte @@ -11416,6 +10860,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:20081059 PMID:20839338 + + + + ZFA:0009343 + + @@ -11461,6 +10911,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001133 CALOHA:TS-0819 + ZFA:0009344 pre-B cell @@ -11480,6 +10931,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm GO_REF:0000031 + + + + ZFA:0009344 + + @@ -11552,6 +11009,7 @@ For example, A and B may be gene products and binding of B by A positively regul An immature B cell of an intermediate stage between the pre-B cell stage and the mature naive stage with the phenotype surface IgM-positive and CD19-positive, and are subject to the process of B cell selection. A transitional B cell migrates from the bone marrow into the peripheral circulation, and then to the spleen. + ZFA:0009345 transitional B cell transitional stage B lymphocyte transitional stage B-cell @@ -11580,6 +11038,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:12810111 PMID:22343568 + + + + ZFA:0009345 + + @@ -11612,7 +11076,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -11641,6 +11104,7 @@ For example, A and B may be gene products and binding of B by A positively regul pre-pro B cell BTO:0003104 + ZFA:0009349 pro-B lymphocyte pro-B-cell pro-B-lymphocyte @@ -11677,6 +11141,12 @@ For example, A and B may be gene products and binding of B by A positively regul pre-pro B cell PMID:17582343 + + + + ZFA:0009349 + + @@ -11714,6 +11184,7 @@ For example, A and B may be gene products and binding of B by A positively regul A lymphoid progenitor cell of the T cell lineage, with some lineage specific marker expression, but not yet fully committed to the T cell lineage. + ZFA:0009350 pro-T lymphocyte progenitor T cell DN1 cell @@ -11735,6 +11206,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0781735149 + + + + ZFA:0009350 + + @@ -11772,6 +11249,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell of the thrombocyte, a nucleated blood cell involved in coagulation typically seen in birds and other non-mammalian vertebrates. + ZFA:0009351 Note that this is a non-mammalian cell type. thromboblast @@ -11789,6 +11267,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:7758949 + + + + ZFA:0009351 + + @@ -11900,7 +11384,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -12151,7 +11634,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -12253,6 +11735,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000725 CALOHA:TS-0448 + ZFA:0009354 MPP hemopoietic progenitor cell @@ -12269,6 +11752,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:19022770 + + + + ZFA:0009354 + + @@ -12300,6 +11789,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004731 CALOHA:TS-2025 FMA:70338 + ZFA:0009355 Note that this is a class of cell types, not an identified single cell type. lymphoid lineage restricted progenitor cell @@ -12317,6 +11807,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009355 + + @@ -12348,6 +11844,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004730 CALOHA:TS-2099 FMA:70339 + ZFA:0009356 Note that this is a class of cell types, not an identified single cell type. @@ -12367,6 +11864,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:19022770 + + + + ZFA:0009356 + + @@ -12390,6 +11893,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000878 CALOHA:TS-0768 FMA:86713 + ZFA:0009357 mononuclear leukocyte peripheral blood mononuclear cell @@ -12408,6 +11912,12 @@ For example, A and B may be gene products and binding of B by A positively regul A leukocyte with a single non-segmented nucleus in the mature form. GOC:add + + + + ZFA:0009357 + + @@ -12438,7 +11948,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -12822,6 +12331,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-2017 FMA:70366 FMA:83598 + ZFA:0005830 haematopoietic cell haemopoietic cell hemopoietic cell @@ -12835,6 +12345,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GO_REF:0000031 + + + + ZFA:0005830 + + @@ -13365,7 +12881,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -13554,6 +13069,7 @@ For example, A and B may be gene products and binding of B by A positively regul 2010-06-29T03:38:22Z FMA:69074 + ZFA:0009385 ecto-epithelial cell @@ -13563,6 +13079,12 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:69074 GOC:tfm + + + + ZFA:0009385 + + @@ -13591,6 +13113,7 @@ For example, A and B may be gene products and binding of B by A positively regul 2010-06-29T03:49:14Z FMA:69076 + ZFA:0009388 epithelial mesenchymal cell meso-epithelial cell @@ -13601,6 +13124,12 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:69076 GOC:tfm + + + + ZFA:0009388 + + @@ -13944,6 +13473,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-2096 FMA:63875 MESH:D003239 + ZFA:0009392 connective tissue cell @@ -13954,6 +13484,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0618947256 + + + + ZFA:0009392 + + @@ -13967,6 +13503,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0263 FMA:82840 WBbt:0007028 + ZFA:0007089 embryonic cell (metazoa) @@ -13975,6 +13512,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the embryo. FMA:0618947256 + + + + ZFA:0007089 + + @@ -14072,6 +13615,7 @@ For example, A and B may be gene products and binding of B by A positively regul An endothelial progenitor cell that participates in angiogenesis during development. 2011-02-28T04:20:39Z + ZFA:0005773 See CL:0002619. embryonic blood vessel endothelial progenitor cell @@ -14081,6 +13625,12 @@ For example, A and B may be gene products and binding of B by A positively regul An endothelial progenitor cell that participates in angiogenesis during development. GOC:tfm + + + + ZFA:0005773 + + @@ -14262,6 +13812,7 @@ For example, A and B may be gene products and binding of B by A positively regul Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells. 2012-06-27T08:27:35Z + ZFA:0007084 premigratory neural crest cell @@ -14270,6 +13821,12 @@ For example, A and B may be gene products and binding of B by A positively regul Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells. UBERONREF:0000002 + + + + ZFA:0007084 + + @@ -17651,7 +17208,6 @@ For example, A and B may be gene products and binding of B by A positively regul - A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. @@ -17801,7 +17357,6 @@ For example, A and B may be gene products and binding of B by A positively regul - A location, relative to cellular compartments and structures, occupied by a macromolecular machine. There are three types of cellular components described in the gene ontology: (1) the cellular anatomical entity where a gene product carries out a molecular function (e.g., plasma membrane, cytoskeleton) or membrane-enclosed compartments (e.g., mitochondrion); (2) virion components, where viral proteins act, and (3) the stable macromolecular complexes of which gene product are parts (e.g., the clathrin complex). https://github.com/geneontology/go-ontology/issues/17729 @@ -17848,13 +17403,16 @@ For example, A and B may be gene products and binding of B by A positively regul + + + Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'. extracellular region @@ -17900,32 +17458,32 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + A protein complex consisting of three collagen chains assembled into a left-handed triple helix. These trimers typically assemble into higher order structures. Wikipedia:Collagen cellular_component GO:0005581 collagen trimer - + - + - + PMID:12382326 - + PMID:12382326 @@ -18007,7 +17565,6 @@ For example, A and B may be gene products and binding of B by A positively regul - Note that for multicellular organisms, the extracellular space refers to everything outside a cell, but still within the organism (excluding the extracellular matrix). Gene products from a multi-cellular organism that are secreted from a cell into the interstitial fluid or blood can therefore be annotated to this term. extracellular space @@ -18101,12 +17658,14 @@ For example, A and B may be gene products and binding of B by A positively regul + + nucleus @@ -18148,6 +17707,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore. chromosome @@ -18214,7 +17774,9 @@ For example, A and B may be gene products and binding of B by A positively regul + + cytoplasm @@ -18291,11 +17853,13 @@ For example, A and B may be gene products and binding of B by A positively regul + + vacuole @@ -18349,10 +17913,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + Note that the Golgi apparatus can be located in various places in the cytoplasm. In plants and lower animal cells, the Golgi apparatus exists as many copies of discrete stacks dispersed throughout the cytoplasm, while the Golgi apparatus of interphase mammalian cells is a juxtanuclear, often pericentriolar reticulum, where the discrete Golgi stacks are stitched together to form a compact and interconnected ribbon, sometimes called the Golgi ribbon. Golgi apparatus @@ -18370,7 +17936,12 @@ For example, A and B may be gene products and binding of B by A positively regul - + + + + + + @@ -18388,11 +17959,14 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0005840 + + + ribosome @@ -18448,11 +18022,14 @@ For example, A and B may be gene products and binding of B by A positively regul + + + plasma membrane @@ -18515,7 +18092,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides. GO:0055132 DNA metabolism @@ -18529,6 +18106,8 @@ For example, A and B may be gene products and binding of B by A positively regul + + DNA metabolic process @@ -18548,6 +18127,7 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process GO:0006310 + @@ -18608,10 +18188,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + translation @@ -18739,7 +18321,9 @@ For example, A and B may be gene products and binding of B by A positively regul + + Note that this term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term, for e.g. to transmembrane transport, to microtubule-based transport or to vesicle-mediated transport. transport @@ -19189,12 +18773,12 @@ For example, A and B may be gene products and binding of B by A positively regul response to abiotic stress response to biotic stress GO:0006950 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. response to stress @@ -19308,6 +18892,7 @@ For example, A and B may be gene products and binding of B by A positively regul A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane. + https://github.com/geneontology/go-ontology/issues/27189 jl 2013-12-19T15:25:51Z GO:1902589 @@ -19317,8 +18902,10 @@ For example, A and B may be gene products and binding of B by A positively regul organelle organization and biogenesis single-organism organelle organization GO:0006996 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. organelle organization @@ -19353,13 +18940,14 @@ For example, A and B may be gene products and binding of B by A positively regul cell-division cycle biological_process GO:0007049 - + + cell cycle @@ -19446,10 +19034,6 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0023033 GO:0023045 Wikipedia:Signal_transduction - signal transduction by cis-phosphorylation - signal transduction by conformational transition - signal transduction by protein phosphorylation - signal transduction by trans-phosphorylation signaling cascade signalling cascade biological_process @@ -19460,6 +19044,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Note that signal transduction is defined broadly to include a ligand interacting with a receptor, downstream signaling steps and a response being triggered. A change in form of the signal in every step is not necessary. Note that in many cases the end of this process is regulation of the initiation of transcription. Note that specific transcription factors may be annotated to this term, but core/general transcription machinery such as RNA polymerase should not. signal transduction @@ -19470,12 +19055,6 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:go_curators GOC:mtg_signaling_feb11 - - - - signalling pathway - GOC:mah - @@ -19947,7 +19526,6 @@ For example, A and B may be gene products and binding of B by A positively regul - A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence. https://github.com/geneontology/go-ontology/issues/24968 jl @@ -19987,6 +19565,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation. + https://github.com/geneontology/go-ontology/issues/26424 jl 2012-10-17T15:46:40Z GO:0044236 @@ -19999,11 +19578,13 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process single-organism metabolic process GO:0008152 - + + + Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions. metabolic process @@ -20063,6 +19644,7 @@ For example, A and B may be gene products and binding of B by A positively regul + biosynthetic process @@ -20084,6 +19666,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass. https://github.com/geneontology/go-ontology/issues/15249 https://github.com/geneontology/go-ontology/issues/25418 + https://github.com/geneontology/go-ontology/issues/27189 GO:0043284 biopolymer biosynthetic process macromolecule anabolism @@ -20092,7 +19675,9 @@ For example, A and B may be gene products and binding of B by A positively regul macromolecule synthesis biological_process GO:0009059 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. macromolecule biosynthetic process @@ -20118,7 +19703,7 @@ For example, A and B may be gene products and binding of B by A positively regul response to environmental stimulus biological_process GO:0009605 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. @@ -20141,7 +19726,7 @@ For example, A and B may be gene products and binding of B by A positively regul response to biotic stress biological_process GO:0009607 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. @@ -20235,7 +19820,7 @@ For example, A and B may be gene products and binding of B by A positively regul embryonal development biological_process GO:0009790 - + embryo development @@ -20479,9 +20064,11 @@ For example, A and B may be gene products and binding of B by A positively regul + + Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children. programmed cell death @@ -20688,10 +20275,12 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process cell organization and biogenesis GO:0016043 + + cellular component organization @@ -20824,6 +20413,7 @@ For example, A and B may be gene products and binding of B by A positively regul + @@ -20870,6 +20460,7 @@ For example, A and B may be gene products and binding of B by A positively regul Recombination occurring within or between DNA molecules in somatic cells. + biological_process GO:0016444 somatic cell DNA recombination @@ -21061,6 +20652,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways involving a protein. Includes protein modification. https://github.com/geneontology/go-ontology/issues/23112 + https://github.com/geneontology/go-ontology/issues/27189 GO:0006411 GO:0044267 GO:0044268 @@ -21073,11 +20665,14 @@ For example, A and B may be gene products and binding of B by A positively regul multicellular organismal protein metabolic process biological_process GO:0019538 + + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. protein metabolic process @@ -21294,6 +20889,7 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process GO:0022402 + cell cycle process @@ -21329,12 +20925,15 @@ For example, A and B may be gene products and binding of B by A positively regul A cellular process that results in the breakdown of a cellular component. + https://github.com/geneontology/go-ontology/issues/27189 GO:0071845 cell structure disassembly cellular component disassembly at cellular level biological_process GO:0022411 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular component disassembly @@ -21418,6 +21017,7 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process GO:0022607 + cellular component assembly @@ -21526,11 +21126,13 @@ For example, A and B may be gene products and binding of B by A positively regul single organism signaling GO:0023052 + + Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change. signaling @@ -21739,12 +21341,24 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + The process whose specific outcome is the progression of the myeloid and lymphoid derived organ/tissue systems of the blood and other parts of the body over time, from formation to the mature structure. The site of hemopoiesis is variable during development, but occurs primarily in bone marrow or kidney in many adult vertebrates. https://github.com/geneontology/go-ontology/issues/22178 Wikipedia:Haematopoiesis @@ -21947,6 +21561,7 @@ For example, A and B may be gene products and binding of B by A positively regul + cell differentiation @@ -22642,6 +22257,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0031012 + @@ -23036,7 +22652,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process that modulates the frequency, rate or extent of a response to an external stimulus. biological_process GO:0032101 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. regulation of response to external stimulus @@ -23079,7 +22695,7 @@ For example, A and B may be gene products and binding of B by A positively regul stimulation of response to external stimulus biological_process GO:0032103 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. positive regulation of response to external stimulus @@ -23097,6 +22713,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any biological process, occurring at the level of a multicellular organism, pertinent to its function. + https://github.com/geneontology/go-ontology/issues/27189 @@ -23111,6 +22728,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0032501 + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. multicellular organismal process @@ -23255,7 +22873,12 @@ For example, A and B may be gene products and binding of B by A positively regul - + + + + + + A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together. GO:0043234 @@ -23268,6 +22891,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0032991 + @@ -23662,6 +23286,7 @@ For example, A and B may be gene products and binding of B by A positively regul + signaling receptor activity @@ -24075,11 +23700,12 @@ For example, A and B may be gene products and binding of B by A positively regul response to chemical substance biological_process GO:0042221 - + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. response to chemical @@ -24166,7 +23792,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -24246,13 +23871,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - Primary lysosomal granule found in neutrophil granulocytes. Contains a wide range of hydrolytic enzymes and is released into the extracellular fluid. + Primary lysosomal granule readily stainable with a Romanowsky stain. + https://github.com/geneontology/go-ontology/issues/27231 primary granule cellular_component GO:0042582 @@ -24261,9 +23881,12 @@ For example, A and B may be gene products and binding of B by A positively regul - Primary lysosomal granule found in neutrophil granulocytes. Contains a wide range of hydrolytic enzymes and is released into the extracellular fluid. + Primary lysosomal granule readily stainable with a Romanowsky stain. GOC:jl PMID:17152095 + PMID:28717070 + PMID:5914694 + WIKIPEDIA:Azurophilic_granule @@ -24360,10 +23983,12 @@ For example, A and B may be gene products and binding of B by A positively regul cellular_component GO:0042995 + + cell projection @@ -24511,6 +24136,7 @@ For example, A and B may be gene products and binding of B by A positively regul + organelle @@ -24939,7 +24565,10 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process GO:0044238 + + + primary metabolic process @@ -24958,12 +24587,15 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells. + https://github.com/geneontology/go-ontology/issues/27052 cellular anabolism cellular biosynthesis cellular formation cellular synthesis biological_process GO:0044249 + + This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. cellular biosynthetic process @@ -25119,6 +24751,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0045202 + @@ -25809,7 +25442,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process that modulates the frequency, rate or extent of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. biological_process GO:0048583 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. regulation of response to stimulus @@ -25852,7 +25485,7 @@ For example, A and B may be gene products and binding of B by A positively regul stimulation of response to stimulus biological_process GO:0048584 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. positive regulation of response to stimulus @@ -25894,7 +25527,7 @@ For example, A and B may be gene products and binding of B by A positively regul inhibition of response to stimulus biological_process GO:0048585 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. negative regulation of response to stimulus @@ -26193,6 +25826,7 @@ For example, A and B may be gene products and binding of B by A positively regul + anatomical structure development @@ -26229,6 +25863,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another. https://github.com/geneontology/go-ontology/issues/19809 + cell locomotion movement of a cell biological_process @@ -26236,6 +25871,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0048870 + cell motility @@ -26611,6 +26247,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process that modulates the frequency, rate or extent of cell activation, the change in the morphology or behavior of a cell resulting from exposure to an activating factor such as a cellular or soluble ligand. + biological_process GO:0050865 regulation of cell activation @@ -26710,12 +26347,13 @@ For example, A and B may be gene products and binding of B by A positively regul physiological response to stimulus biological_process GO:0050896 - + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. response to stimulus @@ -26870,6 +26508,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation. + https://github.com/geneontology/go-ontology/issues/27052 jl 2013-12-18T13:51:04Z GO:1902578 @@ -26883,6 +26522,7 @@ For example, A and B may be gene products and binding of B by A positively regul single organism localization single-organism localization GO:0051179 + localization @@ -27183,7 +26823,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus by a cell and ends with a change in state or activity or the cell. biological_process GO:0051716 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular response to stimulus @@ -27229,6 +26869,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0055085 + @@ -27252,7 +26893,7 @@ For example, A and B may be gene products and binding of B by A positively regul A compound molecular function in which an effector function is controlled by one or more regulatory components. molecular_function GO:0060089 - + @@ -27910,7 +27551,7 @@ For example, A and B may be gene products and binding of B by A positively regul 2009-08-27T04:41:45Z biological_process GO:0070887 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular response to chemical stimulus @@ -28182,6 +27823,7 @@ For example, A and B may be gene products and binding of B by A positively regul A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component. + https://github.com/geneontology/go-ontology/issues/27189 mah 2010-09-10T01:39:16Z GO:0071841 @@ -28190,8 +27832,10 @@ For example, A and B may be gene products and binding of B by A positively regul cellular component organization or biogenesis at cellular level biological_process GO:0071840 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular component organization or biogenesis @@ -28599,7 +28243,7 @@ For example, A and B may be gene products and binding of B by A positively regul region of plasma membrane cellular_component GO:0098590 - + Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass. plasma membrane region @@ -28651,7 +28295,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -28936,7 +28579,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any protein complex that is part of the plasma membrane and which functions as a signaling receptor. cellular_component GO:0098802 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. plasma membrane signaling receptor complex @@ -29520,6 +29163,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon. + https://github.com/geneontology/go-ontology/issues/26424 pr 2012-11-05T11:04:40Z organic molecular entity anabolism @@ -29533,6 +29177,7 @@ For example, A and B may be gene products and binding of B by A positively regul organic substance synthesis biological_process GO:1901576 + organic substance biosynthetic process @@ -30736,7 +30381,6 @@ For example, A and B may be gene products and binding of B by A positively regul - A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities PATO:0000072 quality @@ -34972,70 +34616,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - - - - - - A material entity that minimally consists of a protein. - protein - protein aggregate - protein complex - protein-containing complex - protein - PR:000050567 - Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566). - protein-containing material entity - - - - - A material entity that minimally consists of a protein. - PRO:DAN - - - - - protein - PRO:DAN - - - - - protein aggregate - PRO:DAN - - - - - protein complex - PRO:DAN - - - - - protein-containing complex - PRO:DAN - - - - @@ -35201,6 +34781,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000003 EHDAA2:0003003 EMAPA:0 + FBbt:00007001 FMA:305751 FMA:67135 GAID:781 @@ -35228,6 +34809,12 @@ For example, A and B may be gene products and binding of B by A positively regul Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome. CARO:0000003 + + + + FBbt:00007001 + + @@ -35367,7 +34954,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35415,7 +35001,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35468,7 +35053,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35564,7 +35148,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35606,7 +35189,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35699,7 +35281,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35786,7 +35367,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35837,7 +35417,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35883,7 +35462,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35891,7 +35469,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -35927,14 +35505,14 @@ For example, A and B may be gene products and binding of B by A positively regul gastrula stage - + - + BILS @@ -35985,7 +35563,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -36035,7 +35612,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -36104,6 +35680,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0001326 EHDAA:542 EMAPA:16262 + FBbt:00003126 FMA:49184 GAID:75 MA:0000341 @@ -36156,6 +35733,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Mouth https://github.com/obophenotype/uberon/wiki/The-digestive-tract + + + + FBbt:00003126 + + @@ -36238,7 +35821,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -36246,15 +35828,15 @@ For example, A and B may be gene products and binding of B by A positively regul - + - - + + A fluid that is composed of blood plasma and erythrocytes. AAO:0000046 @@ -36291,34 +35873,34 @@ For example, A and B may be gene products and binding of B by A positively regul blood - + - + - + - + CL:tm - + https://github.com/obophenotype/uberon/issues/1330 - + Bgee:AN @@ -36591,6 +36173,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000004 EHDAA2:0003004 EMAPA:35178 + FBbt:00007019 FMA:9669 HAO:0000004 MA:0002450 @@ -36620,6 +36203,12 @@ For example, A and B may be gene products and binding of B by A positively regul Material anatomical entity in a gaseous, liquid, semisolid or solid state; produced by anatomical structures or derived from inhaled and ingested substances that have been modified by anatomical structures as they pass through the body. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007019 + + @@ -36674,6 +36263,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000005 CARO:0000005 EHDAA2:0003005 + FBbt:00007017 FMA:5897 HAO:0000005 NCIT:C94478 @@ -36697,6 +36287,12 @@ For example, A and B may be gene products and binding of B by A positively regul Non-material anatomical entity of three dimensions, that is generated by morphogenetic or other physiologic processes; is surrounded by one or more anatomical structures; contains one or more organism substances or anatomical structures. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007017 + + @@ -36716,7 +36312,6 @@ For example, A and B may be gene products and binding of B by A positively regul - Anatomical entity that has mass. @@ -36728,6 +36323,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000006 CARO:0000006 EHDAA2:0003006 + FBbt:00007016 FMA:67165 HAO:0000006 TAO:0001836 @@ -36745,13 +36341,18 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical entity that has mass. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007016 + + - Anatomical entity that has no mass. @@ -36762,6 +36363,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000007 CARO:0000007 EHDAA2:0003007 + FBbt:00007015 FMA:67112 HAO:0000007 TAO:0001835 @@ -36780,6 +36382,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical entity that has no mass. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007015 + + @@ -36822,6 +36430,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:392 EMAPA:16103 EV:0100000 + FBbt:00004856 FMA:7149 HAO:0000011 MA:0000003 @@ -36863,6 +36472,12 @@ For example, A and B may be gene products and binding of B by A positively regul system GO:0048731 + + + + FBbt:00004856 + + @@ -36914,6 +36529,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:1 EMAPA:25765 EV:0100016 + FBbt:00000001 FMA:256135 HAO:0000012 NCIT:C13041 @@ -36958,6 +36574,12 @@ For example, A and B may be gene products and binding of B by A positively regul VHOG:0000671 WBbt:0007833 + + + + FBbt:00000001 + + @@ -37018,6 +36640,7 @@ For example, A and B may be gene products and binding of B by A positively regul EFO:0000808 EHDAA2:0003032 EMAPA:36031 + FBbt:00007009 FMA:7153 HAO:0000032 MA:0002433 @@ -37060,6 +36683,12 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:DOS http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007009 + + @@ -37101,6 +36730,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000040 CARO:0000040 EHDAA2:0003040 + FBbt:00007013 FMA:63863 HAO:0000040 TAO:0000382 @@ -37126,6 +36756,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical structure that consists of cell parts and cell substances and together does not constitute a cell or a tissue. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007013 + + @@ -37144,6 +36780,7 @@ For example, A and B may be gene products and binding of B by A positively regul + FBbt:00007277 VHOG:0001737 uberon UBERON:0000477 @@ -37157,6 +36794,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical group whose component anatomical structures lie in close proximity to each other. FBbt:00007277 + + + + FBbt:00007277 + + @@ -37190,6 +36833,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000043 EHDAA2:0003043 EMAPA:35868 + FBbt:00007003 FMA:9637 HAO:0000043 MA:0003002 @@ -37225,6 +36869,12 @@ For example, A and B may be gene products and binding of B by A positively regul Multicellular anatomical structure that consists of many cells of one or a few types, arranged in an extracellular matrix such that their long-range organisation is at least partly a repetition of their short-range organisation. CARO:0000043 + + + + FBbt:00007003 + + @@ -37265,6 +36915,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000055 CARO:0000055 EHDAA2:0003055 + FBbt:00007010 HAO:0000055 TAO:0001488 TGMA:0001847 @@ -37291,6 +36942,12 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000055 http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007010 + + @@ -37315,7 +36972,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -37329,7 +36985,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -37346,6 +37002,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000066 EHDAA2:0003066 EMAPA:32738 + FBbt:00007005 FMA:9639 GAID:402 HAO:0000066 @@ -37370,14 +37027,14 @@ For example, A and B may be gene products and binding of B by A positively regul epithelium https://upload.wikimedia.org/wikipedia/commons/8/8f/Illu_epithelium.jpg - + - + http://palaeos.com/metazoa/porifera/homoscleromorpha.html @@ -37387,6 +37044,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Epithelium http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007005 + + @@ -37629,6 +37292,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2_RETIRED:0003236 EHDAA:38 EMAPA:16039 + FBbt:00000052 FMA:69068 GAID:963 MAT:0000226 @@ -37666,6 +37330,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0009790 Wikipedia:Embryo + + + + FBbt:00000052 + + @@ -37703,6 +37373,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000035 BTO:0000556 EMAPA:36033 + FBbt:00000110 FMA:69069 GAID:1303 MESH:D005855 @@ -37739,6 +37410,12 @@ For example, A and B may be gene products and binding of B by A positively regul embryonic tissue FMA:69069 + + + + FBbt:00000110 + + @@ -37777,7 +37454,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue. AAO:0000137 BILA:0000036 @@ -37787,6 +37464,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000428 EMAPA:16069 EV:0100003 + FBbt:00000111 FMA:69070 GAID:1304 MAT:0000155 @@ -37811,14 +37489,14 @@ For example, A and B may be gene products and binding of B by A positively regul ectoderm http://upload.wikimedia.org/wikipedia/commons/1/19/Gray32.png - + - + Bgee:AN @@ -37827,6 +37505,12 @@ For example, A and B may be gene products and binding of B by A positively regul Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue. Wikipedia:Ectoderm + + + + FBbt:00000111 + + @@ -37852,7 +37536,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut. AAO:0000139 BILA:0000038 @@ -37862,6 +37546,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000436 EMAPA:16062 EV:0100005 + FBbt:00000125 FMA:69071 GAID:1305 MAT:0000175 @@ -37886,14 +37571,14 @@ For example, A and B may be gene products and binding of B by A positively regul http://upload.wikimedia.org/wikipedia/commons/c/c0/Endoderm2.png http://upload.wikimedia.org/wikipedia/commons/d/df/Gray10.png - + - + Bgee:AN @@ -37902,6 +37587,12 @@ For example, A and B may be gene products and binding of B by A positively regul Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut. Wikipedia:Endoderm + + + + FBbt:00000125 + + @@ -37928,7 +37619,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The middle germ layer of the embryo, between the endoderm and ectoderm. UBERON:0003263 @@ -37943,6 +37634,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:183 EMAPA:16083 EV:0100006 + FBbt:00000126 FMA:69072 GAID:522 MAT:0000174 @@ -37968,14 +37660,14 @@ For example, A and B may be gene products and binding of B by A positively regul mesoderm http://upload.wikimedia.org/wikipedia/commons/e/e8/Mesoderm.png - + - + Bgee:AN @@ -37984,6 +37676,12 @@ For example, A and B may be gene products and binding of B by A positively regul The middle germ layer of the embryo, between the endoderm and ectoderm. Wikipedia:Mesoderm + + + + FBbt:00000126 + + @@ -38034,6 +37732,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004224 EHDAA2:0001929 EMAPA:16263 + FBbt:00000439 FMA:295846 NCIT:C34306 TAO:0001290 @@ -38072,6 +37771,12 @@ For example, A and B may be gene products and binding of B by A positively regul stomodeal-hypophyseal primordium XAO:0000269 + + + + FBbt:00000439 + + @@ -38136,7 +37841,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -38208,14 +37913,14 @@ For example, A and B may be gene products and binding of B by A positively regul https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_F_Heart.glb https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_M_Heart.glb - + - + MA @@ -38389,6 +38094,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000058 CALOHA:TS-1293 EFO:0000793 + FBbt:00005055 FMA:7152 GAID:278 MA:0002431 @@ -38425,6 +38131,12 @@ For example, A and B may be gene products and binding of B by A positively regul NLM:alimentary+system Wikipedia:Digestive_system + + + + FBbt:00005055 + + @@ -38611,7 +38323,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -38629,6 +38341,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:826 EMAPA:16469 EV:0100162 + FBbt:00005093 FMA:7157 GAID:466 MA:0000016 @@ -38660,14 +38373,14 @@ For example, A and B may be gene products and binding of B by A positively regul http://upload.wikimedia.org/wikipedia/commons/b/b2/TE-Nervous_system_diagram.svg http://upload.wikimedia.org/wikipedia/commons/b/ba/Nervous_system_diagram.png - + - + Bgee:AN @@ -38682,6 +38395,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Nervous_system ZFIN:curator + + + + FBbt:00005093 + + @@ -38727,7 +38446,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the neural tube derivatives: the brain and spinal cord. In invertebrates it includes central ganglia plus nerve cord. @@ -38743,6 +38462,7 @@ For example, A and B may be gene products and binding of B by A positively regul EMAPA:16470 EMAPA:16754 EV:0100163 + FBbt:00005094 FMA:55675 GAID:570 MA:0000167 @@ -38771,7 +38491,7 @@ For example, A and B may be gene products and binding of B by A positively regul central nervous system - + @@ -38785,7 +38505,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Bgee:AN @@ -38802,6 +38522,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Acoelomorpha + + + + FBbt:00005094 + + @@ -38853,6 +38579,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001886 EFO:0001652 EHDAA2:0003171 + FBbt:00005495 FMA:86589 MAT:0000482 NCIT:C34275 @@ -38886,6 +38613,12 @@ For example, A and B may be gene products and binding of B by A positively regul FB:FBrf0089570 http://flybase.org/reports/FBrf0178740.html + + + + FBbt:00005495 + + @@ -38996,6 +38729,7 @@ For example, A and B may be gene products and binding of B by A positively regul BIRNLEX:6 CARO:0000000 EHDAA2:0002229 + FBbt:10000000 FMA:62955 HAO:0000000 MA:0000001 @@ -39019,6 +38753,12 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62955 http://orcid.org/0000-0001-9114-8737 + + + + FBbt:10000000 + + @@ -39153,7 +38893,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Skeletal element that is composed of bone tissue. @@ -39195,14 +38935,14 @@ For example, A and B may be gene products and binding of B by A positively regul bone element - + - + VSAO-modified @@ -39268,7 +39008,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A tube extending from the mouth to the anus. @@ -39281,6 +39021,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000726 EHDAA:518 EMAPA:16247 + FBbt:00003125 FMA:45615 MA:0000917 NCIT:C34082 @@ -39304,14 +39045,14 @@ For example, A and B may be gene products and binding of B by A positively regul digestive tract - + - + NCBIBook:NBK10107 @@ -39333,6 +39074,12 @@ For example, A and B may be gene products and binding of B by A positively regul DOI:10.1371/journal.pone.0016309 + + + + FBbt:00003125 + + @@ -39450,7 +39197,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -39525,7 +39271,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -39534,8 +39279,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + @@ -39548,7 +39293,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -39602,34 +39347,34 @@ For example, A and B may be gene products and binding of B by A positively regul blood vessel http://upload.wikimedia.org/wikipedia/commons/2/29/Circulatory_System_en.svg - + - + - + - + AEO - + EHDAA2 - + GO:0072360 @@ -39832,6 +39577,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000174 CALOHA:TS-2110 EFO:0000461 + FBbt:00004208 FMA:69067 GAID:407 MESH:D004628 @@ -39862,6 +39608,12 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000174 ZFIN:curator + + + + FBbt:00004208 + + @@ -40349,6 +40101,7 @@ For example, A and B may be gene products and binding of B by A positively regul AEO:0000186 BTO:0001707 EHDAA2:0000267 + FBbt:00005060 FMA:85006 NCIT:C25444 RETIRED_EHDAA2:0003186 @@ -40385,6 +40138,12 @@ For example, A and B may be gene products and binding of B by A positively regul body cavity BTO:0001707 + + + + FBbt:00005060 + + @@ -40449,9 +40208,9 @@ For example, A and B may be gene products and binding of B by A positively regul - - - + + + @@ -40499,15 +40258,15 @@ For example, A and B may be gene products and binding of B by A positively regul notochord http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + - + @@ -40526,19 +40285,19 @@ For example, A and B may be gene products and binding of B by A positively regul - + http://tolweb.org/Chordata/2499 - + ZFA - + EHDAA2 @@ -40578,8 +40337,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + Somites are spheres of epithelial cells that form sequentially along the anterior-posterior axis of the embryo through mesenchymal to epithelial transition of the presomitic mesoderm. mesodermal cluster @@ -40617,11 +40376,11 @@ For example, A and B may be gene products and binding of B by A positively regul somite http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + @@ -40634,13 +40393,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + GOTAX:0000352 - + ZFA @@ -40702,22 +40461,22 @@ For example, A and B may be gene products and binding of B by A positively regul - + - - + + - + A specialized region of ectoderm found between the neural ectoderm (neural plate) and non-neural ectoderm and composed of highly migratory pluripotent cells that delaminate in early embryonic development from the dorsal neural tube and give rise to an astounding variety of differentiated cell types[MP]. AAO:0010578 BTO:0001764 @@ -40750,45 +40509,45 @@ For example, A and B may be gene products and binding of B by A positively regul http://upload.wikimedia.org/wikipedia/commons/5/5f/Gray644.png https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png - + - + - + - + - + XAO https://github.com/obophenotype/uberon/wiki/The-neural-crest - + BTO - + PMID:11523831 - + PMID:11523831 @@ -40846,6 +40605,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:255 EMAPA:16073 EV:0100004 + FBbt:00001057 FMA:87657 MAT:0000176 MIAA:0000176 @@ -40874,6 +40634,12 @@ For example, A and B may be gene products and binding of B by A positively regul Embryonic ectoderm that gives rise to nervous tissue. Wikipedia:Neuroectoderm + + + + FBbt:00001057 + + @@ -40922,7 +40688,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -40978,14 +40744,14 @@ For example, A and B may be gene products and binding of B by A positively regul bone marrow http://upload.wikimedia.org/wikipedia/commons/7/74/Gray72-en.svg - + - + FMA MA @@ -41197,7 +40963,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -41250,14 +41016,14 @@ For example, A and B may be gene products and binding of B by A positively regul hematopoietic system - + - + FMA @@ -41570,7 +41336,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form. AAO:0011086 EFO:0001982 @@ -41593,14 +41359,14 @@ For example, A and B may be gene products and binding of B by A positively regul presomitic mesoderm - + - + Bgee:AN @@ -41754,9 +41520,9 @@ For example, A and B may be gene products and binding of B by A positively regul - - - + + + A region of embryonic ectodermal cells that lie directly above the notochord. During neurulation, they change shape and produce an infolding of the neural plate (the neural fold) that then seals to form the neural tube[XAO]. The earliest recognizable dorsal ectodermal primordium of the central nervous system present near the end of gastrulation before infolding to form the neural keel; consists of a thickened pseudostratified epithelium[ZFA]. AAO:0011072 BTO:0001765 @@ -41785,34 +41551,34 @@ For example, A and B may be gene products and binding of B by A positively regul neural plate https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png - + - + - + - + GOTAX:0000352 - + Wikipedia - + Bgee:AN @@ -41852,7 +41618,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The paraxial mesoderm is the mesoderm located bilaterally adjacent to the notochord and neural tube[GO]. AAO:0010568 EFO:0003515 @@ -41878,7 +41644,7 @@ For example, A and B may be gene products and binding of B by A positively regul paraxial mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + @@ -41891,7 +41657,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Bgee:AN @@ -41938,7 +41704,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -41978,7 +41744,7 @@ For example, A and B may be gene products and binding of B by A positively regul lateral plate mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + @@ -41991,7 +41757,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 VHOG @@ -42041,15 +41807,15 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + - + Bilateral groups of cells consisting of three rows: one row of endocardial precursors medially and two rows of myocardical precursors laterally. The two populations fuse at the midline to form the heart rudiment or cone. should probably be merged with heart rudiment. AAO:0011044 @@ -42066,15 +41832,15 @@ For example, A and B may be gene products and binding of B by A positively regul heart primordium - + - + - + @@ -42087,19 +41853,19 @@ For example, A and B may be gene products and binding of B by A positively regul - + ZFA - + ZFA - + XAO @@ -42128,8 +41894,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + Ventral somitic compartment that is a precursor of the axial skeleton[XAO]. Sclerotomes eventually differentiate into the vertebrae and most of the skull. The caudal (posterior) half of one sclerotome fuses with the rostral (anterior) half of the adjacent one to form each vertebra. From their initial location within the somite, the sclerotome cells migrate medially towards the notochord. These cells meet the sclerotome cells from the other side to form the vertebral body. From this vertebral body, sclerotome cells move dorsally and surround the developing spinal cord, forming the vertebral arch[WP]. AAO:0010571 AEO:0000212 @@ -42153,11 +41919,11 @@ For example, A and B may be gene products and binding of B by A positively regul sclerotome http://upload.wikimedia.org/wikipedia/commons/9/96/Gray65.png - + - + @@ -42176,13 +41942,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + VHOG:0000680 - + ZFA @@ -42401,7 +42167,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The part of the coelom in the embryo between the somatopleuric and splanchnopleuric mesoderm; the principal body cavities of the trunk (thoracic, abdominal, and pelvic) arise from this embryonic part of the coelom. consider merging with coelom. TODO - add spatial relationships to halves of LPM. Note the OG places XAO and ZFA coelem terms here. editor note: TODO check ZFA, which appears to be a structure present in adults EHDAA:251 @@ -42416,14 +42182,14 @@ For example, A and B may be gene products and binding of B by A positively regul intraembryonic coelom - + - + Wikipedia @@ -42467,6 +42233,7 @@ For example, A and B may be gene products and binding of B by A positively regul Epithelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues, with tube shape and organization varying from the single-celled excretory organ in Caenorhabditis elegans to the branching trees of the mammalian kidney and insect tracheal system. AEO:0000114 EHDAA2:0003114 + FBbt:00007474 epithelial or endothelial tube uberon UBERON:0003914 @@ -42479,6 +42246,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0060562 PMID:12526790 + + + + FBbt:00007474 + + @@ -42711,8 +42484,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + A specific region of the lateral mesoderm that will form the primary beating heart tube. In mammals the primary heart field gives rise to the left ventricle. XAO:0004185 first heart field @@ -42724,24 +42497,24 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0004140 primary heart field - + - + - + GO:0003128 - + https://orcid.org/0000-0003-3308-6245 @@ -42794,7 +42567,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + An epithelial tube that will give rise to the mature heart. AAO:0010411 EFO:0003526 @@ -42813,14 +42586,14 @@ For example, A and B may be gene products and binding of B by A positively regul heart tube - + - + ZFA-modified @@ -42997,7 +42770,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -43094,7 +42866,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -43282,6 +43053,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0007012 BILA:0000060 BTO:0001403 + FBbt:00005317 FMA:293108 GAID:1302 MESH:D005775 @@ -43313,6 +43085,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Gastrula Wikipedia:Trilaminar_blastocyst + + + + FBbt:00005317 + + @@ -43439,7 +43217,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Organ consisting of skeletal tissue. Encompasses whole bones, fused bones, cartilaginious elements, teeth, dermal denticles. AAO:0011129 TAO:0001890 @@ -43453,14 +43231,14 @@ For example, A and B may be gene products and binding of B by A positively regul skeletal element - + - + VSAO @@ -43487,7 +43265,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -43526,14 +43304,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0004770 articular system - + - + FMA @@ -43749,6 +43527,7 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts. + FBbt:00005811 joint uberon UBERON:0004905 @@ -43761,6 +43540,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005811 + + @@ -43793,6 +43578,7 @@ For example, A and B may be gene products and binding of B by A positively regul A proximal-distal subdivision of the digestive tract. + FBbt:00100315 FMA:71131 uberon alimentary system subdivision @@ -43811,6 +43597,12 @@ For example, A and B may be gene products and binding of B by A positively regul A proximal-distal subdivision of the digestive tract. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00100315 + + @@ -44233,7 +44025,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Mesenchyme that is part of a developing trunk. EFO:0003485 EHDAA2:0002092 @@ -44249,14 +44041,14 @@ For example, A and B may be gene products and binding of B by A positively regul trunk mesenchyme - + - + EHDAA2 @@ -44336,6 +44128,7 @@ For example, A and B may be gene products and binding of B by A positively regul AEO:0000125 CALOHA:TS-2122 EHDAA2:0003125 + FBbt:00007006 FMA:292313 MIAA:0000019 uberon @@ -44346,6 +44139,12 @@ For example, A and B may be gene products and binding of B by A positively regul developing anatomical structure + + + + FBbt:00007006 + + @@ -44366,7 +44165,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Multi-tissue structure that arises from the heart rudiment and will become the heart tube. EHDAA2:0001512 EHDAA:424 @@ -44384,14 +44183,14 @@ For example, A and B may be gene products and binding of B by A positively regul primitive heart tube - + - + ZFA @@ -44458,7 +44257,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -44558,7 +44356,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A delimited region of dense mesenchyme within looser mesenchyme. AEO:0000148 EHDAA2_RETIRED:0003148 @@ -44568,7 +44366,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0005856 developing mesenchymal condensation - + @@ -44587,7 +44385,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + AEO-modified-relation @@ -44681,7 +44479,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The notochordal plate is the dorsal part of the notochordal process when the ventral portion breaks down. It is continuous laterally with the endoderm that composes the roof of the primitive foregut and is in contact dorsally with the neural tube. The folding off of the notochordal plate gives rise to the notochord. TODO - check ordering; awaiting confirmation from JB EHDAA2:0001278 @@ -44695,7 +44493,7 @@ For example, A and B may be gene products and binding of B by A positively regul notochordal plate - + @@ -44708,7 +44506,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 @@ -44736,7 +44534,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A midline cellular cord formed from the migration of mesenchymal cells from the primitive knot. EHDAA2:0001279 EHDAA:224 @@ -44753,14 +44551,14 @@ For example, A and B may be gene products and binding of B by A positively regul The notochordal process grows cranially until it reaches the prechordal plate, the future site of the mouth. In this area the ectoderm is attached directly to the endoderm without intervening mesoderm. This area is known as the oropharyngeal membrane, and it will break down to become the mouth. At the other end of the primitive streak the ectoderm is also fused directly to the endoderm; this is known as the cloacal membrane (proctodeum), or primordial anus. notochordal process - + - + EHDAA2 @@ -45148,7 +44946,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -45650,7 +45447,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -45676,7 +45473,7 @@ For example, A and B may be gene products and binding of B by A positively regul presumptive paraxial mesoderm - + @@ -45692,7 +45489,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + https://github.com/obophenotype/uberon/issues/1277 @@ -45768,7 +45565,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Mesenchyme with little extracellular matrix. AEO:0000146 EHDAA2:0003146 @@ -45776,7 +45573,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0007524 dense mesenchyme tissue - + @@ -45789,7 +45586,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + AEO @@ -45849,6 +45646,7 @@ For example, A and B may be gene products and binding of B by A positively regul AEO:0000170 EFO:0001649 EHDAA2:0003170 + FBbt:00005426 Wikipedia:Anlage_(biology) developmental field uberon @@ -45878,6 +45676,12 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005426 http://flybase.org/reports/FBrf0178740.html + + + + FBbt:00005426 + + @@ -45885,7 +45689,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Anatomical system that consists of all blood and lymph vessels. consider merging with vasculature @@ -45902,14 +45706,14 @@ For example, A and B may be gene products and binding of B by A positively regul vascular system - + - + MA @@ -45937,7 +45741,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -45954,14 +45758,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0009142 entire embryonic mesenchyme - + - + EHDAA2 @@ -46017,7 +45821,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2:0002094 trunk and cervical paraxial mesenchyme uberon @@ -46025,14 +45829,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0009618 trunk paraxial mesoderm - + - + EHDAA2 @@ -46055,7 +45859,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EFO:0003704 TAO:0005041 ZFA:0005041 @@ -46065,14 +45869,14 @@ For example, A and B may be gene products and binding of B by A positively regul anterior lateral plate mesoderm - + - + ZFA @@ -46116,6 +45920,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0010000 + FBbt:00100313 multicellular structure uberon UBERON:0010000 @@ -46129,6 +45934,12 @@ For example, A and B may be gene products and binding of B by A positively regul An anatomical structure that has more than one cell as a part. CARO:0010000 + + + + FBbt:00100313 + + @@ -46179,7 +45990,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -46205,7 +46015,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -46225,14 +46035,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0010210 blood clot - + - + BTO @@ -46353,8 +46163,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + Anatomical cluster consisting of the skeletal elements (i.e. bone elements, cartilage elements, cartilage condensations) that are part of an individual subdivision of the organism. Excludes joints. FMA:23879 SCTID:129140006 @@ -46366,11 +46176,11 @@ For example, A and B may be gene products and binding of B by A positively regul subdivision of skeleton - + - + @@ -46383,13 +46193,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + UBERONREF:0000003 - + VSAO @@ -46450,7 +46260,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Subdivision of the skeletal system which consists of the postcranial axial skeleton plus associated joints. axial skeletal system FMA:302077 @@ -46460,7 +46270,7 @@ For example, A and B may be gene products and binding of B by A positively regul postcranial axial skeletal system http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton - + @@ -46473,7 +46283,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + cjm @@ -46507,6 +46317,7 @@ For example, A and B may be gene products and binding of B by A positively regul + FBbt:00007330 FMA:67509 SCTID:91690000 uberon @@ -46528,6 +46339,12 @@ For example, A and B may be gene products and binding of B by A positively regul A subdivision of an anatomical system. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00007330 + + @@ -46739,7 +46556,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -46760,7 +46577,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0012429 hematopoietic tissue - + @@ -46773,7 +46590,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + defitional @@ -47070,6 +46887,7 @@ For example, A and B may be gene products and binding of B by A positively regul An anatomical group whose component structures share a common function. AEO:0000093 + FBbt:00007278 uberon UBERON:0015203 non-connected functional system @@ -47083,6 +46901,12 @@ For example, A and B may be gene products and binding of B by A positively regul FBC:DOS FBbt:00007278 + + + + FBbt:00007278 + + @@ -47317,7 +47141,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -47340,7 +47164,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0016887 entire extraembryonic component - + @@ -47353,7 +47177,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + AEO @@ -47461,6 +47285,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0020000 + FBbt:00007276 uberon UBERON:0034923 @@ -47478,6 +47303,12 @@ For example, A and B may be gene products and binding of B by A positively regul Material anatomical entity consisting of multiple anatomical structures that are not connected to each other. CARO:0020000 + + + + FBbt:00007276 + + @@ -47866,840 +47697,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GP(X)-enables->MF(Y)-has_part->MF(Z) => GP(X) enables MF(Z), -e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase coupled transporter activity' has_part 'ATPase activity' then GP(X) enables 'ATPase activity' - enabling an MF enables its parts - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - If a molecular function (X) has a regulatory subfunction, then any gene product which is an input to that subfunction has an activity that directly_regulates X. Note: this is intended for cases where the regaultory subfunction is protein binding, so it could be tightened with an additional clause to specify this. - inferring direct reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - inferring direct neg reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - inferring direct positive reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - effector input is compound function input - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Input of effector is input of its parent MF - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly regulates X, its parent MF directly regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly positively regulates X, its parent MF directly positively regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly negatively regulates X, its parent MF directly negatively regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - 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+_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid754 +_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid775 +_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid790 +_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid845 +_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid877 +_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid922 +_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid936 +_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid951 +_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid968 +_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid986 +_:B4defd537X2De6edX2D485bX2Db68aX2Dd3a13531e3cbgenid994 "cell" "early embryonic cell (metazoa)" "stem cell" @@ -1138,7 +1130,6 @@ _:Bd3a92e4aX2D59e9X2D479fX2D9102X2D86cde55c1e05genid997 "G-protein coupled receptor" "eukaryotic protein" "cathepsin-like protease" - "protein-containing material entity" "processual entity" "tube" "vessel" diff --git a/subsets/eye_upper_slim.json b/subsets/eye_upper_slim.json index 800e7810c..8ad22264c 100644 --- a/subsets/eye_upper_slim.json +++ b/subsets/eye_upper_slim.json @@ -4,68 +4,11 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", - "val" : "2024-04-05" + "val" : "2024-05-15" } ], - "version" : "http://purl.obolibrary.org/obo/cl/releases/2024-04-05/subsets/eye_upper_slim.owl" + "version" : "http://purl.obolibrary.org/obo/cl/releases/2024-05-15/subsets/eye_upper_slim.owl" }, "nodes" : [ { - "id" : "http://purl.obolibrary.org/obo/BFO_0000002", - "lbl" : "continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000003", - "lbl" : "occurrent", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An entity that has temporal parts and that happens, unfolds or develops through time." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000004", - "lbl" : "independent continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" - }, - "comments" : [ "A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000015", - "lbl" : "process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" - }, - "comments" : [ "An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000020", - "lbl" : "specifically dependent continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" - }, - "comments" : [ "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000040", - "lbl" : "material entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." - } - } - }, { "id" : "http://purl.obolibrary.org/obo/BFO_0000050", "lbl" : "part_of", "type" : "PROPERTY", @@ -218,10 +161,6 @@ }, "comments" : [ "Paraphrase of definition: a relation between an independent continuant and a process, in which the process takes place entirely within the independent continuant" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000141", - "lbl" : "immaterial entity", - "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/CL_0000000", "lbl" : "cell", @@ -251,6 +190,8 @@ "val" : "WBbt:0004017" }, { "val" : "XAO:0003012" + }, { + "val" : "ZFA:0009000" } ] } }, { @@ -272,10 +213,17 @@ "lbl" : "neuronal receptor cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any sensory receptor cell that is a(n) neuron and is capable of some detection of stimulus involved in sensory perception.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "neuronal receptor cell (sensu Animalia)" + } ], + "xrefs" : [ { + "val" : "ZFA:0009001" } ] } }, { @@ -286,7 +234,10 @@ "definition" : { "val" : "A cell found in the embryo before the formation of all the gem layers is complete.", "xrefs" : [ "GOC:tfm" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009002" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000008", @@ -296,14 +247,20 @@ "definition" : { "val" : "Cell that is part of the migratory cranial neural crest population. Migratory cranial neural crest cells develop from premigratory cranial neural crest cells and have undergone epithelial to mesenchymal transition and delamination.", "xrefs" : [ "ZFA:0007091", "https://orcid.org/0000-0001-5208-3432" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0007091" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000030", "lbl" : "glioblast", "type" : "CLASS", "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], + "xrefs" : [ { + "val" : "ZFA:0009010" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000031", @@ -323,6 +280,8 @@ "val" : "BTO:0000930" }, { "val" : "FMA:70563" + }, { + "val" : "ZFA:0009011" } ] } }, { @@ -344,6 +303,8 @@ "val" : "CALOHA:TS-2086" }, { "val" : "FMA:63368" + }, { + "val" : "ZFA:0005957" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -385,6 +346,8 @@ "val" : "MESH:D006412" }, { "val" : "VHOG:0001485" + }, { + "val" : "ZFA:0009014" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -424,6 +387,8 @@ } ], "xrefs" : [ { "val" : "BTO:0004911" + }, { + "val" : "ZFA:0009015" } ] } }, { @@ -450,6 +415,8 @@ } ], "xrefs" : [ { "val" : "FMA:84789" + }, { + "val" : "ZFA:0009020" } ] } }, { @@ -500,6 +467,8 @@ } ], "xrefs" : [ { "val" : "BTO:0004730" + }, { + "val" : "ZFA:0009021" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -539,6 +508,9 @@ "pred" : "hasExactSynonym", "val" : "megakaryocyte/erythroid progenitor cell" } ], + "xrefs" : [ { + "val" : "ZFA:0009022" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -561,6 +533,8 @@ "val" : "FMA:84790" }, { "val" : "MESH:D039901" + }, { + "val" : "ZFA:0009024" } ] } }, { @@ -603,6 +577,8 @@ "val" : "FMA:70335" }, { "val" : "VHOG:0001529" + }, { + "val" : "ZFA:0009025" } ] } }, { @@ -626,6 +602,8 @@ "val" : "NCIT:C12482" }, { "val" : "VHOG:0001482" + }, { + "val" : "ZFA:0009026" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -658,6 +636,8 @@ "val" : "FMA:66768" }, { "val" : "WBbt:0003672" + }, { + "val" : "ZFA:0009034" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -681,6 +661,9 @@ "pred" : "hasExactSynonym", "val" : "cuboidal endothelial cell of vascular tree" } ], + "xrefs" : [ { + "val" : "ZFA:0009036" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -696,6 +679,9 @@ "xrefs" : [ "GO:0002065", "https://orcid.org/0000-0001-5208-3432" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], + "xrefs" : [ { + "val" : "ZFA:0009038" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -709,6 +695,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "CALOHA:TS-1249" + }, { + "val" : "ZFA:0009039" } ] } }, { @@ -727,6 +715,8 @@ } ], "xrefs" : [ { "val" : "FMA:66773" + }, { + "val" : "ZFA:0009040" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -747,6 +737,8 @@ "val" : "FMA:62844" }, { "val" : "MESH:D001773" + }, { + "val" : "ZFA:0009044" } ] } }, { @@ -774,6 +766,8 @@ "val" : "FMA:67313" }, { "val" : "WBbt:0005113" + }, { + "val" : "ZFA:0009051" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -789,6 +783,7 @@ "val" : "Any neuron having a sensory function; an afferent neuron conveying sensory impulses.", "xrefs" : [ "ISBN:0721662544" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "xrefs" : [ { "val" : "BTO:0001037" }, { @@ -799,6 +794,12 @@ "val" : "MESH:D011984" }, { "val" : "WBbt:0005759" + }, { + "val" : "ZFA:0009053" + } ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" } ] } }, { @@ -813,6 +814,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#BDS_subset", "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "FMA:67282" + }, { + "val" : "ZFA:0009055" } ] } }, { @@ -836,6 +839,8 @@ "val" : "CALOHA:TS-0278" }, { "val" : "FMA:66772" + }, { + "val" : "ZFA:0009065" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -845,7 +850,12 @@ }, { "id" : "http://purl.obolibrary.org/obo/CL_0000117", "lbl" : "CNS neuron (sensu Vertebrata)", - "type" : "CLASS" + "type" : "CLASS", + "meta" : { + "xrefs" : [ { + "val" : "ZFA:0009067" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000123", "lbl" : "neuron associated cell (sensu Vertebrata)", @@ -863,7 +873,7 @@ "xrefs" : [ "MESH:D009457" ] }, "comments" : [ "Not all glial cells develop from glioblasts, with microglia developing from the mesoderm instead. See https://github.com/obophenotype/cell-ontology/issues/1571" ], - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "neuroglial cell" @@ -879,6 +889,12 @@ "val" : "FBbt:00005144" }, { "val" : "FMA:54536" + }, { + "val" : "ZFA:0009073" + } ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" } ] } }, { @@ -906,6 +922,8 @@ "val" : "CALOHA:TS-2027" }, { "val" : "FMA:54538" + }, { + "val" : "ZFA:0009074" } ] } }, { @@ -929,6 +947,8 @@ "val" : "CALOHA:TS-0060" }, { "val" : "FMA:54537" + }, { + "val" : "ZFA:0009075" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -949,6 +969,8 @@ "val" : "CALOHA:TS-0172" }, { "val" : "FMA:70614" + }, { + "val" : "ZFA:0009079" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -967,6 +989,9 @@ "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "neurectoderm cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009080" } ] } }, { @@ -1033,6 +1058,8 @@ "val" : "BTO:0003298" }, { "val" : "FMA:70546" + }, { + "val" : "ZFA:0009081" } ], "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", @@ -1057,6 +1084,8 @@ } ], "xrefs" : [ { "val" : "VHOG:0001678" + }, { + "val" : "ZFA:0009090" } ] } }, { @@ -1083,6 +1112,8 @@ "val" : "MESH:D008544" }, { "val" : "VHOG:0001679" + }, { + "val" : "ZFA:0009091" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1155,6 +1186,8 @@ "val" : "FMA:67328" }, { "val" : "WBbt:0003675" + }, { + "val" : "ZFA:0009114" } ], "basicPropertyValues" : [ { "pred" : "http://xmlns.com/foaf/0.1/depiction", @@ -1192,6 +1225,8 @@ "val" : "CALOHA:TS-2159" }, { "val" : "FMA:14072" + }, { + "val" : "ZFA:0009118" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1228,8 +1263,12 @@ "val" : "BTO:0001060" }, { "val" : "CALOHA:TS-0868" + }, { + "val" : "FBbt:00004211" }, { "val" : "FMA:86740" + }, { + "val" : "ZFA:0009127" } ], "basicPropertyValues" : [ { "pred" : "http://xmlns.com/foaf/0.1/depiction", @@ -1244,7 +1283,10 @@ "definition" : { "val" : "A cell whose function is determined by the generation or the reception of an electric signal.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009128" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000213", @@ -1258,6 +1300,9 @@ "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "boundary cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009130" } ] } }, { @@ -1268,7 +1313,10 @@ "definition" : { "val" : "A cell whose primary function is to prevent the transport of stuff across compartments.", "xrefs" : [ "JB:jb" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009132" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000219", @@ -1278,7 +1326,10 @@ "definition" : { "val" : "A cell that moves by its own activities.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009136" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000221", @@ -1295,6 +1346,8 @@ } ], "xrefs" : [ { "val" : "FMA:72549" + }, { + "val" : "ZFA:0009137" } ] } }, { @@ -1316,6 +1369,8 @@ } ], "xrefs" : [ { "val" : "FMA:72554" + }, { + "val" : "ZFA:0009138" } ] } }, { @@ -1333,6 +1388,8 @@ } ], "xrefs" : [ { "val" : "FMA:72555" + }, { + "val" : "ZFA:0009139" } ] } }, { @@ -1369,6 +1426,10 @@ "lbl" : "eukaryotic cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any cell that only exists in Eukaryota.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "MESH:D005057" @@ -1379,7 +1440,14 @@ "lbl" : "eye photoreceptor cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any photoreceptor cell that is part of some eye.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/cl#eye_upper_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], + "xrefs" : [ { + "val" : "ZFA:0009154" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -1393,7 +1461,10 @@ "definition" : { "val" : "A cell whose primary function is to provide structural support, to provide strength and physical integrity to the organism.", "xrefs" : [ "TAIR:sr" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0005745" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000306", @@ -1420,7 +1491,16 @@ }, { "id" : "http://purl.obolibrary.org/obo/CL_0000329", "lbl" : "oxygen accumulating cell", - "type" : "CLASS" + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any cell that is capable of some oxygen transport.", + "xrefs" : [ "FBC:Autogenerated" ] + }, + "xrefs" : [ { + "val" : "ZFA:0009164" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000333", "lbl" : "migratory neural crest cell", @@ -1432,6 +1512,8 @@ }, "xrefs" : [ { "val" : "FMA:86667" + }, { + "val" : "ZFA:0007086" } ] } }, { @@ -1442,7 +1524,10 @@ "definition" : { "val" : "A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors.", "xrefs" : [ "GOC:tfm", "PMID:5025404" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009166" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000339", @@ -1459,6 +1544,8 @@ } ], "xrefs" : [ { "val" : "FMA:70564" + }, { + "val" : "ZFA:0009169" } ] } }, { @@ -1469,7 +1556,10 @@ "definition" : { "val" : "Any animal cell containing pigment granules.", "xrefs" : [ "GOC:tfm", "ISBN:0721662544" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009170" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000347", @@ -1480,7 +1570,10 @@ "val" : "A cell of the sclera of the eye.", "xrefs" : [ "GOC:add" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#eye_upper_slim" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#eye_upper_slim" ], + "xrefs" : [ { + "val" : "ZFA:0009174" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000348", @@ -1491,7 +1584,10 @@ "val" : "A structural cell that is part of optic choroid.", "xrefs" : [ "GOC:add" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#eye_upper_slim" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#eye_upper_slim" ], + "xrefs" : [ { + "val" : "ZFA:0009175" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000352", @@ -1532,7 +1628,10 @@ "definition" : { "val" : "A cell whose function is determined by its response to an electric signal.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009190" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000402", @@ -1545,6 +1644,9 @@ }, "comments" : [ "Interneurons are commonly described as being only found in the central nervous system. However, in CL we define 'interneuron' more broadly as any neuron that is neither a motor neuron nor a sensory neuron, regardless of its location, so we need this term to refer strictly to interneurons of the central nervous system." ], "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], + "xrefs" : [ { + "val" : "ZFA:0009191" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -1558,7 +1660,10 @@ "definition" : { "val" : "A cell that initiates an electrical signal and passes that signal to another cell.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009193" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000514", @@ -1580,6 +1685,8 @@ } ], "xrefs" : [ { "val" : "FMA:84798" + }, { + "val" : "ZFA:0009235" } ] } }, { @@ -1598,6 +1705,8 @@ } ], "xrefs" : [ { "val" : "FMA:87653" + }, { + "val" : "ZFA:0009238" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1609,7 +1718,10 @@ "lbl" : "pigmented epithelial cell", "type" : "CLASS", "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], + "xrefs" : [ { + "val" : "ZFA:0009241" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000540", @@ -1638,6 +1750,8 @@ "val" : "VHOG:0001483" }, { "val" : "WBbt:0003679" + }, { + "val" : "ZFA:0009248" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1661,6 +1775,8 @@ "val" : "BTO:0003217" }, { "val" : "FMA:83377" + }, { + "val" : "ZFA:0009249" } ] } }, { @@ -1713,6 +1829,8 @@ } ], "xrefs" : [ { "val" : "FMA:83505" + }, { + "val" : "ZFA:0005236" } ] } }, { @@ -1751,6 +1869,8 @@ } ], "xrefs" : [ { "val" : "FMA:83506" + }, { + "val" : "ZFA:0005241" } ] } }, { @@ -1895,6 +2015,8 @@ "val" : "CALOHA:TS-0864" }, { "val" : "MESH:D012156" + }, { + "val" : "ZFA:0009252" } ] } }, { @@ -1925,6 +2047,8 @@ "val" : "BTO:0004044" }, { "val" : "FMA:67766" + }, { + "val" : "ZFA:0009255" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1947,6 +2071,9 @@ }, { "pred" : "hasExactSynonym", "val" : "chondroplast" + } ], + "xrefs" : [ { + "val" : "ZFA:0009258" } ] } }, { @@ -1970,6 +2097,8 @@ "val" : "CALOHA:TS-0866" }, { "val" : "FMA:67748" + }, { + "val" : "ZFA:0009262" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1997,6 +2126,8 @@ "val" : "CALOHA:TS-0173" }, { "val" : "FMA:70551" + }, { + "val" : "ZFA:0009264" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2024,6 +2155,8 @@ "val" : "CALOHA:TS-0870" }, { "val" : "FMA:67747" + }, { + "val" : "ZFA:0009275" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2054,6 +2187,8 @@ } ], "xrefs" : [ { "val" : "BTO:0003064" + }, { + "val" : "ZFA:0009280" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2073,6 +2208,8 @@ "val" : "FBbt:00100291" }, { "val" : "WBbt:0006829" + }, { + "val" : "ZFA:0009290" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2088,7 +2225,10 @@ "val" : "A non-terminally differentiated cell that is capable of developing into a muscle cell.", "xrefs" : [ "GOC:add" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], + "xrefs" : [ { + "val" : "ZFA:0009291" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000681", @@ -2104,6 +2244,9 @@ "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "forebrain radial glial cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009292" } ] } }, { @@ -2139,6 +2282,8 @@ "val" : "CALOHA:TS-2086" }, { "val" : "MESH:D053687" + }, { + "val" : "ZFA:0009307" } ] } }, { @@ -2174,6 +2319,8 @@ "val" : "FMA:67765" }, { "val" : "MESH:D012165" + }, { + "val" : "ZFA:0009310" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2206,6 +2353,8 @@ } ], "xrefs" : [ { "val" : "BTO:0004120" + }, { + "val" : "ZFA:0009315" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2238,6 +2387,9 @@ "val" : "BPs", "xrefs" : [ "GSE137537" ] } ], + "xrefs" : [ { + "val" : "ZFA:0009318" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -2259,6 +2411,8 @@ "val" : "CALOHA:TS-0647" }, { "val" : "MESH:D022423" + }, { + "val" : "ZFA:0009324" } ] } }, { @@ -2282,6 +2436,8 @@ "val" : "FMA:62845" }, { "val" : "FMA:83516" + }, { + "val" : "ZFA:0009325" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2310,6 +2466,8 @@ "val" : "FMA:83504" }, { "val" : "MESH:D004900" + }, { + "val" : "ZFA:0005237" } ] } }, { @@ -2334,6 +2492,8 @@ "val" : "BTO:0000725" }, { "val" : "CALOHA:TS-0448" + }, { + "val" : "ZFA:0009354" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2361,6 +2521,8 @@ "val" : "CALOHA:TS-2099" }, { "val" : "FMA:70339" + }, { + "val" : "ZFA:0009356" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2395,6 +2557,8 @@ "val" : "FMA:70366" }, { "val" : "FMA:83598" + }, { + "val" : "ZFA:0005830" } ] } }, { @@ -2445,6 +2609,8 @@ }, "xrefs" : [ { "val" : "FMA:69074" + }, { + "val" : "ZFA:0009385" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2469,6 +2635,8 @@ } ], "xrefs" : [ { "val" : "FMA:69076" + }, { + "val" : "ZFA:0009388" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2675,6 +2843,8 @@ "val" : "FMA:63875" }, { "val" : "MESH:D003239" + }, { + "val" : "ZFA:0009392" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2699,6 +2869,8 @@ "val" : "FMA:82840" }, { "val" : "WBbt:0007028" + }, { + "val" : "ZFA:0007089" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2795,6 +2967,9 @@ "xrefs" : [ "GOC:tfm" ] }, "comments" : [ "See CL:0002619." ], + "xrefs" : [ { + "val" : "ZFA:0005773" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0003-1980-3228" @@ -2897,7 +3072,10 @@ "val" : "A CNS interneuron located in the spinal cord.", "xrefs" : [ "CL:CVS" ] }, - "comments" : [ "Is_a interneuron, part_of UBERON:0002240." ] + "comments" : [ "Is_a interneuron, part_of UBERON:0002240." ], + "xrefs" : [ { + "val" : "ZFA:0000778" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0007004", @@ -2908,6 +3086,9 @@ "val" : "Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells.", "xrefs" : [ "UBERONREF:0000002" ] }, + "xrefs" : [ { + "val" : "ZFA:0007084" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0001-9114-8737" @@ -2973,6 +3154,10 @@ "lbl" : "visual system neuron", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any neuron that is capable of part of some visual perception.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0002-7073-9172" @@ -3000,6 +3185,10 @@ "lbl" : "camera-type eye photoreceptor cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any photoreceptor cell that is part of some camera-type eye.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "camera type eye photoreceptor cell" @@ -3785,7 +3974,7 @@ "xrefs" : [ "GOC:go_curators" ] }, "comments" : [ "Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "extracellular" @@ -3903,7 +4092,7 @@ "xrefs" : [ "ISBN:0198547684" ] }, "comments" : [ "Note that for multicellular organisms, the extracellular space refers to everything outside a cell, but still within the organism (excluding the extracellular matrix). Gene products from a multi-cellular organism that are secreted from a cell into the interstitial fluid or blood can therefore be annotated to this term." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "intercellular space" @@ -3964,7 +4153,7 @@ "val" : "A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell nucleus" @@ -3993,7 +4182,7 @@ "xrefs" : [ "ISBN:0198547684" ] }, "comments" : [ "Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "interphase chromosome" @@ -4041,7 +4230,7 @@ "val" : "The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.", "xrefs" : [ "ISBN:0198547684" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "xrefs" : [ { "val" : "Wikipedia:Cytoplasm" } ], @@ -4062,7 +4251,7 @@ "val" : "An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "free ribosome", @@ -4097,7 +4286,7 @@ "val" : "The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.", "xrefs" : [ "ISBN:0716731363" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "juxtamembrane" @@ -4187,7 +4376,7 @@ "val" : "The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "protein anabolism" @@ -4326,7 +4515,7 @@ "xrefs" : [ "GOC:dos", "GOC:dph", "GOC:jl", "GOC:mah" ] }, "comments" : [ "Note that this term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term, for e.g. to transmembrane transport, to microtubule-based transport or to vesicle-mediated transport." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "single-organism transport" @@ -4541,7 +4730,8 @@ "val" : "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "organelle organisation" @@ -4558,6 +4748,9 @@ "val" : "single-organism organelle organization" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -4580,7 +4773,7 @@ "val" : "The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.", "xrefs" : [ "GOC:go_curators", "GOC:mtg_cell_cycle" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell-division cycle" @@ -4643,20 +4836,8 @@ "xrefs" : [ "GOC:go_curators", "GOC:mtg_signaling_feb11" ] }, "comments" : [ "Note that signal transduction is defined broadly to include a ligand interacting with a receptor, downstream signaling steps and a response being triggered. A change in form of the signal in every step is not necessary. Note that in many cases the end of this process is regulation of the initiation of transcription. Note that specific transcription factors may be annotated to this term, but core/general transcription machinery such as RNA polymerase should not." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by cis-phosphorylation" - }, { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by conformational transition" - }, { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by protein phosphorylation" - }, { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by trans-phosphorylation" - }, { "pred" : "hasNarrowSynonym", "val" : "signaling cascade" }, { @@ -4667,8 +4848,7 @@ "val" : "signaling pathway" }, { "pred" : "hasRelatedSynonym", - "val" : "signalling pathway", - "xrefs" : [ "GOC:mah" ] + "val" : "signalling pathway" } ], "xrefs" : [ { "val" : "Wikipedia:Signal_transduction" @@ -4699,8 +4879,8 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The series of molecular signals initiated by activation of a receptor on the surface of a cell. The pathway begins with binding of an extracellular ligand to a cell surface receptor, or for receptors that signal in the absence of a ligand, by ligand-withdrawal or the activity of a constitutively active receptor. The pathway ends with regulation of a downstream cellular process, e.g. transcription.", - "xrefs" : [ "GOC:bf", "GOC:mah", "GOC:pr", "GOC:signaling" ] + "val" : "The series of molecular signals initiated by an extracellular ligand binding to a receptor located on the cell surface. The pathway ends with regulation of a downstream cellular process, e.g. transcription.", + "xrefs" : [ "GOC:signaling" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila" ], "synonyms" : [ { @@ -5078,7 +5258,7 @@ "xrefs" : [ "GOC:go_curators", "ISBN:0198547684" ] }, "comments" : [ "Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "metabolism" @@ -5099,6 +5279,9 @@ "val" : "Wikipedia:Metabolism" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/26424" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -5150,7 +5333,7 @@ "val" : "The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.", "xrefs" : [ "GOC:curators", "ISBN:0198547684" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "formation" @@ -5199,7 +5382,8 @@ "val" : "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "biopolymer biosynthetic process", @@ -5223,6 +5407,9 @@ }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/25418" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0043284" @@ -5353,7 +5540,7 @@ "xrefs" : [ "GOC:hb" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "response to environmental stimulus" @@ -5373,7 +5560,7 @@ "xrefs" : [ "GOC:hb" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "response to abiotic stress" @@ -5422,7 +5609,7 @@ "val" : "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant.", "xrefs" : [ "GOC:go_curators", "GOC:isa_complete", "GOC:mtg_sensu" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "embryogenesis and morphogenesis" @@ -5594,7 +5781,7 @@ "xrefs" : [ "GOC:lr", "GOC:mtg_apoptosis" ] }, "comments" : [ "Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "regulated cell death" @@ -5749,7 +5936,7 @@ "val" : "A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component.", "xrefs" : [ "GOC:ai", "GOC:jl", "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell organisation" @@ -5892,7 +6079,8 @@ "val" : "The chemical reactions and pathways involving a protein. Includes protein modification.", "xrefs" : [ "GOC:ma" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular protein metabolic process" @@ -5918,6 +6106,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/23112" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0006411" @@ -5955,7 +6146,7 @@ "val" : "The cellular process that ensures successive accurate and complete genome replication and chromosome segregation.", "xrefs" : [ "GOC:isa_complete", "GOC:mtg_cell_cycle" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -5970,7 +6161,8 @@ "val" : "A cellular process that results in the breakdown of a cellular component.", "xrefs" : [ "GOC:isa_complete" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell structure disassembly" @@ -5979,6 +6171,9 @@ "val" : "cellular component disassembly at cellular level" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0071845" }, { @@ -6010,7 +6205,7 @@ "val" : "The aggregation, arrangement and bonding together of a cellular component.", "xrefs" : [ "GOC:isa_complete" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell structure assembly" @@ -6084,7 +6279,7 @@ "xrefs" : [ "GOC:mtg_signal", "GOC:mtg_signaling_feb11", "GOC:signaling" ] }, "comments" : [ "Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "biological signaling" @@ -6270,7 +6465,7 @@ "val" : "The cellular developmental process in which a relatively unspecialized cell, e.g. embryonic or regenerative cell, acquires specialized structural and/or functional features that characterize a specific cell. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "xrefs" : [ { "val" : "Wikipedia:Cellular_differentiation" } ], @@ -6465,7 +6660,7 @@ "val" : "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues.", "xrefs" : [ "GOC:BHF", "GOC:mah", "GOC:rph", "NIF_Subcellular:nlx_subcell_20090513", "PMID:21123617", "PMID:28089324" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "proteinaceous extracellular matrix" @@ -6641,6 +6836,7 @@ "val" : "Any biological process, occurring at the level of a multicellular organism, pertinent to its function.", "xrefs" : [ "GOC:curators", "GOC:dph", "GOC:isa_complete", "GOC:tb" ] }, + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", @@ -6650,6 +6846,9 @@ "val" : "single-multicellular organism process" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://purl.obolibrary.org/obo/RO_0002161", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_2" }, { @@ -6779,7 +6978,7 @@ "xrefs" : [ "GOC:dos", "GOC:mah" ] }, "comments" : [ "A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "macromolecular complex" @@ -7090,7 +7289,7 @@ "val" : "A prolongation or process extending from a cell, e.g. a flagellum or axon.", "xrefs" : [ "GOC:jl", "http://www.cogsci.princeton.edu/~wn/" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "cell process" @@ -7270,7 +7469,7 @@ "val" : "Organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton, and prokaryotic structures such as anammoxosomes and pirellulosomes. Excludes the plasma membrane.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "xrefs" : [ { "val" : "NIF_Subcellular:sao1539965131" }, { @@ -7598,7 +7797,7 @@ "val" : "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism.", "xrefs" : [ "GOC:go_curators", "http://www.metacyc.org" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "primary metabolism" @@ -7620,6 +7819,8 @@ "val" : "The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells.", "xrefs" : [ "GOC:jl" ] }, + "comments" : [ "This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular anabolism" @@ -7634,6 +7835,9 @@ "val" : "cellular synthesis" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27052" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -7682,7 +7886,7 @@ "val" : "The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane.", "xrefs" : [ "GOC:aruk", "ISBN:0198506732", "PMID:24619342", "PMID:29383328", "PMID:31998110" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_synapse" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_synapse" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "synaptic junction" @@ -7931,7 +8135,7 @@ "val" : "The biological process whose specific outcome is the progression of an anatomical structure from an initial condition to its mature state. This process begins with the formation of the structure and ends with the mature structure, whatever form that may be including its natural destruction. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome.", "xrefs" : [ "GO_REF:0000021" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "development of an anatomical structure" @@ -7967,7 +8171,7 @@ "val" : "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another.", "xrefs" : [ "GOC:dgh", "GOC:dph", "GOC:isa_complete", "GOC:mlg" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell locomotion" @@ -7981,6 +8185,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/19809" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002161", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_4890" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -8107,7 +8314,7 @@ "xrefs" : [ "GOC:ai", "GOC:bf" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "physiological response to stimulus" @@ -8206,7 +8413,7 @@ "val" : "Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation.", "xrefs" : [ "GOC:ai", "GOC:dos" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "establishment and maintenance of localization" @@ -8235,6 +8442,9 @@ "val" : "single-organism localization" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27052" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -8388,7 +8598,8 @@ "val" : "A cellular localization process whereby a substance or cellular entity, such as a protein complex or organelle, is transported to, and/or maintained in, a specific location within a cell including the localization of substances or cellular entities to the cell membrane.", "xrefs" : [ "GOC:tb", "GOC:vw" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular localisation", @@ -8414,6 +8625,9 @@ "val" : "single-organism cellular localization" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -8469,7 +8683,7 @@ "xrefs" : [ "GOC:bf", "GOC:jl" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -8504,7 +8718,7 @@ "xrefs" : [ "GOC:dph", "GOC:jid" ] }, "comments" : [ "Transmembrane transport is the transport of a solute across a lipid bilayer. Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane and is not traversed. For transport through the nuclear pore, consider instead the term 'nucleocytoplasmic transport ; GO:0006913' and its children. Note also that this term is not intended for use in annotating lateral movement within membranes." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "membrane transport" @@ -8968,7 +9182,8 @@ "val" : "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular component organisation or biogenesis", @@ -8982,6 +9197,9 @@ "val" : "cellular component organization or biogenesis at cellular level" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "mah" }, { @@ -9241,7 +9459,7 @@ "xrefs" : [ "GOC:dos" ] }, "comments" : [ "Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "region of plasma membrane" @@ -9687,6 +9905,7 @@ "val" : "The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon.", "xrefs" : [ "GOC:TermGenie", "GOC:pr" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "organic molecular entity anabolism", @@ -9720,6 +9939,9 @@ "val" : "organic substance synthesis" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/26424" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "pr" }, { @@ -12964,38 +13186,6 @@ "val" : "protein" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/PR_000050567", - "lbl" : "protein-containing material entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A material entity that minimally consists of a protein.", - "xrefs" : [ "PRO:DAN" ] - }, - "comments" : [ "Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566)." ], - "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "protein", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein aggregate", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein complex", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein-containing complex", - "xrefs" : [ "PRO:DAN" ] - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "protein" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000052", "lbl" : "characteristic of", @@ -13069,20 +13259,6 @@ "val" : "has_participant" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000079", - "lbl" : "function of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000080", "lbl" : "quality of", @@ -13097,33 +13273,6 @@ "val" : "A quality inheres in its bearer at all times for which the quality exists." } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000081", - "lbl" : "role of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000085", - "lbl" : "has function", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000086", "lbl" : "has quality", @@ -13137,39 +13286,6 @@ "val" : "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000087", - "lbl" : "has role", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000091", - "lbl" : "has disposition", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000092", - "lbl" : "disposition of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "inverse of has disposition" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0001000", "lbl" : "derives from", @@ -13292,104 +13408,6 @@ "val" : "bounding_layer_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002013", - "lbl" : "has regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." - }, - "xrefs" : [ { - "val" : "RO:0002013" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:30:46Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "has_regulatory_component_activity" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002014", - "lbl" : "has negative regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." - }, - "comments" : [ "By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'." ], - "xrefs" : [ { - "val" : "RO:0002014" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:31:01Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "has_negative_regulatory_component_activity" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002015", - "lbl" : "has positive regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." - }, - "comments" : [ "By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:31:17Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002017", - "lbl" : "has component activity", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:44:33Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002018", - "lbl" : "has component process", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:49:21Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002021", "lbl" : "occurs across", @@ -13406,72 +13424,6 @@ "val" : "2017-07-20T17:19:37Z" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002022", - "lbl" : "directly regulated by", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:24Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002023", - "lbl" : "directly negatively regulated by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:38Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002024", - "lbl" : "directly positively regulated by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:47Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002025", - "lbl" : "has effector activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "comments" : [ "This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-22T14:14:36Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002081", "lbl" : "before or simultaneous with", @@ -14621,20 +14573,6 @@ "val" : "A relationship that holds between entities participating in some developmental process (GO:0032502)" } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002327", - "lbl" : "enables", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c enables p iff c is capable of p and c acts to execute p." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Enables" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002328", "lbl" : "functionally related to", @@ -14662,19 +14600,6 @@ "val" : "holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002331", - "lbl" : "involved in", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved_in p if and only if c enables some process p', and p' is part of p" - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Involved_in" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002332", "lbl" : "regulates levels of", @@ -14694,20 +14619,6 @@ "val" : "regulates_levels_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002333", - "lbl" : "enabled by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "inverse of enables" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Enabled_by" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002334", "lbl" : "regulated by", @@ -15103,48 +15014,6 @@ "val" : "causally_downstream_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002405", - "lbl" : "immediately causally downstream of", - "type" : "PROPERTY", - "meta" : { - "xrefs" : [ { - "val" : "RO:0002405" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "immediately_causally_downstream_of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002407", - "lbl" : "indirectly positively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Indirectly_positively_regulates" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002409", - "lbl" : "indirectly negatively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Indirectly_negatively_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002410", "lbl" : "causally related to", @@ -15179,25 +15048,6 @@ "val" : "causally_upstream_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002412", - "lbl" : "immediately causally upstream of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." - }, - "xrefs" : [ { - "val" : "RO:0002412" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "immediately_causally_upstream_of" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002418", "lbl" : "causally upstream of or within", @@ -15253,28 +15103,6 @@ "val" : "c involved in regulation of p if c is involved in some p' and p' regulates some p" } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002429", - "lbl" : "involved in positive regulation of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002430", - "lbl" : "involved in negative regulation of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002428" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002431", "lbl" : "involved in or involved in regulation of", @@ -15288,25 +15116,6 @@ "val" : "OWL does not allow defining object properties via a Union" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002432", - "lbl" : "is active in", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure.", - "xrefs" : [ "https://orcid.org/0000-0002-6601-2165", "https://orcid.org/0000-0002-7073-9172" ] - }, - "comments" : [ "" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "enables activity in" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Is_active_in" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002433", "lbl" : "contributes to morphology of", @@ -15316,96 +15125,6 @@ "val" : "p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002434", - "lbl" : "interacts with", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "in pairwise interaction with" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Considering relabeling as 'pairwise interacts with'" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002436", - "lbl" : "molecularly interacts with", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ECO_0000353" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002447", - "lbl" : "phosphorylates", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Axiomatization to GO to be added later" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002448", - "lbl" : "directly regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly controls" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002449", - "lbl" : "directly negatively regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly decreases activity of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002450", - "lbl" : "directly positively regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly increases activity of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002464", - "lbl" : "helper property (not for use in curation)", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002473", "lbl" : "composed primarily of", @@ -15426,10 +15145,6 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002481", - "lbl" : "is kinase activity", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002485", "lbl" : "receives input from", @@ -15582,16 +15297,6 @@ "val" : "http://purl.obolibrary.org/obo/BFO_0000169" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002506", - "lbl" : "causal relation between entities", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002551", "lbl" : "has skeleton", @@ -15601,27 +15306,6 @@ "val" : "A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002559", - "lbl" : "causally influenced by", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002563", - "lbl" : "interaction relation helper property", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002564", - "lbl" : "molecular interaction relation helper property", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002565", "lbl" : "results in movement of", @@ -15642,15 +15326,6 @@ "val" : "results_in_movement_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002566", - "lbl" : "causally influences", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." - } - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002567", "lbl" : "biomechanically related to", @@ -15719,26 +15394,6 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002578", - "lbl" : "directly regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly regulates q iff p is immediately causally upstream of q and p regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002578" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002584", "lbl" : "has part structure that is capable of", @@ -15868,55 +15523,6 @@ "val" : "process_has_causal_agent" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002629", - "lbl" : "directly positively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002629" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_positively_regulates" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Directly_positively_regulates" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002630", - "lbl" : "directly negatively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002630" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_negatively_regulates" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Directly_negatively_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0003000", "lbl" : "produces", @@ -16038,102 +15644,6 @@ "val" : "has_primary_input" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004031", - "lbl" : "enables subfunction", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-25T23:20:13Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004032", - "lbl" : "acts upstream of or within, positive effect", - "type" : "PROPERTY", - "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:49:30Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004033", - "lbl" : "acts upstream of or within, negative effect", - "type" : "PROPERTY", - "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:49:51Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004034", - "lbl" : "acts upstream of, positive effect", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:53:14Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004035", - "lbl" : "acts upstream of, negative effect", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:53:22Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0004046", "lbl" : "causally upstream of or within, negative effect", @@ -16182,15 +15692,6 @@ "val" : "2018-03-14T00:03:24Z" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0011002", - "lbl" : "regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." - } - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0012000", "lbl" : "has small molecule regulator", @@ -16316,38 +15817,6 @@ "val" : "results_in_fusion_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0012011", - "lbl" : "indirectly causally upstream of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0003-1813-6857" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2022-09-26T06:07:17Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0012012", - "lbl" : "indirectly regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0003-1813-6857" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2022-09-26T06:08:01Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0013001", "lbl" : "has synaptic IO in region", @@ -16487,75 +15956,15 @@ "pred" : "hasBroadSynonym", "val" : "utilizes" } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2021-11-08T12:00:00Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019000", - "lbl" : "regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019000" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "regulates_characteristic" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019001", - "lbl" : "positively regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019001" - } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" + "val" : "https://orcid.org/0000-0001-9625-1899" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "positively_regulates_characteristic" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019002", - "lbl" : "negatively regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019002" - } ], - "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" + "val" : "https://orcid.org/0000-0003-2620-0345" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "negatively_regulates_characteristic" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2021-11-08T12:00:00Z" } ] } }, { @@ -16750,6 +16159,8 @@ "val" : "EHDAA:500" }, { "val" : "EMAPA:35955" + }, { + "val" : "FBbt:00005155" }, { "val" : "GAID:63" }, { @@ -17042,6 +16453,8 @@ "val" : "EHDAA2:0003003" }, { "val" : "EMAPA:0" + }, { + "val" : "FBbt:00007001" }, { "val" : "FMA:305751" }, { @@ -17939,6 +17352,8 @@ } ], "xrefs" : [ { "val" : "CARO:0001001" + }, { + "val" : "FBbt:00005099" }, { "val" : "NLX:147821" } ], @@ -18053,6 +17468,8 @@ "val" : "EHDAA:542" }, { "val" : "EMAPA:16262" + }, { + "val" : "FBbt:00003126" }, { "val" : "FMA:49184" }, { @@ -18378,6 +17795,8 @@ "val" : "EHDAA2:0003004" }, { "val" : "EMAPA:35178" + }, { + "val" : "FBbt:00007019" }, { "val" : "FMA:9669" }, { @@ -18450,6 +17869,8 @@ "val" : "CARO:0000005" }, { "val" : "EHDAA2:0003005" + }, { + "val" : "FBbt:00007017" }, { "val" : "FMA:5897" }, { @@ -18503,6 +17924,8 @@ "val" : "CARO:0000006" }, { "val" : "EHDAA2:0003006" + }, { + "val" : "FBbt:00007016" }, { "val" : "FMA:67165" }, { @@ -18553,6 +17976,8 @@ "val" : "CARO:0000007" }, { "val" : "EHDAA2:0003007" + }, { + "val" : "FBbt:00007015" }, { "val" : "FMA:67112" }, { @@ -18631,6 +18056,8 @@ "val" : "EMAPA:16103" }, { "val" : "EV:0100000" + }, { + "val" : "FBbt:00004856" }, { "val" : "FMA:7149" }, { @@ -18743,6 +18170,8 @@ "val" : "EMAPA:25765" }, { "val" : "EV:0100016" + }, { + "val" : "FBbt:00000001" }, { "val" : "FMA:256135" }, { @@ -18833,6 +18262,8 @@ "val" : "EHDAA2:0003032" }, { "val" : "EMAPA:36031" + }, { + "val" : "FBbt:00007009" }, { "val" : "FMA:7153" }, { @@ -18907,6 +18338,8 @@ "val" : "CARO:0000040" }, { "val" : "EHDAA2:0003040" + }, { + "val" : "FBbt:00007013" }, { "val" : "FMA:63863" }, { @@ -18945,6 +18378,8 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy", "http://purl.obolibrary.org/obo/uberon/core#upper_level" ], "xrefs" : [ { + "val" : "FBbt:00007277" + }, { "val" : "VHOG:0001737" } ], "basicPropertyValues" : [ { @@ -19001,6 +18436,8 @@ "val" : "EHDAA2:0003043" }, { "val" : "EMAPA:35868" + }, { + "val" : "FBbt:00007003" }, { "val" : "FMA:9637" }, { @@ -19071,6 +18508,8 @@ "val" : "CARO:0000055" }, { "val" : "EHDAA2:0003055" + }, { + "val" : "FBbt:00007010" }, { "val" : "HAO:0000055" }, { @@ -19135,6 +18574,8 @@ "val" : "EHDAA2:0003066" }, { "val" : "EMAPA:32738" + }, { + "val" : "FBbt:00007005" }, { "val" : "FMA:9639" }, { @@ -19463,6 +18904,8 @@ "val" : "EHDAA:38" }, { "val" : "EMAPA:16039" + }, { + "val" : "FBbt:00000052" }, { "val" : "FMA:69068" }, { @@ -19541,6 +18984,8 @@ "val" : "BTO:0000556" }, { "val" : "EMAPA:36033" + }, { + "val" : "FBbt:00000110" }, { "val" : "FMA:69069" }, { @@ -19602,6 +19047,8 @@ "val" : "EMAPA:16069" }, { "val" : "EV:0100003" + }, { + "val" : "FBbt:00000111" }, { "val" : "FMA:69070" }, { @@ -19671,6 +19118,8 @@ "val" : "EMAPA:16062" }, { "val" : "EV:0100005" + }, { + "val" : "FBbt:00000125" }, { "val" : "FMA:69071" }, { @@ -19753,6 +19202,8 @@ "val" : "EMAPA:16083" }, { "val" : "EV:0100006" + }, { + "val" : "FBbt:00000126" }, { "val" : "FMA:69072" }, { @@ -19842,6 +19293,8 @@ "val" : "EHDAA2:0001929" }, { "val" : "EMAPA:16263" + }, { + "val" : "FBbt:00000439" }, { "val" : "FMA:295846" }, { @@ -20153,6 +19606,8 @@ "val" : "EMAPA:16894" }, { "val" : "EV:0100164" + }, { + "val" : "FBbt:00005095" }, { "val" : "FMA:50801" }, { @@ -20637,6 +20092,8 @@ "val" : "EFO:0000827" }, { "val" : "EV:0100336" + }, { + "val" : "FBbt:00005162" }, { "val" : "GAID:69" }, { @@ -20767,6 +20224,8 @@ "val" : "CALOHA:TS-1293" }, { "val" : "EFO:0000793" + }, { + "val" : "FBbt:00005055" }, { "val" : "FMA:7152" }, { @@ -20970,6 +20429,8 @@ "val" : "EMAPA:16469" }, { "val" : "EV:0100162" + }, { + "val" : "FBbt:00005093" }, { "val" : "FMA:7157" }, { @@ -21072,6 +20533,8 @@ "val" : "EMAPA:16754" }, { "val" : "EV:0100163" + }, { + "val" : "FBbt:00005094" }, { "val" : "FMA:55675" }, { @@ -21149,6 +20612,8 @@ "val" : "BIRNLEX:1649" }, { "val" : "EV:0100304" + }, { + "val" : "FBbt:00005100" }, { "val" : "FMA:83847" }, { @@ -21276,6 +20741,8 @@ "val" : "EHDAA2:0003094" }, { "val" : "EMAPA:16192" + }, { + "val" : "FBbt:00007692" }, { "val" : "FMA:75259" }, { @@ -21342,6 +20809,8 @@ "val" : "EFO:0001652" }, { "val" : "EHDAA2:0003171" + }, { + "val" : "FBbt:00005495" }, { "val" : "FMA:86589" }, { @@ -21457,6 +20926,8 @@ "val" : "CARO:0000000" }, { "val" : "EHDAA2:0002229" + }, { + "val" : "FBbt:10000000" }, { "val" : "FMA:62955" }, { @@ -21885,6 +21356,8 @@ "val" : "EHDAA:518" }, { "val" : "EMAPA:16247" + }, { + "val" : "FBbt:00003125" }, { "val" : "FMA:45615" }, { @@ -25155,6 +24628,8 @@ "val" : "CALOHA:TS-2110" }, { "val" : "EFO:0000461" + }, { + "val" : "FBbt:00004208" }, { "val" : "FMA:69067" }, { @@ -26054,6 +25529,8 @@ "val" : "BTO:0001707" }, { "val" : "EHDAA2:0000267" + }, { + "val" : "FBbt:00005060" }, { "val" : "FMA:85006" }, { @@ -26367,6 +25844,8 @@ "val" : "EMAPA:16073" }, { "val" : "EV:0100004" + }, { + "val" : "FBbt:00001057" }, { "val" : "FMA:87657" }, { @@ -28469,6 +27948,8 @@ "val" : "AEO:0000114" }, { "val" : "EHDAA2:0003114" + }, { + "val" : "FBbt:00007474" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -29606,6 +29087,8 @@ "val" : "BILA:0000060" }, { "val" : "BTO:0001403" + }, { + "val" : "FBbt:00005317" }, { "val" : "FMA:293108" }, { @@ -29848,6 +29331,9 @@ "pred" : "hasNarrowSynonym", "val" : "joint" } ], + "xrefs" : [ { + "val" : "FBbt:00005811" + } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -29883,6 +29369,8 @@ "xrefs" : [ "FMA:71131" ] } ], "xrefs" : [ { + "val" : "FBbt:00100315" + }, { "val" : "FMA:71131" } ], "basicPropertyValues" : [ { @@ -30102,6 +29590,8 @@ "val" : "AAO:0011000" }, { "val" : "CARO:0001000" + }, { + "val" : "FBbt:00007060" }, { "val" : "FMA:83115" } ], @@ -30381,6 +29871,9 @@ "pred" : "hasExactSynonym", "val" : "light-sensitive tissue" } ], + "xrefs" : [ { + "val" : "FBbt:00004200" + } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -30428,6 +29921,8 @@ "val" : "CALOHA:TS-2122" }, { "val" : "EHDAA2:0003125" + }, { + "val" : "FBbt:00007006" }, { "val" : "FMA:292313" }, { @@ -32270,6 +31765,8 @@ "val" : "EFO:0001649" }, { "val" : "EHDAA2:0003170" + }, { + "val" : "FBbt:00005426" }, { "val" : "Wikipedia:Anlage_(biology)" } ], @@ -32658,6 +32155,8 @@ } ], "xrefs" : [ { "val" : "CARO:0010000" + }, { + "val" : "FBbt:00100313" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -33107,6 +32606,8 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#upper_level" ], "xrefs" : [ { + "val" : "FBbt:00007330" + }, { "val" : "FMA:67509" }, { "val" : "SCTID:91690000" @@ -33684,6 +33185,8 @@ }, "xrefs" : [ { "val" : "AEO:0000093" + }, { + "val" : "FBbt:00007278" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -34123,6 +33626,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy" ], "xrefs" : [ { "val" : "CARO:0020000" + }, { + "val" : "FBbt:00007276" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -34780,26 +34285,6 @@ } } ], "edges" : [ { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000004", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000015", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000020", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000040", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000141", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000000", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" @@ -35549,10 +35034,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000547", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0002242" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000547", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000547", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -35627,10 +35108,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000549", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000549", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -35653,10 +35130,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000550", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000550", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -35797,10 +35270,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000558", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000558", "pred" : "http://purl.obolibrary.org/obo/CL_4030046", @@ -35891,10 +35360,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000566", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0011026" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000566", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000566", "pred" : "http://purl.obolibrary.org/obo/RO_0002104", @@ -36135,10 +35600,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000837", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0008001" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000837", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000837", "pred" : "http://purl.obolibrary.org/obo/CL_4030046", @@ -36817,10 +36278,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0003015", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0003013" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0005575", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005576", "pred" : "is_a", @@ -36909,8 +36366,8 @@ "obj" : "http://purl.obolibrary.org/obo/GO_0043232" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005840", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", + "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005840", "pred" : "http://purl.obolibrary.org/obo/RO_0002216", @@ -37195,10 +36652,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0008016", "pred" : "http://purl.obolibrary.org/obo/RO_0002211", "obj" : "http://purl.obolibrary.org/obo/GO_0060047" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0008150", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000015" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0008152", "pred" : "is_a", @@ -37531,6 +36984,10 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0030097", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0048468" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0030097", + "pred" : "http://purl.obolibrary.org/obo/RO_0002160", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0030097", "pred" : "http://purl.obolibrary.org/obo/RO_0002296", @@ -37689,8 +37146,8 @@ "obj" : "http://purl.obolibrary.org/obo/GO_0005575" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0032991", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", + "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0032993", "pred" : "is_a", @@ -37771,10 +37228,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0040016", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/GO_0009790" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0042391", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0042391", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -38511,10 +37964,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0098644", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0099080" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0098644", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0098644", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -38875,10 +38324,6 @@ "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_9989", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_314147" - }, { - "sub" : "http://purl.obolibrary.org/obo/PATO_0000001", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000020" }, { "sub" : "http://purl.obolibrary.org/obo/PATO_0000051", "pred" : "is_a", @@ -39247,14 +38692,6 @@ "sub" : "http://purl.obolibrary.org/obo/PR_000036194", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_2759" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000050567", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000050567", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", - "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000019", "pred" : "is_a", @@ -39327,10 +38764,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000033", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_33213" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000042", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000042", "pred" : "is_a", @@ -39411,10 +38844,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000064", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000062" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", "pred" : "is_a", @@ -39431,10 +38860,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", "pred" : "http://purl.obolibrary.org/obo/BFO_0000063", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000071" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", "pred" : "is_a", @@ -39451,10 +38876,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", "pred" : "http://purl.obolibrary.org/obo/RO_0002082", "obj" : "http://purl.obolibrary.org/obo/GO_0009790" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000071", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000071", "pred" : "is_a", @@ -39517,10 +38938,6 @@ "val" : "EHDAA2" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", "pred" : "is_a", @@ -39533,10 +38950,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", "pred" : "http://purl.obolibrary.org/obo/RO_0002082", "obj" : "http://purl.obolibrary.org/obo/GO_0009791" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", "pred" : "is_a", @@ -39557,10 +38970,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000105", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000104" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", "pred" : "is_a", @@ -39573,10 +38982,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", "pred" : "http://purl.obolibrary.org/obo/RO_0002223", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000104" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", "pred" : "is_a", @@ -39593,10 +38998,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", "pred" : "http://purl.obolibrary.org/obo/RO_0002087", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000106" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", "pred" : "is_a", @@ -39609,10 +39010,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", "pred" : "http://purl.obolibrary.org/obo/BFO_0000062", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000107" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", "pred" : "is_a", @@ -39639,10 +39036,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", "pred" : "is_a", @@ -39663,10 +39056,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000111", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000111", "pred" : "is_a", @@ -39723,10 +39112,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000165", "pred" : "http://purl.obolibrary.org/obo/RO_0002202", "obj" : "http://purl.obolibrary.org/obo/UBERON_0035804" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000178", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000178", "pred" : "is_a", @@ -39829,18 +39214,10 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000464", "pred" : "http://purl.obolibrary.org/obo/RO_0002219", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000465", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000465", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001062" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000466", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000141" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000466", "pred" : "is_a", @@ -39915,10 +39292,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000481", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000479" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000483", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000483", "pred" : "is_a", @@ -40219,10 +39592,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000959", "pred" : "http://purl.obolibrary.org/obo/uberon/core#extends_fibers_into", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001908" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000964", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000964", "pred" : "is_a", @@ -41682,10 +41051,6 @@ "val" : "ZFA" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0001969", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0001969", "pred" : "is_a", @@ -41702,10 +41067,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0001969", "pred" : "http://purl.obolibrary.org/obo/RO_0002221", "obj" : "http://purl.obolibrary.org/obo/CL_0000232" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0001981", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0001981", "pred" : "is_a", @@ -43543,10 +42904,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0004456", "pred" : "http://purl.obolibrary.org/obo/RO_0002492", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000066" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0004535", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0004535", "pred" : "is_a", @@ -43563,10 +42920,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0004535", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001981" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0004537", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0004537", "pred" : "is_a", @@ -44075,10 +43428,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0005764", "pred" : "http://purl.obolibrary.org/obo/RO_0002007", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0005769", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0005769", "pred" : "is_a", @@ -44139,10 +43488,6 @@ "val" : "AEO-modified-relation" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0005906", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0005906", "pred" : "is_a", @@ -44471,10 +43816,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0006914", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/CL_0000076" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0006965", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0006965", "pred" : "is_a", @@ -45450,10 +44791,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0012275", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0004120" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0012430", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0012430", "pred" : "is_a", @@ -45914,38 +45251,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0000052", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002314" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000079", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000080", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000052" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000081", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000085", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000086", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000087", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000091", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000092", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002000", "pred" : "subPropertyOf", @@ -45962,58 +45275,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002007", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000050" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002013", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002017" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002013", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002334" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002014", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002013" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002014", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002335" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002015", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002013" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002015", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002336" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002017", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002018" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002018", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002180" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002021", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002479" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002022", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002334" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002023", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002022" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002024", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002022" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002025", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002017" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002081", "pred" : "subPropertyOf", @@ -46386,34 +45651,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002315", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0040036" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002327", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002215" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002329", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002331", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000056" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002331", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002431" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002332", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002333", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000057" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002333", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002334", "pred" : "subPropertyOf", @@ -46566,30 +45811,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002404", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002427" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002087" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002404" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002407", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002213" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002407", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012012" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002409", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002212" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002409", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012012" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002411", "pred" : "subPropertyOf", @@ -46598,14 +45819,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002411", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002418" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002412", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002090" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002412", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002411" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002418", "pred" : "subPropertyOf", @@ -46622,14 +45835,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002428", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002431" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002429", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002428" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002430", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002428" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002431", "pred" : "subPropertyOf", @@ -46642,50 +45847,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002431", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002500" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002432", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002131" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002432", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002433", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002131" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002436", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002434" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002447", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002436" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002448", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002436" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002448", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0011002" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002449", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002448" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002450", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002448" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002473", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000051" - 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}, { "sub" : "http://purl.obolibrary.org/obo/RO_0004046", "pred" : "subPropertyOf", @@ -46954,10 +46051,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0004047", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002418" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0011002", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002566" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0012000", "pred" : "subPropertyOf", @@ -46986,18 +46079,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0012008", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002592" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0012011", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002411" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0012012", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002211" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0012012", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012011" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0013001", "pred" : "subPropertyOf", @@ -47022,18 +46103,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0015016", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002104" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0019000", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002410" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0019001", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0019000" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0019002", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0019000" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0040036", "pred" : "subPropertyOf", @@ -47102,22 +46171,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0000056", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000057" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000079", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000085" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000080", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000086" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000081", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000087" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000091", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000092" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0001000", "pred" : "inverseOf", @@ -47138,18 +46195,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002006", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002130" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002022", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002023", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002630" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002024", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002629" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002087", "pred" : "inverseOf", @@ -47230,10 +46275,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002297", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002354" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002327", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002333" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002350", "pred" : "inverseOf", @@ -47246,10 +46287,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002404", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002411" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002412" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002418", "pred" : 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"http://purl.obolibrary.org/obo/RO_0002100", "domainClassIds" : [ "http://purl.obolibrary.org/obo/CL_0000540" ], @@ -49980,55 +48950,13 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002134", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000122" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002150", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002176", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002177", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ], "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002202", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002206", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000465" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002211", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002215", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002220", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002222", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000003" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000003" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002226", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0001062" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002231", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002232", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002233", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002254", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0001062" ], @@ -50037,119 +48965,32 @@ "predicateId" : "http://purl.obolibrary.org/obo/RO_0002256", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000465" ], "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000465" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002258", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002295", "domainClassIds" : [ "http://purl.obolibrary.org/obo/GO_0008150" ], "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0001062" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002330", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002332", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002334", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002337", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002372", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002373", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002375", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002384", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0001062" ], "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0001062" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002434", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002448", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002449", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002450", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002473", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002479", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000003" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002487", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000004" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000003" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002501", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000003" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000003" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002506", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002551", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ], "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000465" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002566", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002567", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ], "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002570", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002572", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000141" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002576", "domainClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ], "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002595", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0003000", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0003001", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0011002", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0013007", "domainClassIds" : [ "http://purl.obolibrary.org/obo/CL_0000101" ] @@ -50172,21 +49013,11 @@ "predicateId" : "http://purl.obolibrary.org/obo/RO_0015016", "domainClassIds" : [ "http://purl.obolibrary.org/obo/CL_0000000" ] }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019000", - "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000015" ], - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/PATO_0000001" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0000053", - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000020" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002007", - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] + "predicateId" : "http://purl.obolibrary.org/obo/RO_0002206", + "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000465" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002315", "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002571", - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] } ], "propertyChainAxioms" : [ { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002131", @@ -50272,24 +49103,9 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002226", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002207", "http://purl.obolibrary.org/obo/RO_0001025" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002211", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0002025" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019000", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0019000" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002213", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002212", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019002", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002212", "http://purl.obolibrary.org/obo/RO_0019001" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019001", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002213", "http://purl.obolibrary.org/obo/RO_0019001" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019002", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002213", "http://purl.obolibrary.org/obo/RO_0019002" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002162", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002215", "http://purl.obolibrary.org/obo/RO_0002162" ] @@ -50350,87 +49166,12 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002314", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002314", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002331", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002327", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000051" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004031", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000051" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002327", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002017" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002428", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002211" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002448", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002430", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002429", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002213" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004034", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002304" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004035", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002305" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002263", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002566", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411", "http://purl.obolibrary.org/obo/RO_0002233" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002566", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002264", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002418" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002450", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002449", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004033", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0004046" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004032", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0004047" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002331", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002428", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002211" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002430", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002429", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002213" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002338", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002338", "http://purl.obolibrary.org/obo/BFO_0000050" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002339", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002339", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002407", "http://purl.obolibrary.org/obo/RO_0002629" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002409", "http://purl.obolibrary.org/obo/RO_0002409" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002409", "http://purl.obolibrary.org/obo/RO_0002630" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002488", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002488", "http://purl.obolibrary.org/obo/BFO_0000050" ] @@ -50458,21 +49199,6 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/uberon/core#indirectly_supplies", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002569", "http://purl.obolibrary.org/obo/uberon/core#indirectly_supplies" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002211", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002578", "http://purl.obolibrary.org/obo/RO_0002578" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002407" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002629" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002409" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002630" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0013001", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0013001", "http://purl.obolibrary.org/obo/BFO_0000050" ] diff --git a/subsets/eye_upper_slim.obo b/subsets/eye_upper_slim.obo index d5390cbe7..b4002a747 100644 --- a/subsets/eye_upper_slim.obo +++ b/subsets/eye_upper_slim.obo @@ -1,5 +1,5 @@ format-version: 1.2 -data-version: cl/releases/2024-04-05/subsets/eye_upper_slim.owl +data-version: cl/releases/2024-05-15/subsets/eye_upper_slim.owl subsetdef: abnormal_slim "" subsetdef: added_for_HCA "" subsetdef: attribute_slim "" @@ -19,19 +19,21 @@ subsetdef: eye_upper_slim "a subset of general classes related to specific cell subsetdef: functional_classification "" subsetdef: general_cell_types_upper_slim "a subset of general classes of cell types in the cell ontology." subsetdef: gocheck_do_not_annotate "" -subsetdef: gocheck_do_not_manually_annotate "" subsetdef: goslim_agr "" subsetdef: goslim_candida "" subsetdef: goslim_chembl "" subsetdef: goslim_drosophila "" +subsetdef: goslim_euk_cellular_processes_ribbon "" subsetdef: goslim_flybase_ribbon "" subsetdef: goslim_generic "" subsetdef: goslim_metagenomics "" subsetdef: goslim_mouse "" subsetdef: goslim_pir "" subsetdef: goslim_plant "" +subsetdef: goslim_plant_ribbon "" subsetdef: goslim_pombe "" subsetdef: goslim_prokaryote "" +subsetdef: goslim_prokaryote_ribbon "" subsetdef: goslim_synapse "" subsetdef: goslim_yeast "" subsetdef: grouping_class "" @@ -88,56 +90,7 @@ synonymtypedef: synonym "" synonymtypedef: SYSTEMATIC "" synonymtypedef: systematic_synonym "" ontology: cl/subsets/eye_upper_slim -property_value: owl:versionInfo "2024-04-05" xsd:string - -[Term] -id: BFO:0000002 -name: continuant -def: "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." [] -disjoint_from: BFO:0000003 ! occurrent -relationship: part_of BFO:0000002 {all_only="true"} ! continuant - -[Term] -id: BFO:0000003 -name: occurrent -def: "An entity that has temporal parts and that happens, unfolds or develops through time." [] -relationship: part_of BFO:0000003 {all_only="true"} ! occurrent - -[Term] -id: BFO:0000004 -name: independent continuant -def: "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" [] -comment: A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. -is_a: BFO:0000002 ! continuant -disjoint_from: BFO:0000020 ! specifically dependent continuant -relationship: part_of BFO:0000004 {all_only="true"} ! independent continuant - -[Term] -id: BFO:0000015 -name: process -def: "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" [] -comment: An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. -is_a: BFO:0000003 ! occurrent - -[Term] -id: BFO:0000020 -name: specifically dependent continuant -def: "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" [] -comment: A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. -is_a: BFO:0000002 ! continuant -relationship: part_of BFO:0000020 {all_only="true"} ! specifically dependent continuant - -[Term] -id: BFO:0000040 -name: material entity -def: "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." [] -is_a: BFO:0000004 ! independent continuant -disjoint_from: BFO:0000141 ! immaterial entity - -[Term] -id: BFO:0000141 -name: immaterial entity -is_a: BFO:0000004 ! independent continuant +property_value: owl:versionInfo "2024-05-15" xsd:string [Term] id: CL:0000000 @@ -147,7 +100,7 @@ comment: The definition of cell is intended to represent all cells, and thus a c subset: cellxgene_subset subset: ubprop:upper_level xref: CALOHA:TS-2035 -xref: FBbt:00007002 +xref: FBbt:00007002 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:68646 xref: GO:0005623 xref: KUPO:0000002 @@ -155,6 +108,7 @@ xref: MESH:D002477 xref: VHOG:0001533 xref: WBbt:0004017 xref: XAO:0003012 +xref: ZFA:0009000 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: UBERON:0000061 ! anatomical structure disjoint_from: GO:0031012 ! extracellular matrix disjoint_from: GO:0032991 ! protein-containing complex @@ -174,8 +128,10 @@ relationship: RO:0002202 CL:0000008 ! develops from migratory cranial neural cre [Term] id: CL:0000006 name: neuronal receptor cell +def: "Any sensory receptor cell that is a(n) neuron and is capable of some detection of stimulus involved in sensory perception." [FBC:Autogenerated] subset: cellxgene_subset synonym: "neuronal receptor cell (sensu Animalia)" EXACT [] +xref: ZFA:0009001 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000101 ! sensory neuron is_a: CL:0000197 ! sensory receptor cell intersection_of: CL:0000197 ! sensory receptor cell @@ -186,18 +142,21 @@ intersection_of: capable_of GO:0050906 ! detection of stimulus involved in senso id: CL:0000007 name: early embryonic cell (metazoa) def: "A cell found in the embryo before the formation of all the gem layers is complete." [GOC:tfm] +xref: ZFA:0009002 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) [Term] id: CL:0000008 name: migratory cranial neural crest cell def: "Cell that is part of the migratory cranial neural crest population. Migratory cranial neural crest cells develop from premigratory cranial neural crest cells and have undergone epithelial to mesenchymal transition and delamination." [https://orcid.org/0000-0001-5208-3432, ZFA:0007091] +xref: ZFA:0007091 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000333 ! migratory neural crest cell [Term] id: CL:0000030 name: glioblast subset: cellxgene_subset +xref: ZFA:0009010 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell relationship: RO:0002202 CL:0000133 ! develops from neurectodermal cell @@ -209,6 +168,7 @@ subset: cellxgene_subset synonym: "neuroblast" EXACT [] xref: BTO:0000930 xref: FMA:70563 +xref: ZFA:0009011 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0000255 ! eukaryotic cell relationship: RO:0002160 NCBITaxon:7742 ! only in taxon Vertebrata @@ -224,6 +184,7 @@ subset: human_reference_atlas synonym: "animal stem cell" EXACT [] xref: CALOHA:TS-2086 xref: FMA:63368 +xref: ZFA:0005957 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0011115 ! precursor cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0017145 ! stem cell division @@ -248,6 +209,7 @@ xref: CALOHA:TS-0448 xref: FMA:86475 xref: MESH:D006412 xref: VHOG:0001485 +xref: ZFA:0009014 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000723 ! somatic stem cell is_a: CL:0008001 ! hematopoietic precursor cell is_a: CL:0011026 ! progenitor cell @@ -295,6 +257,7 @@ synonym: "CFU-E" RELATED OMO:0003000 [] synonym: "colony forming unit erythroid" RELATED [] synonym: "erythroid stem cell" RELATED [] xref: BTO:0004911 +xref: ZFA:0009015 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000764 ! erythroid lineage cell is_a: CL:0000839 {is_inferred="true"} ! myeloid lineage restricted progenitor cell relationship: RO:0002202 CL:0000050 ! develops from megakaryocyte-erythroid progenitor cell @@ -308,6 +271,7 @@ synonym: "multifate stem cell" EXACT [] synonym: "multipotent cell" EXACT [] synonym: "multipotent stem cell" EXACT [] xref: FMA:84789 +xref: ZFA:0009020 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000034 ! stem cell intersection_of: CL:0000000 ! cell intersection_of: bearer_of PATO:0001402 ! multipotent @@ -330,6 +294,7 @@ synonym: "multipotential myeloid stem cell" RELATED [ISBN:0878932437] synonym: "myeloid stem cell" RELATED [ISBN:0878932437] synonym: "pluripotent stem cell (bone marrow)" RELATED [ISBN:0878932437] xref: BTO:0004730 +xref: ZFA:0009021 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell disjoint_from: CL:0000050 ! megakaryocyte-erythroid progenitor cell property_value: RO:0002175 NCBITaxon:9606 @@ -348,6 +313,7 @@ synonym: "Meg/E progenitor" EXACT [] synonym: "megakaryocyte/erythrocyte progenitor" EXACT [] synonym: "megakaryocyte/erythroid progenitor cell" EXACT [] synonym: "MEP" EXACT [] +xref: ZFA:0009022 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell is_a: CL:0011026 ! progenitor cell @@ -365,6 +331,7 @@ def: "A stem cell from which all cells of the body can form." [GOC:add, GOC:tfm] synonym: "totipotential stem cell" EXACT [] xref: FMA:84790 xref: MESH:D039901 +xref: ZFA:0009024 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000723 ! somatic stem cell [Term] @@ -384,9 +351,10 @@ name: myoblast def: "A cell that is commited to differentiating into a muscle cell. Embryonic myoblasts develop from the mesoderm. They undergo proliferation, migrate to their various sites, and then differentiate into the appropriate form of myocytes. Myoblasts also occur as transient populations of cells in muscles undergoing repair." [GOC:tfm, MESH:D032446, PMID:21849021] xref: BTO:0000222 xref: CALOHA:TS-0650 -xref: FBbt:00005083 +xref: FBbt:00005083 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:70335 xref: VHOG:0001529 +xref: ZFA:0009025 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000680 ! muscle precursor cell [Term] @@ -402,6 +370,7 @@ xref: CALOHA:TS-0362 xref: FMA:63877 xref: NCIT:C12482 xref: VHOG:0001482 +xref: ZFA:0009026 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002320 ! connective tissue cell relationship: RO:0002202 CL:0000134 ! develops from mesenchymal stem cell property_value: RO:0002175 NCBITaxon:9606 @@ -417,9 +386,10 @@ synonym: "epitheliocyte" EXACT [] xref: BTO:0000414 xref: CALOHA:TS-2026 xref: CARO:0000077 -xref: FBbt:00000124 +xref: FBbt:00000124 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:66768 xref: WBbt:0003672 +xref: ZFA:0009034 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell relationship: part_of UBERON:0000483 ! epithelium property_value: http://xmlns.com/foaf/0.1/depiction "https://www.swissbiopics.org/api/image/Epithelial_cells.svg" xsd:anyURI @@ -432,6 +402,7 @@ def: "An endothelial cell that lines the vasculature." [GOC:tfm] subset: cellxgene_subset subset: human_reference_atlas synonym: "cuboidal endothelial cell of vascular tree" EXACT [] +xref: ZFA:0009036 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000076 {is_inferred="true"} ! squamous epithelial cell is_a: CL:0002139 ! endothelial cell of vascular tree intersection_of: CL:0000076 ! squamous epithelial cell @@ -446,6 +417,7 @@ name: columnar/cuboidal epithelial cell def: "A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube." [GO:0002065, https://orcid.org/0000-0001-5208-3432] subset: cellxgene_subset subset: human_reference_atlas +xref: ZFA:0009038 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell property_value: RO:0002175 NCBITaxon:9606 @@ -454,6 +426,7 @@ id: CL:0000076 name: squamous epithelial cell subset: cellxgene_subset xref: CALOHA:TS-1249 +xref: ZFA:0009039 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell [Term] @@ -464,6 +437,7 @@ subset: cellxgene_subset subset: human_reference_atlas synonym: "mesotheliocyte" EXACT [] xref: FMA:66773 +xref: ZFA:0009040 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000076 ! squamous epithelial cell is_a: CL:0000213 ! lining cell is_a: CL:0002078 ! meso-epithelial cell @@ -477,6 +451,7 @@ subset: cellxgene_subset subset: general_cell_types_upper_slim xref: FMA:62844 xref: MESH:D001773 +xref: ZFA:0009044 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: capable_of GO:0008015 ! blood circulation @@ -496,9 +471,10 @@ def: "Most generally any neuron which is not motor or sensory. Interneurons may subset: cellxgene_subset subset: human_reference_atlas xref: BTO:0003811 -xref: FBbt:00005125 +xref: FBbt:00005125 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67313 xref: WBbt:0005113 +xref: ZFA:0009051 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000540 ! neuron property_value: RO:0002175 NCBITaxon:9606 @@ -506,15 +482,18 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000101 name: sensory neuron def: "Any neuron having a sensory function; an afferent neuron conveying sensory impulses." [ISBN:0721662544] +subset: human_reference_atlas xref: BTO:0001037 -xref: FBbt:00005124 +xref: FBbt:00005124 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:84649 xref: MESH:D011984 xref: WBbt:0005759 +xref: ZFA:0009053 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000526 ! afferent neuron intersection_of: CL:0000540 ! neuron intersection_of: capable_of GO:0050906 ! detection of stimulus involved in sensory perception relationship: capable_of GO:0050906 ! detection of stimulus involved in sensory perception +property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000103 @@ -523,6 +502,7 @@ def: "A type of interneuron that has two neurites, usually an axon and a dendrit subset: BDS_subset subset: cellxgene_subset xref: FMA:67282 +xref: ZFA:0009055 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000099 ! interneuron intersection_of: CL:0000099 ! interneuron intersection_of: bearer_of PATO:0070006 ! cortical bipolar morphology @@ -539,6 +519,7 @@ synonym: "endotheliocyte" EXACT [] xref: BTO:0001176 xref: CALOHA:TS-0278 xref: FMA:66772 +xref: ZFA:0009065 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000213 ! lining cell is_a: CL:0002078 ! meso-epithelial cell property_value: RO:0002175 NCBITaxon:9606 @@ -546,6 +527,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000117 name: CNS neuron (sensu Vertebrata) +xref: ZFA:0009067 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000540 ! neuron relationship: part_of UBERON:0001017 ! central nervous system relationship: RO:0002202 CL:0000031 ! develops from neuroblast (sensu Vertebrata) @@ -566,13 +548,16 @@ def: "A non-neuronal cell of the nervous system. They not only provide physical comment: Not all glial cells develop from glioblasts, with microglia developing from the mesoderm instead. See https://github.com/obophenotype/cell-ontology/issues/1571 subset: cellxgene_subset subset: general_cell_types_upper_slim +subset: human_reference_atlas synonym: "neuroglia" RELATED [] synonym: "neuroglial cell" EXACT [] xref: BTO:0002606 xref: CALOHA:TS-0415 -xref: FBbt:00005144 +xref: FBbt:00005144 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:54536 +xref: ZFA:0009073 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000095 ! neuron associated cell +property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000126 @@ -584,6 +569,7 @@ synonym: "macrogliocyte" EXACT [] xref: BTO:0000771 xref: CALOHA:TS-2027 xref: FMA:54538 +xref: ZFA:0009074 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000125 ! glial cell relationship: RO:0002202 CL:0000339 ! develops from glioblast (sensu Vertebrata) @@ -598,6 +584,7 @@ synonym: "astrocytic glia" EXACT [] xref: BTO:0000099 xref: CALOHA:TS-0060 xref: FMA:54537 +xref: ZFA:0009075 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000126 ! macroglial cell property_value: RO:0002175 NCBITaxon:9606 @@ -610,6 +597,7 @@ subset: eye_upper_slim subset: human_reference_atlas xref: CALOHA:TS-0172 xref: FMA:70614 +xref: ZFA:0009079 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000115 ! endothelial cell is_a: CL:0000710 ! neurecto-epithelial cell relationship: part_of UBERON:0001985 ! corneal endothelium @@ -621,6 +609,7 @@ id: CL:0000133 name: neurectodermal cell def: "Ectoderm destined to be nervous tissue." [GOC:tfm, ISBN:068340007X] synonym: "neurectoderm cell" EXACT [] +xref: ZFA:0009080 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000221 ! ectodermal cell [Term] @@ -644,6 +633,7 @@ synonym: "stem cells, mesenchymal" RELATED OMO:0003004 [MESH:D044982] xref: BTO:0002625 xref: BTO:0003298 xref: FMA:70546 +xref: ZFA:0009081 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000048 ! multi fate stem cell is_a: CL:0002320 {is_inferred="true"} ! connective tissue cell property_value: seeAlso "https://github.com/obophenotype/cell-ontology/issues/474" xsd:string @@ -655,6 +645,7 @@ def: "A pigment cell is a cell that contains pigment granules." [GOC:tfm] synonym: "chromatocyte" EXACT [] synonym: "chromatophore" EXACT [] xref: VHOG:0001678 +xref: ZFA:0009090 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000325 ! stuff accumulating cell [Term] @@ -670,6 +661,7 @@ xref: CALOHA:TS-0613 xref: FMA:70545 xref: MESH:D008544 xref: VHOG:0001679 +xref: ZFA:0009091 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000147 ! pigment cell intersection_of: CL:0000147 ! pigment cell intersection_of: has_part GO:0042470 ! melanosome @@ -713,9 +705,10 @@ synonym: "myocyte" EXACT [] xref: BTO:0000888 xref: BTO:0000902 xref: CALOHA:TS-2032 -xref: FBbt:00005074 +xref: FBbt:00005074 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67328 xref: WBbt:0003675 +xref: ZFA:0009114 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000183 ! contractile cell is_a: CL:0000393 ! electrically responsive cell relationship: RO:0002202 CL:0000056 ! develops from myoblast @@ -735,6 +728,7 @@ synonym: "smooth muscle fiber" EXACT [] xref: BTO:0004576 xref: CALOHA:TS-2159 xref: FMA:14072 +xref: ZFA:0009118 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008000 ! non-striated muscle cell is_a: CL:0008007 ! visceral muscle cell relationship: RO:0002202 CL:0000514 ! develops from smooth muscle myoblast @@ -760,7 +754,9 @@ def: "A cell specialized to detect and transduce light." [MESH:D010786] subset: cellxgene_subset xref: BTO:0001060 xref: CALOHA:TS-0868 +xref: FBbt:00004211 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:86740 +xref: ZFA:0009127 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000006 {is_inferred="true"} ! neuronal receptor cell intersection_of: CL:0000540 ! neuron intersection_of: capable_of GO:0050962 ! detection of light stimulus involved in sensory perception @@ -771,6 +767,7 @@ property_value: http://xmlns.com/foaf/0.1/depiction "https://www.swissbiopics.or id: CL:0000211 name: electrically active cell def: "A cell whose function is determined by the generation or the reception of an electric signal." [FB:ma] +xref: ZFA:0009128 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -778,18 +775,21 @@ id: CL:0000213 name: lining cell def: "A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism." [JB:jb] synonym: "boundary cell" EXACT [] +xref: ZFA:0009130 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000215 ! barrier cell [Term] id: CL:0000215 name: barrier cell def: "A cell whose primary function is to prevent the transport of stuff across compartments." [JB:jb] +xref: ZFA:0009132 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] id: CL:0000219 name: motile cell def: "A cell that moves by its own activities." [FB:ma] +xref: ZFA:0009136 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0048870 ! cell motility @@ -801,6 +801,7 @@ name: ectodermal cell def: "A cell of the outer of the three germ layers of the embryo." [MESH:D004475] synonym: "ectoderm cell" EXACT [] xref: FMA:72549 +xref: ZFA:0009137 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000924 ! ectoderm @@ -812,6 +813,7 @@ subset: cellxgene_subset synonym: "mesoblast" EXACT [] synonym: "mesoderm cell" EXACT [] xref: FMA:72554 +xref: ZFA:0009138 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000926 ! mesoderm @@ -821,6 +823,7 @@ name: endodermal cell def: "A cell of the inner of the three germ layers of the embryo." [MESH:D004707] synonym: "endoderm cell" EXACT [] xref: FMA:72555 +xref: ZFA:0009139 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000925 ! endoderm @@ -854,6 +857,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000255 name: eukaryotic cell +def: "Any cell that only exists in Eukaryota." [FBC:Autogenerated] subset: cellxgene_subset xref: MESH:D005057 is_a: CL:0000000 ! cell @@ -864,9 +868,11 @@ relationship: RO:0002160 NCBITaxon:2759 ! only in taxon Eukaryota [Term] id: CL:0000287 name: eye photoreceptor cell +def: "Any photoreceptor cell that is part of some eye." [FBC:Autogenerated] subset: cellxgene_subset subset: eye_upper_slim subset: human_reference_atlas +xref: ZFA:0009154 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000210 ! photoreceptor cell intersection_of: CL:0000210 ! photoreceptor cell intersection_of: part_of UBERON:0000970 ! eye @@ -877,6 +883,7 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000293 name: structural cell def: "A cell whose primary function is to provide structural support, to provide strength and physical integrity to the organism." [TAIR:sr] +xref: ZFA:0005745 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -896,6 +903,8 @@ is_a: CL:0000000 ! cell [Term] id: CL:0000329 name: oxygen accumulating cell +def: "Any cell that is capable of some oxygen transport." [FBC:Autogenerated] +xref: ZFA:0009164 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0015671 ! oxygen transport @@ -906,6 +915,7 @@ id: CL:0000333 name: migratory neural crest cell def: "A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body." [doi:10.1016/j.stem.2015.02.017] xref: FMA:86667 +xref: ZFA:0007086 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000219 ! motile cell is_a: CL:0011012 ! neural crest cell is_a: CL:0011026 ! progenitor cell @@ -915,6 +925,7 @@ relationship: RO:0002202 CL:0007004 ! develops from premigratory neural crest ce id: CL:0000335 name: mesenchyme condensation cell def: "A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors." [GOC:tfm, PMID:5025404] +xref: ZFA:0009166 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008019 ! mesenchymal cell [Term] @@ -923,6 +934,7 @@ name: glioblast (sensu Vertebrata) def: "An early neural cell developing from the early ependymal cell of the neural tube." [GOC:tfm, ISBN:0618947256] synonym: "spongioblast" EXACT [] xref: FMA:70564 +xref: ZFA:0009169 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000030 ! glioblast is_a: CL:0000123 ! neuron associated cell (sensu Vertebrata) is_a: CL:0011026 ! progenitor cell @@ -931,6 +943,7 @@ is_a: CL:0011026 ! progenitor cell id: CL:0000342 name: pigment cell (sensu Vertebrata) def: "Any animal cell containing pigment granules." [GOC:tfm, ISBN:0721662544] +xref: ZFA:0009170 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000147 ! pigment cell is_a: CL:0000255 ! eukaryotic cell relationship: RO:0002160 NCBITaxon:7742 ! only in taxon Vertebrata @@ -940,6 +953,7 @@ id: CL:0000347 name: scleral cell def: "A cell of the sclera of the eye." [GOC:add] subset: eye_upper_slim +xref: ZFA:0009174 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000293 ! structural cell intersection_of: CL:0000293 ! structural cell intersection_of: part_of UBERON:0001773 ! sclera @@ -951,6 +965,7 @@ id: CL:0000348 name: choroidal cell of the eye def: "A structural cell that is part of optic choroid." [GOC:add] subset: eye_upper_slim +xref: ZFA:0009175 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000293 ! structural cell intersection_of: CL:0000293 ! structural cell intersection_of: part_of UBERON:0001776 ! optic choroid @@ -982,6 +997,7 @@ relationship: RO:0002160 NCBITaxon:33208 ! only in taxon Metazoa id: CL:0000393 name: electrically responsive cell def: "A cell whose function is determined by its response to an electric signal." [FB:ma] +xref: ZFA:0009190 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000211 ! electrically active cell [Term] @@ -990,6 +1006,7 @@ name: CNS interneuron def: "An interneuron that has its cell body in a central nervous system." [doi:10.1016/B978-0-12-817424-1.00001-X] comment: Interneurons are commonly described as being only found in the central nervous system. However, in CL we define 'interneuron' more broadly as any neuron that is neither a motor neuron nor a sensory neuron, regardless of its location, so we need this term to refer strictly to interneurons of the central nervous system. subset: human_reference_atlas +xref: ZFA:0009191 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000099 ! interneuron is_a: CL:2000029 ! central nervous system neuron intersection_of: CL:0000099 ! interneuron @@ -1000,6 +1017,7 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000404 name: electrically signaling cell def: "A cell that initiates an electrical signal and passes that signal to another cell." [FB:ma] +xref: ZFA:0009193 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000211 ! electrically active cell [Term] @@ -1010,6 +1028,7 @@ subset: cellxgene_subset synonym: "myoblast, smooth muscle" EXACT [MESH:D032390] synonym: "satellite cell" RELATED [] xref: FMA:84798 +xref: ZFA:0009235 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000056 ! myoblast intersection_of: CL:0000056 ! myoblast intersection_of: RO:0002203 CL:0000192 ! develops into smooth muscle cell @@ -1022,6 +1041,7 @@ def: "A neuron which conveys sensory information centrally from the periphery." subset: human_reference_atlas synonym: "input neuron" EXACT [] xref: FMA:87653 +xref: ZFA:0009238 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000540 ! neuron property_value: RO:0002175 NCBITaxon:9606 @@ -1029,6 +1049,7 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000529 name: pigmented epithelial cell subset: cellxgene_subset +xref: ZFA:0009241 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000710 ! neurecto-epithelial cell [Term] @@ -1042,10 +1063,11 @@ subset: human_reference_atlas synonym: "nerve cell" EXACT [] xref: BTO:0000938 xref: CALOHA:TS-0683 -xref: FBbt:00005106 +xref: FBbt:00005106 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:54527 xref: VHOG:0001483 xref: WBbt:0003679 +xref: ZFA:0009248 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000393 ! electrically responsive cell is_a: CL:0000404 ! electrically signaling cell is_a: CL:0002319 ! neural cell @@ -1060,6 +1082,7 @@ def: "A cell that originates from the neural crest and differentiates into a pig comment: Derived from UBERON:0002342 neural crest. xref: BTO:0003217 xref: FMA:83377 +xref: ZFA:0009249 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0011026 ! progenitor cell relationship: RO:0002202 CL:0000333 ! develops from migratory neural crest cell @@ -1075,7 +1098,6 @@ synonym: "rubriblast" EXACT [ISBN:0721601464] xref: FMA:83518 is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell is_a: CL:0002242 ! nucleate cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: bearer_of PATO:0002505 ! nucleated intersection_of: bearer_of PATO:0040072 ! high nuclear/cytoplasmic ratio @@ -1119,8 +1141,8 @@ synonym: "early erythroblast" EXACT [ISBN:0721601464] synonym: "early normoblast" EXACT [ISBN:0721601464] synonym: "prorubricyte" EXACT [ISBN:0721601464] xref: FMA:83505 +xref: ZFA:0005236 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000765 {is_inferred="true"} ! erythroblast -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000765 ! erythroblast intersection_of: has_part CL:0017503 ! basophilic cytoplasm intersection_of: has_part GO:0000792 ! heterochromatin @@ -1140,8 +1162,8 @@ synonym: "polychromatic normoblast" EXACT [ISBN:0721601464] synonym: "polychromatophilic normoblast" EXACT [ISBN:0721601464] synonym: "rubricyte" EXACT [ISBN:0721601464] xref: FMA:83506 +xref: ZFA:0005241 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000765 {is_inferred="true"} ! erythroblast -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000765 ! erythroblast intersection_of: has_part CL:0017504 ! polychromatophilic cytoplasm intersection_of: has_part GO:0000792 ! heterochromatin @@ -1253,8 +1275,8 @@ subset: cellxgene_subset xref: BTO:0001173 xref: CALOHA:TS-0864 xref: MESH:D012156 +xref: ZFA:0009252 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: capable_of GO:0071971 ! extracellular exosome assembly intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -1296,6 +1318,7 @@ synonym: "ACs" RELATED OMO:0003004 [doi:10.1038/s41598-020-66092-9] synonym: "amacrine neuron" EXACT [] xref: BTO:0004044 xref: FMA:67766 +xref: ZFA:0009255 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000099 ! interneuron is_a: CL:0009004 ! retinal cell relationship: part_of UBERON:0000966 ! retina @@ -1310,9 +1333,9 @@ def: "A mesenchymal stem cell capable of developing into blood vessel endotheliu comment: These cells are reportedly CD31-positive, CD34-positive, CD144-positive, CD309-positive, and TAL1-positive. synonym: "angioblast" EXACT [] synonym: "chondroplast" EXACT [] +xref: ZFA:0009258 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000134 {is_inferred="true"} ! mesenchymal stem cell is_a: CL:0011026 ! progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000134 ! mesenchymal stem cell intersection_of: RO:0002104 PR:000001444 ! has plasma membrane part cadherin-5 intersection_of: RO:0002104 PR:000002112 ! has plasma membrane part vascular endothelial growth factor receptor 2 @@ -1332,6 +1355,7 @@ synonym: "cone" RELATED [doi:10.1038/s41598-020-66092-9] xref: BTO:0001036 xref: CALOHA:TS-0866 xref: FMA:67748 +xref: ZFA:0009262 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0010009 ! camera-type eye photoreceptor cell relationship: RO:0002202 CL:0002672 ! develops from retinal progenitor cell property_value: RO:0002175 NCBITaxon:9606 @@ -1347,6 +1371,7 @@ synonym: "epithelial cell of cornea" EXACT [FMA:70551] xref: BTO:0004298 xref: CALOHA:TS-0173 xref: FMA:70551 +xref: ZFA:0009264 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000076 ! squamous epithelial cell is_a: CL:0002159 ! general ecto-epithelial cell intersection_of: CL:0000076 ! squamous epithelial cell @@ -1364,6 +1389,7 @@ synonym: "rod" RELATED [doi:10.1038/s41598-020-66092-9] xref: BTO:0001024 xref: CALOHA:TS-0870 xref: FMA:67747 +xref: ZFA:0009275 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0010009 ! camera-type eye photoreceptor cell relationship: RO:0002202 CL:0002672 ! develops from retinal progenitor cell property_value: RO:0002175 NCBITaxon:9606 @@ -1379,6 +1405,7 @@ synonym: "Muller cell" EXACT MISSPELLING [doi:10.21769/BioProtoc.4179] synonym: "Muller glia" EXACT [] synonym: "Müller cell" EXACT [] xref: BTO:0003064 +xref: ZFA:0009280 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000681 ! radial glial cell is_a: CL:0009004 ! retinal cell relationship: part_of UBERON:0000966 ! retina @@ -1390,8 +1417,9 @@ name: glutamatergic neuron def: "A neuron that is capable of some neurotansmission by glutamate secretion." [] subset: cellxgene_subset subset: human_reference_atlas -xref: FBbt:00100291 +xref: FBbt:00100291 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: WBbt:0006829 +xref: ZFA:0009290 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell is_a: CL:0000540 ! neuron intersection_of: CL:0000540 ! neuron @@ -1404,6 +1432,7 @@ id: CL:0000680 name: muscle precursor cell def: "A non-terminally differentiated cell that is capable of developing into a muscle cell." [GOC:add] subset: cellxgene_subset +xref: ZFA:0009291 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell intersection_of: CL:0011115 ! precursor cell intersection_of: RO:0002203 CL:0000187 ! develops into muscle cell @@ -1417,6 +1446,7 @@ def: "A cell present in the developing CNS. Functions as both a precursor cell a comment: Unlike that of mammals, the brain of adult teleost fish exhibits an intense and widespread neurogenic activity as a result of the persistence of\nradial glial cells acting as neural progenitors throughout life. subset: cellxgene_subset synonym: "forebrain radial glial cell" NARROW [] +xref: ZFA:0009292 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000125 ! glial cell relationship: RO:0002202 CL:0000710 ! develops from neurecto-epithelial cell @@ -1440,6 +1470,7 @@ name: somatic stem cell def: "A stem cell that can give rise to cell types of the body other than those of the germ-line." [GO:0048103] xref: CALOHA:TS-2086 xref: MESH:D053687 +xref: ZFA:0009307 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000034 ! stem cell intersection_of: CL:0000034 ! stem cell intersection_of: capable_of GO:0048103 ! somatic stem cell division @@ -1459,6 +1490,7 @@ synonym: "RGCs" RELATED OMO:0003004 [doi:10.1038/s41598-020-66092-9] xref: BTO:0001800 xref: FMA:67765 xref: MESH:D012165 +xref: ZFA:0009310 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) relationship: RO:0002100 UBERON:0000966 ! has soma location retina property_value: RO:0002175 NCBITaxon:9606 @@ -1474,6 +1506,7 @@ synonym: "HC" RELATED OMO:0003000 [doi:10.1038/s41598-020-66092-9] synonym: "HCs" RELATED OMO:0003004 [doi:10.1038/s41598-020-66092-9] synonym: "horizontal cell" EXACT [] xref: BTO:0004120 +xref: ZFA:0009315 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000099 ! interneuron relationship: RO:0002100 UBERON:0003902 ! has soma location retinal neural layer property_value: RO:0002175 NCBITaxon:9606 @@ -1488,6 +1521,7 @@ subset: human_reference_atlas synonym: "BC" RELATED OMO:0003000 [doi:10.1038/s41598-020-66092-9] synonym: "BCs" RELATED OMO:0003004 [doi:10.1038/s41598-020-66092-9] synonym: "BPs" RELATED OMO:0003004 [GSE137537] +xref: ZFA:0009318 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000103 ! bipolar neuron is_a: CL:0000679 ! glutamatergic neuron is_a: CL:0008028 ! visual system neuron @@ -1505,6 +1539,7 @@ subset: cellxgene_subset xref: BTO:0001441 xref: CALOHA:TS-0647 xref: MESH:D022423 +xref: ZFA:0009324 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: RO:0002202 CL:0000049 ! develops from common myeloid progenitor @@ -1521,6 +1556,7 @@ synonym: "erythropoietic cell" EXACT [] xref: CALOHA:TS-0290 xref: FMA:62845 xref: FMA:83516 +xref: ZFA:0009325 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell property_value: RO:0002175 NCBITaxon:9606 @@ -1535,6 +1571,7 @@ xref: BTO:0001571 xref: CALOHA:TS-0289 xref: FMA:83504 xref: MESH:D004900 +xref: ZFA:0005237 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0000764 ! erythroid lineage cell @@ -1580,8 +1617,8 @@ synonym: "hemopoietic progenitor cell" EXACT [] synonym: "MPP" EXACT [] xref: BTO:0000725 xref: CALOHA:TS-0448 +xref: ZFA:0009354 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008001 ! hematopoietic precursor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000988 ! hematopoietic cell intersection_of: bearer_of PATO:0001402 ! multipotent intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -1628,6 +1665,7 @@ synonym: "myeloid progenitor cell" BROAD [] xref: BTO:0004730 xref: CALOHA:TS-2099 xref: FMA:70339 +xref: ZFA:0009356 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002031 {is_inferred="true"} ! hematopoietic lineage restricted progenitor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0002031 ! hematopoietic lineage restricted progenitor cell @@ -1647,6 +1685,7 @@ xref: BTO:0000574 xref: CALOHA:TS-2017 xref: FMA:70366 xref: FMA:83598 +xref: ZFA:0005830 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -1682,6 +1721,7 @@ id: CL:0002077 name: ecto-epithelial cell def: "An epithelial cell derived from ectoderm." [FMA:69074, GOC:tfm] xref: FMA:69074 +xref: ZFA:0009385 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: RO:0002202 CL:0000221 ! develops from ectodermal cell @@ -1695,6 +1735,7 @@ name: meso-epithelial cell def: "Epithelial cell derived from mesoderm or mesenchyme." [FMA:69076, GOC:tfm] synonym: "epithelial mesenchymal cell" EXACT [] xref: FMA:69076 +xref: ZFA:0009388 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: RO:0002202 CL:0000222 ! develops from mesodermal cell @@ -1805,6 +1846,7 @@ subset: cellxgene_subset xref: CALOHA:TS-2096 xref: FMA:63875 xref: MESH:D003239 +xref: ZFA:0009392 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0002384 ! connective tissue @@ -1819,6 +1861,7 @@ def: "A cell of the embryo." [FMA:0618947256] xref: CALOHA:TS-0263 xref: FMA:82840 xref: WBbt:0007028 +xref: ZFA:0007089 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 creation_date: 2010-09-15T03:39:21Z @@ -1875,6 +1918,7 @@ id: CL:0002546 name: embryonic blood vessel endothelial progenitor cell def: "An endothelial progenitor cell that participates in angiogenesis during development." [GOC:tfm] comment: See CL:0002619. +xref: ZFA:0005773 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000222 ! mesodermal cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 creation_date: 2011-02-28T04:20:39Z @@ -1944,6 +1988,7 @@ id: CL:0005000 name: spinal cord interneuron def: "A CNS interneuron located in the spinal cord." [CL:CVS] comment: Is_a interneuron, part_of UBERON:0002240. +xref: ZFA:0000778 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000402 {is_inferred="true"} ! CNS interneuron intersection_of: CL:0000099 ! interneuron intersection_of: RO:0002100 UBERON:0002240 ! has soma location spinal cord @@ -1953,6 +1998,7 @@ relationship: RO:0002100 UBERON:0002240 ! has soma location spinal cord id: CL:0007004 name: premigratory neural crest cell def: "Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells." [UBERONREF:0000002] +xref: ZFA:0007084 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0011012 ! neural crest cell relationship: part_of UBERON:0002342 ! neural crest relationship: RO:0002202 CL:0000133 ! develops from neurectodermal cell @@ -1976,7 +2022,7 @@ is_a: CL:0000988 ! hematopoietic cell id: CL:0008007 name: visceral muscle cell def: "A muscle cell that is part of some visceral muscle." [GOC:dos] -xref: FBbt:00005070 +xref: FBbt:00005070 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000187 ! muscle cell intersection_of: CL:0000187 ! muscle cell intersection_of: part_of UBERON:8600004 ! visceral muscle tissue @@ -1997,6 +2043,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0008028 name: visual system neuron +def: "Any neuron that is capable of part of some visual perception." [FBC:Autogenerated] is_a: CL:0000540 ! neuron intersection_of: CL:0000540 ! neuron intersection_of: capable_of_part_of GO:0007601 ! visual perception @@ -2018,6 +2065,7 @@ relationship: part_of UBERON:0005388 ! photoreceptor array [Term] id: CL:0010009 name: camera-type eye photoreceptor cell +def: "Any photoreceptor cell that is part of some camera-type eye." [FBC:Autogenerated] synonym: "camera type eye photoreceptor cell" EXACT [] is_a: CL:0000287 ! eye photoreceptor cell is_a: CL:0009004 ! retinal cell @@ -2447,7 +2495,6 @@ synonym: "cell or subcellular entity" EXACT [] synonym: "cellular component" EXACT [] synonym: "subcellular entity" RELATED [NIF_Subcellular:nlx_subcell_100315] xref: NIF_Subcellular:sao1337158144 -is_a: BFO:0000040 ! material entity disjoint_from: GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/17729" xsd:anyURI @@ -2460,13 +2507,16 @@ comment: Note that this term is intended to annotate gene products that are not subset: goslim_agr subset: goslim_candida subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "extracellular" EXACT [] xref: Wikipedia:Extracellular @@ -2526,7 +2576,6 @@ comment: Note that for multicellular organisms, the extracellular space refers t subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic -subset: goslim_prokaryote synonym: "intercellular space" RELATED [] xref: NIF_Subcellular:sao1425028079 is_a: GO:0110165 ! cellular anatomical entity @@ -2560,12 +2609,14 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "cell nucleus" EXACT [] synonym: "horsetail nucleus" NARROW [GOC:al, GOC:mah, GOC:vw, PMID:15030757] @@ -2591,6 +2642,7 @@ subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "chromatid" RELATED [] synonym: "interphase chromosome" NARROW [] @@ -2625,7 +2677,9 @@ subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast xref: Wikipedia:Cytoplasm is_a: GO:0110165 ! cellular anatomical entity @@ -2640,11 +2694,14 @@ alt_id: GO:0033279 def: "An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins." [ISBN:0198506732] subset: goslim_candida subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "free ribosome" NARROW [NIF_Subcellular:sao1139385046] synonym: "membrane bound ribosome" NARROW [NIF_Subcellular:sao1291545653] @@ -2652,8 +2709,8 @@ synonym: "ribosomal RNA" RELATED [] xref: NIF_Subcellular:sao1429207766 xref: Wikipedia:Ribosome is_a: GO:0043232 ! intracellular non-membrane-bounded organelle -is_a: PR:000050567 ! protein-containing material entity relationship: capable_of_part_of GO:0006412 ! translation +relationship: has_part PR:000000001 ! protein [Term] id: GO:0005886 @@ -2666,11 +2723,14 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "bacterial inner membrane" NARROW [] synonym: "cell membrane" EXACT [] @@ -2710,10 +2770,12 @@ def: "The cellular metabolic process in which a protein is formed, using the seq subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "protein anabolism" EXACT [] synonym: "protein biosynthesis" EXACT [] synonym: "protein biosynthetic process" EXACT [] @@ -2785,7 +2847,9 @@ subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "single-organism transport" RELATED [] is_a: GO:0051234 ! establishment of localization property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20292" xsd:anyURI @@ -2885,6 +2949,8 @@ name: organelle organization namespace: biological_process alt_id: GO:1902589 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_candida subset: goslim_pir synonym: "organelle organisation" EXACT [] @@ -2895,6 +2961,7 @@ is_a: GO:0016043 ! cellular component organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0043226 ! organelle relationship: results_in_organization_of GO:0043226 ! organelle +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2013-12-19T15:25:51Z @@ -2903,13 +2970,14 @@ id: GO:0007049 name: cell cycle namespace: biological_process def: "The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division." [GOC:go_curators, GOC:mtg_cell_cycle] -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cell-division cycle" EXACT [] xref: Wikipedia:Cell_cycle is_a: GO:0009987 ! cellular process @@ -2949,14 +3017,11 @@ subset: goslim_candida subset: goslim_chembl subset: goslim_metagenomics subset: goslim_plant -synonym: "signal transduction by cis-phosphorylation" NARROW [] -synonym: "signal transduction by conformational transition" NARROW [] -synonym: "signal transduction by protein phosphorylation" NARROW [] -synonym: "signal transduction by trans-phosphorylation" NARROW [] +subset: goslim_plant_ribbon synonym: "signaling cascade" NARROW [] synonym: "signaling pathway" RELATED [] synonym: "signalling cascade" NARROW [] -synonym: "signalling pathway" RELATED [GOC:mah] +synonym: "signalling pathway" RELATED [] xref: Wikipedia:Signal_transduction is_a: GO:0009987 ! cellular process is_a: GO:0050794 ! regulation of cellular process @@ -2968,7 +3033,7 @@ relationship: part_of GO:0051716 ! cellular response to stimulus id: GO:0007166 name: cell surface receptor signaling pathway namespace: biological_process -def: "The series of molecular signals initiated by activation of a receptor on the surface of a cell. The pathway begins with binding of an extracellular ligand to a cell surface receptor, or for receptors that signal in the absence of a ligand, by ligand-withdrawal or the activity of a constitutively active receptor. The pathway ends with regulation of a downstream cellular process, e.g. transcription." [GOC:bf, GOC:mah, GOC:pr, GOC:signaling] +def: "The series of molecular signals initiated by an extracellular ligand binding to a receptor located on the cell surface. The pathway ends with regulation of a downstream cellular process, e.g. transcription." [GOC:signaling] subset: goslim_drosophila synonym: "cell surface receptor linked signal transduction" EXACT [] synonym: "cell surface receptor linked signaling pathway" EXACT [GOC:bf] @@ -3167,7 +3232,6 @@ synonym: "physiological process" EXACT [] synonym: "single organism process" RELATED [] synonym: "single-organism process" RELATED [] xref: Wikipedia:Biological_process -is_a: BFO:0000015 ! process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24968" xsd:anyURI created_by: jl creation_date: 2012-09-19T15:05:24Z @@ -3180,11 +3244,13 @@ alt_id: GO:0044236 alt_id: GO:0044710 def: "The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation." [GOC:go_curators, ISBN:0198547684] comment: Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_prokaryote_ribbon synonym: "metabolic process resulting in cell growth" NARROW [] synonym: "metabolism" EXACT [] synonym: "metabolism resulting in cell growth" NARROW [] @@ -3193,6 +3259,7 @@ synonym: "single-organism metabolic process" RELATED [] xref: Wikipedia:Metabolism is_a: GO:0008150 ! biological_process disjoint_from: GO:0051179 ! localization +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI created_by: jl creation_date: 2012-10-17T15:46:40Z @@ -3218,6 +3285,7 @@ def: "The chemical reactions and pathways resulting in the formation of substanc subset: goslim_chembl subset: goslim_metagenomics subset: goslim_plant +subset: goslim_plant_ribbon synonym: "anabolism" EXACT [] synonym: "biosynthesis" EXACT [] synonym: "formation" BROAD [] @@ -3235,6 +3303,8 @@ name: macromolecule biosynthetic process namespace: biological_process alt_id: GO:0043284 def: "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "biopolymer biosynthetic process" EXACT [GOC:mtg_chebi_dec09] synonym: "macromolecule anabolism" EXACT [] @@ -3246,6 +3316,7 @@ is_a: GO:0044249 ! cellular biosynthetic process is_a: GO:1901576 ! organic substance biosynthetic process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/15249" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25418" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0009314 @@ -3308,7 +3379,7 @@ name: response to external stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an external stimulus." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_drosophila subset: goslim_plant synonym: "response to environmental stimulus" EXACT [] @@ -3320,7 +3391,7 @@ name: response to abiotic stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an abiotic (not derived from living organisms) stimulus." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_metagenomics subset: goslim_plant synonym: "response to abiotic stress" NARROW [] @@ -3346,7 +3417,7 @@ name: embryo development namespace: biological_process alt_id: GO:0009795 def: "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant." [GOC:go_curators, GOC:isa_complete, GOC:mtg_sensu] -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_plant synonym: "embryogenesis" EXACT [] @@ -3437,9 +3508,11 @@ comment: Note that this term should be used to annotate gene products in the org subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote synonym: "caspase-independent apoptosis" RELATED [] synonym: "caspase-independent cell death" NARROW [] @@ -3519,10 +3592,12 @@ namespace: biological_process alt_id: GO:0044235 alt_id: GO:0071842 def: "A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:ai, GOC:jl, GOC:mah] +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cell organisation" EXACT [] synonym: "cell organization and biogenesis" RELATED [GOC:mah] synonym: "cellular component organisation at cellular level" EXACT [GOC:mah] @@ -3597,11 +3672,14 @@ alt_id: GO:0006411 alt_id: GO:0044267 alt_id: GO:0044268 def: "The chemical reactions and pathways involving a protein. Includes protein modification." [GOC:ma] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cellular protein metabolic process" EXACT [] synonym: "cellular protein metabolism" EXACT [] synonym: "multicellular organismal protein metabolic process" NARROW [] @@ -3614,6 +3692,7 @@ intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output PR:000000001 ! protein relationship: has_primary_input_or_output PR:000000001 ! protein property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23112" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0021915 @@ -3634,6 +3713,7 @@ name: cell cycle process namespace: biological_process def: "The cellular process that ensures successive accurate and complete genome replication and chromosome segregation." [GOC:isa_complete, GOC:mtg_cell_cycle] subset: gocheck_do_not_annotate +subset: goslim_euk_cellular_processes_ribbon is_a: GO:0009987 ! cellular process intersection_of: GO:0009987 ! cellular process intersection_of: part_of GO:0007049 ! cell cycle @@ -3645,6 +3725,8 @@ name: cellular component disassembly namespace: biological_process alt_id: GO:0071845 def: "A cellular process that results in the breakdown of a cellular component." [GOC:isa_complete] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "cell structure disassembly" EXACT [] synonym: "cellular component disassembly at cellular level" EXACT [] @@ -3653,6 +3735,7 @@ intersection_of: GO:0009987 ! cellular process intersection_of: results_in_disassembly_of GO:0005575 ! cellular_component disjoint_from: GO:0022607 ! cellular component assembly relationship: results_in_disassembly_of GO:0005575 ! cellular_component +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0022600 @@ -3672,6 +3755,7 @@ namespace: biological_process alt_id: GO:0071844 def: "The aggregation, arrangement and bonding together of a cellular component." [GOC:isa_complete] subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_pir synonym: "cell structure assembly" EXACT [] synonym: "cellular component assembly at cellular level" EXACT [] @@ -3715,11 +3799,13 @@ alt_id: GO:0044700 def: "The entirety of a process in which information is transmitted within a biological system. This process begins with an active signal and ends when a cellular response has been triggered." [GOC:mtg_signal, GOC:mtg_signaling_feb11, GOC:signaling] comment: Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change. subset: goslim_agr +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pombe subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "biological signaling" EXACT [] synonym: "signaling process" EXACT [] @@ -3796,6 +3882,8 @@ is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000988 ! hematopoietic cell relationship: results_in_development_of CL:0000988 ! hematopoietic cell +relationship: RO:0002160 NCBITaxon:6072 ! only in taxon Eumetazoa +relationship: RO:0002162 NCBITaxon:6072 {all_only="true"} ! in taxon Eumetazoa property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22178" xsd:anyURI [Term] @@ -3820,6 +3908,7 @@ subset: goslim_drosophila subset: goslim_generic subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon xref: Wikipedia:Cellular_differentiation is_a: GO:0048869 ! cellular developmental process intersection_of: GO:0048869 ! cellular developmental process @@ -3925,6 +4014,7 @@ alt_id: GO:0005578 def: "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues." [GOC:BHF, GOC:mah, GOC:rph, NIF_Subcellular:nlx_subcell_20090513, PMID:21123617, PMID:28089324] subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote @@ -4018,6 +4108,7 @@ namespace: biological_process alt_id: GO:0044707 alt_id: GO:0050874 def: "Any biological process, occurring at the level of a multicellular organism, pertinent to its function." [GOC:curators, GOC:dph, GOC:isa_complete, GOC:tb] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate subset: goslim_pir synonym: "organismal physiological process" EXACT [] @@ -4027,6 +4118,7 @@ property_value: RO:0002161 NCBITaxon:2 property_value: RO:0002161 NCBITaxon:2157 property_value: RO:0002161 NCBITaxon:4896 property_value: RO:0002161 NCBITaxon:4932 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2012-09-19T16:07:47Z @@ -4083,6 +4175,7 @@ def: "A stable assembly of two or more macromolecules, i.e. proteins, nucleic ac comment: A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole. subset: goslim_agr subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir @@ -4092,8 +4185,8 @@ synonym: "protein complex" NARROW [] synonym: "protein containing complex" EXACT [] synonym: "protein-protein complex" NARROW [] is_a: GO:0005575 ! cellular_component -is_a: PR:000050567 ! protein-containing material entity disjoint_from: GO:0110165 ! cellular anatomical entity +relationship: has_part PR:000000001 ! protein [Term] id: GO:0032993 @@ -4207,7 +4300,6 @@ id: GO:0042391 name: regulation of membrane potential namespace: biological_process def: "Any process that modulates the establishment or extent of a membrane potential, the electric potential existing across any membrane arising from charges in the membrane itself and from the charges present in the media on either side of the membrane." [GOC:jl, GOC:mtg_cardio, GOC:tb, ISBN:0198506732] -is_a: BFO:0000003 ! occurrent relationship: has_part GO:0034220 ! monoatomic ion transmembrane transport [Term] @@ -4248,10 +4340,12 @@ name: cell projection namespace: cellular_component def: "A prolongation or process extending from a cell, e.g. a flagellum or axon." [GOC:jl, http://www.cogsci.princeton.edu/~wn/] subset: goslim_agr +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "cell process" BROAD [] synonym: "cellular process" BROAD [] synonym: "cellular projection" EXACT [] @@ -4343,6 +4437,7 @@ subset: goslim_chembl subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon xref: NIF_Subcellular:sao1539965131 xref: Wikipedia:Organelle is_a: GO:0110165 ! cellular anatomical entity @@ -4525,7 +4620,10 @@ name: primary metabolic process namespace: biological_process def: "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism." [GOC:go_curators, http://www.metacyc.org] subset: gocheck_do_not_annotate +subset: goslim_euk_cellular_processes_ribbon subset: goslim_pir +subset: goslim_plant_ribbon +subset: goslim_prokaryote_ribbon synonym: "primary metabolism" EXACT [] is_a: GO:0008152 ! metabolic process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI @@ -4535,12 +4633,15 @@ id: GO:0044249 name: cellular biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:jl] +comment: This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. +subset: gocheck_do_not_annotate synonym: "cellular anabolism" EXACT [] synonym: "cellular biosynthesis" EXACT [] synonym: "cellular formation" EXACT [] synonym: "cellular synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0044237 ! cellular metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27052" xsd:anyURI [Term] id: GO:0044297 @@ -4565,6 +4666,7 @@ namespace: cellular_component def: "The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane." [GOC:aruk, ISBN:0198506732, PMID:24619342, PMID:29383328, PMID:31998110] subset: goslim_agr subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir @@ -4718,6 +4820,7 @@ subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_generic subset: goslim_plant +subset: goslim_plant_ribbon synonym: "development of an anatomical structure" EXACT [] is_a: GO:0032502 ! developmental process intersection_of: GO:0032502 ! developmental process @@ -4740,12 +4843,14 @@ namespace: biological_process def: "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another." [GOC:dgh, GOC:dph, GOC:isa_complete, GOC:mlg] subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_prokaryote synonym: "cell locomotion" EXACT [] synonym: "cell movement" RELATED [] synonym: "movement of a cell" EXACT [] is_a: GO:0009987 ! cellular process +property_value: RO:0002161 NCBITaxon:4890 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19809" xsd:anyURI [Term] @@ -4822,12 +4927,13 @@ namespace: biological_process alt_id: GO:0051869 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism." [GOC:ai, GOC:bf] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "physiological response to stimulus" EXACT [] is_a: GO:0008150 ! biological_process @@ -4876,6 +4982,7 @@ name: localization namespace: biological_process alt_id: GO:1902578 def: "Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation." [GOC:ai, GOC:dos] +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "establishment and maintenance of cellular component location" NARROW [] synonym: "establishment and maintenance of localization" EXACT [] @@ -4886,6 +4993,7 @@ synonym: "localisation" EXACT [GOC:mah] synonym: "single organism localization" RELATED [GOC:TermGenie] synonym: "single-organism localization" RELATED [] is_a: GO:0008150 ! biological_process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27052" xsd:anyURI created_by: jl creation_date: 2013-12-18T13:51:04Z @@ -4966,6 +5074,8 @@ name: cellular localization namespace: biological_process alt_id: GO:1902580 def: "A cellular localization process whereby a substance or cellular entity, such as a protein complex or organelle, is transported to, and/or maintained in, a specific location within a cell including the localization of substances or cellular entities to the cell membrane." [GOC:tb, GOC:vw] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "cellular localisation" EXACT [GOC:mah] synonym: "establishment and maintenance of cellular localization" EXACT [] @@ -4976,6 +5086,7 @@ synonym: "single organism cellular localization" EXACT [GOC:TermGenie] synonym: "single-organism cellular localization" RELATED [] is_a: GO:0009987 ! cellular process is_a: GO:0051179 ! localization +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2013-12-18T14:04:32Z @@ -5003,7 +5114,7 @@ name: cellular response to stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus by a cell and ends with a change in state or activity or the cell." [GOC:bf, GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0009987 ! cellular process is_a: GO:0050896 ! response to stimulus @@ -5024,6 +5135,7 @@ def: "The process in which a solute is transported across a lipid bilayer, from comment: Transmembrane transport is the transport of a solute across a lipid bilayer. Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane and is not traversed. For transport through the nuclear pore, consider instead the term 'nucleocytoplasmic transport ; GO:0006913' and its children. Note also that this term is not intended for use in annotating lateral movement within membranes. subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pombe subset: goslim_yeast @@ -5270,12 +5382,15 @@ name: cellular component organization or biogenesis namespace: biological_process alt_id: GO:0071841 def: "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_flybase_ribbon subset: goslim_metagenomics synonym: "cellular component organisation or biogenesis" EXACT [GOC:mah] synonym: "cellular component organisation or biogenesis at cellular level" EXACT [GOC:mah] synonym: "cellular component organization or biogenesis at cellular level" EXACT [] is_a: GO:0009987 ! cellular process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: mah creation_date: 2010-09-10T01:39:16Z @@ -5401,7 +5516,7 @@ name: plasma membrane region namespace: cellular_component def: "A membrane that is a (regional) part of the plasma membrane." [GOC:dos] comment: Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "region of plasma membrane" EXACT [] is_a: GO:0016020 ! membrane intersection_of: GO:0016020 ! membrane @@ -5428,7 +5543,6 @@ def: "A complex of collagen trimers such as a fibril or collagen network." [GOC: synonym: "Supramolecular aggregate of collagen" EXACT [PMID:19693541] synonym: "Supramolecular collagen assembly" EXACT [PMID:21421911] is_a: GO:0099080 ! supramolecular complex -is_a: PR:000050567 ! protein-containing material entity relationship: has_part GO:0005581 ! collagen trimer relationship: part_of GO:0062023 ! collagen-containing extracellular matrix @@ -5677,6 +5791,7 @@ id: GO:1901576 name: organic substance biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon." [GOC:pr, GOC:TermGenie] +subset: gocheck_do_not_annotate synonym: "organic molecular entity anabolism" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthesis" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthetic process" EXACT [] @@ -5688,6 +5803,7 @@ synonym: "organic substance formation" EXACT [] synonym: "organic substance synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0071704 ! organic substance metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI created_by: pr creation_date: 2012-11-05T11:04:40Z @@ -6043,7 +6159,6 @@ name: quality namespace: quality alt_id: PATO:0000072 def: "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities" [PATOC:GVG] -is_a: BFO:0000020 ! specifically dependent continuant [Term] id: PATO:0000051 @@ -7014,21 +7129,6 @@ intersection_of: PR:000000001 ! protein intersection_of: RO:0002160 NCBITaxon:2759 ! only in taxon Eukaryota relationship: RO:0002160 NCBITaxon:2759 ! only in taxon Eukaryota -[Term] -id: PR:000050567 -name: protein-containing material entity -namespace: protein -def: "A material entity that minimally consists of a protein." [PRO:DAN] -comment: Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566). -synonym: "protein" NARROW [PRO:DAN] -synonym: "protein aggregate" NARROW [PRO:DAN] -synonym: "protein complex" NARROW [PRO:DAN] -synonym: "protein-containing complex" NARROW [PRO:DAN] -is_a: BFO:0000040 ! material entity -intersection_of: BFO:0000040 ! material entity -intersection_of: has_part PR:000000001 ! protein -relationship: has_part PR:000000001 ! protein - [Term] id: UBERON:0000000 name: processual entity @@ -7106,6 +7206,7 @@ xref: CALOHA:TS-2043 xref: EHDAA2:0001824 xref: EHDAA:500 xref: EMAPA:35955 +xref: FBbt:00005155 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: GAID:63 xref: HAO:0000930 xref: MA:0000017 @@ -7199,7 +7300,6 @@ xref: TAO:0005425 xref: UMLS:C0036760 {source="ncithesaurus:Serosa"} xref: Wikipedia:Serous_membrane xref: ZFA:0005425 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: has_part UBERON:0001136 ! mesothelium @@ -7262,6 +7362,7 @@ xref: BILA:0000003 xref: CARO:0000003 xref: EHDAA2:0003003 xref: EMAPA:0 +xref: FBbt:00007001 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:305751 xref: FMA:67135 xref: GAID:781 @@ -7364,7 +7465,6 @@ xref: EFO:0001272 xref: FBdv:00005369 xref: WBls:0000041 xref: XtroDO:0000084 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000092 ! post-embryonic stage relationship: preceded_by UBERON:0000111 ! organogenesis stage @@ -7391,7 +7491,6 @@ xref: WBls:0000003 xref: WBls:0000092 xref: WBls:0000102 xref: XAO:1000012 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage disjoint_from: UBERON:0000092 ! post-embryonic stage relationship: precedes UBERON:0000066 ! fully formed stage @@ -7407,7 +7506,6 @@ subset: common_anatomy synonym: "death" RELATED [] xref: XAO:0000437 xref: XtroDO:0000085 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: RO:0002229 UBERON:0000104 ! ends life cycle property_value: RO:0002175 NCBITaxon:33090 @@ -7493,7 +7591,6 @@ xref: OGES:000024 xref: WBls:0000022 xref: WBls:0000093 xref: WBls:0000103 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: preceded_by UBERON:0000068 ! embryo stage relationship: RO:0002082 GO:0009791 ! simultaneous with post-embryonic development @@ -7515,7 +7612,6 @@ xref: HsapDv:0000001 xref: MmusDv:0000001 xref: ncithesaurus:Life xref: OGES:000011 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000000 ! processual entity relationship: ends_with UBERON:0000071 ! death stage relationship: has_part UBERON:0000105 ! life cycle stage @@ -7579,7 +7675,6 @@ xref: VHOG:0000745 xref: Wikipedia:Zygote xref: XAO:1000001 xref: ZFS:0000001 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: RO:0002223 UBERON:0000104 ! starts life cycle @@ -7603,7 +7698,6 @@ xref: PdumDv:0000200 xref: Wikipedia:Cleavage_(embryo) xref: XAO:1000004 xref: ZFS:0000046 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage intersection_of: UBERON:0000105 ! life cycle stage intersection_of: RO:0002082 GO:0040016 ! simultaneous with embryonic cleavage @@ -7629,7 +7723,6 @@ xref: WBls:0000005 xref: Wikipedia:Blastula xref: XAO:1000003 xref: ZFS:0000045 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000107 ! cleavage stage @@ -7659,7 +7752,6 @@ xref: OGES:000019 xref: WBls:0000010 xref: XAO:1000005 xref: ZFS:0000047 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000108 {source="BILS"} ! blastula stage @@ -7676,7 +7768,6 @@ xref: BILS:0000110 xref: HsapDv:0000012 xref: MmusDv:0000017 xref: XAO:1000006 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000109 ! gastrula stage @@ -7698,7 +7789,6 @@ xref: MmusDv:0000018 xref: OGES:000005 xref: OGES:000032 xref: Wikipedia:Organogenesis -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: RO:0002082 GO:0048513 ! simultaneous with animal organ development @@ -7716,6 +7806,7 @@ synonym: "funiculus" EXACT [] synonym: "nerve fiber bundle" EXACT [FBbt:00005099] synonym: "neural fiber bundle" EXACT [] xref: CARO:0001001 +xref: FBbt:00005099 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: NLX:147821 is_a: UBERON:0005162 ! multi cell part structure relationship: has_part GO:0043005 ! neuron projection @@ -7768,6 +7859,7 @@ xref: EFO:0000825 xref: EHDAA2:0001326 xref: EHDAA:542 xref: EMAPA:16262 +xref: FBbt:00003126 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:49184 xref: GAID:75 xref: galen:Mouth @@ -7829,7 +7921,6 @@ xref: VHOG:0000224 xref: Wikipedia:Blood xref: XAO:0000124 xref: ZFA:0000007 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000179 ! haemolymphatic fluid relationship: has_part CL:0000232 {source="CL:tm"} ! erythrocyte relationship: has_part UBERON:0001969 ! blood plasma @@ -7934,6 +8025,7 @@ xref: CALOHA:TS-2101 xref: CARO:0000004 xref: EHDAA2:0003004 xref: EMAPA:35178 +xref: FBbt:00007019 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9669 xref: galen:BodySubstance xref: HAO:0000004 @@ -7968,6 +8060,7 @@ xref: AEO:0000005 xref: BILA:0000005 xref: CARO:0000005 xref: EHDAA2:0003005 +xref: FBbt:00007017 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:5897 xref: HAO:0000005 xref: NCIT:C94478 @@ -7995,12 +8088,12 @@ xref: AEO:0000006 xref: BILA:0000006 xref: CARO:0000006 xref: EHDAA2:0003006 +xref: FBbt:00007016 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67165 xref: HAO:0000006 xref: TAO:0001836 xref: TGMA:0001826 xref: VHOG:0001721 -is_a: BFO:0000040 ! material entity is_a: UBERON:0001062 ! anatomical entity disjoint_from: UBERON:0000466 ! immaterial anatomical entity property_value: RO:0002175 NCBITaxon:33090 @@ -8020,12 +8113,12 @@ xref: AEO:0000007 xref: BILA:0000007 xref: CARO:0000007 xref: EHDAA2:0003007 +xref: FBbt:00007015 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67112 xref: HAO:0000007 xref: TAO:0001835 xref: TGMA:0001827 xref: VHOG:0001727 -is_a: BFO:0000141 ! immaterial entity is_a: UBERON:0001062 ! anatomical entity property_value: RO:0002175 NCBITaxon:33090 property_value: RO:0002175 NCBITaxon:33208 @@ -8057,6 +8150,7 @@ xref: EHDAA2:0003011 xref: EHDAA:392 xref: EMAPA:16103 xref: EV:0100000 +xref: FBbt:00004856 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7149 xref: galen:AnatomicalSystem xref: HAO:0000011 @@ -8110,6 +8204,7 @@ xref: EHDAA2:0003191 xref: EHDAA:1 xref: EMAPA:25765 xref: EV:0100016 +xref: FBbt:00000001 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:256135 xref: galen:Organism xref: HAO:0000012 @@ -8153,6 +8248,7 @@ xref: CARO:0000032 xref: EFO:0000808 xref: EHDAA2:0003032 xref: EMAPA:36031 +xref: FBbt:00007009 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7153 xref: galen:BodyPart xref: HAO:0000032 @@ -8188,6 +8284,7 @@ xref: AEO:0000040 xref: BILA:0000040 xref: CARO:0000040 xref: EHDAA2:0003040 +xref: FBbt:00007013 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:63863 xref: HAO:0000040 xref: TAO:0000382 @@ -8207,6 +8304,7 @@ namespace: uberon def: "Anatomical group whose component anatomical structures lie in close proximity to each other." [FBbt:00007277] subset: common_anatomy subset: upper_level +xref: FBbt:00007277 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: VHOG:0001737 is_a: UBERON:0034923 ! disconnected anatomical group property_value: RO:0002175 NCBITaxon:33090 @@ -8233,6 +8331,7 @@ xref: CALOHA:TS-2090 xref: CARO:0000043 xref: EHDAA2:0003043 xref: EMAPA:35868 +xref: FBbt:00007003 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9637 xref: galen:Tissue xref: HAO:0000043 @@ -8267,6 +8366,7 @@ xref: AEO:0000055 xref: BILA:0000055 xref: CARO:0000055 xref: EHDAA2:0003055 +xref: FBbt:00007010 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: HAO:0000055 xref: TAO:0001488 xref: TGMA:0001847 @@ -8299,6 +8399,7 @@ xref: CALOHA:TS-0288 xref: CARO:0000066 xref: EHDAA2:0003066 xref: EMAPA:32738 +xref: FBbt:00007005 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9639 xref: GAID:402 xref: HAO:0000066 @@ -8312,7 +8413,6 @@ xref: VHOG:0000387 xref: Wikipedia:Epithelium xref: XAO:0003045 xref: ZFA:0001486 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000479 ! tissue intersection_of: UBERON:0000479 ! tissue intersection_of: RO:0002473 CL:0000066 ! composed primarily of epithelial cell @@ -8466,6 +8566,7 @@ xref: EHDAA2:0000002 xref: EHDAA2_RETIRED:0003236 xref: EHDAA:38 xref: EMAPA:16039 +xref: FBbt:00000052 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69068 xref: GAID:963 xref: http://neurolex.org/wiki/Category\:Embryonic_organism @@ -8506,6 +8607,7 @@ xref: AAO:0000480 xref: BILA:0000035 xref: BTO:0000556 xref: EMAPA:36033 +xref: FBbt:00000110 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69069 xref: GAID:1303 xref: MESH:D005855 @@ -8539,6 +8641,7 @@ xref: EFO:0000414 xref: EHDAA2:0000428 xref: EMAPA:16069 xref: EV:0100003 +xref: FBbt:00000111 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69070 xref: GAID:1304 xref: MAT:0000155 @@ -8576,6 +8679,7 @@ xref: EFO:0002545 xref: EHDAA2:0000436 xref: EMAPA:16062 xref: EV:0100005 +xref: FBbt:00000125 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69071 xref: GAID:1305 xref: MAT:0000175 @@ -8619,6 +8723,7 @@ xref: EHDAA:160 xref: EHDAA:183 xref: EMAPA:16083 xref: EV:0100006 +xref: FBbt:00000126 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69072 xref: GAID:522 xref: MAT:0000174 @@ -8658,6 +8763,7 @@ synonym: "stomodeal-hypophyseal primordium" BROAD [XAO:0000269] xref: BTO:0004224 xref: EHDAA2:0001929 xref: EMAPA:16263 +xref: FBbt:00000439 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:295846 xref: NCIT:C34306 xref: TAO:0001290 @@ -8824,6 +8930,7 @@ xref: EHDAA:2641 xref: EHDAA:6485 xref: EMAPA:16894 xref: EV:0100164 +xref: FBbt:00005095 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:50801 xref: GAID:571 xref: galen:Brain @@ -8957,7 +9064,6 @@ xref: VHOG:0000164 xref: Wikipedia:Cornea xref: XAO:0000180 xref: ZFA:0000640 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0010000 ! multicellular anatomical structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: has_part UBERON:0001772 ! corneal epithelium @@ -9093,6 +9199,7 @@ xref: BTO:0000439 xref: CALOHA:TS-0309 xref: EFO:0000827 xref: EV:0100336 +xref: FBbt:00005162 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: GAID:69 xref: MAT:0000140 xref: MESH:D005123 @@ -9164,6 +9271,7 @@ xref: BILA:0000082 xref: BTO:0000058 xref: CALOHA:TS-1293 xref: EFO:0000793 +xref: FBbt:00005055 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7152 xref: GAID:278 xref: galen:DigestiveSystem @@ -9278,6 +9386,7 @@ xref: EHDAA2:0001246 xref: EHDAA:826 xref: EMAPA:16469 xref: EV:0100162 +xref: FBbt:00005093 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7157 xref: GAID:466 xref: MA:0000016 @@ -9337,6 +9446,7 @@ xref: EHDAA:828 xref: EMAPA:16470 xref: EMAPA:16754 xref: EV:0100163 +xref: FBbt:00005094 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:55675 xref: GAID:570 xref: MA:0000167 @@ -9375,6 +9485,7 @@ synonym: "tract" RELATED [] synonym: "tract of neuraxis" EXACT [FMA:83847] xref: BIRNLEX:1649 xref: EV:0100304 +xref: FBbt:00005100 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:83847 xref: NLX:147822 is_a: UBERON:0000122 ! neuron projection bundle @@ -9426,6 +9537,7 @@ xref: BILA:0000099 xref: EFO:0000805 xref: EHDAA2:0003094 xref: EMAPA:16192 +xref: FBbt:00007692 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:75259 xref: MA:0002442 xref: MAT:0000031 @@ -9459,6 +9571,7 @@ xref: AEO:0000171 xref: BTO:0001886 xref: EFO:0001652 xref: EHDAA2:0003171 +xref: FBbt:00005495 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:86589 xref: MAT:0000482 xref: NCIT:C34275 @@ -9521,6 +9634,7 @@ xref: BILA:0000000 xref: BIRNLEX:6 xref: CARO:0000000 xref: EHDAA2:0002229 +xref: FBbt:10000000 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:62955 xref: HAO:0000000 xref: MA:0000001 @@ -9743,6 +9857,7 @@ xref: BTO:0000545 xref: EHDAA2:0000726 xref: EHDAA:518 xref: EMAPA:16247 +xref: FBbt:00003125 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45615 xref: galen:AlimentaryTract xref: MA:0000917 @@ -11148,7 +11263,6 @@ xref: MIAA:0000052 xref: NCIT:C13356 xref: UMLS:C0032105 {source="ncithesaurus:Plasma"} xref: Wikipedia:Blood_plasma -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000179 ! haemolymphatic fluid intersection_of: UBERON:0000463 ! organism substance intersection_of: has_part GO:0005577 ! fibrinogen complex @@ -11197,7 +11311,6 @@ xref: VHOG:0001250 xref: Wikipedia:Blood_vessel xref: XAO:0001011 xref: ZFA:0005314 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000055 ! vessel is_a: UBERON:0004120 ! mesoderm-derived structure relationship: capable_of_part_of GO:0008015 ! blood circulation @@ -11397,6 +11510,7 @@ xref: BILA:0000034 xref: BTO:0000174 xref: CALOHA:TS-2110 xref: EFO:0000461 +xref: FBbt:00004208 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69067 xref: GAID:407 xref: MESH:D004628 @@ -11840,6 +11954,7 @@ synonym: "ventral body cavity" NARROW [NCBITaxon:7742] xref: AEO:0000186 xref: BTO:0001707 xref: EHDAA2:0000267 +xref: FBbt:00005060 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:85006 xref: galen:BodyCavity xref: NCIT:C25444 @@ -12003,6 +12118,7 @@ xref: EHDAA:1498 xref: EHDAA:255 xref: EMAPA:16073 xref: EV:0100004 +xref: FBbt:00001057 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:87657 xref: MAT:0000176 xref: MIAA:0000176 @@ -13087,6 +13203,7 @@ def: "Epithelial tubes transport gases, liquids and cells from one site to anoth synonym: "epithelial or endothelial tube" EXACT [] xref: AEO:0000114 xref: EHDAA2:0003114 +xref: FBbt:00007474 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000025 ! tube is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium @@ -13553,7 +13670,6 @@ xref: WikipediaCategory:Cardiovascular_system xref: XAO:0000100 xref: XAO:0001010 xref: ZFA:0000010 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000467 ! anatomical system intersection_of: UBERON:0000467 ! anatomical system intersection_of: has_part UBERON:0000948 ! heart @@ -13577,7 +13693,6 @@ synonym: "blood vessels" RELATED [TAO:0001079] synonym: "set of blood vessels" EXACT [] xref: TAO:0001079 xref: ZFA:0001079 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: RO:0002473 UBERON:0001981 ! composed primarily of blood vessel @@ -13676,6 +13791,7 @@ synonym: "trilaminar disk" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar germ" RELATED [https://orcid.org/0000-0002-6601-2165] xref: BILA:0000060 xref: BTO:0001403 +xref: FBbt:00005317 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:293108 xref: GAID:1302 xref: MESH:D005775 @@ -13799,6 +13915,7 @@ namespace: uberon def: "Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "joint" NARROW [] +xref: FBbt:00005811 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0034921 ! multi organ part structure relationship: part_of UBERON:0004770 ! articular system @@ -13814,6 +13931,7 @@ synonym: "gut section" RELATED [FBbt:00100315] synonym: "intestinal tract" RELATED [] synonym: "segment of intestinal tract" RELATED [] synonym: "subdivision of alimentary system" RELATED [FMA:71131] +xref: FBbt:00100315 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:71131 is_a: UBERON:0013522 ! subdivision of tube intersection_of: UBERON:0013522 ! subdivision of tube @@ -13928,6 +14046,7 @@ synonym: "multi-cell-component structure" EXACT [CARO:0001000] synonym: "multi-cell-part structure" EXACT [CARO:0001000] xref: AAO:0011000 xref: CARO:0001000 +xref: FBbt:00007060 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:83115 is_a: UBERON:0000061 ! anatomical structure relationship: RO:0002473 GO:0005575 ! composed primarily of cellular_component @@ -14085,6 +14204,7 @@ name: photoreceptor array namespace: uberon def: "An array of photoreceptors and any supporting cells found in an eye." [https://orcid.org/0000-0002-6601-2165] synonym: "light-sensitive tissue" EXACT [] +xref: FBbt:00004200 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: part_of UBERON:0000970 ! eye @@ -14115,6 +14235,7 @@ synonym: "developmental tissue" RELATED [MIAA:0000019] xref: AEO:0000125 xref: CALOHA:TS-2122 xref: EHDAA2:0003125 +xref: FBbt:00007006 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:292313 xref: MIAA:0000019 is_a: UBERON:0000465 ! material anatomical entity @@ -14279,7 +14400,6 @@ xref: NCIT:C13191 xref: SCTID:68989006 xref: UMLS:C0004799 {source="ncithesaurus:Basement_Membrane"} xref: Wikipedia:Basement_membrane -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0005764 {source="FMA"} ! acellular membrane relationship: adjacent_to CL:0000066 ! epithelial cell relationship: has_part GO:0005587 ! collagen type IV trimer @@ -14309,7 +14429,6 @@ def: "Organ with organ cavity, which has as parts a serous membrane and a serous comment: See notes for serous membrane xref: FMA:9689 xref: SCTID:362890006 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000062 ! organ relationship: has_part UBERON:0000042 ! serous membrane relationship: has_part UBERON:0002553 ! anatomical cavity @@ -14730,7 +14849,6 @@ subset: efo_slim xref: EFO:0003709 xref: TAO:0005077 xref: ZFA:0005077 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0005423 ! developing anatomical structure relationship: has_part CL:0000115 ! endothelial cell relationship: has_part CL:0000566 ! angioblastic mesenchymal cell @@ -15099,6 +15217,7 @@ synonym: "organ field" RELATED [] xref: AEO:0000170 xref: EFO:0001649 xref: EHDAA2:0003170 +xref: FBbt:00005426 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: Wikipedia:Anlage_(biology) is_a: UBERON:0000479 {source="FBbt"} ! tissue is_a: UBERON:0005423 {source="AEO", source="FBbt"} ! developing anatomical structure @@ -15301,6 +15420,7 @@ subset: common_anatomy subset: upper_level synonym: "multicellular structure" EXACT [FBbt:00100313] xref: CARO:0010000 +xref: FBbt:00100313 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: RO:0000086 PATO:0001993 ! has quality multicellular @@ -15538,6 +15658,7 @@ def: "A subdivision of an anatomical system." [http://orcid.org/0000-0002-6601-2 subset: common_anatomy subset: human_reference_atlas subset: upper_level +xref: FBbt:00007330 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67509 xref: SCTID:91690000 is_a: UBERON:0010000 {source="FBbt"} ! multicellular anatomical structure @@ -15706,7 +15827,6 @@ synonym: "tunica fibrosa" BROAD [] xref: FMA:58102 xref: SCTID:361318005 xref: Wikipedia:Fibrous_tunic_of_eyeball -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004923 {source="FMA"} ! organ component layer is_a: UBERON:0010314 ! structure with developmental contribution from neural crest @@ -15828,6 +15948,7 @@ name: non-connected functional system namespace: uberon def: "An anatomical group whose component structures share a common function." [AEO:0000093, AEO:JB, FBbt:00007278, FBC:DOS] xref: AEO:0000093 +xref: FBbt:00007278 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0034923 ! disconnected anatomical group [Term] @@ -16064,6 +16185,7 @@ namespace: uberon def: "Material anatomical entity consisting of multiple anatomical structures that are not connected to each other." [CARO:0020000] subset: common_anatomy xref: CARO:0020000 +xref: FBbt:00007276 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000465 {source="CARO"} ! material anatomical entity relationship: has_component UBERON:0000061 {minCardinality="2"} ! anatomical structure relationship: RO:0000086 PATO:0010001 ! has quality disconnected @@ -16186,15 +16308,6 @@ is_functional: true is_a: RO:0002314 ! characteristic of part of inverse_of: bearer_of ! bearer of -[Typedef] -id: RO:0000079 -name: function of -def: "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -property_value: IAO:0000116 "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." xsd:string -is_a: RO:0000052 ! characteristic of -inverse_of: RO:0000085 ! has function - [Typedef] id: RO:0000080 name: quality of @@ -16204,23 +16317,6 @@ property_value: IAO:0000116 "A quality inheres in its bearer at all times for wh is_a: RO:0000052 ! characteristic of inverse_of: RO:0000086 ! has quality -[Typedef] -id: RO:0000081 -name: role of -def: "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -property_value: IAO:0000116 "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." xsd:string -is_a: RO:0000052 ! characteristic of -inverse_of: RO:0000087 ! has role - -[Typedef] -id: RO:0000085 -name: has function -def: "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" [] -property_value: IAO:0000116 "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." xsd:string -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of - [Typedef] id: RO:0000086 name: has quality @@ -16228,30 +16324,6 @@ def: "a relation between an independent continuant (the bearer) and a quality, i property_value: IAO:0000116 "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." xsd:string is_a: bearer_of ! bearer of -[Typedef] -id: RO:0000087 -name: has role -def: "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" [] -property_value: IAO:0000116 "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." xsd:string -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of - -[Typedef] -id: RO:0000091 -name: has disposition -def: "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" [] -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of -inverse_of: RO:0000092 ! disposition of - -[Typedef] -id: RO:0000092 -name: disposition of -def: "inverse of has disposition" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -subset: RO:0002259 -is_a: RO:0000052 ! characteristic of - [Typedef] id: RO:0001000 name: derives from @@ -16283,8 +16355,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: IAO:0000116 "Location as a relation between instances: The primitive instance-level relation c located_in r at t reflects the fact that each continuant is at any given time associated with exactly one spatial region, namely its exact location. Following we can use this relation to define a further instance-level location relation - not between a continuant and the region which it exactly occupies, but rather between one continuant and another. c is located in c1, in this sense, whenever the spatial region occupied by c is part_of the spatial region occupied by c1. Note that this relation comprehends both the relation of exact location between one continuant and another which obtains when r and r1 are identical (for example, when a portion of fluid exactly fills a cavity), as well as those sorts of inexact location relations which obtain, for example, between brain and head or between ovum and uterus" xsd:string property_value: IAO:0000116 "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" xsd:string property_value: seeAlso "https://wiki.geneontology.org/Located_in" xsd:anyURI -domain: BFO:0000004 {IAO:0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant -range: BFO:0000004 {IAO:0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant is_transitive: true transitive_over: part_of ! part of @@ -16303,8 +16373,6 @@ name: has 2D boundary def: "a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity" [] property_value: IAO:0000116 "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." xsd:string property_value: IAO:0000116 "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." xsd:string -domain: BFO:0000040 ! material entity -range: BFO:0000141 ! immaterial entity is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -16320,34 +16388,6 @@ name: has synaptic terminal of is_a: overlaps ! overlaps inverse_of: RO:0002130 ! has synaptic terminal in -[Typedef] -id: RO:0002015 -name: has positive regulatory component activity -def: "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." [] -comment: By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'. -is_a: has_regulatory_component_activity ! has regulatory component activity -is_a: positively_regulated_by ! positively regulated by -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:31:17Z - -[Typedef] -id: RO:0002017 -name: has component activity -comment: A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B. -is_a: RO:0002018 ! has component process -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:44:33Z - -[Typedef] -id: RO:0002018 -name: has component process -def: "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." [] -domain: BFO:0000015 ! process -range: BFO:0000015 ! process -is_a: has_component ! has component -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:49:21Z - [Typedef] id: RO:0002021 name: occurs across @@ -16356,43 +16396,6 @@ is_a: RO:0002479 ! has part that occurs in created_by: https://orcid.org/0000-0002-7073-9172 creation_date: 2017-07-20T17:19:37Z -[Typedef] -id: RO:0002022 -name: directly regulated by -comment: Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. {xref="https://orcid.org/0000-0002-7073-9172"} -is_a: regulated_by ! regulated by -inverse_of: directly_regulates ! directly regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:24Z - -[Typedef] -id: RO:0002023 -name: directly negatively regulated by -def: "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1." [https://orcid.org/0000-0002-7073-9172] -is_a: RO:0002022 ! directly regulated by -inverse_of: directly_negatively_regulates ! directly negatively regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:38Z - -[Typedef] -id: RO:0002024 -name: directly positively regulated by -def: "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1." [https://orcid.org/0000-0002-7073-9172] -is_a: RO:0002022 ! directly regulated by -inverse_of: directly_positively_regulates ! directly positively regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:47Z - -[Typedef] -id: RO:0002025 -name: has effector activity -def: "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity." [https://orcid.org/0000-0002-7073-9172] -comment: This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations. -is_functional: true -is_a: RO:0002017 ! has component activity -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-22T14:14:36Z - [Typedef] id: RO:0002081 name: before or simultaneous with @@ -16519,8 +16522,6 @@ id: RO:0002150 name: continuous with def: "X continuous_with Y if and only if X and Y share a fiat boundary." [] property_value: seeAlso "FMA:85972" xsd:string -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_symmetric: true is_a: RO:0002323 ! mereotopologically related to @@ -16583,7 +16584,6 @@ name: connects def: "c connects a if and only if there exist some b such that a and b are similar parts of the same system, and c connects b, specifically, c connects a with b. When one structure connects two others it unites some aspect of the function or role they play within the system." [] property_value: seeAlso "https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern" xsd:anyURI property_value: seeAlso "https://github.com/obophenotype/uberon/wiki/Modeling-articulations-Design-Pattern" xsd:anyURI -domain: BFO:0000004 ! independent continuant is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -16614,8 +16614,6 @@ id: RO:0002202 name: develops from def: "x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y" [] comment: This is the transitive form of the develops from relation -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_transitive: true is_a: RO:0002254 ! has developmental contribution from is_a: RO:0002258 ! developmentally preceded by @@ -16635,7 +16633,6 @@ is_a: RO:0002388 ! has potential to directly develop into id: RO:0002206 name: expressed in def: "x expressed in y if and only if there is a gene expression process (GO:0010467) that occurs in y, and one of the following holds: (i) x is a gene, and x is transcribed into a transcript as part of the gene expression process (ii) x is a transcript, and the transcription of x is part of the gene expression process (iii) x is a mature gene product such as a protein, and x was translated or otherwise processes from a transcript that was transcribed as part of this gene expression process" [] -domain: BFO:0000002 ! continuant range: UBERON:0000465 ! material anatomical entity is_a: RO:0002330 ! genomically related to inverse_of: RO:0002292 ! expresses @@ -16676,8 +16673,6 @@ id: RO:0002222 name: temporally related to comment: A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. subset: ro-eco -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent [Typedef] id: RO:0002223 @@ -16769,8 +16764,6 @@ name: developmentally preceded by def: "Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p" [] comment: This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from property_value: IAO:0000116 "false" xsd:boolean -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant is_a: RO:0002324 ! developmentally related to inverse_of: RO:0002286 ! developmentally succeeded by @@ -16780,7 +16773,6 @@ name: acts upstream of def: "c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes." [] subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of -holds_over_chain: RO:0002327 causally_upstream_of is_a: RO:0002264 ! acts upstream of or within [Typedef] @@ -16790,7 +16782,6 @@ def: "c acts upstream of or within p if c is enables f, and f is causally upstre subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term synonym: "affects" RELATED [] property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of_or_within is_a: RO:0002500 ! causal agent in process [Typedef] @@ -16842,17 +16833,6 @@ id: RO:0002324 name: developmentally related to def: "A relationship that holds between entities participating in some developmental process (GO:0032502)" [] -[Typedef] -id: RO:0002327 -name: enables -def: "c enables p iff c is capable of p and c acts to execute p." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Enables" xsd:anyURI -is_a: capable_of ! capable of -inverse_of: RO:0002333 ! enabled by -transitive_over: has_part ! has part -transitive_over: RO:0002017 ! has component activity - [Typedef] id: RO:0002328 name: functionally related to @@ -16868,34 +16848,11 @@ is_a: RO:0002328 ! functionally related to id: RO:0002330 name: genomically related to def: "holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts." [] -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant - -[Typedef] -id: RO:0002331 -name: involved in -def: "c involved_in p if and only if c enables some process p', and p' is part of p" [] -property_value: seeAlso "https://wiki.geneontology.org/Involved_in" xsd:anyURI -holds_over_chain: RO:0002327 part_of -is_a: participates_in ! participates in -is_a: RO:0002431 ! involved in or involved in regulation of -transitive_over: part_of ! part of - -[Typedef] -id: RO:0002333 -name: enabled by -def: "inverse of enables" [] -subset: http://purl.obolibrary.org/obo/valid_for_gocam -property_value: seeAlso "https://wiki.geneontology.org/Enabled_by" xsd:anyURI -is_a: has_participant ! has participant -is_a: RO:0002328 ! functionally related to [Typedef] id: RO:0002337 name: related via localization to def: "A relationship that holds via some process of localization" [] -domain: BFO:0000015 ! process -range: BFO:0000002 ! continuant [Typedef] id: RO:0002350 @@ -16962,8 +16919,6 @@ name: in branching relationship with def: "A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network." [] property_value: seeAlso http://purl.obolibrary.org/obo/ro/docs/branching_part_of.png property_value: seeAlso "https://github.com/obophenotype/uberon/issues/170" xsd:anyURI -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -17025,31 +16980,6 @@ name: has potential to directly develop into def: "x has potential to directly develop into y iff x directly develops into y or x is capable of directly developing into y" [] is_a: RO:0002387 ! has potential to develop into -[Typedef] -id: RO:0002407 -name: indirectly positively regulates -def: "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." [] -property_value: seeAlso "https://wiki.geneontology.org/Indirectly_positively_regulates" xsd:anyURI -holds_over_chain: directly_positively_regulates directly_positively_regulates -holds_over_chain: directly_positively_regulates RO:0002407 -holds_over_chain: RO:0002409 RO:0002409 -is_transitive: true -is_a: positively_regulates ! positively regulates -is_a: RO:0012012 ! indirectly regulates -transitive_over: directly_positively_regulates ! directly positively regulates - -[Typedef] -id: RO:0002409 -name: indirectly negatively regulates -def: "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." [] -property_value: seeAlso "https://wiki.geneontology.org/Indirectly_negatively_regulates" xsd:anyURI -holds_over_chain: directly_negatively_regulates directly_negatively_regulates -holds_over_chain: directly_negatively_regulates RO:0002409 -is_transitive: true -is_a: negatively_regulates ! negatively regulates -is_a: RO:0012012 ! indirectly regulates -transitive_over: directly_negatively_regulates ! directly negatively regulates - [Typedef] id: RO:0002410 name: causally related to @@ -17060,28 +16990,9 @@ property_value: IAO:0000116 "This branch of the ontology deals with causal relat id: RO:0002428 name: involved in regulation of def: "c involved in regulation of p if c is involved in some p' and p' regulates some p" [] -holds_over_chain: RO:0002327 regulates -holds_over_chain: RO:0002331 regulates is_a: RO:0002263 ! acts upstream of is_a: RO:0002431 ! involved in or involved in regulation of -[Typedef] -id: RO:0002429 -name: involved in positive regulation of -def: "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" [] -holds_over_chain: RO:0002327 positively_regulates -holds_over_chain: RO:0002331 positively_regulates -is_a: RO:0002428 ! involved in regulation of - -[Typedef] -id: RO:0002430 -name: involved in negative regulation of -def: "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" [] -property_value: RO:0004050 RO:0002428 -holds_over_chain: RO:0002327 negatively_regulates -holds_over_chain: RO:0002331 negatively_regulates -is_a: RO:0002428 ! involved in regulation of - [Typedef] id: RO:0002431 name: involved in or involved in regulation of @@ -17091,87 +17002,17 @@ is_a: RO:0002264 ! acts upstream of or within is_a: RO:0002328 ! functionally related to is_a: RO:0002500 ! causal agent in process -[Typedef] -id: RO:0002432 -name: is active in -def: "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure." [https://orcid.org/0000-0002-6601-2165, https://orcid.org/0000-0002-7073-9172] -synonym: "enables activity in" EXACT [] -property_value: seeAlso "https://wiki.geneontology.org/Is_active_in" xsd:anyURI -is_a: overlaps ! overlaps -is_a: RO:0002328 ! functionally related to - [Typedef] id: RO:0002433 name: contributes to morphology of def: "p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm." [] is_a: overlaps ! overlaps -[Typedef] -id: RO:0002434 -name: interacts with -def: "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." [] -subset: ro-eco -synonym: "in pairwise interaction with" EXACT [] -property_value: IAO:0000116 "Considering relabeling as 'pairwise interacts with'" xsd:anyURI -property_value: IAO:0000116 "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." xsd:string -property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_symmetric: true - -[Typedef] -id: RO:0002436 -name: molecularly interacts with -def: "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." [] -property_value: seeAlso ECO:0000353 -is_symmetric: true -is_a: RO:0002434 ! interacts with - -[Typedef] -id: RO:0002447 -name: phosphorylates -property_value: IAO:0000116 "Axiomatization to GO to be added later" xsd:string -is_a: RO:0002436 ! molecularly interacts with - -[Typedef] -id: RO:0002448 -name: directly regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." [] -synonym: "molecularly controls" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002436 ! molecularly interacts with -is_a: RO:0011002 ! regulates activity of - -[Typedef] -id: RO:0002449 -name: directly negatively regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." [] -synonym: "molecularly decreases activity of" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002448 ! directly regulates activity of - -[Typedef] -id: RO:0002450 -name: directly positively regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." [] -synonym: "molecularly increases activity of" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002448 ! directly regulates activity of - -[Typedef] -id: RO:0002464 -name: helper property (not for use in curation) - [Typedef] id: RO:0002473 name: composed primarily of def: "x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y." [] subset: ro-eco -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: has_part ! has part [Typedef] @@ -17179,13 +17020,6 @@ id: RO:0002479 name: has part that occurs in def: "p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c." [] subset: ro-eco -domain: BFO:0000003 ! occurrent -range: BFO:0000004 ! independent continuant - -[Typedef] -id: RO:0002481 -name: is kinase activity -is_a: RO:0002564 ! molecular interaction relation helper property [Typedef] id: RO:0002485 @@ -17203,8 +17037,6 @@ is_a: RO:0002170 ! connected to [Typedef] id: RO:0002487 name: relation between physical entity and a process or stage -domain: BFO:0000004 ! independent continuant -range: BFO:0000003 ! occurrent [Typedef] id: RO:0002488 @@ -17301,8 +17133,6 @@ inverse_of: process_has_causal_agent ! process has causal agent id: RO:0002501 name: causal relation between processes def: "p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q." [] -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent is_a: RO:0002410 ! causally related to [Typedef] @@ -17310,14 +17140,6 @@ id: RO:0002502 name: depends on property_value: seeAlso BFO:0000169 -[Typedef] -id: RO:0002506 -name: causal relation between entities -property_value: IAO:0000116 "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" xsd:string -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant -is_a: RO:0002410 ! causally related to - [Typedef] id: RO:0002551 name: has skeleton @@ -17328,32 +17150,6 @@ is_a: has_part ! has part inverse_of: RO:0002576 ! skeleton of is_asymmetric: true -[Typedef] -id: RO:0002559 -name: causally influenced by -is_a: RO:0002506 ! causal relation between entities -inverse_of: RO:0002566 ! causally influences - -[Typedef] -id: RO:0002563 -name: interaction relation helper property -property_value: seeAlso http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29 -property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI -is_a: RO:0002464 ! helper property (not for use in curation) - -[Typedef] -id: RO:0002564 -name: molecular interaction relation helper property -is_a: RO:0002563 ! interaction relation helper property - -[Typedef] -id: RO:0002566 -name: causally influences -def: "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." [] -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant -is_a: RO:0002506 ! causal relation between entities - [Typedef] id: RO:0002567 name: biomechanically related to @@ -17383,8 +17179,6 @@ id: RO:0002570 name: conduit for def: "x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x." [] subset: ro-eco -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: overlaps ! overlaps [Typedef] @@ -17392,7 +17186,6 @@ id: RO:0002571 name: lumen of def: "x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull." [] subset: ro-eco -range: BFO:0000040 ! material entity is_a: part_of ! part of [Typedef] @@ -17400,7 +17193,6 @@ id: RO:0002572 name: luminal space of def: "s is luminal space of x iff s is lumen_of x and s is an immaterial entity" [] subset: ro-eco -domain: BFO:0000141 ! immaterial entity is_a: RO:0002571 ! lumen of [Typedef] @@ -17431,8 +17223,6 @@ id: RO:0002595 name: causal relation between material entity and a process def: "A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity." [] property_value: IAO:0000116 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string -domain: BFO:0000040 ! material entity -range: BFO:0000015 ! process is_a: RO:0002410 ! causally related to [Typedef] @@ -17456,61 +17246,6 @@ def: "Holds between c and p if and only if c is capable of some activity a, and holds_over_chain: capable_of positively_regulates is_a: RO:0002596 ! capable of regulating -[Typedef] -id: RO:0004031 -name: enables subfunction -def: "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." [] -holds_over_chain: RO:0002327 has_part -is_a: RO:0002328 ! functionally related to -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-25T23:20:13Z - -[Typedef] -id: RO:0004032 -name: acts upstream of or within, positive effect -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect" xsd:anyURI -holds_over_chain: RO:0002327 RO:0004047 -is_a: RO:0002264 ! acts upstream of or within -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:49:30Z - -[Typedef] -id: RO:0004033 -name: acts upstream of or within, negative effect -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: RO:0004050 RO:0002264 -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect" xsd:anyURI -holds_over_chain: RO:0002327 RO:0004046 -is_a: RO:0002264 ! acts upstream of or within -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:49:51Z - -[Typedef] -id: RO:0004034 -name: acts upstream of, positive effect -def: "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of,_positive_effect -is_a: RO:0002263 ! acts upstream of -is_a: RO:0004032 ! acts upstream of or within, positive effect -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:53:14Z - -[Typedef] -id: RO:0004035 -name: acts upstream of, negative effect -def: "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: RO:0004050 RO:0002263 -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of,_negative_effect -is_a: RO:0002263 ! acts upstream of -is_a: RO:0004033 ! acts upstream of or within, negative effect -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:53:22Z - [Typedef] id: RO:0004046 name: causally upstream of or within, negative effect @@ -17528,14 +17263,6 @@ is_a: causally_upstream_of_or_within ! causally upstream of or within created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-03-13T23:55:19Z -[Typedef] -id: RO:0011002 -name: regulates activity of -def: "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002566 ! causally influences - [Typedef] id: RO:0012000 name: has small molecule regulator @@ -17563,23 +17290,6 @@ is_a: RO:0012004 ! is small molecule regulator of created_by: https://orcid.org/0000-0003-1813-6857 creation_date: 2020-06-24T13:15:26Z -[Typedef] -id: RO:0012011 -name: indirectly causally upstream of -def: "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." [] -is_a: causally_upstream_of ! causally upstream of -created_by: https://orcid.org/0000-0003-1813-6857 -creation_date: 2022-09-26T06:07:17Z - -[Typedef] -id: RO:0012012 -name: indirectly regulates -def: "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." [] -is_a: regulates ! regulates -is_a: RO:0012011 ! indirectly causally upstream of -created_by: https://orcid.org/0000-0003-1813-6857 -creation_date: 2022-09-26T06:08:01Z - [Typedef] id: RO:0013001 name: has synaptic IO in region @@ -17661,6 +17371,8 @@ id: RO:0017001 name: device utilizes material def: "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y." [] synonym: "utilizes" BROAD [] +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-9625-1899 +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-2620-0345 holds_over_chain: capable_of has_input creation_date: 2021-11-08T12:00:00Z @@ -17687,8 +17399,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002220 property_value: IAO:0000116 "This relation acts as a join point with BSPO" xsd:string -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_a: RO:0002163 ! spatially disjoint from [Typedef] @@ -17707,7 +17417,6 @@ namespace: external def: "Inverse of characteristic_of" [] xref: RO:0000053 property_value: IAO:0000116 "A bearer can have many dependents, and its dependents can exist for different periods of time, but none of its dependents can exist when the bearer does not exist." xsd:string -range: BFO:0000020 ! specifically dependent continuant is_inverse_functional: true [Typedef] @@ -17718,7 +17427,6 @@ def: "X outer_layer_of Y iff:\n. X :continuant that bearer_of some PATO:laminar\ comment: A relationship that applies between a continuant and its outer, bounding layer. Examples include the relationship between a multicellular organism and its integument, between an animal cell and its plasma membrane, and between a membrane bound organelle and its outer/bounding membrane. subset: ro-eco xref: RO:0002007 -range: BFO:0000040 ! material entity is_a: part_of ! part of [Typedef] @@ -17728,8 +17436,6 @@ namespace: external def: "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. " [] subset: ro-eco xref: RO:0002215 -domain: BFO:0000004 ! independent continuant -range: BFO:0000015 ! process is_a: capable_of_part_of ! capable of part of [Typedef] @@ -17828,45 +17534,6 @@ id: channels_into name: channels_into namespace: uberon -[Typedef] -id: directly_negatively_regulates -name: directly negatively regulates -namespace: external -def: "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002630 -property_value: RO:0004050 RO:0002578 -property_value: seeAlso "https://wiki.geneontology.org/Directly_negatively_regulates" xsd:anyURI -is_a: directly_regulates ! directly regulates -is_a: negatively_regulates ! negatively regulates - -[Typedef] -id: directly_positively_regulates -name: directly positively regulates -namespace: external -def: "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002629 -property_value: seeAlso "https://wiki.geneontology.org/Directly_positively_regulates" xsd:anyURI -is_a: directly_regulates ! directly regulates -is_a: positively_regulates ! positively regulates - -[Typedef] -id: directly_regulates -name: directly regulates -namespace: external -def: "p directly regulates q iff p is immediately causally upstream of q and p regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002578 -is_a: immediately_causally_upstream_of ! immediately causally upstream of -is_a: regulates ! regulates - [Typedef] id: distally_connected_to name: distally connected to @@ -17918,8 +17585,6 @@ namespace: external def: "x 'has end location' y if and only if there exists some process z such that x 'ends with' z and z 'occurs in' y" [] subset: ro-eco xref: RO:0002232 -domain: BFO:0000015 ! process -range: BFO:0000004 ! independent continuant holds_over_chain: ends_with occurs_in is_a: RO:0002479 ! has part that occurs in @@ -17942,7 +17607,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_gocam subset: ro-eco xref: RO:0002233 property_value: seeAlso "https://wiki.geneontology.org/Has_input" xsd:anyURI -domain: BFO:0000015 ! process holds_over_chain: starts_with has_input is_a: has_participant ! has participant inverse_of: RO:0002352 ! input of @@ -17955,18 +17619,6 @@ property_value: term_tracker_item https://github.com/obophenotype/cell-ontology/ is_obsolete: true replaced_by: RO:0015016 -[Typedef] -id: has_negative_regulatory_component_activity -name: has negative regulatory component activity -namespace: external -def: "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." [] -comment: By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'. -xref: RO:0002014 -is_a: has_regulatory_component_activity ! has regulatory component activity -is_a: negatively_regulated_by ! negatively regulated by -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:31:01Z - [Typedef] id: has_ontology_root_term name: has ontology root term @@ -18015,8 +17667,6 @@ namespace: external def: "a relation between a process and a continuant, in which the continuant is somehow involved in the process" [] xref: RO:0000057 property_value: IAO:0000116 "Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time." xsd:string -domain: BFO:0000003 ! occurrent -range: BFO:0000002 ! continuant holds_over_chain: has_part has_participant [Typedef] @@ -18054,17 +17704,6 @@ is_a: has_primary_input_or_output ! has primary input or output created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-12-13T11:26:32Z -[Typedef] -id: has_regulatory_component_activity -name: has regulatory component activity -namespace: external -def: "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." [] -xref: RO:0002013 -is_a: regulated_by ! regulated by -is_a: RO:0002017 ! has component activity -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:30:46Z - [Typedef] id: has_small_molecule_activator name: has small molecule activator @@ -18083,8 +17722,6 @@ namespace: external def: "x 'has starts location' y if and only if there exists some process z such that x 'starts with' z and z 'occurs in' y" [] subset: ro-eco xref: RO:0002231 -domain: BFO:0000015 ! process -range: BFO:0000004 ! independent continuant holds_over_chain: starts_with occurs_in is_a: RO:0002479 ! has part that occurs in @@ -18112,24 +17749,6 @@ xref: RO:0002338 is_a: results_in_transport_to_from_or_in ! results in transport to from or in transitive_over: part_of ! part of -[Typedef] -id: immediately_causally_downstream_of -name: immediately causally downstream of -namespace: external -xref: RO:0002405 -is_a: causally_downstream_of ! causally downstream of -is_a: immediately_preceded_by ! immediately preceded by -inverse_of: immediately_causally_upstream_of ! immediately causally upstream of - -[Typedef] -id: immediately_causally_upstream_of -name: immediately causally upstream of -namespace: external -def: "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." [] -xref: RO:0002412 -is_a: causally_upstream_of ! causally upstream of -is_a: immediately_precedes ! immediately precedes - [Typedef] id: immediately_preceded_by name: immediately preceded by @@ -18188,17 +17807,6 @@ is_a: causally_upstream_of,_negative_effect ! causally upstream of, negative eff is_a: regulates ! regulates inverse_of: negatively_regulated_by ! negatively regulated by -[Typedef] -id: negatively_regulates_characteristic -name: negatively regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." [] -xref: RO:0019002 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -holds_over_chain: negatively_regulates positively_regulates_characteristic -holds_over_chain: positively_regulates negatively_regulates_characteristic -is_a: regulates_characteristic ! regulates characteristic - [Typedef] id: occurs_in name: occurs in @@ -18210,8 +17818,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: BFO:0000066 property_value: seeAlso "https://wiki.geneontology.org/Occurs_in" xsd:anyURI -domain: BFO:0000003 ! occurrent -range: BFO:0000004 ! independent continuant holds_over_chain: part_of occurs_in inverse_of: BFO:0000067 ! contains process transitive_over: part_of ! part of @@ -18272,8 +17878,6 @@ name: participates in namespace: external def: "a relation between a continuant and a process, in which the continuant is somehow involved in the process" [] xref: RO:0000056 -domain: BFO:0000002 ! continuant -range: BFO:0000003 ! occurrent inverse_of: has_participant ! has participant [Typedef] @@ -18301,16 +17905,6 @@ is_a: causally_upstream_of,_positive_effect ! causally upstream of, positive eff is_a: regulates ! regulates inverse_of: positively_regulated_by ! positively regulated by -[Typedef] -id: positively_regulates_characteristic -name: positively regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." [] -xref: RO:0019001 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -holds_over_chain: positively_regulates positively_regulates_characteristic -is_a: regulates_characteristic ! regulates characteristic - [Typedef] id: posteriorly_connected_to name: posteriorly connected to @@ -18326,8 +17920,6 @@ def: "x is preceded by y if and only if the time point at which y ends is before subset: ro-eco xref: BFO:0000062 property_value: IAO:0000116 "An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other." xsd:string -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent holds_over_chain: part_of preceded_by is_transitive: true is_a: RO:0002086 ! ends after @@ -18340,8 +17932,6 @@ namespace: external def: "x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." [] subset: ro-eco xref: BFO:0000063 -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent holds_over_chain: part_of precedes is_transitive: true is_a: RO:0002222 ! temporally related to @@ -18361,8 +17951,6 @@ namespace: external def: "a produced_by b iff some process that occurs_in b has_output a." [] subset: ro-eco xref: RO:0003001 -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity [Typedef] id: produces @@ -18372,8 +17960,6 @@ def: "a produces b if some process that occurs_in a has_output b, where a and b comment: Note that this definition doesn't quite distinguish the output of a transformation process from a production process, which is related to the identity/granularity issue. subset: ro-eco xref: RO:0003000 -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity inverse_of: produced_by ! produced by [Typedef] @@ -18396,8 +17982,6 @@ namespace: external def: "inverse of regulates" [] subset: RO:0002259 xref: RO:0002334 -domain: BFO:0000015 ! process -range: BFO:0000015 ! process is_transitive: true is_a: causally_downstream_of_or_within ! causally downstream of or within @@ -18410,26 +17994,10 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002211 -domain: BFO:0000015 ! process -range: BFO:0000015 ! process -holds_over_chain: directly_regulates directly_regulates holds_over_chain: ends_with regulates is_transitive: true is_a: causally_upstream_of ! causally upstream of inverse_of: regulated_by ! regulated by -transitive_over: RO:0002025 ! has effector activity - -[Typedef] -id: regulates_characteristic -name: regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." [] -xref: RO:0019000 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -domain: BFO:0000015 ! process -range: PATO:0000001 ! quality -holds_over_chain: regulates regulates_characteristic -is_a: RO:0002410 ! causally related to [Typedef] id: regulates_levels_of @@ -18437,8 +18005,6 @@ name: regulates levels of namespace: external def: "p regulates levels of c if p regulates some amount (PATO:0000070) of c" [] xref: RO:0002332 -domain: BFO:0000015 ! process -range: BFO:0000040 ! material entity is_a: RO:0002328 ! functionally related to [Typedef] diff --git a/subsets/eye_upper_slim.owl b/subsets/eye_upper_slim.owl index d878a3456..a35d2da8e 100644 --- a/subsets/eye_upper_slim.owl +++ b/subsets/eye_upper_slim.owl @@ -14,8 +14,7 @@ xmlns:foaf="http://xmlns.com/foaf/0.1/" xmlns:pato="http://purl.obolibrary.org/obo/pato#" xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#" - xmlns:swrl="http://www.w3.org/2003/11/swrl#" - xmlns:swrlb="http://www.w3.org/2003/11/swrlb#" + xmlns:sssom="https://w3id.org/sssom/" xmlns:terms="http://purl.org/dc/terms/" xmlns:uberon="http://purl.obolibrary.org/obo/uberon#" xmlns:ubprop="http://purl.obolibrary.org/obo/ubprop#" @@ -23,8 +22,8 @@ xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#" xmlns:ncbitaxon="http://purl.obolibrary.org/obo/ncbitaxon#"> - - 2024-04-05 + + 2024-05-15 @@ -393,14 +392,6 @@ WHERE { - - - - - - - - @@ -433,6 +424,14 @@ WHERE { + + + + + + + + @@ -481,6 +480,14 @@ WHERE { + + + + + + + + @@ -497,6 +504,14 @@ WHERE { + + + + + + + + @@ -1029,12 +1044,6 @@ WHERE { - - - - - - @@ -1237,6 +1246,12 @@ WHERE { + + + + + + - - @@ -1515,19 +1519,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence - A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists. - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - function of - - - - @@ -1541,31 +1532,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence - A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists. - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - role of - - - - - - - - - - a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence - A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists. - has function - - - - @@ -1577,42 +1543,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence - A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists. - has role - - - - - - - - - - - a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence - has disposition - - - - - - - - - inverse of has disposition - - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - disposition of - - - - @@ -1652,8 +1582,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - @@ -1665,18 +1593,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. located in https://wiki.geneontology.org/Located_in - - - - - This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation. - - - - - - This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation. - @@ -1697,8 +1613,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts. Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape. @@ -1732,18 +1646,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - - - - - - - X outer_layer_of Y iff: . X :continuant that bearer_of some PATO:laminar . X part_of Y @@ -1765,81 +1667,6 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 - - - - - - A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B. - - 2017-05-24T09:30:46Z - RO:0002013 - external - has_regulatory_component_activity - has_regulatory_component_activity - has regulatory component activity - - - - - - - - - - A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B. - - 2017-05-24T09:31:01Z - RO:0002014 - external - has_negative_regulatory_component_activity - has_negative_regulatory_component_activity - By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'. - has negative regulatory component activity - - - - - - - - - - A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B. - - 2017-05-24T09:31:17Z - By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'. - has positive regulatory component activity - - - - - - - - - - 2017-05-24T09:44:33Z - A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B. - has component activity - - - - - - - - - - - w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type. - - 2017-05-24T09:49:21Z - has component process - - - - @@ -1852,83 +1679,6 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 - - - - - - - 2017-09-17T13:52:24Z - Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. - directly regulated by - - - - - Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. - - - - - - - - - - - Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1. - - 2017-09-17T13:52:38Z - directly negatively regulated by - - - - - Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1. - - - - - - - - - - - Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1. - - 2017-09-17T13:52:47Z - directly positively regulated by - - - - - Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1. - - - - - - - - - - - A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity. - - 2017-09-22T14:14:36Z - This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations. - has effector activity - - - - - A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity. - - - - - @@ -2250,8 +2000,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - X continuous_with Y if and only if X and Y share a fiat boundary. continuous with FMA:85972 @@ -2371,7 +2119,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - c connects a if and only if there exist some b such that a and b are similar parts of the same system, and c connects b, specifically, c connects a with b. When one structure connects two others it unites some aspect of the function or role they play within the system. connects https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern @@ -2440,8 +2187,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y This is the transitive form of the develops from relation develops from @@ -2468,7 +2213,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - @@ -2526,20 +2270,10 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - - - - - p regulates q iff p is causally upstream of q, the execution of p is not constant and varies according to specific conditions, and p influences the rate or magnitude of execution of q due to an effect either on some enabler of q or some enabler of a part of q. RO:0002211 external @@ -2612,8 +2346,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. RO:0002215 external @@ -2658,8 +2390,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - x adjacent to y if and only if x and y share a boundary. This relation acts as a join point with BSPO RO:0002220 @@ -2689,8 +2419,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. temporally related to @@ -2793,8 +2521,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - @@ -2815,8 +2541,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - @@ -2838,7 +2562,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - @@ -2970,8 +2693,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p false This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from @@ -2984,10 +2705,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes. acts upstream of @@ -3000,10 +2717,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - c acts upstream of or within p if c is enables f, and f is causally upstream of or within p. c is a material entity and p is an process. affects @@ -3253,27 +2966,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - - - - - - - - c enables p iff c is capable of p and c acts to execute p. - - enables - https://wiki.geneontology.org/Enables - - - - @@ -3296,40 +2988,16 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts. genomically related to - - - - - - - - - - - - - - c involved_in p if and only if c enables some process p', and p' is part of p - involved in - https://wiki.geneontology.org/Involved_in - - - - - - p regulates levels of c if p regulates some amount (PATO:0000070) of c RO:0002332 external @@ -3341,26 +3009,11 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - inverse of enables - - enabled by - https://wiki.geneontology.org/Enabled_by - - - - - - inverse of regulates RO:0002334 external @@ -3408,8 +3061,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relationship that holds via some process of localization related via localization to @@ -3536,7 +3187,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - has member is a mereological relation between a collection and an item. has member @@ -3647,8 +3297,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network. in branching relationship with @@ -3777,76 +3425,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - RO:0002405 - external - immediately_causally_downstream_of - immediately_causally_downstream_of - immediately causally downstream of - immediately causally downstream of - - - - - - - - - - - - - - - - - - - - - - - - - - - p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q. - indirectly positively regulates - https://wiki.geneontology.org/Indirectly_positively_regulates - - - - - - - - - - - - - - - - - - - - - - - p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q. - indirectly negatively regulates - https://wiki.geneontology.org/Indirectly_negatively_regulates - - - - @@ -3896,22 +3474,6 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q. - RO:0002412 - external - immediately_causally_upstream_of - immediately_causally_upstream_of - immediately causally upstream of - immediately causally upstream of - - - - @@ -3951,57 +3513,12 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - - - c involved in regulation of p if c is involved in some p' and p' regulates some p involved in regulation of - - - - - - - - - - - - - c involved in regulation of p if c is involved in some p' and p' positively regulates some p - involved in positive regulation of - - - - - - - - - - - - - - - - - c involved in regulation of p if c is involved in some p' and p' negatively regulates some p - - involved in negative regulation of - - - - @@ -4015,27 +3532,6 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure. - enables activity in - - is active in - https://wiki.geneontology.org/Is_active_in - - - - - c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure. - - - - - - @@ -4046,118 +3542,10 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - - A relationship that holds between two entities in which the processes executed by the two entities are causally connected. - This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact. - Considering relabeling as 'pairwise interacts with' - in pairwise interaction with - - interacts with - http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ - - - - - - - - - - An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other. - molecularly interacts with - - - - - - - - - - Axiomatization to GO to be added later - phosphorylates - - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B. - -A and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B. - molecularly controls - directly regulates activity of - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. -For example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B. - molecularly decreases activity of - directly negatively regulates activity of - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. -For example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B. - molecularly increases activity of - directly positively regulates activity of - - - - - - - - helper property (not for use in curation) - - - - - - x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y. composed primarily of @@ -4168,8 +3556,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c. has part that occurs in @@ -4177,15 +3563,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - is kinase activity - - - - @@ -4210,8 +3587,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - relation between physical entity and a process or stage @@ -4392,8 +3767,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q. causal relation between processes @@ -4409,25 +3782,12 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch - causal relation between entities - - - - - A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision. @@ -4442,36 +3802,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - causally influenced by - - - - - - - - - interaction relation helper property - - http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ - - - - - - - - - molecular interaction relation helper property - - - - @@ -4489,28 +3819,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size). - causally influences - - - - @@ -4551,8 +3859,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x. conduit for @@ -4564,7 +3870,6 @@ For example, A and B may be gene products and binding of B by A positively regul - x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull. lumen of @@ -4576,7 +3881,6 @@ For example, A and B may be gene products and binding of B by A positively regul - s is luminal space of x iff s is lumen_of x and s is an immaterial entity luminal space of @@ -4597,24 +3901,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - p directly regulates q iff p is immediately causally upstream of q and p regulates q. - RO:0002578 - external - directly_regulates - - - - directly_regulates - directly regulates - - - - @@ -4690,8 +3976,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity. Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect. causal relation between material entity and a process @@ -4755,51 +4039,10 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q. - RO:0002629 - external - directly_positively_regulates - - - - directly_positively_regulates - directly positively regulates - https://wiki.geneontology.org/Directly_positively_regulates - - - - - - - - - - p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q. - - RO:0002630 - external - directly_negatively_regulates - - - - directly_negatively_regulates - directly negatively regulates - https://wiki.geneontology.org/Directly_negatively_regulates - - - - - - @@ -4822,8 +4065,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - a produced_by b iff some process that occurs_in b has_output a. RO:0003001 external @@ -4909,96 +4150,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P. - - 2018-01-25T23:20:13Z - enables subfunction - - - - - - - - - - - - - - 2018-01-26T23:49:30Z - - acts upstream of or within, positive effect - https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect - - - - - - - - - - - - - - - 2018-01-26T23:49:51Z - - acts upstream of or within, negative effect - https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect - - - - - - - - - - - - - - c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive - - 2018-01-26T23:53:14Z - - acts upstream of, positive effect - https://wiki.geneontology.org/Acts_upstream_of,_positive_effect - - - - - - - - - - - - - - c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative - - - 2018-01-26T23:53:22Z - - acts upstream of, negative effect - https://wiki.geneontology.org/Acts_upstream_of,_negative_effect - - - - @@ -5024,18 +4175,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B. - regulates activity of - - - - @@ -5132,31 +4271,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q. - - 2022-09-26T06:07:17Z - indirectly causally upstream of - - - - - - - - - - p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q. - - 2022-09-26T06:08:01Z - indirectly regulates - - - - @@ -5319,6 +4433,8 @@ For example, A and B may be gene products and binding of B by A positively regul X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y. + + 2021-11-08T12:00:00Z utilizes device utilizes material @@ -5326,69 +4442,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C. - - RO:0019000 - gene_ontology - regulates_characteristic - regulates_characteristic - regulates characteristic - - - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C. - - RO:0019001 - gene_ontology - positively_regulates_characteristic - positively_regulates_characteristic - positively regulates characteristic - - - - - - - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C. - - RO:0019002 - gene_ontology - negatively_regulates_characteristic - negatively_regulates_characteristic - negatively regulates characteristic - - - - @@ -5703,127 +4756,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts. - continuant - - - - - - - - - - - - - - - - - - - - An entity that has temporal parts and that happens, unfolds or develops through time. - occurrent - - - - - - - - - - - - - - - - b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002]) - A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. - independent continuant - - - - - - - - - p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003]) - An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. - process - - - - - - - - - - - - - - - b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003]) - A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. - specifically dependent continuant - - - - - - - - - - - - - - - - An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time. - material entity - - - - - - - - - - - - - - - immaterial entity - - - - @@ -5847,6 +4779,7 @@ For example, A and B may be gene products and binding of B by A positively regul VHOG:0001533 WBbt:0004017 XAO:0003012 + ZFA:0009000 The definition of cell is intended to represent all cells, and thus a cell is defined as a material entity and not an anatomical structure, which implies that it is part of an organism (or the entirety of one). @@ -5858,6 +4791,18 @@ For example, A and B may be gene products and binding of B by A positively regul A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane. CARO:mah + + + + FBbt:00007002 + + + + + + ZFA:0009000 + + @@ -5912,10 +4857,24 @@ For example, A and B may be gene products and binding of B by A positively regul + Any sensory receptor cell that is a(n) neuron and is capable of some detection of stimulus involved in sensory perception. + ZFA:0009001 neuronal receptor cell (sensu Animalia) neuronal receptor cell + + + + Any sensory receptor cell that is a(n) neuron and is capable of some detection of stimulus involved in sensory perception. + FBC:Autogenerated + + + + + ZFA:0009001 + + @@ -5924,6 +4883,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found in the embryo before the formation of all the gem layers is complete. + ZFA:0009002 early embryonic cell (metazoa) @@ -5932,6 +4892,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found in the embryo before the formation of all the gem layers is complete. GOC:tfm + + + + ZFA:0009002 + + @@ -5940,6 +4906,7 @@ For example, A and B may be gene products and binding of B by A positively regul Cell that is part of the migratory cranial neural crest population. Migratory cranial neural crest cells develop from premigratory cranial neural crest cells and have undergone epithelial to mesenchymal transition and delamination. + ZFA:0007091 migratory cranial neural crest cell @@ -5949,6 +4916,12 @@ For example, A and B may be gene products and binding of B by A positively regul ZFA:0007091 https://orcid.org/0000-0001-5208-3432 + + + + ZFA:0007091 + + @@ -5962,9 +4935,16 @@ For example, A and B may be gene products and binding of B by A positively regul + ZFA:0009010 glioblast + + + + ZFA:0009010 + + @@ -5982,6 +4962,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that will develop into a neuron often after a migration phase. BTO:0000930 FMA:70563 + ZFA:0009011 neuroblast neuroblast (sensu Vertebrata) @@ -5993,6 +4974,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:NV http://en.wikipedia.org/wiki/Neuroblast + + + + ZFA:0009011 + + @@ -6027,6 +5014,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-2086 FMA:63368 + ZFA:0005957 animal stem cell @@ -6041,6 +5029,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D013234 + + + + ZFA:0005957 + + @@ -6204,6 +5198,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:86475 MESH:D006412 VHOG:0001485 + ZFA:0009014 blood forming stem cell hemopoietic stem cell HSC @@ -6224,6 +5219,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:19022770 http://en.wikipedia.org/wiki/Hematopoietic_stem_cell + + + + ZFA:0009014 + + @@ -6246,6 +5247,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell committed to the erythroid lineage. BTO:0004911 + ZFA:0009015 BFU-E CFU-E blast forming unit erythroid @@ -6269,6 +5271,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0721601464 + + + + ZFA:0009015 + + @@ -6311,6 +5319,7 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to multiple lineages of cells. FMA:84789 + ZFA:0009020 multi-fate stem cell multifate stem cell multipotent cell @@ -6323,6 +5332,12 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to multiple lineages of cells. GOC:add + + + + ZFA:0009020 + + @@ -6334,6 +5349,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell committed to myeloid lineage, including the megakaryocyte and erythroid lineages. BTO:0004730 + ZFA:0009021 common myeloid precursor CFU-GEMM CFU-S @@ -6361,6 +5377,12 @@ For example, A and B may be gene products and binding of B by A positively regul ISBN:0878932437 MESH:D023461 + + + + ZFA:0009021 + + @@ -6444,6 +5466,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell committed to the megakaryocyte and erythroid lineages. + ZFA:0009022 CFU-EM CFU-MegE MEP @@ -6473,6 +5496,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:16647566 http://en.wikipedia.org/wiki/Megakaryocyte-erythroid_progenitor_cell + + + + ZFA:0009022 + + @@ -6483,6 +5512,7 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell from which all cells of the body can form. FMA:84790 MESH:D039901 + ZFA:0009024 totipotential stem cell totipotent stem cell @@ -6493,6 +5523,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009024 + + @@ -6527,6 +5563,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005083 FMA:70335 VHOG:0001529 + ZFA:0009025 myoblast @@ -6537,6 +5574,18 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D032446 PMID:21849021 + + + + FBbt:00005083 + + + + + + ZFA:0009025 + + @@ -6557,6 +5606,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:63877 NCIT:C12482 VHOG:0001482 + ZFA:0009026 @@ -6571,6 +5621,12 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D005347 http://en.wikipedia.org/wiki/Fibroblast + + + + ZFA:0009026 + + @@ -6592,6 +5648,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00000124 FMA:66768 WBbt:0003672 + ZFA:0009034 epitheliocyte @@ -6607,6 +5664,18 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D004847 + + + + FBbt:00000124 + + + + + + ZFA:0009034 + + @@ -6640,6 +5709,7 @@ For example, A and B may be gene products and binding of B by A positively regul An endothelial cell that lines the vasculature. + ZFA:0009036 cuboidal endothelial cell of vascular tree @@ -6657,6 +5727,12 @@ For example, A and B may be gene products and binding of B by A positively regul An endothelial cell that lines the vasculature. GOC:tfm + + + + ZFA:0009036 + + @@ -6666,6 +5742,7 @@ For example, A and B may be gene products and binding of B by A positively regul A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube. + ZFA:0009038 columnar/cuboidal epithelial cell @@ -6677,6 +5754,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0002065 https://orcid.org/0000-0001-5208-3432 + + + + ZFA:0009038 + + @@ -6685,9 +5768,16 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-1249 + ZFA:0009039 squamous epithelial cell + + + + ZFA:0009039 + + @@ -6700,6 +5790,7 @@ For example, A and B may be gene products and binding of B by A positively regul A flattened epithelial cell of mesenchymal origin that lines the serous cavity. FMA:66773 + ZFA:0009040 mesotheliocyte @@ -6712,6 +5803,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721662544 + + + + ZFA:0009040 + + @@ -6739,6 +5836,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found predominately in the blood. FMA:62844 MESH:D001773 + ZFA:0009044 blood cell @@ -6756,6 +5854,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009044 + + @@ -6785,6 +5889,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005125 FMA:67313 WBbt:0005113 + ZFA:0009051 interneuron @@ -6796,6 +5901,18 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D007395 + + + + FBbt:00005125 + + + + + + ZFA:0009051 + + @@ -6821,11 +5938,14 @@ For example, A and B may be gene products and binding of B by A positively regul Any neuron having a sensory function; an afferent neuron conveying sensory impulses. + BTO:0001037 FBbt:00005124 FMA:84649 MESH:D011984 WBbt:0005759 + ZFA:0009053 + sensory neuron @@ -6834,6 +5954,18 @@ For example, A and B may be gene products and binding of B by A positively regul Any neuron having a sensory function; an afferent neuron conveying sensory impulses. ISBN:0721662544 + + + + FBbt:00005124 + + + + + + ZFA:0009053 + + @@ -6860,6 +5992,7 @@ For example, A and B may be gene products and binding of B by A positively regul A type of interneuron that has two neurites, usually an axon and a dendrite, extending from opposite poles of an ovoid cell body. FMA:67282 + ZFA:0009055 bipolar neuron @@ -6871,6 +6004,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0444009442 + + + + ZFA:0009055 + + @@ -6884,6 +6023,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001176 CALOHA:TS-0278 FMA:66772 + ZFA:0009065 endotheliocyte @@ -6900,6 +6040,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://en.wikipedia.org/wiki/Endothelial_cell https://sourceforge.net/tracker/?func=detail&atid=440764&aid=3364936&group_id=36855 + + + + ZFA:0009065 + + @@ -6919,8 +6065,15 @@ For example, A and B may be gene products and binding of B by A positively regul + ZFA:0009067 CNS neuron (sensu Vertebrata) + + + + ZFA:0009067 + + @@ -6952,14 +6105,17 @@ For example, A and B may be gene products and binding of B by A positively regul A non-neuronal cell of the nervous system. They not only provide physical support, but also respond to injury, regulate the ionic and chemical composition of the extracellular milieu. Guide neuronal migration during development, and exchange metabolites with neurons. + BTO:0002606 CALOHA:TS-0415 FBbt:00005144 FMA:54536 + ZFA:0009073 neuroglial cell neuroglia + Not all glial cells develop from glioblasts, with microglia developing from the mesoderm instead. See https://github.com/obophenotype/cell-ontology/issues/1571 glial cell @@ -6969,6 +6125,18 @@ For example, A and B may be gene products and binding of B by A positively regul A non-neuronal cell of the nervous system. They not only provide physical support, but also respond to injury, regulate the ionic and chemical composition of the extracellular milieu. Guide neuronal migration during development, and exchange metabolites with neurons. MESH:D009457 + + + + FBbt:00005144 + + + + + + ZFA:0009073 + + @@ -6986,6 +6154,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000771 CALOHA:TS-2027 FMA:54538 + ZFA:0009074 macrogliocyte macroglia @@ -6998,6 +6167,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721662544 + + + + ZFA:0009074 + + @@ -7017,6 +6192,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000099 CALOHA:TS-0060 FMA:54537 + ZFA:0009075 astrocytic glia @@ -7036,6 +6212,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:20942978 http://en.wikipedia.org/wiki/Astrocyte + + + + ZFA:0009075 + + @@ -7060,6 +6242,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0172 FMA:70614 + ZFA:0009079 @@ -7075,6 +6258,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:34741068 PMID:36769303 + + + + ZFA:0009079 + + @@ -7083,6 +6272,7 @@ For example, A and B may be gene products and binding of B by A positively regul Ectoderm destined to be nervous tissue. + ZFA:0009080 neurectoderm cell neurectodermal cell @@ -7093,6 +6283,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:068340007X + + + + ZFA:0009080 + + @@ -7105,6 +6301,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0002625 BTO:0003298 FMA:70546 + ZFA:0009081 bone marrow stromal cells colony-forming unit-fibroblast marrow stromal cells @@ -7142,6 +6339,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://en.wikipedia.org/wiki/Mesenchymal_stem_cell http://www.copewithcytokines.de/cope.cgi?key=mesenchymal%20stem%20cells + + + + ZFA:0009081 + + @@ -7196,6 +6399,7 @@ For example, A and B may be gene products and binding of B by A positively regul A pigment cell is a cell that contains pigment granules. VHOG:0001678 + ZFA:0009090 chromatocyte chromatophore pigment cell @@ -7206,6 +6410,12 @@ For example, A and B may be gene products and binding of B by A positively regul A pigment cell is a cell that contains pigment granules. GOC:tfm + + + + ZFA:0009090 + + @@ -7247,6 +6457,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:70545 MESH:D008544 VHOG:0001679 + ZFA:0009091 melanophore @@ -7259,6 +6470,12 @@ For example, A and B may be gene products and binding of B by A positively regul A pigment cell derived from the neural crest. Contains melanin-filled pigment granules, which gives a brown to black appearance. SANBI:mhl + + + + ZFA:0009091 + + @@ -7344,6 +6561,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005074 FMA:67328 WBbt:0003675 + ZFA:0009114 muscle fiber myocyte @@ -7356,6 +6574,18 @@ For example, A and B may be gene products and binding of B by A positively regul A mature contractile cell, commonly known as a myocyte. This cell has as part of its cytoplasm myofibrils organized in various patterns. MESH:D032342 + + + + FBbt:00005074 + + + + + + ZFA:0009114 + + @@ -7376,6 +6606,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004576 CALOHA:TS-2159 FMA:14072 + ZFA:0009118 SMCs myocytes, smooth muscle smooth muscle fiber @@ -7392,6 +6623,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:9315361 http://en.wikipedia.org/wiki/Smooth_muscle_cell + + + + ZFA:0009118 + + @@ -7470,7 +6707,9 @@ For example, A and B may be gene products and binding of B by A positively regul A cell specialized to detect and transduce light. BTO:0001060 CALOHA:TS-0868 + FBbt:00004211 FMA:86740 + ZFA:0009127 photoreceptor cell https://www.swissbiopics.org/api/image/Photoreceptor_cell.svg @@ -7487,6 +6726,18 @@ For example, A and B may be gene products and binding of B by A positively regul A cell specialized to detect and transduce light. MESH:D010786 + + + + FBbt:00004211 + + + + + + ZFA:0009127 + + @@ -7495,6 +6746,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by the generation or the reception of an electric signal. + ZFA:0009128 electrically active cell @@ -7503,6 +6755,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by the generation or the reception of an electric signal. FB:ma + + + + ZFA:0009128 + + @@ -7511,6 +6769,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism. + ZFA:0009130 boundary cell lining cell @@ -7520,6 +6779,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism. JB:jb + + + + ZFA:0009130 + + @@ -7528,6 +6793,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose primary function is to prevent the transport of stuff across compartments. + ZFA:0009132 barrier cell @@ -7536,6 +6802,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose primary function is to prevent the transport of stuff across compartments. JB:jb + + + + ZFA:0009132 + + @@ -7561,6 +6833,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that moves by its own activities. + ZFA:0009136 motile cell @@ -7569,6 +6842,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that moves by its own activities. FB:ma + + + + ZFA:0009136 + + @@ -7584,6 +6863,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the outer of the three germ layers of the embryo. FMA:72549 + ZFA:0009137 ectoderm cell ectodermal cell @@ -7593,6 +6873,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the outer of the three germ layers of the embryo. MESH:D004475 + + + + ZFA:0009137 + + @@ -7608,6 +6894,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the middle germ layer of the embryo. FMA:72554 + ZFA:0009138 mesoblast mesoderm cell @@ -7619,6 +6906,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the middle germ layer of the embryo. MESH:D008648 + + + + ZFA:0009138 + + @@ -7634,6 +6927,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the inner of the three germ layers of the embryo. FMA:72555 + ZFA:0009139 endoderm cell endodermal cell @@ -7643,6 +6937,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the inner of the three germ layers of the embryo. MESH:D004707 + + + + ZFA:0009139 + + @@ -7752,10 +7052,17 @@ For example, A and B may be gene products and binding of B by A positively regul + Any cell that only exists in Eukaryota. MESH:D005057 eukaryotic cell + + + + Any cell that only exists in Eukaryota. + FBC:Autogenerated + @@ -7780,12 +7087,26 @@ For example, A and B may be gene products and binding of B by A positively regul + Any photoreceptor cell that is part of some eye. + ZFA:0009154 eye photoreceptor cell + + + + Any photoreceptor cell that is part of some eye. + FBC:Autogenerated + + + + + ZFA:0009154 + + @@ -7794,6 +7115,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose primary function is to provide structural support, to provide strength and physical integrity to the organism. + ZFA:0005745 structural cell @@ -7802,6 +7124,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose primary function is to provide structural support, to provide strength and physical integrity to the organism. TAIR:sr + + + + ZFA:0005745 + + @@ -7854,8 +7182,22 @@ For example, A and B may be gene products and binding of B by A positively regul + Any cell that is capable of some oxygen transport. + ZFA:0009164 oxygen accumulating cell + + + + Any cell that is capable of some oxygen transport. + FBC:Autogenerated + + + + + ZFA:0009164 + + @@ -7873,6 +7215,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body. FMA:86667 + ZFA:0007086 migratory neural crest cell @@ -7881,6 +7224,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body. doi:10.1016/j.stem.2015.02.017 + + + + ZFA:0007086 + + @@ -7889,6 +7238,7 @@ For example, A and B may be gene products and binding of B by A positively regul A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors. + ZFA:0009166 mesenchyme condensation cell @@ -7898,6 +7248,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:5025404 + + + + ZFA:0009166 + + @@ -7909,6 +7265,7 @@ For example, A and B may be gene products and binding of B by A positively regul An early neural cell developing from the early ependymal cell of the neural tube. FMA:70564 + ZFA:0009169 spongioblast glioblast (sensu Vertebrata) @@ -7919,6 +7276,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0618947256 + + + + ZFA:0009169 + + @@ -7934,6 +7297,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any animal cell containing pigment granules. + ZFA:0009170 pigment cell (sensu Vertebrata) @@ -7943,6 +7307,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721662544 + + + + ZFA:0009170 + + @@ -7974,6 +7344,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the sclera of the eye. + ZFA:0009174 scleral cell @@ -7983,6 +7354,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the sclera of the eye. GOC:add + + + + ZFA:0009174 + + @@ -8014,6 +7391,7 @@ For example, A and B may be gene products and binding of B by A positively regul A structural cell that is part of optic choroid. + ZFA:0009175 choroidal cell of the eye @@ -8023,6 +7401,12 @@ For example, A and B may be gene products and binding of B by A positively regul A structural cell that is part of optic choroid. GOC:add + + + + ZFA:0009175 + + @@ -8087,6 +7471,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by its response to an electric signal. + ZFA:0009190 electrically responsive cell @@ -8095,6 +7480,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by its response to an electric signal. FB:ma + + + + ZFA:0009190 + + @@ -8116,6 +7507,7 @@ For example, A and B may be gene products and binding of B by A positively regul An interneuron that has its cell body in a central nervous system. + ZFA:0009191 Interneurons are commonly described as being only found in the central nervous system. However, in CL we define 'interneuron' more broadly as any neuron that is neither a motor neuron nor a sensory neuron, regardless of its location, so we need this term to refer strictly to interneurons of the central nervous system. CNS interneuron @@ -8126,6 +7518,12 @@ For example, A and B may be gene products and binding of B by A positively regul An interneuron that has its cell body in a central nervous system. doi:10.1016/B978-0-12-817424-1.00001-X + + + + ZFA:0009191 + + @@ -8134,6 +7532,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that initiates an electrical signal and passes that signal to another cell. + ZFA:0009193 electrically signaling cell @@ -8142,6 +7541,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that initiates an electrical signal and passes that signal to another cell. FB:ma + + + + ZFA:0009193 + + @@ -8168,6 +7573,7 @@ For example, A and B may be gene products and binding of B by A positively regul A precursor cell destined to differentiate into smooth muscle myocytes. FMA:84798 + ZFA:0009235 myoblast, smooth muscle satellite cell @@ -8180,6 +7586,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D032390 + + + + ZFA:0009235 + + @@ -8196,6 +7608,7 @@ For example, A and B may be gene products and binding of B by A positively regul A neuron which conveys sensory information centrally from the periphery. FMA:87653 + ZFA:0009238 input neuron afferent neuron @@ -8207,6 +7620,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D009475 + + + + ZFA:0009238 + + @@ -8214,9 +7633,16 @@ For example, A and B may be gene products and binding of B by A positively regul + ZFA:0009241 pigmented epithelial cell + + + + ZFA:0009241 + + @@ -8240,6 +7666,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:54527 VHOG:0001483 WBbt:0003679 + ZFA:0009248 nerve cell @@ -8255,6 +7682,18 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D009474 http://en.wikipedia.org/wiki/Neuron + + + + FBbt:00005106 + + + + + + ZFA:0009248 + + @@ -8272,6 +7711,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that originates from the neural crest and differentiates into a pigment cell. BTO:0003217 FMA:83377 + ZFA:0009249 Derived from UBERON:0002342 neural crest. melanoblast @@ -8282,6 +7722,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm SANBI:mhl + + + + ZFA:0009249 + + @@ -8361,7 +7807,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8511,7 +7956,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8532,6 +7976,7 @@ For example, A and B may be gene products and binding of B by A positively regul A nucleated immature erythrocyte, having cytoplasm generally similar to that of the earlier proerythroblast but sometimes even more basophilic, and usually regular in outline. The nucleus is still relatively large, but the chromatin strands are thicker and more deeply staining, giving a coarser appearance; the nucleoli have disappeared. This cell is CD71-positive and lacks hematopoeitic lineage markers. FMA:83505 + ZFA:0005236 basophilic normoblast early erythroblast early normoblast @@ -8551,6 +7996,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721601464 + + + + ZFA:0005236 + + @@ -8601,7 +8052,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8628,6 +8078,7 @@ For example, A and B may be gene products and binding of B by A positively regul A nucleated, immature erythrocyte in which the nucleus occupies a relatively smaller part of the cell than in its precursor, the basophilic erythroblast. The cytoplasm is beginning to acquire hemoglobin and thus is no longer a purely basophilic, but takes on acidophilic aspects, which becomes progressively more marked as the cell matures. The chromatin of the nucleus is arranged in coarse, deeply staining clumps. This cell is CD71-positive and lacks hematopoeitic lineage markers. FMA:83506 + ZFA:0005241 intermediate erythroblast intermediate normoblast polychromatic erythroblast @@ -8648,6 +8099,12 @@ For example, A and B may be gene products and binding of B by A positively regul A nucleated, immature erythrocyte in which the nucleus occupies a relatively smaller part of the cell than in its precursor, the basophilic erythroblast. The cytoplasm is beginning to acquire hemoglobin and thus is no longer a purely basophilic, but takes on acidophilic aspects, which becomes progressively more marked as the cell matures. The chromatin of the nucleus is arranged in coarse, deeply staining clumps. This cell is CD71-positive and lacks hematopoeitic lineage markers. ISBN:0721601464 + + + + ZFA:0005241 + + @@ -9105,7 +8562,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9194,6 +8650,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001173 CALOHA:TS-0864 MESH:D012156 + ZFA:0009252 reticulocyte @@ -9213,6 +8670,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:15946868 PMID:2037622 + + + + ZFA:0009252 + + @@ -9243,6 +8706,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004044 FMA:67766 + ZFA:0009255 amacrine neuron AC ACs @@ -9259,6 +8723,12 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D025042 WikipediaVersioned:Amacrine_cell&oldid=1023572246 + + + + ZFA:0009255 + + @@ -9301,7 +8771,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9327,6 +8796,7 @@ For example, A and B may be gene products and binding of B by A positively regul A mesenchymal stem cell capable of developing into blood vessel endothelium. + ZFA:0009258 angioblast chondroplast These cells are reportedly CD31-positive, CD34-positive, CD144-positive, CD309-positive, and TAL1-positive. @@ -9346,6 +8816,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:12768659 + + + + ZFA:0009258 + + @@ -9364,6 +8840,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001036 CALOHA:TS-0866 FMA:67748 + ZFA:0009262 cone @@ -9375,6 +8852,12 @@ For example, A and B may be gene products and binding of B by A positively regul One of the two photoreceptor cell types in the vertebrate retina. In cones the photopigment is in invaginations of the cell membrane of the outer segment. Cones are less sensitive to light than rods, but they provide vision with higher spatial and temporal acuity, and the combination of signals from cones with different pigments allows color vision. MESH:D017949 + + + + ZFA:0009262 + + @@ -9411,6 +8894,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004298 CALOHA:TS-0173 FMA:70551 + ZFA:0009264 epithelial cell of cornea @@ -9423,6 +8907,12 @@ For example, A and B may be gene products and binding of B by A positively regul An epithelial cell of the cornea. GOC:tfm + + + + ZFA:0009264 + + @@ -9447,6 +8937,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001024 CALOHA:TS-0870 FMA:67747 + ZFA:0009275 rod @@ -9458,6 +8949,12 @@ For example, A and B may be gene products and binding of B by A positively regul One of the two photoreceptor cell types of the vertebrate retina. In rods the photopigment is in stacks of membranous disks separate from the outer cell membrane. Rods are more sensitive to light than cones, but rod mediated vision has less spatial and temporal resolution than cone vision. MESH:D017948 + + + + ZFA:0009275 + + @@ -9481,6 +8978,7 @@ For example, A and B may be gene products and binding of B by A positively regul Astrocyte-like radial glial cell that extends vertically throughout the retina, with the nucleus are usually in the middle of the inner nuclear layer. BTO:0003064 + ZFA:0009280 Muller cell Muller glia Müller cell @@ -9496,6 +8994,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:NV PMID:21911394 + + + + ZFA:0009280 + + @@ -9532,10 +9036,23 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00100291 WBbt:0006829 + ZFA:0009290 glutamatergic neuron + + + + FBbt:00100291 + + + + + + ZFA:0009290 + + @@ -9567,6 +9084,7 @@ For example, A and B may be gene products and binding of B by A positively regul A non-terminally differentiated cell that is capable of developing into a muscle cell. + ZFA:0009291 muscle precursor cell @@ -9576,6 +9094,12 @@ For example, A and B may be gene products and binding of B by A positively regul A non-terminally differentiated cell that is capable of developing into a muscle cell. GOC:add + + + + ZFA:0009291 + + @@ -9590,6 +9114,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell present in the developing CNS. Functions as both a precursor cell and as a scaffold to support neuronal migration. + ZFA:0009292 forebrain radial glial cell Unlike that of mammals, the brain of adult teleost fish exhibits an intense and widespread neurogenic activity as a result of the persistence of @@ -9602,6 +9127,12 @@ radial glial cells acting as neural progenitors throughout life. A cell present in the developing CNS. Functions as both a precursor cell and as a scaffold to support neuronal migration. GOC:dph + + + + ZFA:0009292 + + @@ -9667,6 +9198,7 @@ radial glial cells acting as neural progenitors throughout life. A stem cell that can give rise to cell types of the body other than those of the germ-line. CALOHA:TS-2086 MESH:D053687 + ZFA:0009307 somatic stem cell @@ -9675,6 +9207,12 @@ radial glial cells acting as neural progenitors throughout life. A stem cell that can give rise to cell types of the body other than those of the germ-line. GO:0048103 + + + + ZFA:0009307 + + @@ -9693,6 +9231,7 @@ radial glial cells acting as neural progenitors throughout life. BTO:0001800 FMA:67765 MESH:D012165 + ZFA:0009310 gangliocyte ganglion cell of retina RGC @@ -9708,6 +9247,12 @@ radial glial cells acting as neural progenitors throughout life. The set of neurons that receives neural inputs via bipolar, horizontal and amacrine cells. The axons of these cells make up the optic nerve. GOC:dph + + + + ZFA:0009310 + + @@ -9739,6 +9284,7 @@ radial glial cells acting as neural progenitors throughout life. A neuron that laterally connects other neurons in the inner nuclear layer of the retina. BTO:0004120 + ZFA:0009315 horizontal cell HC HCs @@ -9753,6 +9299,12 @@ radial glial cells acting as neural progenitors throughout life. A neuron that laterally connects other neurons in the inner nuclear layer of the retina. ISBN:0195088433 + + + + ZFA:0009315 + + @@ -9813,6 +9365,7 @@ radial glial cells acting as neural progenitors throughout life. A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the inner plexiform layer. + ZFA:0009318 BC BCs BPs @@ -9827,6 +9380,12 @@ radial glial cells acting as neural progenitors throughout life. A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the inner plexiform layer. PMID:14689473 + + + + ZFA:0009318 + + @@ -9878,6 +9437,7 @@ radial glial cells acting as neural progenitors throughout life. BTO:0001441 CALOHA:TS-0647 MESH:D022423 + ZFA:0009324 myeloid cell @@ -9893,6 +9453,12 @@ radial glial cells acting as neural progenitors throughout life. A cell of the monocyte, granulocyte, mast cell, megakaryocyte, or erythroid lineage. GOC:add + + + + ZFA:0009324 + + @@ -9905,6 +9471,7 @@ radial glial cells acting as neural progenitors throughout life. CALOHA:TS-0290 FMA:62845 FMA:83516 + ZFA:0009325 erythropoietic cell @@ -9918,6 +9485,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:add GOC:tfm + + + + ZFA:0009325 + + @@ -10084,6 +9657,7 @@ radial glial cells acting as neural progenitors throughout life. CALOHA:TS-0289 FMA:83504 MESH:D004900 + ZFA:0005237 normoblast @@ -10103,6 +9677,12 @@ radial glial cells acting as neural progenitors throughout life. ISBN:0721601464 PMID:18174176 + + + + ZFA:0005237 + + @@ -10177,7 +9757,6 @@ radial glial cells acting as neural progenitors throughout life. - @@ -10279,6 +9858,7 @@ radial glial cells acting as neural progenitors throughout life. BTO:0000725 CALOHA:TS-0448 + ZFA:0009354 MPP hemopoietic progenitor cell @@ -10295,6 +9875,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm PMID:19022770 + + + + ZFA:0009354 + + @@ -10326,6 +9912,7 @@ radial glial cells acting as neural progenitors throughout life. BTO:0004730 CALOHA:TS-2099 FMA:70339 + ZFA:0009356 Note that this is a class of cell types, not an identified single cell type. @@ -10345,6 +9932,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm PMID:19022770 + + + + ZFA:0009356 + + @@ -10357,6 +9950,7 @@ radial glial cells acting as neural progenitors throughout life. CALOHA:TS-2017 FMA:70366 FMA:83598 + ZFA:0005830 haematopoietic cell haemopoietic cell hemopoietic cell @@ -10370,6 +9964,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:add GO_REF:0000031 + + + + ZFA:0005830 + + @@ -10487,6 +10087,7 @@ radial glial cells acting as neural progenitors throughout life. 2010-06-29T03:38:22Z FMA:69074 + ZFA:0009385 ecto-epithelial cell @@ -10496,6 +10097,12 @@ radial glial cells acting as neural progenitors throughout life. FMA:69074 GOC:tfm + + + + ZFA:0009385 + + @@ -10524,6 +10131,7 @@ radial glial cells acting as neural progenitors throughout life. 2010-06-29T03:49:14Z FMA:69076 + ZFA:0009388 epithelial mesenchymal cell meso-epithelial cell @@ -10534,6 +10142,12 @@ radial glial cells acting as neural progenitors throughout life. FMA:69076 GOC:tfm + + + + ZFA:0009388 + + @@ -10807,6 +10421,7 @@ radial glial cells acting as neural progenitors throughout life. CALOHA:TS-2096 FMA:63875 MESH:D003239 + ZFA:0009392 connective tissue cell @@ -10817,6 +10432,12 @@ radial glial cells acting as neural progenitors throughout life. GOC:tfm ISBN:0618947256 + + + + ZFA:0009392 + + @@ -10830,6 +10451,7 @@ radial glial cells acting as neural progenitors throughout life. CALOHA:TS-0263 FMA:82840 WBbt:0007028 + ZFA:0007089 embryonic cell (metazoa) @@ -10838,6 +10460,12 @@ radial glial cells acting as neural progenitors throughout life. A cell of the embryo. FMA:0618947256 + + + + ZFA:0007089 + + @@ -10969,6 +10597,7 @@ radial glial cells acting as neural progenitors throughout life. An endothelial progenitor cell that participates in angiogenesis during development. 2011-02-28T04:20:39Z + ZFA:0005773 See CL:0002619. embryonic blood vessel endothelial progenitor cell @@ -10978,6 +10607,12 @@ radial glial cells acting as neural progenitors throughout life. An endothelial progenitor cell that participates in angiogenesis during development. GOC:tfm + + + + ZFA:0005773 + + @@ -11169,6 +10804,7 @@ radial glial cells acting as neural progenitors throughout life. A CNS interneuron located in the spinal cord. + ZFA:0000778 Is_a interneuron, part_of UBERON:0002240. spinal cord interneuron @@ -11184,6 +10820,12 @@ radial glial cells acting as neural progenitors throughout life. A CNS interneuron located in the spinal cord. CL:CVS + + + + ZFA:0000778 + + @@ -11206,6 +10848,7 @@ radial glial cells acting as neural progenitors throughout life. Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells. 2012-06-27T08:27:35Z + ZFA:0007084 premigratory neural crest cell @@ -11214,6 +10857,12 @@ radial glial cells acting as neural progenitors throughout life. Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells. UBERONREF:0000002 + + + + ZFA:0007084 + + @@ -11281,6 +10930,12 @@ radial glial cells acting as neural progenitors throughout life. A muscle cell that is part of some visceral muscle. GOC:dos + + + + FBbt:00005070 + + @@ -11331,10 +10986,17 @@ radial glial cells acting as neural progenitors throughout life. + Any neuron that is capable of part of some visual perception. 2017-07-09T19:12:36Z visual system neuron + + + + Any neuron that is capable of part of some visual perception. + FBC:Autogenerated + @@ -11389,20 +11051,27 @@ radial glial cells acting as neural progenitors throughout life. - + + Any photoreceptor cell that is part of some camera-type eye. camera type eye photoreceptor cell camera-type eye photoreceptor cell - + - + https://github.com/obophenotype/cell-ontology/issues/2245 + + + + Any photoreceptor cell that is part of some camera-type eye. + FBC:Autogenerated + @@ -12628,7 +12297,6 @@ plexiform layer. - A location, relative to cellular compartments and structures, occupied by a macromolecular machine. There are three types of cellular components described in the gene ontology: (1) the cellular anatomical entity where a gene product carries out a molecular function (e.g., plasma membrane, cytoskeleton) or membrane-enclosed compartments (e.g., mitochondrion); (2) virion components, where viral proteins act, and (3) the stable macromolecular complexes of which gene product are parts (e.g., the clathrin complex). https://github.com/geneontology/go-ontology/issues/17729 @@ -12675,13 +12343,16 @@ plexiform layer. + + + Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'. extracellular region @@ -12727,32 +12398,32 @@ plexiform layer. - - + + A protein complex consisting of three collagen chains assembled into a left-handed triple helix. These trimers typically assemble into higher order structures. Wikipedia:Collagen cellular_component GO:0005581 collagen trimer - + - + - + PMID:12382326 - + PMID:12382326 @@ -12834,7 +12505,6 @@ plexiform layer. - Note that for multicellular organisms, the extracellular space refers to everything outside a cell, but still within the organism (excluding the extracellular matrix). Gene products from a multi-cellular organism that are secreted from a cell into the interstitial fluid or blood can therefore be annotated to this term. extracellular space @@ -12928,12 +12598,14 @@ plexiform layer. + + nucleus @@ -12975,6 +12647,7 @@ plexiform layer. + Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore. chromosome @@ -13041,7 +12714,9 @@ plexiform layer. + + cytoplasm @@ -13058,7 +12733,12 @@ plexiform layer. - + + + + + + @@ -13076,11 +12756,14 @@ plexiform layer. GO:0005840 + + + ribosome @@ -13136,11 +12819,14 @@ plexiform layer. + + + plasma membrane @@ -13245,10 +12931,12 @@ plexiform layer. + + translation @@ -13376,7 +13064,9 @@ plexiform layer. + + Note that this term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term, for e.g. to transmembrane transport, to microtubule-based transport or to vesicle-mediated transport. transport @@ -13641,6 +13331,7 @@ plexiform layer. A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane. + https://github.com/geneontology/go-ontology/issues/27189 jl 2013-12-19T15:25:51Z GO:1902589 @@ -13650,8 +13341,10 @@ plexiform layer. organelle organization and biogenesis single-organism organelle organization GO:0006996 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. organelle organization @@ -13686,13 +13379,14 @@ plexiform layer. cell-division cycle biological_process GO:0007049 - + + cell cycle @@ -13779,10 +13473,6 @@ plexiform layer. GO:0023033 GO:0023045 Wikipedia:Signal_transduction - signal transduction by cis-phosphorylation - signal transduction by conformational transition - signal transduction by protein phosphorylation - signal transduction by trans-phosphorylation signaling cascade signalling cascade biological_process @@ -13793,6 +13483,7 @@ plexiform layer. + Note that signal transduction is defined broadly to include a ligand interacting with a receptor, downstream signaling steps and a response being triggered. A change in form of the signal in every step is not necessary. Note that in many cases the end of this process is regulation of the initiation of transcription. Note that specific transcription factors may be annotated to this term, but core/general transcription machinery such as RNA polymerase should not. signal transduction @@ -13803,12 +13494,6 @@ plexiform layer. GOC:go_curators GOC:mtg_signaling_feb11 - - - - signalling pathway - GOC:mah - @@ -13816,7 +13501,7 @@ plexiform layer. - The series of molecular signals initiated by activation of a receptor on the surface of a cell. The pathway begins with binding of an extracellular ligand to a cell surface receptor, or for receptors that signal in the absence of a ligand, by ligand-withdrawal or the activity of a constitutively active receptor. The pathway ends with regulation of a downstream cellular process, e.g. transcription. + The series of molecular signals initiated by an extracellular ligand binding to a receptor located on the cell surface. The pathway ends with regulation of a downstream cellular process, e.g. transcription. cell surface receptor linked signal transduction cell surface receptor linked signaling pathway cell surface receptor linked signalling pathway @@ -13828,10 +13513,7 @@ plexiform layer. - The series of molecular signals initiated by activation of a receptor on the surface of a cell. The pathway begins with binding of an extracellular ligand to a cell surface receptor, or for receptors that signal in the absence of a ligand, by ligand-withdrawal or the activity of a constitutively active receptor. The pathway ends with regulation of a downstream cellular process, e.g. transcription. - GOC:bf - GOC:mah - GOC:pr + The series of molecular signals initiated by an extracellular ligand binding to a receptor located on the cell surface. The pathway ends with regulation of a downstream cellular process, e.g. transcription. GOC:signaling @@ -14317,7 +13999,6 @@ plexiform layer. - A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence. https://github.com/geneontology/go-ontology/issues/24968 jl @@ -14357,6 +14038,7 @@ plexiform layer. The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation. + https://github.com/geneontology/go-ontology/issues/26424 jl 2012-10-17T15:46:40Z GO:0044236 @@ -14369,11 +14051,13 @@ plexiform layer. biological_process single-organism metabolic process GO:0008152 - + + + Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions. metabolic process @@ -14433,6 +14117,7 @@ plexiform layer. + biosynthetic process @@ -14454,6 +14139,7 @@ plexiform layer. The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass. https://github.com/geneontology/go-ontology/issues/15249 https://github.com/geneontology/go-ontology/issues/25418 + https://github.com/geneontology/go-ontology/issues/27189 GO:0043284 biopolymer biosynthetic process macromolecule anabolism @@ -14462,7 +14148,9 @@ plexiform layer. macromolecule synthesis biological_process GO:0009059 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. macromolecule biosynthetic process @@ -14612,7 +14300,7 @@ plexiform layer. response to environmental stimulus biological_process GO:0009605 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. @@ -14636,7 +14324,7 @@ plexiform layer. response to abiotic stress biological_process GO:0009628 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. @@ -14710,7 +14398,7 @@ plexiform layer. embryonal development biological_process GO:0009790 - + embryo development @@ -14931,9 +14619,11 @@ plexiform layer. + + Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children. programmed cell death @@ -15100,10 +14790,12 @@ plexiform layer. biological_process cell organization and biogenesis GO:0016043 + + cellular component organization @@ -15329,6 +15021,7 @@ plexiform layer. The chemical reactions and pathways involving a protein. Includes protein modification. https://github.com/geneontology/go-ontology/issues/23112 + https://github.com/geneontology/go-ontology/issues/27189 GO:0006411 GO:0044267 GO:0044268 @@ -15341,11 +15034,14 @@ plexiform layer. multicellular organismal protein metabolic process biological_process GO:0019538 + + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. protein metabolic process @@ -15434,6 +15130,7 @@ plexiform layer. biological_process GO:0022402 + cell cycle process @@ -15469,12 +15166,15 @@ plexiform layer. A cellular process that results in the breakdown of a cellular component. + https://github.com/geneontology/go-ontology/issues/27189 GO:0071845 cell structure disassembly cellular component disassembly at cellular level biological_process GO:0022411 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular component disassembly @@ -15558,6 +15258,7 @@ plexiform layer. biological_process GO:0022607 + cellular component assembly @@ -15666,11 +15367,13 @@ plexiform layer. single organism signaling GO:0023052 + + Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change. signaling @@ -15879,12 +15582,24 @@ plexiform layer. + + + + + + + + + + + + The process whose specific outcome is the progression of the myeloid and lymphoid derived organ/tissue systems of the blood and other parts of the body over time, from formation to the mature structure. The site of hemopoiesis is variable during development, but occurs primarily in bone marrow or kidney in many adult vertebrates. https://github.com/geneontology/go-ontology/issues/22178 Wikipedia:Haematopoiesis @@ -15980,6 +15695,7 @@ plexiform layer. + cell differentiation @@ -16283,6 +15999,7 @@ plexiform layer. GO:0031012 + @@ -16524,6 +16241,7 @@ plexiform layer. Any biological process, occurring at the level of a multicellular organism, pertinent to its function. + https://github.com/geneontology/go-ontology/issues/27189 @@ -16538,6 +16256,7 @@ plexiform layer. GO:0032501 + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. multicellular organismal process @@ -16647,7 +16366,12 @@ plexiform layer. - + + + + + + A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together. GO:0043234 @@ -16660,6 +16384,7 @@ plexiform layer. GO:0032991 + @@ -17021,7 +16746,6 @@ plexiform layer. - @@ -17139,10 +16863,12 @@ plexiform layer. cellular_component GO:0042995 + + cell projection @@ -17386,6 +17112,7 @@ plexiform layer. + organelle @@ -17883,7 +17610,10 @@ plexiform layer. biological_process GO:0044238 + + + primary metabolic process @@ -17902,12 +17632,15 @@ plexiform layer. The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells. + https://github.com/geneontology/go-ontology/issues/27052 cellular anabolism cellular biosynthesis cellular formation cellular synthesis biological_process GO:0044249 + + This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. cellular biosynthetic process @@ -17977,6 +17710,7 @@ plexiform layer. GO:0045202 + @@ -18467,6 +18201,7 @@ plexiform layer. + anatomical structure development @@ -18503,6 +18238,7 @@ plexiform layer. Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another. https://github.com/geneontology/go-ontology/issues/19809 + cell locomotion movement of a cell biological_process @@ -18510,6 +18246,7 @@ plexiform layer. GO:0048870 + cell motility @@ -18717,12 +18454,13 @@ plexiform layer. physiological response to stimulus biological_process GO:0050896 - + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. response to stimulus @@ -18844,6 +18582,7 @@ plexiform layer. Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation. + https://github.com/geneontology/go-ontology/issues/27052 jl 2013-12-18T13:51:04Z GO:1902578 @@ -18857,6 +18596,7 @@ plexiform layer. single organism localization single-organism localization GO:0051179 + localization @@ -19065,6 +18805,7 @@ plexiform layer. A cellular localization process whereby a substance or cellular entity, such as a protein complex or organelle, is transported to, and/or maintained in, a specific location within a cell including the localization of substances or cellular entities to the cell membrane. + https://github.com/geneontology/go-ontology/issues/27189 jl 2013-12-18T14:04:32Z GO:1902580 @@ -19077,7 +18818,9 @@ plexiform layer. biological_process single-organism cellular localization GO:0051641 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular localization @@ -19184,7 +18927,7 @@ plexiform layer. Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus by a cell and ends with a change in state or activity or the cell. biological_process GO:0051716 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular response to stimulus @@ -19258,6 +19001,7 @@ plexiform layer. GO:0055085 + @@ -19893,6 +19637,7 @@ plexiform layer. A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component. + https://github.com/geneontology/go-ontology/issues/27189 mah 2010-09-10T01:39:16Z GO:0071841 @@ -19901,8 +19646,10 @@ plexiform layer. cellular component organization or biogenesis at cellular level biological_process GO:0071840 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular component organization or biogenesis @@ -20280,7 +20027,7 @@ plexiform layer. region of plasma membrane cellular_component GO:0098590 - + Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass. plasma membrane region @@ -20332,7 +20079,6 @@ plexiform layer. - @@ -21105,6 +20851,7 @@ plexiform layer. The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon. + https://github.com/geneontology/go-ontology/issues/26424 pr 2012-11-05T11:04:40Z organic molecular entity anabolism @@ -21118,6 +20865,7 @@ plexiform layer. organic substance synthesis biological_process GO:1901576 + organic substance biosynthetic process @@ -22047,7 +21795,6 @@ plexiform layer. - A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities PATO:0000072 quality @@ -24320,70 +24067,6 @@ plexiform layer. - - - - - - - - - - - - - - - - - - - - - - A material entity that minimally consists of a protein. - protein - protein aggregate - protein complex - protein-containing complex - protein - PR:000050567 - Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566). - protein-containing material entity - - - - - A material entity that minimally consists of a protein. - PRO:DAN - - - - - protein - PRO:DAN - - - - - protein aggregate - PRO:DAN - - - - - protein complex - PRO:DAN - - - - - protein-containing complex - PRO:DAN - - - - @@ -24567,6 +24250,7 @@ plexiform layer. EHDAA2:0001824 EHDAA:500 EMAPA:35955 + FBbt:00005155 GAID:63 HAO:0000930 MA:0000017 @@ -24599,6 +24283,12 @@ plexiform layer. https://github.com/obophenotype/uberon/issues/549 https://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005155 + + @@ -24788,7 +24478,6 @@ plexiform layer. - @@ -24984,6 +24673,7 @@ plexiform layer. CARO:0000003 EHDAA2:0003003 EMAPA:0 + FBbt:00007001 FMA:305751 FMA:67135 GAID:781 @@ -25011,6 +24701,12 @@ plexiform layer. Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome. CARO:0000003 + + + + FBbt:00007001 + + @@ -25192,7 +24888,6 @@ plexiform layer. - @@ -25240,7 +24935,6 @@ plexiform layer. - @@ -25293,7 +24987,6 @@ plexiform layer. - @@ -25447,7 +25140,7 @@ plexiform layer. - + The surface (external) layer of ectoderm which begins to proliferate shortly after separation from the neuroectoderm. merge with non-neural. In vertebrates, the ectoderm has three parts: external ectoderm (also known as surface ectoderm), the neurectoderm (neural crest, and neural tube) EHDAA2:0001968 @@ -25470,7 +25163,7 @@ plexiform layer. external ectoderm http://upload.wikimedia.org/wikipedia/commons/1/1d/Ectoderm.png - + @@ -25483,7 +25176,7 @@ plexiform layer. - + EHDAA2 @@ -25511,7 +25204,6 @@ plexiform layer. - @@ -25553,7 +25245,6 @@ plexiform layer. - @@ -25646,7 +25337,6 @@ plexiform layer. - @@ -25733,7 +25423,6 @@ plexiform layer. - @@ -25784,7 +25473,6 @@ plexiform layer. - @@ -25830,7 +25518,6 @@ plexiform layer. - @@ -25838,7 +25525,7 @@ plexiform layer. - + @@ -25874,14 +25561,14 @@ plexiform layer. gastrula stage - + - + BILS @@ -25932,7 +25619,6 @@ plexiform layer. - @@ -25982,7 +25668,6 @@ plexiform layer. - @@ -26045,6 +25730,7 @@ plexiform layer. A fasciculated bundle of neuron projections (GO:0043005), largely or completely lacking synapses. UBERON:0005163 CARO:0001001 + FBbt:00005099 NLX:147821 funiculus nerve fiber bundle @@ -26061,6 +25747,12 @@ plexiform layer. FBC:DOS FBbt:00005099 + + + + FBbt:00005099 + + @@ -26136,6 +25828,7 @@ plexiform layer. EHDAA2:0001326 EHDAA:542 EMAPA:16262 + FBbt:00003126 FMA:49184 GAID:75 MA:0000341 @@ -26188,6 +25881,12 @@ plexiform layer. Wikipedia:Mouth https://github.com/obophenotype/uberon/wiki/The-digestive-tract + + + + FBbt:00003126 + + @@ -26270,7 +25969,6 @@ plexiform layer. - @@ -26278,15 +25976,15 @@ plexiform layer. - + - - + + A fluid that is composed of blood plasma and erythrocytes. AAO:0000046 @@ -26323,34 +26021,34 @@ plexiform layer. blood - + - + - + - + CL:tm - + https://github.com/obophenotype/uberon/issues/1330 - + Bgee:AN @@ -26623,6 +26321,7 @@ plexiform layer. CARO:0000004 EHDAA2:0003004 EMAPA:35178 + FBbt:00007019 FMA:9669 HAO:0000004 MA:0002450 @@ -26652,6 +26351,12 @@ plexiform layer. Material anatomical entity in a gaseous, liquid, semisolid or solid state; produced by anatomical structures or derived from inhaled and ingested substances that have been modified by anatomical structures as they pass through the body. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007019 + + @@ -26706,6 +26411,7 @@ plexiform layer. BILA:0000005 CARO:0000005 EHDAA2:0003005 + FBbt:00007017 FMA:5897 HAO:0000005 NCIT:C94478 @@ -26729,6 +26435,12 @@ plexiform layer. Non-material anatomical entity of three dimensions, that is generated by morphogenetic or other physiologic processes; is surrounded by one or more anatomical structures; contains one or more organism substances or anatomical structures. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007017 + + @@ -26748,7 +26460,6 @@ plexiform layer. - Anatomical entity that has mass. @@ -26760,6 +26471,7 @@ plexiform layer. BILA:0000006 CARO:0000006 EHDAA2:0003006 + FBbt:00007016 FMA:67165 HAO:0000006 TAO:0001836 @@ -26777,13 +26489,18 @@ plexiform layer. Anatomical entity that has mass. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007016 + + - Anatomical entity that has no mass. @@ -26794,6 +26511,7 @@ plexiform layer. BILA:0000007 CARO:0000007 EHDAA2:0003007 + FBbt:00007015 FMA:67112 HAO:0000007 TAO:0001835 @@ -26812,6 +26530,12 @@ plexiform layer. Anatomical entity that has no mass. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007015 + + @@ -26854,6 +26578,7 @@ plexiform layer. EHDAA:392 EMAPA:16103 EV:0100000 + FBbt:00004856 FMA:7149 HAO:0000011 MA:0000003 @@ -26895,6 +26620,12 @@ plexiform layer. system GO:0048731 + + + + FBbt:00004856 + + @@ -26946,6 +26677,7 @@ plexiform layer. EHDAA:1 EMAPA:25765 EV:0100016 + FBbt:00000001 FMA:256135 HAO:0000012 NCIT:C13041 @@ -26990,6 +26722,12 @@ plexiform layer. VHOG:0000671 WBbt:0007833 + + + + FBbt:00000001 + + @@ -27050,6 +26788,7 @@ plexiform layer. EFO:0000808 EHDAA2:0003032 EMAPA:36031 + FBbt:00007009 FMA:7153 HAO:0000032 MA:0002433 @@ -27092,6 +26831,12 @@ plexiform layer. CARO:DOS http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007009 + + @@ -27133,6 +26878,7 @@ plexiform layer. BILA:0000040 CARO:0000040 EHDAA2:0003040 + FBbt:00007013 FMA:63863 HAO:0000040 TAO:0000382 @@ -27158,6 +26904,12 @@ plexiform layer. Anatomical structure that consists of cell parts and cell substances and together does not constitute a cell or a tissue. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007013 + + @@ -27176,6 +26928,7 @@ plexiform layer. + FBbt:00007277 VHOG:0001737 uberon UBERON:0000477 @@ -27189,6 +26942,12 @@ plexiform layer. Anatomical group whose component anatomical structures lie in close proximity to each other. FBbt:00007277 + + + + FBbt:00007277 + + @@ -27222,6 +26981,7 @@ plexiform layer. CARO:0000043 EHDAA2:0003043 EMAPA:35868 + FBbt:00007003 FMA:9637 HAO:0000043 MA:0003002 @@ -27257,6 +27017,12 @@ plexiform layer. Multicellular anatomical structure that consists of many cells of one or a few types, arranged in an extracellular matrix such that their long-range organisation is at least partly a repetition of their short-range organisation. CARO:0000043 + + + + FBbt:00007003 + + @@ -27297,6 +27063,7 @@ plexiform layer. BILA:0000055 CARO:0000055 EHDAA2:0003055 + FBbt:00007010 HAO:0000055 TAO:0001488 TGMA:0001847 @@ -27323,6 +27090,12 @@ plexiform layer. CARO:0000055 http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007010 + + @@ -27347,7 +27120,6 @@ plexiform layer. - @@ -27361,7 +27133,7 @@ plexiform layer. - + @@ -27378,6 +27150,7 @@ plexiform layer. CARO:0000066 EHDAA2:0003066 EMAPA:32738 + FBbt:00007005 FMA:9639 GAID:402 HAO:0000066 @@ -27402,14 +27175,14 @@ plexiform layer. epithelium https://upload.wikimedia.org/wikipedia/commons/8/8f/Illu_epithelium.jpg - + - + http://palaeos.com/metazoa/porifera/homoscleromorpha.html @@ -27419,6 +27192,12 @@ plexiform layer. Wikipedia:Epithelium http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007005 + + @@ -27763,6 +27542,7 @@ plexiform layer. EHDAA2_RETIRED:0003236 EHDAA:38 EMAPA:16039 + FBbt:00000052 FMA:69068 GAID:963 MAT:0000226 @@ -27800,6 +27580,12 @@ plexiform layer. GO:0009790 Wikipedia:Embryo + + + + FBbt:00000052 + + @@ -27837,6 +27623,7 @@ plexiform layer. BILA:0000035 BTO:0000556 EMAPA:36033 + FBbt:00000110 FMA:69069 GAID:1303 MESH:D005855 @@ -27873,6 +27660,12 @@ plexiform layer. embryonic tissue FMA:69069 + + + + FBbt:00000110 + + @@ -27911,7 +27704,7 @@ plexiform layer. - + Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue. AAO:0000137 BILA:0000036 @@ -27921,6 +27714,7 @@ plexiform layer. EHDAA2:0000428 EMAPA:16069 EV:0100003 + FBbt:00000111 FMA:69070 GAID:1304 MAT:0000155 @@ -27945,14 +27739,14 @@ plexiform layer. ectoderm http://upload.wikimedia.org/wikipedia/commons/1/19/Gray32.png - + - + Bgee:AN @@ -27961,6 +27755,12 @@ plexiform layer. Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue. Wikipedia:Ectoderm + + + + FBbt:00000111 + + @@ -27986,7 +27786,7 @@ plexiform layer. - + Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut. AAO:0000139 BILA:0000038 @@ -27996,6 +27796,7 @@ plexiform layer. EHDAA2:0000436 EMAPA:16062 EV:0100005 + FBbt:00000125 FMA:69071 GAID:1305 MAT:0000175 @@ -28020,14 +27821,14 @@ plexiform layer. http://upload.wikimedia.org/wikipedia/commons/c/c0/Endoderm2.png http://upload.wikimedia.org/wikipedia/commons/d/df/Gray10.png - + - + Bgee:AN @@ -28036,6 +27837,12 @@ plexiform layer. Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut. Wikipedia:Endoderm + + + + FBbt:00000125 + + @@ -28062,7 +27869,7 @@ plexiform layer. - + The middle germ layer of the embryo, between the endoderm and ectoderm. UBERON:0003263 @@ -28077,6 +27884,7 @@ plexiform layer. EHDAA:183 EMAPA:16083 EV:0100006 + FBbt:00000126 FMA:69072 GAID:522 MAT:0000174 @@ -28102,14 +27910,14 @@ plexiform layer. mesoderm http://upload.wikimedia.org/wikipedia/commons/e/e8/Mesoderm.png - + - + Bgee:AN @@ -28118,6 +27926,12 @@ plexiform layer. The middle germ layer of the embryo, between the endoderm and ectoderm. Wikipedia:Mesoderm + + + + FBbt:00000126 + + @@ -28168,6 +27982,7 @@ plexiform layer. BTO:0004224 EHDAA2:0001929 EMAPA:16263 + FBbt:00000439 FMA:295846 NCIT:C34306 TAO:0001290 @@ -28206,6 +28021,12 @@ plexiform layer. stomodeal-hypophyseal primordium XAO:0000269 + + + + FBbt:00000439 + + @@ -28284,7 +28105,7 @@ plexiform layer. - + @@ -28346,14 +28167,14 @@ plexiform layer. cranial nerve II - + - + EHDAA2 @@ -28463,7 +28284,7 @@ plexiform layer. - + @@ -28535,14 +28356,14 @@ plexiform layer. https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_F_Heart.glb https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_M_Heart.glb - + - + MA @@ -28584,7 +28405,7 @@ plexiform layer. - + @@ -28603,7 +28424,7 @@ plexiform layer. - + The brain is the center of the nervous system in all vertebrate, and most invertebrate, animals. Some primitive animals such as jellyfish and starfish have a decentralized nervous system without a brain, while sponges lack any nervous system at all. In vertebrates, the brain is located in the head, protected by the skull and close to the primary sensory apparatus of vision, hearing, balance, taste, and smell[WP]. requires review for applicability to invertebrate structures, e.g. synganglion @@ -28622,6 +28443,7 @@ plexiform layer. EHDAA:6485 EMAPA:16894 EV:0100164 + FBbt:00005095 FMA:50801 GAID:571 HBA:4005 @@ -28661,11 +28483,11 @@ plexiform layer. https://ccf-ontology.hubmapconsortium.org/objects/v1.2/Allen_F_Brain.glb https://ccf-ontology.hubmapconsortium.org/objects/v1.2/Allen_M_Brain.glb - + - + @@ -28678,13 +28500,13 @@ plexiform layer. - + FMA - + Bgee:AN @@ -28694,6 +28516,12 @@ plexiform layer. Wikipedia:Brain https://github.com/obophenotype/uberon/issues/300 + + + + FBbt:00005095 + + @@ -28926,12 +28754,11 @@ plexiform layer. - - - - + + + @@ -29015,34 +28842,34 @@ plexiform layer. cornea http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + - + - + MA - + MA - + FMA-isa @@ -29219,10 +29046,10 @@ plexiform layer. - - - - + + + + The retina is the innermost layer or coating at the back of the eyeball, which is sensitive to light and in which the optic nerve terminates. @@ -29270,44 +29097,44 @@ plexiform layer. retina http://upload.wikimedia.org/wikipedia/commons/e/ed/Human_eye_cross-sectional_view_grayscale.png - + - + - + - + - + FMA - + FMA - + FMA - + EHDAA2 @@ -29362,8 +29189,8 @@ plexiform layer. - - + + @@ -29377,6 +29204,7 @@ plexiform layer. CALOHA:TS-0309 EFO:0000827 EV:0100336 + FBbt:00005162 GAID:69 MAT:0000140 MESH:D005123 @@ -29394,24 +29222,24 @@ plexiform layer. eye - + - + - + PMID:21062451 - + PMID:21062451 @@ -29420,6 +29248,12 @@ plexiform layer. An organ that detects light. https://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005162 + + @@ -29565,6 +29399,7 @@ plexiform layer. BTO:0000058 CALOHA:TS-1293 EFO:0000793 + FBbt:00005055 FMA:7152 GAID:278 MA:0002431 @@ -29601,6 +29436,12 @@ plexiform layer. NLM:alimentary+system Wikipedia:Digestive_system + + + + FBbt:00005055 + + @@ -29787,7 +29628,7 @@ plexiform layer. - + @@ -29805,6 +29646,7 @@ plexiform layer. EHDAA:826 EMAPA:16469 EV:0100162 + FBbt:00005093 FMA:7157 GAID:466 MA:0000016 @@ -29836,14 +29678,14 @@ plexiform layer. http://upload.wikimedia.org/wikipedia/commons/b/b2/TE-Nervous_system_diagram.svg http://upload.wikimedia.org/wikipedia/commons/b/ba/Nervous_system_diagram.png - + - + Bgee:AN @@ -29858,6 +29700,12 @@ plexiform layer. Wikipedia:Nervous_system ZFIN:curator + + + + FBbt:00005093 + + @@ -29903,7 +29751,7 @@ plexiform layer. - + The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the neural tube derivatives: the brain and spinal cord. In invertebrates it includes central ganglia plus nerve cord. @@ -29919,6 +29767,7 @@ plexiform layer. EMAPA:16470 EMAPA:16754 EV:0100163 + FBbt:00005094 FMA:55675 GAID:570 MA:0000167 @@ -29947,7 +29796,7 @@ plexiform layer. central nervous system - + @@ -29961,7 +29810,7 @@ plexiform layer. - + Bgee:AN @@ -29978,6 +29827,12 @@ plexiform layer. Wikipedia:Acoelomorpha + + + + FBbt:00005094 + + @@ -30022,6 +29877,7 @@ plexiform layer. A group of axons linking two or more neuropils and having a common origin, termination[FBbt]. BIRNLEX:1649 EV:0100304 + FBbt:00005100 FMA:83847 NLX:147822 axonal tract @@ -30044,6 +29900,12 @@ plexiform layer. http://flybrain.uni-freiburg.de/Flybrain/html/terms/terms.html https://github.com/obophenotype/uberon/issues/286 + + + + FBbt:00005100 + + @@ -30171,6 +30033,7 @@ plexiform layer. EFO:0000805 EHDAA2:0003094 EMAPA:16192 + FBbt:00007692 FMA:75259 MA:0002442 MAT:0000031 @@ -30204,6 +30067,12 @@ plexiform layer. Anatomical system that overlaps the nervous system and is responsible for receiving and processing sensory information. Wikipedia:Sensory_system + + + + FBbt:00007692 + + @@ -30262,6 +30131,7 @@ plexiform layer. BTO:0001886 EFO:0001652 EHDAA2:0003171 + FBbt:00005495 FMA:86589 MAT:0000482 NCIT:C34275 @@ -30295,6 +30165,12 @@ plexiform layer. FB:FBrf0089570 http://flybase.org/reports/FBrf0178740.html + + + + FBbt:00005495 + + @@ -30405,6 +30281,7 @@ plexiform layer. BIRNLEX:6 CARO:0000000 EHDAA2:0002229 + FBbt:10000000 FMA:62955 HAO:0000000 MA:0000001 @@ -30428,6 +30305,12 @@ plexiform layer. FMA:62955 http://orcid.org/0000-0001-9114-8737 + + + + FBbt:10000000 + + @@ -30580,7 +30463,7 @@ plexiform layer. - + Simple squamous epithelium of mesodermal origin which lines serous membranes. Examples: mesothelium of pleura, mesothelium of peritoneum[FMA]. Wikipedia: The mesothelium is a membrane that forms the lining of several body cavities: the pleura (thoracal cavity), peritoneum (abdominal cavity including the mesentery) and pericardium (heart sac). Mesothelial tissue also surrounds the male internal reproductive organs (the tunica vaginalis testis) and covers the internal reproductive organs of women (the tunica serosa uteri). AEO:0000111 BTO:0002422 @@ -30605,14 +30488,14 @@ plexiform layer. mesothelium http://upload.wikimedia.org/wikipedia/commons/2/25/Mesothelium_peritoneal_wash_high_mag.jpg - + - + FMA @@ -30908,7 +30791,7 @@ plexiform layer. - + A tube extending from the mouth to the anus. @@ -30921,6 +30804,7 @@ plexiform layer. EHDAA2:0000726 EHDAA:518 EMAPA:16247 + FBbt:00003125 FMA:45615 MA:0000917 NCIT:C34082 @@ -30944,14 +30828,14 @@ plexiform layer. digestive tract - + - + NCBIBook:NBK10107 @@ -30973,6 +30857,12 @@ plexiform layer. DOI:10.1371/journal.pone.0016309 + + + + FBbt:00003125 + + @@ -31000,7 +30890,7 @@ plexiform layer. - + The ciliary muscle is a ring of smooth muscle in the middle layer of the eye that controls the eye's accommodation for viewing objects at varying distances and regulates the flow of aqueous humour through Schlemm's canal. [WP,unvetted]. BTO:0000654 @@ -31023,7 +30913,7 @@ plexiform layer. ciliary muscle http://upload.wikimedia.org/wikipedia/commons/2/28/Gray872.png - + @@ -31042,7 +30932,7 @@ plexiform layer. - + FMA @@ -31160,7 +31050,7 @@ plexiform layer. - + @@ -31206,14 +31096,14 @@ plexiform layer. eyelid https://upload.wikimedia.org/wikipedia/commons/8/84/Eye_makeup.jpg - + - + multiple @@ -31479,7 +31369,7 @@ plexiform layer. - + @@ -31518,14 +31408,14 @@ plexiform layer. iris - + - + XAO @@ -31579,7 +31469,7 @@ plexiform layer. - + @@ -31628,14 +31518,14 @@ plexiform layer. corneal epithelium http://upload.wikimedia.org/wikipedia/commons/6/66/Gray871.png - + - + ISBN:0781772214 @@ -31723,15 +31613,15 @@ plexiform layer. - - + + - + @@ -31766,34 +31656,34 @@ plexiform layer. sclera http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + - + - + FMA - + ZFA - + ISBN:0781772214 @@ -31835,7 +31725,7 @@ plexiform layer. - + @@ -31873,14 +31763,14 @@ plexiform layer. ciliary body http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + ISBN:0781772214 @@ -31918,14 +31808,14 @@ plexiform layer. - + - + @@ -31986,24 +31876,24 @@ plexiform layer. optic choroid http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + - + MA - + Wikipedia @@ -32196,9 +32086,9 @@ plexiform layer. - - - + + + A double layer covering the ciliary body that produces aqueous humor. BTO:0001770 @@ -32218,15 +32108,15 @@ plexiform layer. ciliary epithelium - + - + - + @@ -32239,19 +32129,19 @@ plexiform layer. - + MA - + MP - + Wikipedia @@ -32367,7 +32257,7 @@ plexiform layer. - + @@ -32425,14 +32315,14 @@ plexiform layer. pigmented layer of retina http://upload.wikimedia.org/wikipedia/commons/5/55/Gray881.png - + - + Wikipedia @@ -32508,7 +32398,7 @@ plexiform layer. - + @@ -32540,14 +32430,14 @@ plexiform layer. photoreceptor layer of retina http://upload.wikimedia.org/wikipedia/commons/5/55/Gray881.png - + - + ZFA @@ -33040,7 +32930,7 @@ plexiform layer. - + @@ -33096,7 +32986,7 @@ plexiform layer. ganglionic layer of retina http://upload.wikimedia.org/wikipedia/commons/5/55/Gray881.png - + @@ -33109,7 +32999,7 @@ plexiform layer. - + FMA @@ -33163,7 +33053,7 @@ plexiform layer. - + @@ -33218,14 +33108,14 @@ plexiform layer. nerve fiber layer of retina - + - + FMA @@ -33915,7 +33805,7 @@ plexiform layer. - + @@ -33947,14 +33837,14 @@ plexiform layer. anterior segment of eyeball http://upload.wikimedia.org/wikipedia/commons/b/ba/Cataract_in_human_eye.png - + - + FMA @@ -33998,7 +33888,7 @@ plexiform layer. - + @@ -34028,14 +33918,14 @@ plexiform layer. posterior segment of eyeball http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + FMA @@ -34072,9 +33962,9 @@ plexiform layer. - - - + + + @@ -34122,15 +34012,15 @@ plexiform layer. conjunctiva http://upload.wikimedia.org/wikipedia/commons/5/55/Gray883.png - + - + - + @@ -34143,19 +34033,19 @@ plexiform layer. - + cjm - + MA - + ISBN:0781772214 @@ -34313,7 +34203,7 @@ plexiform layer. - + The midbrain is the middle division of the three primary divisions of the developing chordate brain or the corresponding part of the adult brain (in vertebrates, includes a ventral part containing the cerebral peduncles and a dorsal tectum containing the corpora quadrigemina and that surrounds the aqueduct of Sylvius connecting the third and fourth ventricles)[GO]. developmental relationships need revised @@ -34359,14 +34249,14 @@ plexiform layer. midbrain http://upload.wikimedia.org/wikipedia/commons/f/f9/Human_brain_inferior_view_description.JPG - + - + Bgee:AN @@ -34837,7 +34727,7 @@ plexiform layer. - + Ventral part of the midbrain, separated from the hindbrain by the isthmus[ISBN:0471888893]. Subdivision of the midbrain lying anterior to the tectum and posterior to the substantia nigra and cerebral peduncle[FMA] The part of the midbrain extending from the substantia nigra to the cerebral aqueduct in a horizontal section of the midbrain. It forms the floor of the midbrain that surrounds the cerebral aqueduct[WP]. MTg @@ -34876,14 +34766,14 @@ plexiform layer. midbrain tegmentum http://upload.wikimedia.org/wikipedia/commons/b/b6/Gray712.png - + - + ZFA @@ -34969,7 +34859,6 @@ plexiform layer. - @@ -35044,7 +34933,6 @@ plexiform layer. - @@ -35053,8 +34941,8 @@ plexiform layer. - - + + @@ -35067,7 +34955,7 @@ plexiform layer. - + @@ -35121,34 +35009,34 @@ plexiform layer. blood vessel http://upload.wikimedia.org/wikipedia/commons/2/29/Circulatory_System_en.svg - + - + - + - + AEO - + EHDAA2 - + GO:0072360 @@ -35477,7 +35365,7 @@ plexiform layer. - + The most posterior of the three principal regions of the brain. In mammals and birds the hindbrain is divided into a rostral metencephalon and a caudal myelencephalon. In zebrafish, with the exception of the cerebellum, the ventral remainder of the metencephalon can be separated only arbitrarily from the more caudal myelencephalic portion of the medulla oblongata (From: Neuroanatomy of the Zebrafish Brain)[ZFA]. Organ component of neuraxis that has as its parts the pons, cerebellum and medulla oblongata[FMA]. @@ -35520,14 +35408,14 @@ plexiform layer. hindbrain http://upload.wikimedia.org/wikipedia/commons/5/54/EmbryonicBrain.svg - + - + Bgee:AN @@ -35653,6 +35541,7 @@ plexiform layer. BTO:0000174 CALOHA:TS-2110 EFO:0000461 + FBbt:00004208 FMA:69067 GAID:407 MESH:D004628 @@ -35683,6 +35572,12 @@ plexiform layer. BTO:0000174 ZFIN:curator + + + + FBbt:00004208 + + @@ -36151,7 +36046,7 @@ plexiform layer. - + Vasculature that is part of the eye region. FMA:74743 @@ -36173,14 +36068,14 @@ plexiform layer. https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_F_Blood_Vasculature.glb https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_M_Blood_Vasculature.glb - + - + ISBN:0781772214 @@ -36384,7 +36279,7 @@ plexiform layer. - + @@ -36458,14 +36353,14 @@ plexiform layer. https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_F_Spinal_Cord.glb https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_M_Spinal_Cord.glb - + - + ZFA @@ -36813,6 +36708,7 @@ plexiform layer. AEO:0000186 BTO:0001707 EHDAA2:0000267 + FBbt:00005060 FMA:85006 NCIT:C25444 RETIRED_EHDAA2:0003186 @@ -36849,6 +36745,12 @@ plexiform layer. body cavity BTO:0001707 + + + + FBbt:00005060 + + @@ -36913,9 +36815,9 @@ plexiform layer. - - - + + + @@ -36963,15 +36865,15 @@ plexiform layer. notochord http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + - + @@ -36990,19 +36892,19 @@ plexiform layer. - + http://tolweb.org/Chordata/2499 - + ZFA - + EHDAA2 @@ -37042,8 +36944,8 @@ plexiform layer. - - + + Somites are spheres of epithelial cells that form sequentially along the anterior-posterior axis of the embryo through mesenchymal to epithelial transition of the presomitic mesoderm. mesodermal cluster @@ -37081,11 +36983,11 @@ plexiform layer. somite http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + @@ -37098,13 +37000,13 @@ plexiform layer. - + GOTAX:0000352 - + ZFA @@ -37166,22 +37068,22 @@ plexiform layer. - + - - + + - + A specialized region of ectoderm found between the neural ectoderm (neural plate) and non-neural ectoderm and composed of highly migratory pluripotent cells that delaminate in early embryonic development from the dorsal neural tube and give rise to an astounding variety of differentiated cell types[MP]. AAO:0010578 BTO:0001764 @@ -37214,45 +37116,45 @@ plexiform layer. http://upload.wikimedia.org/wikipedia/commons/5/5f/Gray644.png https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png - + - + - + - + - + XAO https://github.com/obophenotype/uberon/wiki/The-neural-crest - + BTO - + PMID:11523831 - + PMID:11523831 @@ -37310,6 +37212,7 @@ plexiform layer. EHDAA:255 EMAPA:16073 EV:0100004 + FBbt:00001057 FMA:87657 MAT:0000176 MIAA:0000176 @@ -37338,6 +37241,12 @@ plexiform layer. Embryonic ectoderm that gives rise to nervous tissue. Wikipedia:Neuroectoderm + + + + FBbt:00001057 + + @@ -37531,7 +37440,7 @@ plexiform layer. - + @@ -37584,14 +37493,14 @@ plexiform layer. hematopoietic system - + - + FMA @@ -37631,8 +37540,8 @@ plexiform layer. - - + + @@ -37658,11 +37567,11 @@ plexiform layer. iris epithelium - + - + @@ -37675,13 +37584,13 @@ plexiform layer. - + MA - + MP @@ -37820,7 +37729,7 @@ plexiform layer. - + Ectodermal placode that develops in the head into a part of the sensory nervous system. With a few exceptions (lens, adenohypophyseal), cranial placodes are neurogenic. Do not merge with neurogenic placode ectodermal placode @@ -37837,7 +37746,7 @@ plexiform layer. cranial placode - + @@ -37850,7 +37759,7 @@ plexiform layer. - + PMID:11523831 PMID:22512454 @@ -38050,7 +37959,7 @@ plexiform layer. - + @@ -38063,7 +37972,7 @@ plexiform layer. - + The part of the brain that is the morphological boundary between the midbrain and hindbrain and that is the location of an organizing center which patterns the midbrain and hindbrain primordia of the neural plate. consider adding class for organizer. Consider adding separate class for isthmus as a structure AAO:0011064 @@ -38092,24 +38001,24 @@ plexiform layer. midbrain-hindbrain boundary - + - + - + ZFA - + ZFA @@ -38231,7 +38140,7 @@ plexiform layer. - + Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form. AAO:0011086 EFO:0001982 @@ -38254,14 +38163,14 @@ plexiform layer. presomitic mesoderm - + - + Bgee:AN @@ -38428,7 +38337,7 @@ plexiform layer. - + @@ -38465,7 +38374,7 @@ plexiform layer. eye primordium - + @@ -38478,7 +38387,7 @@ plexiform layer. - + PMID:16496288 XAO @@ -38528,8 +38437,8 @@ plexiform layer. - - + + @@ -38557,24 +38466,24 @@ plexiform layer. optic cup - + - + - + ZFA - + ZFA @@ -38630,7 +38539,7 @@ plexiform layer. - + @@ -38668,7 +38577,7 @@ plexiform layer. lens placode http://upload.wikimedia.org/wikipedia/commons/2/2f/Gray864.png - + @@ -38681,7 +38590,7 @@ plexiform layer. - + ZFA @@ -38720,9 +38629,9 @@ plexiform layer. - - - + + + A region of embryonic ectodermal cells that lie directly above the notochord. During neurulation, they change shape and produce an infolding of the neural plate (the neural fold) that then seals to form the neural tube[XAO]. The earliest recognizable dorsal ectodermal primordium of the central nervous system present near the end of gastrulation before infolding to form the neural keel; consists of a thickened pseudostratified epithelium[ZFA]. AAO:0011072 BTO:0001765 @@ -38751,34 +38660,34 @@ plexiform layer. neural plate https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png - + - + - + - + GOTAX:0000352 - + Wikipedia - + Bgee:AN @@ -38853,7 +38762,7 @@ plexiform layer. - + The paraxial mesoderm is the mesoderm located bilaterally adjacent to the notochord and neural tube[GO]. AAO:0010568 EFO:0003515 @@ -38879,7 +38788,7 @@ plexiform layer. paraxial mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + @@ -38892,7 +38801,7 @@ plexiform layer. - + Bgee:AN @@ -38968,7 +38877,7 @@ plexiform layer. - + @@ -39008,7 +38917,7 @@ plexiform layer. lateral plate mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + @@ -39021,7 +38930,7 @@ plexiform layer. - + EHDAA2 VHOG @@ -39071,15 +38980,15 @@ plexiform layer. - - + + - + Bilateral groups of cells consisting of three rows: one row of endocardial precursors medially and two rows of myocardical precursors laterally. The two populations fuse at the midline to form the heart rudiment or cone. should probably be merged with heart rudiment. AAO:0011044 @@ -39096,15 +39005,15 @@ plexiform layer. heart primordium - + - + - + @@ -39117,19 +39026,19 @@ plexiform layer. - + ZFA - + ZFA - + XAO @@ -39158,8 +39067,8 @@ plexiform layer. - - + + Ventral somitic compartment that is a precursor of the axial skeleton[XAO]. Sclerotomes eventually differentiate into the vertebrae and most of the skull. The caudal (posterior) half of one sclerotome fuses with the rostral (anterior) half of the adjacent one to form each vertebra. From their initial location within the somite, the sclerotome cells migrate medially towards the notochord. These cells meet the sclerotome cells from the other side to form the vertebral body. From this vertebral body, sclerotome cells move dorsally and surround the developing spinal cord, forming the vertebral arch[WP]. AAO:0010571 AEO:0000212 @@ -39183,11 +39092,11 @@ plexiform layer. sclerotome http://upload.wikimedia.org/wikipedia/commons/9/96/Gray65.png - + - + @@ -39206,13 +39115,13 @@ plexiform layer. - + VHOG:0000680 - + ZFA @@ -39533,7 +39442,7 @@ plexiform layer. - + Mesenchyme that is part of a developing camera-type eye. TODO - change mesenchyme relationships to precursor_of EHDAA2:0000485 @@ -39545,14 +39454,14 @@ plexiform layer. UBERON:0003314 eye mesenchyme - + - + EHDAA2 @@ -40327,7 +40236,7 @@ plexiform layer. - + The part of the coelom in the embryo between the somatopleuric and splanchnopleuric mesoderm; the principal body cavities of the trunk (thoracic, abdominal, and pelvic) arise from this embryonic part of the coelom. consider merging with coelom. TODO - add spatial relationships to halves of LPM. Note the OG places XAO and ZFA coelem terms here. editor note: TODO check ZFA, which appears to be a structure present in adults EHDAA:251 @@ -40342,14 +40251,14 @@ plexiform layer. intraembryonic coelom - + - + Wikipedia @@ -40442,7 +40351,7 @@ plexiform layer. - + The part of the retina that contains neurons and photoreceptor cells[GO]. AAO:0011095 @@ -40473,14 +40382,14 @@ plexiform layer. retinal neural layer - + - + Bgee:AN @@ -40556,6 +40465,7 @@ plexiform layer. Epithelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues, with tube shape and organization varying from the single-celled excretory organ in Caenorhabditis elegans to the branching trees of the mammalian kidney and insect tracheal system. AEO:0000114 EHDAA2:0003114 + FBbt:00007474 epithelial or endothelial tube uberon UBERON:0003914 @@ -40568,6 +40478,12 @@ plexiform layer. GO:0060562 PMID:12526790 + + + + FBbt:00007474 + + @@ -40726,7 +40642,7 @@ plexiform layer. - + The layer of undifferentiated, proliferating cells that line the neural tube lumen that is the immediate transformation of the germinal neuroepithelium. consider merging with 'ventricular zone'; note that the MA class probably does not belong here, as this is an embryonic structure ependymal layer @@ -40743,7 +40659,7 @@ plexiform layer. neural tube ventricular layer - + @@ -40756,7 +40672,7 @@ plexiform layer. - + NCBIBook:NBK10047 @@ -41158,9 +41074,9 @@ plexiform layer. - - - + + + @@ -41192,34 +41108,34 @@ plexiform layer. optic vesicle http://upload.wikimedia.org/wikipedia/commons/e/e0/Gray863.png - + - + - + - + ZFA - + GO-def - + ZFA @@ -41315,8 +41231,8 @@ plexiform layer. - - + + A specific region of the lateral mesoderm that will form the primary beating heart tube. In mammals the primary heart field gives rise to the left ventricle. XAO:0004185 first heart field @@ -41328,24 +41244,24 @@ plexiform layer. UBERON:0004140 primary heart field - + - + - + GO:0003128 - + https://orcid.org/0000-0003-3308-6245 @@ -41398,7 +41314,7 @@ plexiform layer. - + An epithelial tube that will give rise to the mature heart. AAO:0010411 EFO:0003526 @@ -41417,14 +41333,14 @@ plexiform layer. heart tube - + - + ZFA-modified @@ -41501,7 +41417,7 @@ plexiform layer. - + @@ -41517,14 +41433,14 @@ plexiform layer. eye muscle - + - + MA @@ -41707,7 +41623,7 @@ plexiform layer. - + A transparent homogeneous acellular layer found between the substantia propria and the endothelial layer of the cornea[MP]. EMAPA:18804 @@ -41736,14 +41652,14 @@ plexiform layer. Descemet's membrane https://github.com/obophenotype/uberon/issues/15 - + - + Cline et al @@ -42002,7 +41918,6 @@ plexiform layer. - @@ -42099,7 +42014,6 @@ plexiform layer. - @@ -42384,6 +42298,7 @@ plexiform layer. UBERON:0007012 BILA:0000060 BTO:0001403 + FBbt:00005317 FMA:293108 GAID:1302 MESH:D005775 @@ -42415,6 +42330,12 @@ plexiform layer. Wikipedia:Gastrula Wikipedia:Trilaminar_blastocyst + + + + FBbt:00005317 + + @@ -42488,7 +42409,7 @@ plexiform layer. - + Organ consisting of skeletal tissue. Encompasses whole bones, fused bones, cartilaginious elements, teeth, dermal denticles. AAO:0011129 TAO:0001890 @@ -42502,14 +42423,14 @@ plexiform layer. skeletal element - + - + VSAO @@ -42536,7 +42457,7 @@ plexiform layer. - + @@ -42575,14 +42496,14 @@ plexiform layer. UBERON:0004770 articular system - + - + FMA @@ -42798,6 +42719,7 @@ plexiform layer. Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts. + FBbt:00005811 joint uberon UBERON:0004905 @@ -42810,6 +42732,12 @@ plexiform layer. Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005811 + + @@ -42842,6 +42770,7 @@ plexiform layer. A proximal-distal subdivision of the digestive tract. + FBbt:00100315 FMA:71131 uberon alimentary system subdivision @@ -42860,6 +42789,12 @@ plexiform layer. A proximal-distal subdivision of the digestive tract. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00100315 + + @@ -43147,6 +43082,7 @@ plexiform layer. A structure consisting of multiple cell components but which is not itself a cell and does not have (complete) cells as a part. AAO:0011000 CARO:0001000 + FBbt:00007060 FMA:83115 multi-cell-component structure multi-cell-part structure @@ -43162,6 +43098,12 @@ plexiform layer. A structure consisting of multiple cell components but which is not itself a cell and does not have (complete) cells as a part. CARO:0001000 + + + + FBbt:00007060 + + @@ -43413,7 +43355,7 @@ plexiform layer. - + Portion of primordial embryonic connective tissue of the developing head, consisting of mesenchymal cells supported in interlaminar jelly, that derive mostly from the mesoderm and contribute to head connective tissue, bone and musculature in conjunction with cranial neural crest cells. EFO:0003492 EHDAA2:0000732 @@ -43434,14 +43376,14 @@ plexiform layer. head mesenchyme - + - + EHDAA2 @@ -43499,7 +43441,7 @@ plexiform layer. - + Mesenchyme that is part of a developing trunk. EFO:0003485 EHDAA2:0002092 @@ -43515,14 +43457,14 @@ plexiform layer. trunk mesenchyme - + - + EHDAA2 @@ -43669,6 +43611,7 @@ plexiform layer. An array of photoreceptors and any supporting cells found in an eye. + FBbt:00004200 light-sensitive tissue uberon UBERON:0005388 @@ -43680,6 +43623,12 @@ plexiform layer. An array of photoreceptors and any supporting cells found in an eye. https://orcid.org/0000-0002-6601-2165 + + + + FBbt:00004200 + + @@ -43731,6 +43680,7 @@ plexiform layer. AEO:0000125 CALOHA:TS-2122 EHDAA2:0003125 + FBbt:00007006 FMA:292313 MIAA:0000019 uberon @@ -43741,6 +43691,12 @@ plexiform layer. developing anatomical structure + + + + FBbt:00007006 + + @@ -44023,7 +43979,7 @@ plexiform layer. - + Portion of tissue that is part of the eye and gives rise to the mature, fully layered cornea. TAO:0002188 ZFA:0001688 @@ -44031,7 +43987,7 @@ plexiform layer. UBERON:0005427 corneal primordium - + @@ -44050,7 +44006,7 @@ plexiform layer. - + ZFA @@ -44073,7 +44029,7 @@ plexiform layer. - + Multi-tissue structure that arises from the heart rudiment and will become the heart tube. EHDAA2:0001512 EHDAA:424 @@ -44091,14 +44047,14 @@ plexiform layer. primitive heart tube - + - + ZFA @@ -44189,7 +44145,6 @@ plexiform layer. - @@ -44289,7 +44244,7 @@ plexiform layer. - + A delimited region of dense mesenchyme within looser mesenchyme. AEO:0000148 EHDAA2_RETIRED:0003148 @@ -44299,7 +44254,7 @@ plexiform layer. UBERON:0005856 developing mesenchymal condensation - + @@ -44318,7 +44273,7 @@ plexiform layer. - + AEO-modified-relation @@ -44339,7 +44294,6 @@ plexiform layer. - @@ -44376,8 +44330,8 @@ plexiform layer. - - + + @@ -44394,11 +44348,11 @@ plexiform layer. UBERON:0005908 conjunctival sac - + - + @@ -44411,13 +44365,13 @@ plexiform layer. - + FMA - + HPO:pr @@ -44659,7 +44613,7 @@ plexiform layer. - + @@ -44682,14 +44636,14 @@ plexiform layer. future diencephalon - + - + EHDAA2 @@ -44865,7 +44819,7 @@ plexiform layer. - + @@ -44889,14 +44843,14 @@ plexiform layer. future spinal cord - + - + EHDAA2 @@ -44933,7 +44887,7 @@ plexiform layer. - + The notochordal plate is the dorsal part of the notochordal process when the ventral portion breaks down. It is continuous laterally with the endoderm that composes the roof of the primitive foregut and is in contact dorsally with the neural tube. The folding off of the notochordal plate gives rise to the notochord. TODO - check ordering; awaiting confirmation from JB EHDAA2:0001278 @@ -44947,7 +44901,7 @@ plexiform layer. notochordal plate - + @@ -44960,7 +44914,7 @@ plexiform layer. - + EHDAA2 @@ -44988,7 +44942,7 @@ plexiform layer. - + A midline cellular cord formed from the migration of mesenchymal cells from the primitive knot. EHDAA2:0001279 EHDAA:224 @@ -45005,14 +44959,14 @@ plexiform layer. The notochordal process grows cranially until it reaches the prechordal plate, the future site of the mouth. In this area the ectoderm is attached directly to the endoderm without intervening mesoderm. This area is known as the oropharyngeal membrane, and it will break down to become the mouth. At the other end of the primitive streak the ectoderm is also fused directly to the endoderm; this is known as the cloacal membrane (proctodeum), or primordial anus. notochordal process - + - + EHDAA2 @@ -45593,7 +45547,6 @@ plexiform layer. - @@ -46054,8 +46007,8 @@ plexiform layer. - - + + @@ -46081,24 +46034,24 @@ plexiform layer. presumptive hindbrain - + - + - + XAO-abduced - + cjm @@ -46149,7 +46102,7 @@ plexiform layer. - + @@ -46168,14 +46121,14 @@ plexiform layer. presumptive midbrain hindbrain boundary - + - + ZFA @@ -46321,7 +46274,7 @@ plexiform layer. - + @@ -46347,7 +46300,7 @@ plexiform layer. presumptive paraxial mesoderm - + @@ -46363,7 +46316,7 @@ plexiform layer. - + https://github.com/obophenotype/uberon/issues/1277 @@ -46445,7 +46398,7 @@ plexiform layer. - + A neural decussation that is part of a diencephalon. FMA:62446 diencephalon decussation @@ -46453,7 +46406,7 @@ plexiform layer. UBERON:0007425 decussation of diencephalon - + @@ -46466,7 +46419,7 @@ plexiform layer. - + Obol @@ -46541,7 +46494,7 @@ plexiform layer. - + Mesenchyme with little extracellular matrix. AEO:0000146 EHDAA2:0003146 @@ -46549,7 +46502,7 @@ plexiform layer. UBERON:0007524 dense mesenchyme tissue - + @@ -46562,7 +46515,7 @@ plexiform layer. - + AEO @@ -46741,6 +46694,7 @@ plexiform layer. AEO:0000170 EFO:0001649 EHDAA2:0003170 + FBbt:00005426 Wikipedia:Anlage_(biology) developmental field uberon @@ -46770,6 +46724,12 @@ plexiform layer. FBbt:00005426 http://flybase.org/reports/FBrf0178740.html + + + + FBbt:00005426 + + @@ -46794,7 +46754,7 @@ plexiform layer. - + An axon tract that is part of a brain. the NIFSTD class 'nerve tract' is classified under 'regional part of brain', so it may seem like it belongs here, but actually includes spinal cord tracts FMA:83848 @@ -46804,14 +46764,14 @@ plexiform layer. UBERON:0007702 tract of brain - + - + cjm @@ -46839,7 +46799,7 @@ plexiform layer. - + Anatomical system that consists of all blood and lymph vessels. consider merging with vasculature @@ -46856,14 +46816,14 @@ plexiform layer. vascular system - + - + MA @@ -46984,7 +46944,7 @@ plexiform layer. - + @@ -47001,14 +46961,14 @@ plexiform layer. UBERON:0009142 entire embryonic mesenchyme - + - + EHDAA2 @@ -47104,7 +47064,7 @@ plexiform layer. - + @@ -47120,14 +47080,14 @@ plexiform layer. UBERON:0009615 midbrain hindbrain boundary neural plate - + - + ZFA @@ -47160,14 +47120,14 @@ plexiform layer. - + - + @@ -47192,24 +47152,24 @@ plexiform layer. presumptive midbrain - + - + - + ZFA - + ZFA @@ -47255,7 +47215,7 @@ plexiform layer. - + EHDAA2:0002094 trunk and cervical paraxial mesenchyme uberon @@ -47263,14 +47223,14 @@ plexiform layer. UBERON:0009618 trunk paraxial mesoderm - + - + EHDAA2 @@ -47293,7 +47253,7 @@ plexiform layer. - + EFO:0003704 TAO:0005041 ZFA:0005041 @@ -47303,14 +47263,14 @@ plexiform layer. anterior lateral plate mesoderm - + - + ZFA @@ -47366,14 +47326,14 @@ plexiform layer. - + EHDAA2:0001315 EHDAA:1122 uberon UBERON:0009920 optic neural crest - + @@ -47386,7 +47346,7 @@ plexiform layer. - + EHDAA2 @@ -47424,6 +47384,7 @@ plexiform layer. CARO:0010000 + FBbt:00100313 multicellular structure uberon UBERON:0010000 @@ -47437,6 +47398,12 @@ plexiform layer. An anatomical structure that has more than one cell as a part. CARO:0010000 + + + + FBbt:00100313 + + @@ -47520,7 +47487,7 @@ plexiform layer. - + @@ -47543,14 +47510,14 @@ plexiform layer. eyeball of camera-type eye - + - + FMA @@ -47591,8 +47558,8 @@ plexiform layer. - - + + Portion of tissue that is dorsolateral to the floor plate and part of the midbrain. DHBA:12322 EFO:0003567 @@ -47606,11 +47573,11 @@ plexiform layer. midbrain basal plate - + - + @@ -47623,13 +47590,13 @@ plexiform layer. - + EHDAA2 - + ZFA @@ -47658,7 +47625,7 @@ plexiform layer. - + Portion of neural tube that gives rise to the midbrain. we follow ZFA in temporally dividing midbrain NT from presumptive midbrain, but in future this may be collapsed TAO:0007039 @@ -47667,14 +47634,14 @@ plexiform layer. UBERON:0010286 midbrain neural tube - + - + ZFA @@ -47977,8 +47944,8 @@ plexiform layer. - - + + Anatomical cluster consisting of the skeletal elements (i.e. bone elements, cartilage elements, cartilage condensations) that are part of an individual subdivision of the organism. Excludes joints. FMA:23879 SCTID:129140006 @@ -47990,11 +47957,11 @@ plexiform layer. subdivision of skeleton - + - + @@ -48007,13 +47974,13 @@ plexiform layer. - + UBERONREF:0000003 - + VSAO @@ -48074,7 +48041,7 @@ plexiform layer. - + Subdivision of the skeletal system which consists of the postcranial axial skeleton plus associated joints. axial skeletal system FMA:302077 @@ -48084,7 +48051,7 @@ plexiform layer. postcranial axial skeletal system http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton - + @@ -48097,7 +48064,7 @@ plexiform layer. - + cjm @@ -48183,6 +48150,7 @@ plexiform layer. + FBbt:00007330 FMA:67509 SCTID:91690000 uberon @@ -48204,6 +48172,12 @@ plexiform layer. A subdivision of an anatomical system. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00007330 + + @@ -48212,7 +48186,7 @@ plexiform layer. - + AAO:0010038 EMAPA:18808 FMA:49150 @@ -48222,14 +48196,14 @@ plexiform layer. UBERON:0011222 intra-ocular muscle - + - + EMAPA @@ -48491,7 +48465,7 @@ plexiform layer. - + @@ -48533,7 +48507,7 @@ plexiform layer. anterior uvea - + @@ -48546,7 +48520,7 @@ plexiform layer. - + MP @@ -48677,7 +48651,6 @@ plexiform layer. - @@ -49073,6 +49046,7 @@ plexiform layer. An anatomical group whose component structures share a common function. AEO:0000093 + FBbt:00007278 uberon UBERON:0015203 non-connected functional system @@ -49086,6 +49060,12 @@ plexiform layer. FBC:DOS FBbt:00007278 + + + + FBbt:00007278 + + @@ -49333,7 +49313,7 @@ plexiform layer. - + @@ -49356,7 +49336,7 @@ plexiform layer. UBERON:0016887 entire extraembryonic component - + @@ -49369,7 +49349,7 @@ plexiform layer. - + AEO @@ -49838,6 +49818,7 @@ plexiform layer. CARO:0020000 + FBbt:00007276 uberon UBERON:0034923 @@ -49855,6 +49836,12 @@ plexiform layer. Material anatomical entity consisting of multiple anatomical structures that are not connected to each other. CARO:0020000 + + + + FBbt:00007276 + + @@ -50348,781 +50335,6 @@ plexiform layer. - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - If a molecular function (X) has a regulatory subfunction, then any gene product which is an input to that subfunction has an activity that directly_regulates X. Note: this is intended for cases where the regaultory subfunction is protein binding, so it could be tightened with an additional clause to specify this. - inferring direct reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - inferring direct neg reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - inferring direct positive reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - effector input is compound function input - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Input of effector is input of its parent MF - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly regulates X, its parent MF directly regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly positively regulates X, its parent MF directly positively regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly negatively regulates X, its parent MF directly negatively regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - 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+_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid70 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid708 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid73 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid760 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid779 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid795 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid802 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid813 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid819 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid836 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid842 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid851 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid861 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid909 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid959 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid969 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid976 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid983 +_:B8a48f5f4X2D2068X2D44f9X2Daa24X2D5b1a69e75fddgenid990 "cell" "neural crest derived fibroblast" "neuronal receptor cell" @@ -852,7 +843,6 @@ _:B4f14f866X2Da756X2D48e6X2D9c37X2D1d31e14ff4c3genid996 "integrin alpha" "Mus musculus protein" "eukaryotic protein" - "protein-containing material entity" "processual entity" "camera-type eye" "sense organ" diff --git a/subsets/general_cell_types_upper_slim.json b/subsets/general_cell_types_upper_slim.json index 1f330c5ba..effd7a8d6 100644 --- a/subsets/general_cell_types_upper_slim.json +++ b/subsets/general_cell_types_upper_slim.json @@ -4,68 +4,11 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", - "val" : "2024-04-05" + "val" : "2024-05-15" } ], - "version" : "http://purl.obolibrary.org/obo/cl/releases/2024-04-05/subsets/general_cell_types_upper_slim.owl" + "version" : "http://purl.obolibrary.org/obo/cl/releases/2024-05-15/subsets/general_cell_types_upper_slim.owl" }, "nodes" : [ { - "id" : "http://purl.obolibrary.org/obo/BFO_0000002", - "lbl" : "continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000003", - "lbl" : "occurrent", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An entity that has temporal parts and that happens, unfolds or develops through time." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000004", - "lbl" : "independent continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" - }, - "comments" : [ "A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000015", - "lbl" : "process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" - }, - "comments" : [ "An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000020", - "lbl" : "specifically dependent continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" - }, - "comments" : [ "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000040", - "lbl" : "material entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." - } - } - }, { "id" : "http://purl.obolibrary.org/obo/BFO_0000050", "lbl" : "part_of", "type" : "PROPERTY", @@ -218,10 +161,6 @@ }, "comments" : [ "Paraphrase of definition: a relation between an independent continuant and a process, in which the process takes place entirely within the independent continuant" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000141", - "lbl" : "immaterial entity", - "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/CL_0000000", "lbl" : "cell", @@ -251,6 +190,8 @@ "val" : "WBbt:0004017" }, { "val" : "XAO:0003012" + }, { + "val" : "ZFA:0009000" } ] } }, { @@ -258,10 +199,17 @@ "lbl" : "neuronal receptor cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any sensory receptor cell that is a(n) neuron and is capable of some detection of stimulus involved in sensory perception.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "neuronal receptor cell (sensu Animalia)" + } ], + "xrefs" : [ { + "val" : "ZFA:0009001" } ] } }, { @@ -272,7 +220,10 @@ "definition" : { "val" : "A cell found in the embryo before the formation of all the gem layers is complete.", "xrefs" : [ "GOC:tfm" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009002" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000034", @@ -293,6 +244,8 @@ "val" : "CALOHA:TS-2086" }, { "val" : "FMA:63368" + }, { + "val" : "ZFA:0005957" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -334,6 +287,8 @@ "val" : "MESH:D006412" }, { "val" : "VHOG:0001485" + }, { + "val" : "ZFA:0009014" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -350,7 +305,10 @@ "xrefs" : [ "GOC:tfm", "ISBN:0721662544" ] }, "comments" : [ "Originally this term had some plant germ line cell children." ], - "subsets" : [ "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim", "http://purl.obolibrary.org/obo/ubprop#_upper_level" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim", "http://purl.obolibrary.org/obo/ubprop#_upper_level" ], + "xrefs" : [ { + "val" : "ZFA:0009016" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000040", @@ -380,6 +338,8 @@ "val" : "CALOHA:TS-1195" }, { "val" : "FMA:83553" + }, { + "val" : "ZFA:0009017" } ] } }, { @@ -406,6 +366,8 @@ } ], "xrefs" : [ { "val" : "FMA:84789" + }, { + "val" : "ZFA:0009020" } ] } }, { @@ -456,6 +418,8 @@ } ], "xrefs" : [ { "val" : "BTO:0004730" + }, { + "val" : "ZFA:0009021" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -503,6 +467,9 @@ "pred" : "hasRelatedSynonym", "val" : "lymphopoietic stem cell" } ], + "xrefs" : [ { + "val" : "ZFA:0009023" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -525,6 +492,8 @@ "val" : "FMA:84790" }, { "val" : "MESH:D039901" + }, { + "val" : "ZFA:0009024" } ] } }, { @@ -567,6 +536,8 @@ "val" : "FMA:70335" }, { "val" : "VHOG:0001529" + }, { + "val" : "ZFA:0009025" } ] } }, { @@ -590,6 +561,8 @@ "val" : "NCIT:C12482" }, { "val" : "VHOG:0001482" + }, { + "val" : "ZFA:0009026" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -622,6 +595,8 @@ "val" : "FMA:66768" }, { "val" : "WBbt:0003672" + }, { + "val" : "ZFA:0009034" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -641,6 +616,9 @@ "xrefs" : [ "GO:0002065", "https://orcid.org/0000-0001-5208-3432" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], + "xrefs" : [ { + "val" : "ZFA:0009038" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -660,6 +638,8 @@ "val" : "FMA:62844" }, { "val" : "MESH:D001773" + }, { + "val" : "ZFA:0009044" } ] } }, { @@ -698,6 +678,8 @@ "val" : "MESH:D013601" }, { "val" : "VHOG:0001479" + }, { + "val" : "ZFA:0009046" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -727,6 +709,8 @@ "val" : "FMA:66781" }, { "val" : "MESH:D010010" + }, { + "val" : "ZFA:0009047" } ] } }, { @@ -757,6 +741,8 @@ "val" : "CALOHA:TS-0422" }, { "val" : "FMA:62854" + }, { + "val" : "ZFA:0009048" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -792,6 +778,8 @@ "val" : "FMA:83617" }, { "val" : "WBbt:0005409" + }, { + "val" : "ZFA:0009052" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -807,6 +795,7 @@ "val" : "Any neuron having a sensory function; an afferent neuron conveying sensory impulses.", "xrefs" : [ "ISBN:0721662544" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "xrefs" : [ { "val" : "BTO:0001037" }, { @@ -817,6 +806,12 @@ "val" : "MESH:D011984" }, { "val" : "WBbt:0005759" + }, { + "val" : "ZFA:0009053" + } ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" } ] } }, { @@ -831,6 +826,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "xrefs" : [ { "val" : "BTO:0001433" + }, { + "val" : "ZFA:0009064" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -847,7 +844,7 @@ "xrefs" : [ "MESH:D009457" ] }, "comments" : [ "Not all glial cells develop from glioblasts, with microglia developing from the mesoderm instead. See https://github.com/obophenotype/cell-ontology/issues/1571" ], - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "neuroglial cell" @@ -863,6 +860,12 @@ "val" : "FBbt:00005144" }, { "val" : "FMA:54536" + }, { + "val" : "ZFA:0009073" + } ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" } ] } }, { @@ -877,6 +880,9 @@ "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "neurectoderm cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009080" } ] } }, { @@ -943,6 +949,8 @@ "val" : "BTO:0003298" }, { "val" : "FMA:70546" + }, { + "val" : "ZFA:0009081" } ], "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", @@ -972,6 +980,8 @@ "val" : "CALOHA:TS-0012" }, { "val" : "FMA:63880" + }, { + "val" : "ZFA:0009082" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -993,6 +1003,9 @@ "synonymType" : "http://purl.obolibrary.org/obo/OMO_0003000", "pred" : "hasRelatedSynonym", "val" : "APC" + } ], + "xrefs" : [ { + "val" : "ZFA:0009088" } ] } }, { @@ -1013,6 +1026,8 @@ } ], "xrefs" : [ { "val" : "VHOG:0001678" + }, { + "val" : "ZFA:0009090" } ] } }, { @@ -1039,6 +1054,8 @@ "val" : "MESH:D008544" }, { "val" : "VHOG:0001679" + }, { + "val" : "ZFA:0009091" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1083,6 +1100,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim" ], "xrefs" : [ { "val" : "FMA:16014" + }, { + "val" : "ZFA:0009092" } ] } }, { @@ -1101,6 +1120,8 @@ } ], "xrefs" : [ { "val" : "FMA:83809" + }, { + "val" : "ZFA:0009096" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1147,6 +1168,8 @@ "val" : "FMA:67328" }, { "val" : "WBbt:0003675" + }, { + "val" : "ZFA:0009114" } ], "basicPropertyValues" : [ { "pred" : "http://xmlns.com/foaf/0.1/depiction", @@ -1173,6 +1196,8 @@ "val" : "CALOHA:TS-2158" }, { "val" : "FMA:9727" + }, { + "val" : "ZFA:0009115" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1210,6 +1235,8 @@ "val" : "CALOHA:TS-2159" }, { "val" : "FMA:14072" + }, { + "val" : "ZFA:0009118" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1246,8 +1273,12 @@ "val" : "BTO:0001060" }, { "val" : "CALOHA:TS-0868" + }, { + "val" : "FBbt:00004211" }, { "val" : "FMA:86740" + }, { + "val" : "ZFA:0009127" } ], "basicPropertyValues" : [ { "pred" : "http://xmlns.com/foaf/0.1/depiction", @@ -1262,7 +1293,10 @@ "definition" : { "val" : "A cell whose function is determined by the generation or the reception of an electric signal.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009128" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000219", @@ -1272,7 +1306,10 @@ "definition" : { "val" : "A cell that moves by its own activities.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009136" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000221", @@ -1289,6 +1326,8 @@ } ], "xrefs" : [ { "val" : "FMA:72549" + }, { + "val" : "ZFA:0009137" } ] } }, { @@ -1310,6 +1349,8 @@ } ], "xrefs" : [ { "val" : "FMA:72554" + }, { + "val" : "ZFA:0009138" } ] } }, { @@ -1327,6 +1368,8 @@ } ], "xrefs" : [ { "val" : "FMA:72555" + }, { + "val" : "ZFA:0009139" } ] } }, { @@ -1380,6 +1423,8 @@ "val" : "FMA:83806" }, { "val" : "MESH:D010586" + }, { + "val" : "ZFA:0009140" } ] } }, { @@ -1407,6 +1452,8 @@ "val" : "FMA:83585" }, { "val" : "MESH:D008264" + }, { + "val" : "ZFA:0009141" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1443,6 +1490,8 @@ "val" : "MESH:D001402" }, { "val" : "VHOG:0001480" + }, { + "val" : "ZFA:0009142" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1454,6 +1503,10 @@ "lbl" : "eukaryotic cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any cell that only exists in Eukaryota.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "MESH:D005057" @@ -1473,7 +1526,12 @@ }, { "id" : "http://purl.obolibrary.org/obo/CL_0000327", "lbl" : "extracellular matrix secreting cell", - "type" : "CLASS" + "type" : "CLASS", + "meta" : { + "xrefs" : [ { + "val" : "ZFA:0009162" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000333", "lbl" : "migratory neural crest cell", @@ -1485,6 +1543,8 @@ }, "xrefs" : [ { "val" : "FMA:86667" + }, { + "val" : "ZFA:0007086" } ] } }, { @@ -1492,7 +1552,14 @@ "lbl" : "extraembryonic cell", "type" : "CLASS", "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim" ] + "definition" : { + "val" : "Any cell that is part of some extraembryonic structure.", + "xrefs" : [ "FBC:Autogenerated" ] + }, + "subsets" : [ "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim" ], + "xrefs" : [ { + "val" : "ZFA:0009176" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000352", @@ -1516,6 +1583,8 @@ "comments" : [ "Multi-potency demonstrated ex vivo. At the time of writing, it is unclear whether the endogenous population differentiates into multiple cell types in vivo." ], "xrefs" : [ { "val" : "FMA:86767" + }, { + "val" : "ZFA:0009179" } ] } }, { @@ -1547,7 +1616,10 @@ "definition" : { "val" : "A cell whose function is determined by its response to an electric signal.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009190" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000404", @@ -1557,7 +1629,10 @@ "definition" : { "val" : "A cell that initiates an electrical signal and passes that signal to another cell.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009193" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000451", @@ -1584,6 +1659,8 @@ "val" : "FMA:83036" }, { "val" : "MESH:D003713" + }, { + "val" : "ZFA:0009209" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1614,6 +1691,8 @@ "val" : "BTO:0002064" }, { "val" : "FMA:83624" + }, { + "val" : "ZFA:0009226" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1639,6 +1718,8 @@ } ], "xrefs" : [ { "val" : "FMA:84797" + }, { + "val" : "ZFA:0009234" } ] } }, { @@ -1661,6 +1742,8 @@ } ], "xrefs" : [ { "val" : "FMA:84798" + }, { + "val" : "ZFA:0009235" } ] } }, { @@ -1678,6 +1761,8 @@ } ], "xrefs" : [ { "val" : "FMA:84799" + }, { + "val" : "ZFA:0009236" } ] } }, { @@ -1706,6 +1791,8 @@ } ], "xrefs" : [ { "val" : "FMA:87653" + }, { + "val" : "ZFA:0009238" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1724,6 +1811,9 @@ "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "output neuron" + } ], + "xrefs" : [ { + "val" : "ZFA:0009239" } ] } }, { @@ -1753,6 +1843,8 @@ "val" : "VHOG:0001483" }, { "val" : "WBbt:0003679" + }, { + "val" : "ZFA:0009248" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1776,6 +1868,8 @@ "val" : "BTO:0003217" }, { "val" : "FMA:83377" + }, { + "val" : "ZFA:0009249" } ] } }, { @@ -1799,6 +1893,8 @@ "val" : "MESH:D008214" }, { "val" : "VHOG:0001535" + }, { + "val" : "ZFA:0009250" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1845,6 +1941,9 @@ "val" : "GMP", "xrefs" : [ "ISBN:0721601464", "PMCID:PMC2213186", "PMCID:PMC548021" ] } ], + "xrefs" : [ { + "val" : "ZFA:0009251" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -1865,6 +1964,8 @@ "val" : "BTO:0004657" }, { "val" : "FMA:83551" + }, { + "val" : "ZFA:0009253" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1887,6 +1988,9 @@ }, { "pred" : "hasExactSynonym", "val" : "chondroplast" + } ], + "xrefs" : [ { + "val" : "ZFA:0009258" } ] } }, { @@ -1906,6 +2010,8 @@ "val" : "CALOHA:TS-0638" }, { "val" : "FMA:62864" + }, { + "val" : "ZFA:0009265" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1946,6 +2052,8 @@ "val" : "MESH:D007694" }, { "val" : "VHOG:0001697" + }, { + "val" : "ZFA:0009278" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1961,7 +2069,10 @@ "val" : "A non-terminally differentiated cell that is capable of developing into a muscle cell.", "xrefs" : [ "GOC:add" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], + "xrefs" : [ { + "val" : "ZFA:0009291" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000723", @@ -1976,6 +2087,8 @@ "val" : "CALOHA:TS-2086" }, { "val" : "MESH:D053687" + }, { + "val" : "ZFA:0009307" } ] } }, { @@ -1993,6 +2106,8 @@ "val" : "CALOHA:TS-2157" }, { "val" : "FMA:86936" + }, { + "val" : "ZFA:0005784" } ] } }, { @@ -2025,6 +2140,8 @@ "val" : "MESH:D007962" }, { "val" : "NCIT:C12529" + }, { + "val" : "ZFA:0009309" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2067,6 +2184,8 @@ "val" : "FMA:14067" }, { "val" : "MESH:D032383" + }, { + "val" : "ZFA:0009316" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2092,6 +2211,8 @@ "val" : "CALOHA:TS-0647" }, { "val" : "MESH:D022423" + }, { + "val" : "ZFA:0009324" } ] } }, { @@ -2103,67 +2224,9 @@ "val" : "A cell of the monocyte, granulocyte, or mast cell lineage.", "xrefs" : [ "GOC:add" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/CL_0000775", - "lbl" : "neutrophil", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any of the immature or mature forms of a granular leukocyte that in its mature form has a nucleus with three to five lobes connected by slender threads of chromatin, and cytoplasm containing fine inconspicuous granules and stainable by neutral dyes.", - "xrefs" : [ "GOC:add", "GOC:amm", "GOC:tfm", "ISBN:0721601464" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim", "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], - "synonyms" : [ { - "pred" : "hasBroadSynonym", - "val" : "PMN" - }, { - "pred" : "hasBroadSynonym", - "val" : "poly" - }, { - "pred" : "hasBroadSynonym", - "val" : "polymorphonuclear leucocyte" - }, { - "pred" : "hasBroadSynonym", - "val" : "polymorphonuclear leukocyte" - }, { - "pred" : "hasBroadSynonym", - "val" : "polymorphonuclear neutrophil" - }, { - "pred" : "hasBroadSynonym", - "val" : "polynuclear neutrophilic leucocyte" - }, { - "pred" : "hasBroadSynonym", - "val" : "polynuclear neutrophilic leukocyte" - }, { - "pred" : "hasExactSynonym", - "val" : "neutrocyte" - }, { - "pred" : "hasExactSynonym", - "val" : "neutrophil leucocyte" - }, { - "pred" : "hasExactSynonym", - "val" : "neutrophil leukocyte" - }, { - "pred" : "hasExactSynonym", - "val" : "neutrophilic leucocyte" - }, { - "pred" : "hasExactSynonym", - "val" : "neutrophilic leukocyte" - } ], + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { - "val" : "BTO:0000130" - }, { - "val" : "CALOHA:TS-0688" - }, { - "val" : "FMA:62860" - }, { - "val" : "MESH:D009504" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0002175", - "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + "val" : "ZFA:0009326" } ] } }, { @@ -2222,6 +2285,9 @@ "pred" : "hasRelatedSynonym", "val" : "preNK cell", "xrefs" : [ "PMID:11532393" ] + } ], + "xrefs" : [ { + "val" : "ZFA:0009348" } ] } }, { @@ -2267,6 +2333,8 @@ } ], "xrefs" : [ { "val" : "BTO:0003104" + }, { + "val" : "ZFA:0009349" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2298,6 +2366,9 @@ }, { "pred" : "hasNarrowSynonym", "val" : "TN1 cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009350" } ] } }, { @@ -2322,6 +2393,8 @@ "val" : "BTO:0000725" }, { "val" : "CALOHA:TS-0448" + }, { + "val" : "ZFA:0009354" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2349,6 +2422,8 @@ "val" : "CALOHA:TS-2025" }, { "val" : "FMA:70338" + }, { + "val" : "ZFA:0009355" } ] } }, { @@ -2372,6 +2447,8 @@ "val" : "CALOHA:TS-2099" }, { "val" : "FMA:70339" + }, { + "val" : "ZFA:0009356" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -2401,6 +2478,8 @@ "val" : "CALOHA:TS-0768" }, { "val" : "FMA:86713" + }, { + "val" : "ZFA:0009357" } ] } }, { @@ -2447,6 +2526,8 @@ "val" : "FMA:70366" }, { "val" : "FMA:83598" + }, { + "val" : "ZFA:0005830" } ] } }, { @@ -2644,6 +2725,8 @@ }, "xrefs" : [ { "val" : "FMA:69074" + }, { + "val" : "ZFA:0009385" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2758,6 +2841,8 @@ "val" : "FMA:63875" }, { "val" : "MESH:D003239" + }, { + "val" : "ZFA:0009392" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2782,6 +2867,8 @@ "val" : "FMA:82840" }, { "val" : "WBbt:0007028" + }, { + "val" : "ZFA:0007089" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2881,6 +2968,9 @@ "val" : "Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells.", "xrefs" : [ "UBERONREF:0000002" ] }, + "xrefs" : [ { + "val" : "ZFA:0007084" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0001-9114-8737" @@ -2990,6 +3080,10 @@ "lbl" : "cardiac myoblast", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any myoblast that develops into some cardiac muscle cell.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "xrefs" : [ { "val" : "MESH:D032386" } ] @@ -3144,34 +3238,6 @@ "val" : "results_in_fission_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0000003", - "lbl" : "reproduction", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms.", - "xrefs" : [ "GOC:go_curators", "GOC:isa_complete", "GOC:jl", "ISBN:0198506732" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "reproductive physiological process" - } ], - "xrefs" : [ { - "val" : "Wikipedia:Reproduction" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0019952" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0050876" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000323", "lbl" : "lytic vacuole", @@ -4107,7 +4173,7 @@ "xrefs" : [ "GOC:go_curators" ] }, "comments" : [ "Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "extracellular" @@ -4236,7 +4302,7 @@ "val" : "A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell nucleus" @@ -4265,7 +4331,7 @@ "xrefs" : [ "ISBN:0198547684" ] }, "comments" : [ "Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "interphase chromosome" @@ -4313,7 +4379,7 @@ "val" : "The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.", "xrefs" : [ "ISBN:0198547684" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "xrefs" : [ { "val" : "Wikipedia:Cytoplasm" } ], @@ -4374,7 +4440,7 @@ "val" : "A closed structure, found only in eukaryotic cells, that is completely surrounded by unit membrane and contains liquid material. Cells contain one or several vacuoles, that may have different functions from each other. Vacuoles have a diverse array of functions. They can act as a storage organelle for nutrients or waste products, as a degradative compartment, as a cost-effective way of increasing cell size, and as a homeostatic regulator controlling both turgor pressure and pH of the cytosol.", "xrefs" : [ "GOC:mtg_sensu", "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "vacuolar carboxypeptidase Y" @@ -4396,7 +4462,7 @@ "val" : "The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.", "xrefs" : [ "ISBN:0716731363" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "juxtamembrane" @@ -4486,7 +4552,7 @@ "val" : "Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "DNA metabolism" @@ -4511,7 +4577,7 @@ "val" : "Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Interchromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -4527,7 +4593,7 @@ "xrefs" : [ "GOC:dos", "GOC:dph", "GOC:jl", "GOC:mah" ] }, "comments" : [ "Note that this term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term, for e.g. to transmembrane transport, to microtubule-based transport or to vesicle-mediated transport." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "single-organism transport" @@ -4779,7 +4845,8 @@ "val" : "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "organelle organisation" @@ -4796,6 +4863,9 @@ "val" : "single-organism organelle organization" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -5119,7 +5189,7 @@ "xrefs" : [ "GOC:go_curators", "ISBN:0198547684" ] }, "comments" : [ "Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "metabolism" @@ -5140,6 +5210,9 @@ "val" : "Wikipedia:Metabolism" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/26424" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -5165,7 +5238,7 @@ "val" : "The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.", "xrefs" : [ "GOC:curators", "ISBN:0198547684" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "formation" @@ -5214,7 +5287,8 @@ "val" : "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "biopolymer biosynthetic process", @@ -5238,6 +5312,9 @@ }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/25418" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0043284" @@ -5368,7 +5445,7 @@ "xrefs" : [ "GOC:hb" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "response to environmental stimulus" @@ -5388,7 +5465,7 @@ "xrefs" : [ "GOC:hb" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "response to biotic stress" @@ -5408,7 +5485,7 @@ "xrefs" : [ "GOC:hb" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "response to abiotic stress" @@ -5457,7 +5534,7 @@ "val" : "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant.", "xrefs" : [ "GOC:go_curators", "GOC:isa_complete", "GOC:mtg_sensu" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "embryogenesis and morphogenesis" @@ -5772,7 +5849,7 @@ "val" : "A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component.", "xrefs" : [ "GOC:ai", "GOC:jl", "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell organisation" @@ -5838,7 +5915,7 @@ "val" : "A cellular transport process in which transported substances are moved in membrane-bounded vesicles; transported substances are enclosed in the vesicle lumen or located in the vesicle membrane. The process begins with a step that directs a substance to the forming vesicle, and includes vesicle budding and coating. Vesicles are then targeted to, and fuse with, an acceptor membrane.", "xrefs" : [ "GOC:ai", "GOC:mah", "ISBN:08789310662000" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_pombe" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_pombe" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "vesicle transport" @@ -5891,6 +5968,9 @@ "xrefs" : [ "GOC:ma" ] }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002161", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_4751" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -6077,12 +6157,18 @@ "val" : "A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents.", "xrefs" : [ "GOC:dph", "GOC:isa_complete" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_generic" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "single organism reproductive process" } ], + "xrefs" : [ { + "val" : "Wikipedia:Reproduction" + } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27054" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -6121,7 +6207,7 @@ "xrefs" : [ "GOC:mtg_signal", "GOC:mtg_signaling_feb11", "GOC:signaling" ] }, "comments" : [ "Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "biological signaling" @@ -6401,7 +6487,7 @@ "val" : "The cellular developmental process in which a relatively unspecialized cell, e.g. embryonic or regenerative cell, acquires specialized structural and/or functional features that characterize a specific cell. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "xrefs" : [ { "val" : "Wikipedia:Cellular_differentiation" } ], @@ -6545,7 +6631,7 @@ "val" : "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues.", "xrefs" : [ "GOC:BHF", "GOC:mah", "GOC:rph", "NIF_Subcellular:nlx_subcell_20090513", "PMID:21123617", "PMID:28089324" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "proteinaceous extracellular matrix" @@ -6748,6 +6834,7 @@ "val" : "Any biological process, occurring at the level of a multicellular organism, pertinent to its function.", "xrefs" : [ "GOC:curators", "GOC:dph", "GOC:isa_complete", "GOC:tb" ] }, + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", @@ -6757,6 +6844,9 @@ "val" : "single-multicellular organism process" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://purl.obolibrary.org/obo/RO_0002161", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_2" }, { @@ -6886,7 +6976,7 @@ "xrefs" : [ "GOC:dos", "GOC:mah" ] }, "comments" : [ "A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "macromolecular complex" @@ -7182,14 +7272,17 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Primary lysosomal granule found in neutrophil granulocytes. Contains a wide range of hydrolytic enzymes and is released into the extracellular fluid.", - "xrefs" : [ "GOC:jl", "PMID:17152095" ] + "val" : "Primary lysosomal granule readily stainable with a Romanowsky stain.", + "xrefs" : [ "GOC:jl", "PMID:17152095", "PMID:28717070", "PMID:5914694", "WIKIPEDIA:Azurophilic_granule" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "primary granule" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27231" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] @@ -7275,7 +7368,7 @@ "val" : "A prolongation or process extending from a cell, e.g. a flagellum or axon.", "xrefs" : [ "GOC:jl", "http://www.cogsci.princeton.edu/~wn/" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "cell process" @@ -7386,7 +7479,7 @@ "val" : "Organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton, and prokaryotic structures such as anammoxosomes and pirellulosomes. Excludes the plasma membrane.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "xrefs" : [ { "val" : "NIF_Subcellular:sao1539965131" }, { @@ -7516,7 +7609,7 @@ } }, { "id" : "http://purl.obolibrary.org/obo/GO_0043292", - "lbl" : "contractile fiber", + "lbl" : "contractile muscle fiber", "type" : "CLASS", "meta" : { "definition" : { @@ -7528,6 +7621,9 @@ "val" : "contractile fibre" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27281" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] @@ -7565,6 +7661,8 @@ "val" : "The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells.", "xrefs" : [ "GOC:jl" ] }, + "comments" : [ "This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular anabolism" @@ -7579,6 +7677,9 @@ "val" : "cellular synthesis" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27052" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -7654,7 +7755,7 @@ "val" : "The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane.", "xrefs" : [ "GOC:aruk", "ISBN:0198506732", "PMID:24619342", "PMID:29383328", "PMID:31998110" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_synapse" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_synapse" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "synaptic junction" @@ -7952,7 +8053,7 @@ "xrefs" : [ "GOC:jid" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -8072,7 +8173,7 @@ "val" : "The biological process whose specific outcome is the progression of an anatomical structure from an initial condition to its mature state. This process begins with the formation of the structure and ends with the mature structure, whatever form that may be including its natural destruction. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome.", "xrefs" : [ "GO_REF:0000021" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "development of an anatomical structure" @@ -8108,7 +8209,7 @@ "val" : "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another.", "xrefs" : [ "GOC:dgh", "GOC:dph", "GOC:isa_complete", "GOC:mlg" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell locomotion" @@ -8122,6 +8223,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/19809" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002161", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_4890" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -8247,6 +8351,9 @@ "xrefs" : [ "GOC:ai" ] }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002161", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_4890" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -8289,7 +8396,7 @@ "xrefs" : [ "GOC:ai", "GOC:bf" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "physiological response to stimulus" @@ -8388,7 +8495,7 @@ "val" : "Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation.", "xrefs" : [ "GOC:ai", "GOC:dos" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "establishment and maintenance of localization" @@ -8417,6 +8524,9 @@ "val" : "single-organism localization" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27052" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -8555,7 +8665,7 @@ "xrefs" : [ "GOC:dph", "GOC:jid" ] }, "comments" : [ "Transmembrane transport is the transport of a solute across a lipid bilayer. Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane and is not traversed. For transport through the nuclear pore, consider instead the term 'nucleocytoplasmic transport ; GO:0006913' and its children. Note also that this term is not intended for use in annotating lateral movement within membranes." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "membrane transport" @@ -8888,7 +8998,8 @@ "val" : "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular component organisation or biogenesis", @@ -8902,6 +9013,9 @@ "val" : "cellular component organization or biogenesis at cellular level" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "mah" }, { @@ -9099,7 +9213,7 @@ "xrefs" : [ "GOC:dos" ] }, "comments" : [ "Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "region of plasma membrane" @@ -9547,6 +9661,7 @@ "val" : "The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon.", "xrefs" : [ "GOC:TermGenie", "GOC:pr" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "organic molecular entity anabolism", @@ -9580,6 +9695,9 @@ "val" : "organic substance synthesis" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/26424" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "pr" }, { @@ -12164,24 +12282,6 @@ "val" : "protein" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/PR_000001355", - "lbl" : "immunoglobulin gamma Fc receptor II/III/IV", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A protein with a core domain architecture consisting of an extracellular domain containing two copies of the Immunoglobulin domain (Pfam:PF00047), followed by a single-pass transmembrane region and a small intracellular domain. The active protein is a low affinity receptor for immunoglobulin gamma chain Fc region. Human II-a, II-b, and II-c represent a recent gene expansion and are equally related to mouse II, III, and IV. Human III-A and III-B are closely related and closer to mouse IV than to mouse III.", - "xrefs" : [ "PRO:WCB" ] - }, - "comments" : [ "Category=family." ], - "xrefs" : [ { - "val" : "PIRSF:PIRSF001980" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "protein" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/PR_000001381", "lbl" : "interleukin-2 receptor subunit beta", @@ -12265,56 +12365,6 @@ "val" : "protein" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/PR_000001479", - "lbl" : "low affinity immunoglobulin gamma Fc region receptor II", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An immunoglobulin gamma Fc receptor II/III/IV that is a translation product of the mouse Fcgr2 gene or a 1:1 ortholog thereof.", - "xrefs" : [ "PRO:CNA" ] - }, - "comments" : [ "Category=gene. Requested by=CL." ], - "synonyms" : [ { - "pred" : "hasBroadSynonym", - "val" : "CD32", - "xrefs" : [ "PRO:DNx" ] - }, { - "pred" : "hasExactSynonym", - "val" : "Fc gamma receptor IIB" - }, { - "pred" : "hasExactSynonym", - "val" : "Fc-gamma RII" - }, { - "pred" : "hasExactSynonym", - "val" : "Fc-gamma-RIIB" - }, { - "pred" : "hasExactSynonym", - "val" : "FcRII" - }, { - "synonymType" : "http://purl.obolibrary.org/obo/pr#PRO-short-label", - "pred" : "hasExactSynonym", - "val" : "Fcgr2", - "xrefs" : [ "PRO:DNx" ] - }, { - "pred" : "hasExactSynonym", - "val" : "IgG Fc receptor II beta" - }, { - "pred" : "hasExactSynonym", - "val" : "ly-17" - }, { - "pred" : "hasExactSynonym", - "val" : "lymphocyte antigen 17" - }, { - "synonymType" : "http://purl.obolibrary.org/obo/pr#Gene-based", - "pred" : "hasRelatedSynonym", - "val" : "Fcgr2b" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "protein" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/PR_000001753", "lbl" : "transcription factor NF-kappa-B subunit", @@ -12545,55 +12595,6 @@ "val" : "protein" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/PR_000001879", - "lbl" : "leukosialin", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A protein that is a translation product of the human SPN gene or a 1:1 ortholog thereof.", - "xrefs" : [ "PRO:WCB" ] - }, - "comments" : [ "Category=gene. Requested by=CL." ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "B-cell differentiation antigen LP-3" - }, { - "pred" : "hasExactSynonym", - "val" : "GALGP" - }, { - "synonymType" : "http://purl.obolibrary.org/obo/pr#PRO-short-label", - "pred" : "hasExactSynonym", - "val" : "SPN", - "xrefs" : [ "PRO:DNx" ] - }, { - "pred" : "hasExactSynonym", - "val" : "galactoglycoprotein" - }, { - "pred" : "hasExactSynonym", - "val" : "leukocyte sialoglycoprotein" - }, { - "pred" : "hasExactSynonym", - "val" : "ly-48" - }, { - "pred" : "hasExactSynonym", - "val" : "lymphocyte antigen 48" - }, { - "pred" : "hasExactSynonym", - "val" : "sialophorin" - }, { - "synonymType" : "http://purl.obolibrary.org/obo/pr#Gene-based", - "pred" : "hasRelatedSynonym", - "val" : "CD43" - } ], - "xrefs" : [ { - "val" : "PIRSF:PIRSF001994" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "protein" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/PR_000001889", "lbl" : "CD14 molecule", @@ -13513,38 +13514,6 @@ "val" : "protein" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/PR_000050567", - "lbl" : "protein-containing material entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A material entity that minimally consists of a protein.", - "xrefs" : [ "PRO:DAN" ] - }, - "comments" : [ "Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566)." ], - "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "protein", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein aggregate", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein complex", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein-containing complex", - "xrefs" : [ "PRO:DAN" ] - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "protein" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000052", "lbl" : "characteristic of", @@ -13618,20 +13587,6 @@ "val" : "has_participant" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000079", - "lbl" : "function of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000080", "lbl" : "quality of", @@ -13646,33 +13601,6 @@ "val" : "A quality inheres in its bearer at all times for which the quality exists." } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000081", - "lbl" : "role of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000085", - "lbl" : "has function", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000086", "lbl" : "has quality", @@ -13686,39 +13614,6 @@ "val" : "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000087", - "lbl" : "has role", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000091", - "lbl" : "has disposition", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000092", - "lbl" : "disposition of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "inverse of has disposition" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0001000", "lbl" : "derives from", @@ -13841,104 +13736,6 @@ "val" : "bounding_layer_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002013", - "lbl" : "has regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." - }, - "xrefs" : [ { - "val" : "RO:0002013" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:30:46Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "has_regulatory_component_activity" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002014", - "lbl" : "has negative regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." - }, - "comments" : [ "By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'." ], - "xrefs" : [ { - "val" : "RO:0002014" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:31:01Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "has_negative_regulatory_component_activity" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002015", - "lbl" : "has positive regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." - }, - "comments" : [ "By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:31:17Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002017", - "lbl" : "has component activity", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:44:33Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002018", - "lbl" : "has component process", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:49:21Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002021", "lbl" : "occurs across", @@ -13955,72 +13752,6 @@ "val" : "2017-07-20T17:19:37Z" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002022", - "lbl" : "directly regulated by", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:24Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002023", - "lbl" : "directly negatively regulated by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:38Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002024", - "lbl" : "directly positively regulated by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:47Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002025", - "lbl" : "has effector activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "comments" : [ "This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-22T14:14:36Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002081", "lbl" : "before or simultaneous with", @@ -15170,20 +14901,6 @@ "val" : "A relationship that holds between entities participating in some developmental process (GO:0032502)" } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002327", - "lbl" : "enables", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c enables p iff c is capable of p and c acts to execute p." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Enables" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002328", "lbl" : "functionally related to", @@ -15211,19 +14928,6 @@ "val" : "holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002331", - "lbl" : "involved in", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved_in p if and only if c enables some process p', and p' is part of p" - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Involved_in" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002332", "lbl" : "regulates levels of", @@ -15243,20 +14947,6 @@ "val" : "regulates_levels_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002333", - "lbl" : "enabled by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "inverse of enables" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Enabled_by" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002334", "lbl" : "regulated by", @@ -15652,48 +15342,6 @@ "val" : "causally_downstream_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002405", - "lbl" : "immediately causally downstream of", - "type" : "PROPERTY", - "meta" : { - "xrefs" : [ { - "val" : "RO:0002405" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "immediately_causally_downstream_of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002407", - "lbl" : "indirectly positively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Indirectly_positively_regulates" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002409", - "lbl" : "indirectly negatively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Indirectly_negatively_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002410", "lbl" : "causally related to", @@ -15728,25 +15376,6 @@ "val" : "causally_upstream_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002412", - "lbl" : "immediately causally upstream of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." - }, - "xrefs" : [ { - "val" : "RO:0002412" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "immediately_causally_upstream_of" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002418", "lbl" : "causally upstream of or within", @@ -15802,28 +15431,6 @@ "val" : "c involved in regulation of p if c is involved in some p' and p' regulates some p" } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002429", - "lbl" : "involved in positive regulation of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002430", - "lbl" : "involved in negative regulation of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002428" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002431", "lbl" : "involved in or involved in regulation of", @@ -15837,25 +15444,6 @@ "val" : "OWL does not allow defining object properties via a Union" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002432", - "lbl" : "is active in", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure.", - "xrefs" : [ "https://orcid.org/0000-0002-6601-2165", "https://orcid.org/0000-0002-7073-9172" ] - }, - "comments" : [ "" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "enables activity in" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Is_active_in" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002433", "lbl" : "contributes to morphology of", @@ -15865,96 +15453,6 @@ "val" : "p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002434", - "lbl" : "interacts with", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "in pairwise interaction with" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Considering relabeling as 'pairwise interacts with'" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002436", - "lbl" : "molecularly interacts with", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ECO_0000353" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002447", - "lbl" : "phosphorylates", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Axiomatization to GO to be added later" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002448", - "lbl" : "directly regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly controls" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002449", - "lbl" : "directly negatively regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly decreases activity of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002450", - "lbl" : "directly positively regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly increases activity of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002464", - "lbl" : "helper property (not for use in curation)", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002473", "lbl" : "composed primarily of", @@ -15975,10 +15473,6 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002481", - "lbl" : "is kinase activity", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002485", "lbl" : "receives input from", @@ -16131,16 +15625,6 @@ "val" : "http://purl.obolibrary.org/obo/BFO_0000169" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002506", - "lbl" : "causal relation between entities", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002551", "lbl" : "has skeleton", @@ -16150,27 +15634,6 @@ "val" : "A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002559", - "lbl" : "causally influenced by", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002563", - "lbl" : "interaction relation helper property", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002564", - "lbl" : "molecular interaction relation helper property", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002565", "lbl" : "results in movement of", @@ -16191,15 +15654,6 @@ "val" : "results_in_movement_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002566", - "lbl" : "causally influences", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." - } - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002567", "lbl" : "biomechanically related to", @@ -16268,26 +15722,6 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002578", - "lbl" : "directly regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly regulates q iff p is immediately causally upstream of q and p regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002578" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002584", "lbl" : "has part structure that is capable of", @@ -16417,55 +15851,6 @@ "val" : "process_has_causal_agent" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002629", - "lbl" : "directly positively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002629" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_positively_regulates" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Directly_positively_regulates" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002630", - "lbl" : "directly negatively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002630" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_negatively_regulates" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Directly_negatively_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0003000", "lbl" : "produces", @@ -16587,102 +15972,6 @@ "val" : "has_primary_input" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004031", - "lbl" : "enables subfunction", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-25T23:20:13Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004032", - "lbl" : "acts upstream of or within, positive effect", - "type" : "PROPERTY", - "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:49:30Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004033", - "lbl" : "acts upstream of or within, negative effect", - "type" : "PROPERTY", - "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:49:51Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004034", - "lbl" : "acts upstream of, positive effect", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:53:14Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004035", - "lbl" : "acts upstream of, negative effect", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:53:22Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0004046", "lbl" : "causally upstream of or within, negative effect", @@ -16731,15 +16020,6 @@ "val" : "2018-03-14T00:03:24Z" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0011002", - "lbl" : "regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." - } - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0012000", "lbl" : "has small molecule regulator", @@ -16865,38 +16145,6 @@ "val" : "results_in_fusion_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0012011", - "lbl" : "indirectly causally upstream of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0003-1813-6857" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2022-09-26T06:07:17Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0012012", - "lbl" : "indirectly regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0003-1813-6857" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2022-09-26T06:08:01Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0013001", "lbl" : "has synaptic IO in region", @@ -17036,75 +16284,15 @@ "pred" : "hasBroadSynonym", "val" : "utilizes" } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2021-11-08T12:00:00Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019000", - "lbl" : "regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019000" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "regulates_characteristic" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019001", - "lbl" : "positively regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019001" - } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" + "val" : "https://orcid.org/0000-0001-9625-1899" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "positively_regulates_characteristic" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019002", - "lbl" : "negatively regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019002" - } ], - "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" + "val" : "https://orcid.org/0000-0003-2620-0345" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "negatively_regulates_characteristic" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2021-11-08T12:00:00Z" } ] } }, { @@ -17222,6 +16410,8 @@ "val" : "EHDAA:500" }, { "val" : "EMAPA:35955" + }, { + "val" : "FBbt:00005155" }, { "val" : "GAID:63" }, { @@ -17367,6 +16557,8 @@ } ], "xrefs" : [ { "val" : "AAO:0011123" + }, { + "val" : "FBbt:00100314" }, { "val" : "FMA:30320" }, { @@ -17456,6 +16648,8 @@ "val" : "EHDAA2:0003003" }, { "val" : "EMAPA:0" + }, { + "val" : "FBbt:00007001" }, { "val" : "FMA:305751" }, { @@ -18325,6 +17519,8 @@ "val" : "EHDAA:542" }, { "val" : "EMAPA:16262" + }, { + "val" : "FBbt:00003126" }, { "val" : "FMA:49184" }, { @@ -18546,6 +17742,8 @@ "val" : "EHDAA2:0003004" }, { "val" : "EMAPA:35178" + }, { + "val" : "FBbt:00007019" }, { "val" : "FMA:9669" }, { @@ -18618,6 +17816,8 @@ "val" : "CARO:0000005" }, { "val" : "EHDAA2:0003005" + }, { + "val" : "FBbt:00007017" }, { "val" : "FMA:5897" }, { @@ -18671,6 +17871,8 @@ "val" : "CARO:0000006" }, { "val" : "EHDAA2:0003006" + }, { + "val" : "FBbt:00007016" }, { "val" : "FMA:67165" }, { @@ -18721,6 +17923,8 @@ "val" : "CARO:0000007" }, { "val" : "EHDAA2:0003007" + }, { + "val" : "FBbt:00007015" }, { "val" : "FMA:67112" }, { @@ -18799,6 +18003,8 @@ "val" : "EMAPA:16103" }, { "val" : "EV:0100000" + }, { + "val" : "FBbt:00004856" }, { "val" : "FMA:7149" }, { @@ -18911,6 +18117,8 @@ "val" : "EMAPA:25765" }, { "val" : "EV:0100016" + }, { + "val" : "FBbt:00000001" }, { "val" : "FMA:256135" }, { @@ -19001,6 +18209,8 @@ "val" : "EHDAA2:0003032" }, { "val" : "EMAPA:36031" + }, { + "val" : "FBbt:00007009" }, { "val" : "FMA:7153" }, { @@ -19075,6 +18285,8 @@ "val" : "CARO:0000040" }, { "val" : "EHDAA2:0003040" + }, { + "val" : "FBbt:00007013" }, { "val" : "FMA:63863" }, { @@ -19113,6 +18325,8 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy", "http://purl.obolibrary.org/obo/uberon/core#upper_level" ], "xrefs" : [ { + "val" : "FBbt:00007277" + }, { "val" : "VHOG:0001737" } ], "basicPropertyValues" : [ { @@ -19166,6 +18380,8 @@ "val" : "EHDAA2:0003042" }, { "val" : "EHDAA:46" + }, { + "val" : "FBbt:00005835" }, { "val" : "FMA:85537" }, { @@ -19232,6 +18448,8 @@ "val" : "EHDAA2:0003043" }, { "val" : "EMAPA:35868" + }, { + "val" : "FBbt:00007003" }, { "val" : "FMA:9637" }, { @@ -19302,6 +18520,8 @@ "val" : "CARO:0000055" }, { "val" : "EHDAA2:0003055" + }, { + "val" : "FBbt:00007010" }, { "val" : "HAO:0000055" }, { @@ -19366,6 +18586,8 @@ "val" : "EHDAA2:0003066" }, { "val" : "EMAPA:32738" + }, { + "val" : "FBbt:00007005" }, { "val" : "FMA:9639" }, { @@ -19556,6 +18778,8 @@ "val" : "EHDAA:38" }, { "val" : "EMAPA:16039" + }, { + "val" : "FBbt:00000052" }, { "val" : "FMA:69068" }, { @@ -19634,6 +18858,8 @@ "val" : "BTO:0000556" }, { "val" : "EMAPA:36033" + }, { + "val" : "FBbt:00000110" }, { "val" : "FMA:69069" }, { @@ -19695,6 +18921,8 @@ "val" : "EMAPA:16069" }, { "val" : "EV:0100003" + }, { + "val" : "FBbt:00000111" }, { "val" : "FMA:69070" }, { @@ -19764,6 +18992,8 @@ "val" : "EMAPA:16062" }, { "val" : "EV:0100005" + }, { + "val" : "FBbt:00000125" }, { "val" : "FMA:69071" }, { @@ -19846,6 +19076,8 @@ "val" : "EMAPA:16083" }, { "val" : "EV:0100006" + }, { + "val" : "FBbt:00000126" }, { "val" : "FMA:69072" }, { @@ -19935,6 +19167,8 @@ "val" : "EHDAA2:0001929" }, { "val" : "EMAPA:16263" + }, { + "val" : "FBbt:00000439" }, { "val" : "FMA:295846" }, { @@ -19996,6 +19230,8 @@ "val" : "EMAPA:35306" }, { "val" : "EV:0100128" + }, { + "val" : "FBbt:00005068" }, { "val" : "FMA:9668" }, { @@ -20054,6 +19290,8 @@ "val" : "EFO:0000827" }, { "val" : "EV:0100336" + }, { + "val" : "FBbt:00005162" }, { "val" : "GAID:69" }, { @@ -20184,6 +19422,8 @@ "val" : "CALOHA:TS-1293" }, { "val" : "EFO:0000793" + }, { + "val" : "FBbt:00005055" }, { "val" : "FMA:7152" }, { @@ -20387,6 +19627,8 @@ "val" : "EMAPA:16469" }, { "val" : "EV:0100162" + }, { + "val" : "FBbt:00005093" }, { "val" : "FMA:7157" }, { @@ -20489,6 +19731,8 @@ "val" : "EMAPA:16754" }, { "val" : "EV:0100163" + }, { + "val" : "FBbt:00005094" }, { "val" : "FMA:55675" }, { @@ -20588,6 +19832,8 @@ "val" : "EHDAA2:0003094" }, { "val" : "EMAPA:16192" + }, { + "val" : "FBbt:00007692" }, { "val" : "FMA:75259" }, { @@ -20714,6 +19960,8 @@ "val" : "CARO:0000000" }, { "val" : "EHDAA2:0002229" + }, { + "val" : "FBbt:10000000" }, { "val" : "FMA:62955" }, { @@ -21124,6 +20372,8 @@ "val" : "EHDAA:518" }, { "val" : "EMAPA:16247" + }, { + "val" : "FBbt:00003125" }, { "val" : "FMA:45615" }, { @@ -21287,6 +20537,8 @@ "val" : "CALOHA:TS-2110" }, { "val" : "EFO:0000461" + }, { + "val" : "FBbt:00004208" }, { "val" : "FMA:69067" }, { @@ -21849,6 +21101,8 @@ "val" : "EMAPA:16073" }, { "val" : "EV:0100004" + }, { + "val" : "FBbt:00001057" }, { "val" : "FMA:87657" }, { @@ -22440,6 +21694,8 @@ "val" : "EHDAA:2161" }, { "val" : "EMAPA:18425" + }, { + "val" : "FBbt:00100317" }, { "val" : "FMA:7146" }, { @@ -23151,6 +22407,8 @@ "val" : "AEO:0000114" }, { "val" : "EHDAA2:0003114" + }, { + "val" : "FBbt:00007474" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -23468,6 +22726,8 @@ "val" : "BILA:0000060" }, { "val" : "BTO:0001403" + }, { + "val" : "FBbt:00005317" }, { "val" : "FMA:293108" }, { @@ -23648,6 +22908,9 @@ "pred" : "hasNarrowSynonym", "val" : "joint" } ], + "xrefs" : [ { + "val" : "FBbt:00005811" + } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -23683,6 +22946,8 @@ "xrefs" : [ "FMA:71131" ] } ], "xrefs" : [ { + "val" : "FBbt:00100315" + }, { "val" : "FMA:71131" } ], "basicPropertyValues" : [ { @@ -23924,6 +23189,9 @@ "pred" : "hasExactSynonym", "val" : "light-sensitive tissue" } ], + "xrefs" : [ { + "val" : "FBbt:00004200" + } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -23952,6 +23220,8 @@ "val" : "CALOHA:TS-2122" }, { "val" : "EHDAA2:0003125" + }, { + "val" : "FBbt:00007006" }, { "val" : "FMA:292313" }, { @@ -24639,6 +23909,8 @@ } ], "xrefs" : [ { "val" : "CARO:0010000" + }, { + "val" : "FBbt:00100313" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -24750,6 +24022,8 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#upper_level" ], "xrefs" : [ { + "val" : "FBbt:00007330" + }, { "val" : "FMA:67509" }, { "val" : "SCTID:91690000" @@ -25174,6 +24448,8 @@ }, "xrefs" : [ { "val" : "AEO:0000093" + }, { + "val" : "FBbt:00007278" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -25454,6 +24730,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy" ], "xrefs" : [ { "val" : "CARO:0020000" + }, { + "val" : "FBbt:00007276" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -26048,26 +25326,6 @@ } } ], "edges" : [ { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000004", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000015", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000020", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000040", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000141", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000000", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" @@ -26189,10 +25447,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000040", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000040", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -26337,10 +25591,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000092", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000092", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -26391,10 +25641,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000094", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000094", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -26807,10 +26053,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000451", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000145" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000451", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000451", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -26943,10 +26185,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000542", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000842" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000542", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000542", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -26979,10 +26217,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000557", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_1001610" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000557", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000557", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -27025,10 +26259,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000559", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000559", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -27055,10 +26285,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000566", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0011026" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000566", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000566", "pred" : "http://purl.obolibrary.org/obo/RO_0002104", @@ -27251,24 +26477,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000766", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000763" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000775", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/CL_0000094", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#is_inferred", - "val" : "true" - } ] - } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000775", - "pred" : "http://purl.obolibrary.org/obo/RO_0002104", - "obj" : "http://purl.obolibrary.org/obo/PR_000001479" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000775", - "pred" : "http://purl.obolibrary.org/obo/RO_0002104", - "obj" : "http://purl.obolibrary.org/obo/PR_000001879" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000782", "pred" : "is_a", @@ -27301,10 +26509,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000825", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000825", "pred" : "http://purl.obolibrary.org/obo/CL_4030046", @@ -27343,10 +26547,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000826", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000826", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -27385,10 +26585,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000837", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0008001" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000837", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000837", "pred" : "http://purl.obolibrary.org/obo/CL_4030046", @@ -27893,10 +27089,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_1001610", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0012429" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0000003", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0008150" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0000323", "pred" : "is_a", @@ -28229,10 +27421,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0003015", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0003013" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0005575", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005576", "pred" : "is_a", @@ -28330,7 +27518,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006259", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0043170" + "obj" : "http://purl.obolibrary.org/obo/GO_0008152" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006310", "pred" : "is_a", @@ -28531,10 +27719,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0008015", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0003013" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0008150", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000015" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0008152", "pred" : "is_a", @@ -28823,10 +28007,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0022414", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0008150" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0022414", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/GO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0022600", "pred" : "is_a", @@ -28879,6 +28059,10 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0030097", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0048468" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0030097", + "pred" : "http://purl.obolibrary.org/obo/RO_0002160", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0030097", "pred" : "http://purl.obolibrary.org/obo/RO_0002296", @@ -29069,8 +28253,8 @@ "obj" : "http://purl.obolibrary.org/obo/GO_0005575" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0032991", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", + "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0032993", "pred" : "is_a", @@ -29151,10 +28335,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0042110", "pred" : "http://purl.obolibrary.org/obo/RO_0004009", "obj" : "http://purl.obolibrary.org/obo/CL_0000084" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0042391", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0042391", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -29179,10 +28359,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0042582", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0030141" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0042582", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/CL_0000775" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0042592", "pred" : "is_a", @@ -29303,6 +28479,10 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0043292", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/GO_0005737" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0043292", + "pred" : "http://purl.obolibrary.org/obo/RO_0002160", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0044237", "pred" : "is_a", @@ -29883,10 +29063,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0098644", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0099080" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0098644", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0098644", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -30259,10 +29435,6 @@ "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_9989", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_314147" - }, { - "sub" : "http://purl.obolibrary.org/obo/PATO_0000001", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000020" }, { "sub" : "http://purl.obolibrary.org/obo/PATO_0000051", "pred" : "is_a", @@ -30511,10 +29683,6 @@ "sub" : "http://purl.obolibrary.org/obo/PR_000001332", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/PR_000000001" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000001355", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/PR_000001381", "pred" : "is_a", @@ -30523,10 +29691,6 @@ "sub" : "http://purl.obolibrary.org/obo/PR_000001444", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/PR_000001327" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000001479", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000001355" }, { "sub" : "http://purl.obolibrary.org/obo/PR_000001753", "pred" : "is_a", @@ -30555,10 +29719,6 @@ "sub" : "http://purl.obolibrary.org/obo/PR_000001874", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/PR_000000001" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000001879", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/PR_000001889", "pred" : "is_a", @@ -30679,14 +29839,6 @@ "sub" : "http://purl.obolibrary.org/obo/PR_000050216", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/PR_000001006" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000050567", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000050567", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", - "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000020", "pred" : "is_a", @@ -30753,10 +29905,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000043", "pred" : "http://purl.obolibrary.org/obo/RO_0002176", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001630" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000058", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000058", "pred" : "is_a", @@ -30821,10 +29969,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000064", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000062" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", "pred" : "is_a", @@ -30841,10 +29985,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", "pred" : "http://purl.obolibrary.org/obo/BFO_0000063", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000071" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", "pred" : "is_a", @@ -30861,10 +30001,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", "pred" : "http://purl.obolibrary.org/obo/RO_0002082", "obj" : "http://purl.obolibrary.org/obo/GO_0009790" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000071", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000071", "pred" : "is_a", @@ -30895,10 +30031,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000075", "pred" : "http://purl.obolibrary.org/obo/RO_0002473", "obj" : "http://purl.obolibrary.org/obo/UBERON_0004765" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", "pred" : "is_a", @@ -30911,10 +30043,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", "pred" : "http://purl.obolibrary.org/obo/RO_0002082", "obj" : "http://purl.obolibrary.org/obo/GO_0009791" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", "pred" : "is_a", @@ -30935,10 +30063,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000105", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000104" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", "pred" : "is_a", @@ -30951,10 +30075,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", "pred" : "http://purl.obolibrary.org/obo/RO_0002223", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000104" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", "pred" : "is_a", @@ -30971,10 +30091,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", "pred" : "http://purl.obolibrary.org/obo/RO_0002087", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000106" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", "pred" : "is_a", @@ -30987,10 +30103,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", "pred" : "http://purl.obolibrary.org/obo/BFO_0000062", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000107" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", "pred" : "is_a", @@ -31017,10 +30129,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", "pred" : "is_a", @@ -31041,10 +30149,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000111", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000111", "pred" : "is_a", @@ -31121,18 +30225,10 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000464", "pred" : "http://purl.obolibrary.org/obo/RO_0002219", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000465", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000465", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001062" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000466", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000141" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000466", "pred" : "is_a", @@ -31215,10 +30311,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000481", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000479" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000483", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000483", "pred" : "is_a", @@ -31840,10 +30932,6 @@ "val" : "ZFA" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0002330", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0002330", "pred" : "is_a", @@ -31935,10 +31023,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0002346", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/CL_0000133" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0002365", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0002365", "pred" : "is_a", @@ -32710,10 +31794,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0005764", "pred" : "http://purl.obolibrary.org/obo/RO_0002007", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0005769", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0005769", "pred" : "is_a", @@ -32976,10 +32056,6 @@ "val" : "AEO" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0007845", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0007845", "pred" : "is_a", @@ -33180,10 +32256,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0011822", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/GO_0071953" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0011823", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0011823", "pred" : "is_a", @@ -33192,10 +32264,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0011823", "pred" : "http://purl.obolibrary.org/obo/RO_0002473", "obj" : "http://purl.obolibrary.org/obo/UBERON_0011860" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0011860", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0011860", "pred" : "is_a", @@ -33620,38 +32688,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0000052", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002314" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000079", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000080", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000052" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000081", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000085", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000086", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000087", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000091", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000092", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002000", "pred" : "subPropertyOf", @@ -33668,58 +32712,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002007", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000050" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002013", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002017" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002013", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002334" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002014", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002013" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002014", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002335" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002015", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002013" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002015", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002336" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002017", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002018" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002018", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002180" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002021", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002479" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002022", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002334" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002023", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002022" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002024", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002022" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002025", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002017" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002081", "pred" : "subPropertyOf", @@ -34092,34 +33088,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002315", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0040036" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002327", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002215" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002329", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002331", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000056" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002331", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002431" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002332", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002333", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000057" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002333", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002334", "pred" : "subPropertyOf", @@ -34272,30 +33248,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002404", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002427" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002087" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002404" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002407", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002213" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002407", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012012" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002409", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002212" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002409", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012012" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002411", "pred" : "subPropertyOf", @@ -34304,14 +33256,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002411", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002418" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002412", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002090" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002412", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002411" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002418", "pred" : "subPropertyOf", @@ -34328,14 +33272,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002428", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002431" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002429", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002428" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002430", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002428" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002431", "pred" : "subPropertyOf", @@ -34348,50 +33284,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002431", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002500" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002432", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002131" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002432", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002433", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002131" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002436", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002434" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002447", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002436" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002448", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002436" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002448", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0011002" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002449", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002448" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002450", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002448" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002473", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000051" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002481", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002564" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002485", "pred" : "subPropertyOf", @@ -34464,34 +33364,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002501", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002410" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002506", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002410" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002551", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000051" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002559", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002506" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002563", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002464" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002564", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002563" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002565", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0040036" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002566", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002506" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002567", "pred" : "subPropertyOf", @@ -34524,14 +33404,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002576", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000050" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002578", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002211" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002578", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002412" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002584", "pred" : "subPropertyOf", @@ -34588,22 +33460,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002608", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002410" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002629", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002213" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002629", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002630", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002212" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002630", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002578" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0004007", "pred" : "subPropertyOf", @@ -34624,34 +33480,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0004009", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0004007" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004031", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004032", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004033", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004034", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004034", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0004032" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004035", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004035", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0004033" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0004046", "pred" : "subPropertyOf", @@ -34660,10 +33488,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0004047", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002418" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0011002", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002566" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0012000", "pred" : "subPropertyOf", @@ -34692,18 +33516,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0012008", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002592" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0012011", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002411" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0012012", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002211" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0012012", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012011" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0013001", "pred" : "subPropertyOf", @@ -34728,18 +33540,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0015016", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002104" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0019000", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002410" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0019001", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0019000" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0019002", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0019000" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0040036", "pred" : "subPropertyOf", @@ -34808,22 +33608,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0000056", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000057" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000079", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000085" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000080", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000086" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000081", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000087" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000091", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000092" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0001000", "pred" : "inverseOf", @@ -34844,18 +33632,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002006", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002130" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002022", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002023", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002630" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002024", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002629" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002087", "pred" : "inverseOf", @@ -34936,10 +33712,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002297", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002354" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002327", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002333" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002350", "pred" : "inverseOf", @@ -34952,10 +33724,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002404", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002411" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002412" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002418", "pred" : "inverseOf", @@ -34972,10 +33740,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002551", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002576" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002559", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002566" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0003000", "pred" : "inverseOf", @@ -35542,16 +34306,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002202", "fillerId" : "http://purl.obolibrary.org/obo/CL_0000049" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000775", - "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000094" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001479" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001879" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000782", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000990" ], @@ -36157,13 +34911,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002296", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0001049" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0022414", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0008150" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0000003" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0022600", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0003008" ], @@ -36760,13 +35507,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002160", "fillerId" : "http://purl.obolibrary.org/obo/NCBITaxon_2759" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/PR_000050567", - "genusIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000051", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000000001" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_0000020", "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000062" ], @@ -37215,25 +35955,6 @@ } ] } ], "domainRangeAxioms" : [ { - "predicateId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "allValuesFromEdges" : [ { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000002", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000003", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : 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"http://purl.obolibrary.org/obo/RO_0002206", + "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000465" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002315", "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002571", - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] } ], "propertyChainAxioms" : [ { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002131", @@ -37657,24 +36206,9 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002226", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002207", "http://purl.obolibrary.org/obo/RO_0001025" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002211", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0002025" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019000", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0019000" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002213", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002212", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019002", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002212", "http://purl.obolibrary.org/obo/RO_0019001" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019001", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002213", "http://purl.obolibrary.org/obo/RO_0019001" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019002", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002213", "http://purl.obolibrary.org/obo/RO_0019002" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002162", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002215", "http://purl.obolibrary.org/obo/RO_0002162" ] @@ -37735,87 +36269,12 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002314", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002314", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002331", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002327", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000051" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004031", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000051" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002327", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002017" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002428", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002211" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002448", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002430", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002429", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002213" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004034", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002304" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004035", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002305" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002263", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002566", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411", "http://purl.obolibrary.org/obo/RO_0002233" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002566", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002264", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002418" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002450", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002449", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004033", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0004046" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004032", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0004047" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002331", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002428", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002211" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002430", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002429", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002213" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002338", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002338", "http://purl.obolibrary.org/obo/BFO_0000050" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002339", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002339", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002407", "http://purl.obolibrary.org/obo/RO_0002629" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002409", "http://purl.obolibrary.org/obo/RO_0002409" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002409", "http://purl.obolibrary.org/obo/RO_0002630" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002488", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002488", "http://purl.obolibrary.org/obo/BFO_0000050" ] @@ -37843,21 +36302,6 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/uberon/core#indirectly_supplies", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002569", "http://purl.obolibrary.org/obo/uberon/core#indirectly_supplies" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002211", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002578", "http://purl.obolibrary.org/obo/RO_0002578" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002407" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002629" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002409" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002630" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0013001", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0013001", "http://purl.obolibrary.org/obo/BFO_0000050" ] diff --git a/subsets/general_cell_types_upper_slim.obo b/subsets/general_cell_types_upper_slim.obo index e08277a75..ff7dddd78 100644 --- a/subsets/general_cell_types_upper_slim.obo +++ b/subsets/general_cell_types_upper_slim.obo @@ -1,5 +1,5 @@ format-version: 1.2 -data-version: cl/releases/2024-04-05/subsets/general_cell_types_upper_slim.owl +data-version: cl/releases/2024-05-15/subsets/general_cell_types_upper_slim.owl subsetdef: abnormal_slim "" subsetdef: added_for_HCA "" subsetdef: attribute_slim "" @@ -19,19 +19,21 @@ subsetdef: eye_upper_slim "a subset of general classes related to specific cell subsetdef: functional_classification "" subsetdef: general_cell_types_upper_slim "a subset of general classes of cell types in the cell ontology." subsetdef: gocheck_do_not_annotate "" -subsetdef: gocheck_do_not_manually_annotate "" subsetdef: goslim_agr "" subsetdef: goslim_candida "" subsetdef: goslim_chembl "" subsetdef: goslim_drosophila "" +subsetdef: goslim_euk_cellular_processes_ribbon "" subsetdef: goslim_flybase_ribbon "" subsetdef: goslim_generic "" subsetdef: goslim_metagenomics "" subsetdef: goslim_mouse "" subsetdef: goslim_pir "" subsetdef: goslim_plant "" +subsetdef: goslim_plant_ribbon "" subsetdef: goslim_pombe "" subsetdef: goslim_prokaryote "" +subsetdef: goslim_prokaryote_ribbon "" subsetdef: goslim_synapse "" subsetdef: goslim_yeast "" subsetdef: grouping_class "" @@ -88,56 +90,7 @@ synonymtypedef: synonym "" synonymtypedef: SYSTEMATIC "" synonymtypedef: systematic_synonym "" ontology: cl/subsets/general_cell_types_upper_slim -property_value: owl:versionInfo "2024-04-05" xsd:string - -[Term] -id: BFO:0000002 -name: continuant -def: "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." [] -disjoint_from: BFO:0000003 ! occurrent -relationship: part_of BFO:0000002 {all_only="true"} ! continuant - -[Term] -id: BFO:0000003 -name: occurrent -def: "An entity that has temporal parts and that happens, unfolds or develops through time." [] -relationship: part_of BFO:0000003 {all_only="true"} ! occurrent - -[Term] -id: BFO:0000004 -name: independent continuant -def: "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" [] -comment: A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. -is_a: BFO:0000002 ! continuant -disjoint_from: BFO:0000020 ! specifically dependent continuant -relationship: part_of BFO:0000004 {all_only="true"} ! independent continuant - -[Term] -id: BFO:0000015 -name: process -def: "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" [] -comment: An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. -is_a: BFO:0000003 ! occurrent - -[Term] -id: BFO:0000020 -name: specifically dependent continuant -def: "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" [] -comment: A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. -is_a: BFO:0000002 ! continuant -relationship: part_of BFO:0000020 {all_only="true"} ! specifically dependent continuant - -[Term] -id: BFO:0000040 -name: material entity -def: "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." [] -is_a: BFO:0000004 ! independent continuant -disjoint_from: BFO:0000141 ! immaterial entity - -[Term] -id: BFO:0000141 -name: immaterial entity -is_a: BFO:0000004 ! independent continuant +property_value: owl:versionInfo "2024-05-15" xsd:string [Term] id: CL:0000000 @@ -147,7 +100,7 @@ comment: The definition of cell is intended to represent all cells, and thus a c subset: cellxgene_subset subset: ubprop:upper_level xref: CALOHA:TS-2035 -xref: FBbt:00007002 +xref: FBbt:00007002 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:68646 xref: GO:0005623 xref: KUPO:0000002 @@ -155,6 +108,7 @@ xref: MESH:D002477 xref: VHOG:0001533 xref: WBbt:0004017 xref: XAO:0003012 +xref: ZFA:0009000 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: UBERON:0000061 ! anatomical structure disjoint_from: GO:0031012 ! extracellular matrix disjoint_from: GO:0032991 ! protein-containing complex @@ -164,8 +118,10 @@ relationship: RO:0002160 NCBITaxon:131567 ! only in taxon cellular organisms [Term] id: CL:0000006 name: neuronal receptor cell +def: "Any sensory receptor cell that is a(n) neuron and is capable of some detection of stimulus involved in sensory perception." [FBC:Autogenerated] subset: cellxgene_subset synonym: "neuronal receptor cell (sensu Animalia)" EXACT [] +xref: ZFA:0009001 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000101 ! sensory neuron is_a: CL:0000197 ! sensory receptor cell intersection_of: CL:0000197 ! sensory receptor cell @@ -176,6 +132,7 @@ intersection_of: capable_of GO:0050906 ! detection of stimulus involved in senso id: CL:0000007 name: early embryonic cell (metazoa) def: "A cell found in the embryo before the formation of all the gem layers is complete." [GOC:tfm] +xref: ZFA:0009002 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) [Term] @@ -189,6 +146,7 @@ subset: human_reference_atlas synonym: "animal stem cell" EXACT [] xref: CALOHA:TS-2086 xref: FMA:63368 +xref: ZFA:0005957 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0011115 ! precursor cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0017145 ! stem cell division @@ -213,6 +171,7 @@ xref: CALOHA:TS-0448 xref: FMA:86475 xref: MESH:D006412 xref: VHOG:0001485 +xref: ZFA:0009014 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000723 ! somatic stem cell is_a: CL:0008001 ! hematopoietic precursor cell is_a: CL:0011026 ! progenitor cell @@ -254,6 +213,7 @@ def: "A cell that is within the developmental lineage of gametes and is able to comment: Originally this term had some plant germ line cell children. subset: general_cell_types_upper_slim subset: ubprop:upper_level +xref: ZFA:0009016 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell relationship: capable_of GO:0022414 ! reproductive process @@ -268,9 +228,9 @@ synonym: "colony forming unit monocyte" RELATED [] synonym: "monocyte stem cell" RELATED [] xref: CALOHA:TS-1195 xref: FMA:83553 +xref: ZFA:0009017 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0002194 {is_inferred="true"} ! monopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002194 ! monopoietic cell intersection_of: capable_of GO:0030224 ! monocyte differentiation intersection_of: has_part CL:0017503 ! basophilic cytoplasm @@ -292,6 +252,7 @@ synonym: "multifate stem cell" EXACT [] synonym: "multipotent cell" EXACT [] synonym: "multipotent stem cell" EXACT [] xref: FMA:84789 +xref: ZFA:0009020 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000034 ! stem cell intersection_of: CL:0000000 ! cell intersection_of: bearer_of PATO:0001402 ! multipotent @@ -314,6 +275,7 @@ synonym: "multipotential myeloid stem cell" RELATED [ISBN:0878932437] synonym: "myeloid stem cell" RELATED [ISBN:0878932437] synonym: "pluripotent stem cell (bone marrow)" RELATED [ISBN:0878932437] xref: BTO:0004730 +xref: ZFA:0009021 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell disjoint_from: CL:0000051 ! common lymphoid progenitor disjoint_from: CL:0000557 ! granulocyte monocyte progenitor cell @@ -335,6 +297,7 @@ synonym: "early lymphocyte progenitor" RELATED [] synonym: "ELP" RELATED OMO:0003000 [] synonym: "lymphoid stem cell" RELATED [] synonym: "lymphopoietic stem cell" RELATED [] +xref: ZFA:0009023 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0002032 ! hematopoietic oligopotent progenitor cell @@ -349,6 +312,7 @@ def: "A stem cell from which all cells of the body can form." [GOC:add, GOC:tfm] synonym: "totipotential stem cell" EXACT [] xref: FMA:84790 xref: MESH:D039901 +xref: ZFA:0009024 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000723 ! somatic stem cell [Term] @@ -368,9 +332,10 @@ name: myoblast def: "A cell that is commited to differentiating into a muscle cell. Embryonic myoblasts develop from the mesoderm. They undergo proliferation, migrate to their various sites, and then differentiate into the appropriate form of myocytes. Myoblasts also occur as transient populations of cells in muscles undergoing repair." [GOC:tfm, MESH:D032446, PMID:21849021] xref: BTO:0000222 xref: CALOHA:TS-0650 -xref: FBbt:00005083 +xref: FBbt:00005083 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:70335 xref: VHOG:0001529 +xref: ZFA:0009025 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000680 ! muscle precursor cell [Term] @@ -386,6 +351,7 @@ xref: CALOHA:TS-0362 xref: FMA:63877 xref: NCIT:C12482 xref: VHOG:0001482 +xref: ZFA:0009026 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002320 ! connective tissue cell relationship: RO:0002202 CL:0000134 ! develops from mesenchymal stem cell property_value: RO:0002175 NCBITaxon:9606 @@ -401,9 +367,10 @@ synonym: "epitheliocyte" EXACT [] xref: BTO:0000414 xref: CALOHA:TS-2026 xref: CARO:0000077 -xref: FBbt:00000124 +xref: FBbt:00000124 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:66768 xref: WBbt:0003672 +xref: ZFA:0009034 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell disjoint_from: CL:0000738 ! leukocyte relationship: part_of UBERON:0000483 ! epithelium @@ -416,6 +383,7 @@ name: columnar/cuboidal epithelial cell def: "A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube." [GO:0002065, https://orcid.org/0000-0001-5208-3432] subset: cellxgene_subset subset: human_reference_atlas +xref: ZFA:0009038 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell property_value: RO:0002175 NCBITaxon:9606 @@ -427,6 +395,7 @@ subset: cellxgene_subset subset: general_cell_types_upper_slim xref: FMA:62844 xref: MESH:D001773 +xref: ZFA:0009044 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: capable_of GO:0008015 ! blood circulation @@ -449,6 +418,7 @@ xref: CALOHA:TS-1001 xref: FMA:62870 xref: MESH:D013601 xref: VHOG:0001479 +xref: ZFA:0009046 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000542 {is_inferred="true"} ! lymphocyte intersection_of: CL:0000542 ! lymphocyte intersection_of: capable_of GO:0002456 ! T cell mediated immunity @@ -468,10 +438,10 @@ xref: BTO:0000968 xref: CALOHA:TS-0721 xref: FMA:66781 xref: MESH:D010010 +xref: ZFA:0009047 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000518 ! phagocyte (sensu Vertebrata) is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte is_a: CL:0001035 {is_inferred="true"} ! bone cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000766 ! myeloid leukocyte intersection_of: capable_of GO:0045453 ! bone resorption intersection_of: has_part PR:000001850 ! cathepsin K @@ -505,9 +475,9 @@ xref: BTO:0000539 xref: BTO:0001026 xref: CALOHA:TS-0422 xref: FMA:62854 +xref: ZFA:0009048 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000081 ! blood cell is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000766 ! myeloid leukocyte intersection_of: capable_of GO:0008015 ! blood circulation intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -543,9 +513,10 @@ subset: cellxgene_subset subset: human_reference_atlas synonym: "motoneuron" EXACT [] xref: BTO:0000312 -xref: FBbt:00005123 +xref: FBbt:00005123 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:83617 xref: WBbt:0005409 +xref: ZFA:0009052 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000527 ! efferent neuron property_value: RO:0002175 NCBITaxon:9606 @@ -553,15 +524,18 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000101 name: sensory neuron def: "Any neuron having a sensory function; an afferent neuron conveying sensory impulses." [ISBN:0721662544] +subset: human_reference_atlas xref: BTO:0001037 -xref: FBbt:00005124 +xref: FBbt:00005124 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:84649 xref: MESH:D011984 xref: WBbt:0005759 +xref: ZFA:0009053 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000526 ! afferent neuron intersection_of: CL:0000540 ! neuron intersection_of: capable_of GO:0050906 ! detection of stimulus involved in sensory perception relationship: capable_of GO:0050906 ! detection of stimulus involved in sensory perception +property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000113 @@ -570,6 +544,7 @@ def: "A vertebrate phagocyte with a single nucleus." [GOC:add, GOC:tfm, ISBN:078 subset: cellxgene_subset subset: human_reference_atlas xref: BTO:0001433 +xref: ZFA:0009064 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000518 {is_inferred="true"} ! phagocyte (sensu Vertebrata) is_a: CL:0000842 ! mononuclear cell intersection_of: CL:0000518 ! phagocyte (sensu Vertebrata) @@ -583,19 +558,23 @@ def: "A non-neuronal cell of the nervous system. They not only provide physical comment: Not all glial cells develop from glioblasts, with microglia developing from the mesoderm instead. See https://github.com/obophenotype/cell-ontology/issues/1571 subset: cellxgene_subset subset: general_cell_types_upper_slim +subset: human_reference_atlas synonym: "neuroglia" RELATED [] synonym: "neuroglial cell" EXACT [] xref: BTO:0002606 xref: CALOHA:TS-0415 -xref: FBbt:00005144 +xref: FBbt:00005144 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:54536 +xref: ZFA:0009073 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000095 ! neuron associated cell +property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000133 name: neurectodermal cell def: "Ectoderm destined to be nervous tissue." [GOC:tfm, ISBN:068340007X] synonym: "neurectoderm cell" EXACT [] +xref: ZFA:0009080 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000221 ! ectodermal cell [Term] @@ -619,6 +598,7 @@ synonym: "stem cells, mesenchymal" RELATED OMO:0003004 [MESH:D044982] xref: BTO:0002625 xref: BTO:0003298 xref: FMA:70546 +xref: ZFA:0009081 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000048 ! multi fate stem cell is_a: CL:0002320 {is_inferred="true"} ! connective tissue cell property_value: seeAlso "https://github.com/obophenotype/cell-ontology/issues/474" xsd:string @@ -635,6 +615,7 @@ synonym: "fat cell" EXACT [] xref: BTO:0000443 xref: CALOHA:TS-0012 xref: FMA:63880 +xref: ZFA:0009082 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000325 ! stuff accumulating cell is_a: CL:0002320 ! connective tissue cell relationship: RO:0002202 CL:0000134 ! develops from mesenchymal stem cell @@ -648,6 +629,7 @@ comment: Note change of name; nearly all somatic cells can present antigens to T subset: blood_and_immune_upper_slim subset: cellxgene_subset synonym: "APC" RELATED OMO:0003000 [] +xref: ZFA:0009088 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000738 ! leukocyte intersection_of: CL:0000738 ! leukocyte intersection_of: capable_of GO:0002504 ! antigen processing and presentation of peptide or polysaccharide antigen via MHC class II @@ -660,6 +642,7 @@ def: "A pigment cell is a cell that contains pigment granules." [GOC:tfm] synonym: "chromatocyte" EXACT [] synonym: "chromatophore" EXACT [] xref: VHOG:0001678 +xref: ZFA:0009090 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000325 ! stuff accumulating cell [Term] @@ -675,6 +658,7 @@ xref: CALOHA:TS-0613 xref: FMA:70545 xref: MESH:D008544 xref: VHOG:0001679 +xref: ZFA:0009091 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000147 ! pigment cell intersection_of: CL:0000147 ! pigment cell intersection_of: has_part GO:0042470 ! melanosome @@ -707,6 +691,7 @@ name: exocrine cell def: "A cell of an exocrine gland; i.e. a gland that discharges its secretion via a duct." [ISBN:0198547684] subset: general_cell_types_upper_slim xref: FMA:16014 +xref: ZFA:0009092 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell intersection_of: CL:0000151 ! secretory cell intersection_of: part_of UBERON:0002365 ! exocrine gland @@ -721,6 +706,7 @@ subset: general_cell_types_upper_slim subset: human_reference_atlas synonym: "endocrinocyte" EXACT [] xref: FMA:83809 +xref: ZFA:0009096 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000151 ! secretory cell relationship: part_of UBERON:0000949 ! endocrine system property_value: RO:0002175 NCBITaxon:9606 @@ -742,9 +728,10 @@ synonym: "myocyte" EXACT [] xref: BTO:0000888 xref: BTO:0000902 xref: CALOHA:TS-2032 -xref: FBbt:00005074 +xref: FBbt:00005074 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67328 xref: WBbt:0003675 +xref: ZFA:0009114 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000183 ! contractile cell is_a: CL:0000393 ! electrically responsive cell relationship: RO:0002202 CL:0000056 ! develops from myoblast @@ -761,6 +748,7 @@ synonym: "skeletal muscle cell" EXACT [] xref: BTO:0004392 xref: CALOHA:TS-2158 xref: FMA:9727 +xref: ZFA:0009115 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0001134 ! skeletal muscle tissue @@ -781,6 +769,7 @@ synonym: "smooth muscle fiber" EXACT [] xref: BTO:0004576 xref: CALOHA:TS-2159 xref: FMA:14072 +xref: ZFA:0009118 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008000 ! non-striated muscle cell is_a: CL:0008007 ! visceral muscle cell relationship: RO:0002202 CL:0000514 ! develops from smooth muscle myoblast @@ -806,7 +795,9 @@ def: "A cell specialized to detect and transduce light." [MESH:D010786] subset: cellxgene_subset xref: BTO:0001060 xref: CALOHA:TS-0868 +xref: FBbt:00004211 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:86740 +xref: ZFA:0009127 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000006 {is_inferred="true"} ! neuronal receptor cell intersection_of: CL:0000540 ! neuron intersection_of: capable_of GO:0050962 ! detection of light stimulus involved in sensory perception @@ -817,12 +808,14 @@ property_value: http://xmlns.com/foaf/0.1/depiction "https://www.swissbiopics.or id: CL:0000211 name: electrically active cell def: "A cell whose function is determined by the generation or the reception of an electric signal." [FB:ma] +xref: ZFA:0009128 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] id: CL:0000219 name: motile cell def: "A cell that moves by its own activities." [FB:ma] +xref: ZFA:0009136 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0048870 ! cell motility @@ -834,6 +827,7 @@ name: ectodermal cell def: "A cell of the outer of the three germ layers of the embryo." [MESH:D004475] synonym: "ectoderm cell" EXACT [] xref: FMA:72549 +xref: ZFA:0009137 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000924 ! ectoderm @@ -845,6 +839,7 @@ subset: cellxgene_subset synonym: "mesoblast" EXACT [] synonym: "mesoderm cell" EXACT [] xref: FMA:72554 +xref: ZFA:0009138 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000926 ! mesoderm @@ -854,6 +849,7 @@ name: endodermal cell def: "A cell of the inner of the three germ layers of the embryo." [MESH:D004707] synonym: "endoderm cell" EXACT [] xref: FMA:72555 +xref: ZFA:0009139 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000925 ! endoderm @@ -888,6 +884,7 @@ subset: cellxgene_subset xref: BTO:0001044 xref: FMA:83806 xref: MESH:D010586 +xref: ZFA:0009140 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000219 ! motile cell is_a: CL:0000325 ! stuff accumulating cell is_a: CL:0000473 ! defensive cell @@ -910,6 +907,7 @@ xref: CALOHA:TS-0587 xref: FMA:63261 xref: FMA:83585 xref: MESH:D008264 +xref: ZFA:0009141 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000113 ! mononuclear phagocyte is_a: CL:0000145 ! professional antigen presenting cell is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte @@ -937,6 +935,7 @@ xref: CALOHA:TS-0068 xref: FMA:62869 xref: MESH:D001402 xref: VHOG:0001480 +xref: ZFA:0009142 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000945 {is_inferred="true"} ! lymphocyte of B lineage intersection_of: CL:0000945 ! lymphocyte of B lineage intersection_of: capable_of GO:0019724 ! B cell mediated immunity @@ -946,6 +945,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000255 name: eukaryotic cell +def: "Any cell that only exists in Eukaryota." [FBC:Autogenerated] subset: cellxgene_subset xref: MESH:D005057 is_a: CL:0000000 ! cell @@ -963,6 +963,7 @@ is_a: CL:0000000 ! cell [Term] id: CL:0000327 name: extracellular matrix secreting cell +xref: ZFA:0009162 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000499 ! stromal cell [Term] @@ -970,6 +971,7 @@ id: CL:0000333 name: migratory neural crest cell def: "A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body." [doi:10.1016/j.stem.2015.02.017] xref: FMA:86667 +xref: ZFA:0007086 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000219 ! motile cell is_a: CL:0011012 ! neural crest cell is_a: CL:0011026 ! progenitor cell @@ -978,7 +980,9 @@ relationship: RO:0002202 CL:0007004 ! develops from premigratory neural crest ce [Term] id: CL:0000349 name: extraembryonic cell +def: "Any cell that is part of some extraembryonic structure." [FBC:Autogenerated] subset: general_cell_types_upper_slim +xref: ZFA:0009176 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0000478 ! extraembryonic structure @@ -996,6 +1000,7 @@ name: multi-potent skeletal muscle stem cell def: "A multifate stem cell found in skeletal muscle than can differentiate into many different cell types, including muscle. Distinct cell type from satellite cell." [PMID:18282570] comment: Multi-potency demonstrated ex vivo. At the time of writing, it is unclear whether the endogenous population differentiates into multiple cell types in vivo. xref: FMA:86767 +xref: ZFA:0009179 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000048 {is_inferred="true"} ! multi fate stem cell is_a: CL:0000188 ! cell of skeletal muscle intersection_of: CL:0000048 ! multi fate stem cell @@ -1020,12 +1025,14 @@ relationship: RO:0002160 NCBITaxon:33208 ! only in taxon Metazoa id: CL:0000393 name: electrically responsive cell def: "A cell whose function is determined by its response to an electric signal." [FB:ma] +xref: ZFA:0009190 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000211 ! electrically active cell [Term] id: CL:0000404 name: electrically signaling cell def: "A cell that initiates an electrical signal and passes that signal to another cell." [FB:ma] +xref: ZFA:0009193 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000211 ! electrically active cell [Term] @@ -1041,9 +1048,9 @@ xref: BTO:0002042 xref: CALOHA:TS-0194 xref: FMA:83036 xref: MESH:D003713 +xref: ZFA:0009209 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000113 ! mononuclear phagocyte is_a: CL:0000145 ! professional antigen presenting cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000738 ! leukocyte intersection_of: bearer_of PATO:0001407 ! mononucleate intersection_of: capable_of GO:0001816 ! cytokine production @@ -1082,6 +1089,7 @@ subset: general_cell_types_upper_slim subset: human_reference_atlas xref: BTO:0002064 xref: FMA:83624 +xref: ZFA:0009226 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002320 ! connective tissue cell relationship: RO:0002202 CL:0000134 ! develops from mesenchymal stem cell property_value: RO:0002175 NCBITaxon:9606 @@ -1094,6 +1102,7 @@ subset: cellxgene_subset synonym: "cardiac muscle progenitor cell" EXACT [] synonym: "cardiomyocyte progenitor cell" EXACT [] xref: FMA:84797 +xref: ZFA:0009234 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002494 ! cardiocyte is_a: CL:0010021 ! cardiac myoblast intersection_of: CL:0000056 ! myoblast @@ -1109,6 +1118,7 @@ subset: cellxgene_subset synonym: "myoblast, smooth muscle" EXACT [MESH:D032390] synonym: "satellite cell" RELATED [] xref: FMA:84798 +xref: ZFA:0009235 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000056 ! myoblast intersection_of: CL:0000056 ! myoblast intersection_of: RO:0002203 CL:0000192 ! develops into smooth muscle cell @@ -1120,6 +1130,7 @@ name: skeletal muscle myoblast def: "A myoblast that differentiates into skeletal muscle fibers." [SANBI:mhl] synonym: "skeletal myoblast" EXACT [] xref: FMA:84799 +xref: ZFA:0009236 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000056 ! myoblast is_a: CL:0011026 ! progenitor cell intersection_of: CL:0000056 ! myoblast @@ -1142,6 +1153,7 @@ def: "A neuron which conveys sensory information centrally from the periphery." subset: human_reference_atlas synonym: "input neuron" EXACT [] xref: FMA:87653 +xref: ZFA:0009238 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000540 ! neuron property_value: RO:0002175 NCBITaxon:9606 @@ -1150,6 +1162,7 @@ id: CL:0000527 name: efferent neuron def: "A neuron which sends impulses peripherally to activate muscles or secretory cells." [MESH:D009476] synonym: "output neuron" EXACT [] +xref: ZFA:0009239 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000540 ! neuron [Term] @@ -1163,10 +1176,11 @@ subset: human_reference_atlas synonym: "nerve cell" EXACT [] xref: BTO:0000938 xref: CALOHA:TS-0683 -xref: FBbt:00005106 +xref: FBbt:00005106 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:54527 xref: VHOG:0001483 xref: WBbt:0003679 +xref: ZFA:0009248 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000393 ! electrically responsive cell is_a: CL:0000404 ! electrically signaling cell is_a: CL:0002319 ! neural cell @@ -1181,6 +1195,7 @@ def: "A cell that originates from the neural crest and differentiates into a pig comment: Derived from UBERON:0002342 neural crest. xref: BTO:0003217 xref: FMA:83377 +xref: ZFA:0009249 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0011026 ! progenitor cell relationship: RO:0002202 CL:0000333 ! develops from migratory neural crest cell @@ -1197,8 +1212,8 @@ xref: CALOHA:TS-0583 xref: FMA:62863 xref: MESH:D008214 xref: VHOG:0001535 +xref: ZFA:0009250 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000842 ! mononuclear cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000738 ! leukocyte intersection_of: bearer_of PATO:0001407 ! mononucleate intersection_of: bearer_of PATO:0040072 ! high nuclear/cytoplasmic ratio @@ -1225,11 +1240,11 @@ synonym: "GMP" RELATED OMO:0003000 [ISBN:0721601464, PMCID:PMC2213186, PMCID:PMC synonym: "granulocyte-macrophage progenitor" EXACT [ISBN:0721601464, PMCID:PMC2213186, PMCID:PMC548021] synonym: "granulocyte/monocyte precursor" EXACT [] synonym: "granulocyte/monocyte progenitor" EXACT [] +xref: ZFA:0009251 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0001012 ! CD7-negative lymphoid progenitor OR granulocyte monocyte progenitor is_a: CL:0011026 ! progenitor cell is_a: CL:1001610 ! bone marrow hematopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002032 ! hematopoietic oligopotent progenitor cell intersection_of: capable_of GO:0030225 ! macrophage differentiation intersection_of: capable_of GO:0030851 ! granulocyte differentiation @@ -1257,9 +1272,9 @@ subset: cellxgene_subset subset: human_reference_atlas xref: BTO:0004657 xref: FMA:83551 +xref: ZFA:0009253 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0002194 {is_inferred="true"} ! monopoietic cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002194 ! monopoietic cell intersection_of: capable_of GO:0030224 ! monocyte differentiation intersection_of: has_part GO:0042582 ! azurophil granule @@ -1276,9 +1291,9 @@ def: "A mesenchymal stem cell capable of developing into blood vessel endotheliu comment: These cells are reportedly CD31-positive, CD34-positive, CD144-positive, CD309-positive, and TAL1-positive. synonym: "angioblast" EXACT [] synonym: "chondroplast" EXACT [] +xref: ZFA:0009258 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000134 {is_inferred="true"} ! mesenchymal stem cell is_a: CL:0011026 ! progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000134 ! mesenchymal stem cell intersection_of: RO:0002104 PR:000001444 ! has plasma membrane part cadherin-5 intersection_of: RO:0002104 PR:000002112 ! has plasma membrane part vascular endothelial growth factor receptor 2 @@ -1300,6 +1315,7 @@ subset: human_reference_atlas xref: BTO:0000876 xref: CALOHA:TS-0638 xref: FMA:62864 +xref: ZFA:0009265 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000113 ! mononuclear phagocyte is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte is_a: CL:0011026 ! progenitor cell @@ -1331,6 +1347,7 @@ xref: FMA:63147 xref: FMA:83601 xref: MESH:D007694 xref: VHOG:0001697 +xref: ZFA:0009278 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0001067 ! group 1 innate lymphoid cell intersection_of: CL:0001067 ! group 1 innate lymphoid cell intersection_of: capable_of GO:0002228 ! natural killer cell mediated immunity @@ -1351,6 +1368,7 @@ id: CL:0000680 name: muscle precursor cell def: "A non-terminally differentiated cell that is capable of developing into a muscle cell." [GOC:add] subset: cellxgene_subset +xref: ZFA:0009291 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell intersection_of: CL:0011115 ! precursor cell intersection_of: RO:0002203 CL:0000187 ! develops into muscle cell @@ -1363,6 +1381,7 @@ name: somatic stem cell def: "A stem cell that can give rise to cell types of the body other than those of the germ-line." [GO:0048103] xref: CALOHA:TS-2086 xref: MESH:D053687 +xref: ZFA:0009307 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000034 ! stem cell intersection_of: CL:0000034 ! stem cell intersection_of: capable_of GO:0048103 ! somatic stem cell division @@ -1375,6 +1394,7 @@ def: "Muscle cell which has as its direct parts myofilaments organized into sarc xref: BTO:0002916 xref: CALOHA:TS-2157 xref: FMA:86936 +xref: ZFA:0005784 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000187 ! muscle cell intersection_of: CL:0000187 ! muscle cell intersection_of: bearer_of PATO:0001410 ! striated @@ -1397,6 +1417,7 @@ xref: CALOHA:TS-0549 xref: FMA:62852 xref: MESH:D007962 xref: NCIT:C12529 +xref: ZFA:0009309 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000219 ! motile cell is_a: CL:0000255 ! eukaryotic cell is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell @@ -1428,6 +1449,7 @@ xref: BTO:0001539 xref: CALOHA:TS-0115 xref: FMA:14067 xref: MESH:D032383 +xref: ZFA:0009316 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000737 ! striated muscle cell is_a: CL:0002494 ! cardiocyte intersection_of: CL:0000187 ! muscle cell @@ -1448,6 +1470,7 @@ subset: cellxgene_subset xref: BTO:0001441 xref: CALOHA:TS-0647 xref: MESH:D022423 +xref: ZFA:0009324 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: RO:0002202 CL:0000049 ! develops from common myeloid progenitor @@ -1458,42 +1481,12 @@ id: CL:0000766 name: myeloid leukocyte def: "A cell of the monocyte, granulocyte, or mast cell lineage." [GOC:add] subset: cellxgene_subset +xref: ZFA:0009326 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000738 {is_inferred="true"} ! leukocyte is_a: CL:0000763 ! myeloid cell intersection_of: CL:0000738 ! leukocyte intersection_of: RO:0002202 CL:0000049 ! develops from common myeloid progenitor -[Term] -id: CL:0000775 -name: neutrophil -def: "Any of the immature or mature forms of a granular leukocyte that in its mature form has a nucleus with three to five lobes connected by slender threads of chromatin, and cytoplasm containing fine inconspicuous granules and stainable by neutral dyes." [GOC:add, GOC:amm, GOC:tfm, ISBN:0721601464] -subset: blood_and_immune_upper_slim -subset: cellxgene_subset -subset: human_reference_atlas -synonym: "neutrocyte" EXACT [] -synonym: "neutrophil leucocyte" EXACT [] -synonym: "neutrophil leukocyte" EXACT [] -synonym: "neutrophilic leucocyte" EXACT [] -synonym: "neutrophilic leukocyte" EXACT [] -synonym: "PMN" BROAD [] -synonym: "poly" BROAD [] -synonym: "polymorphonuclear leucocyte" BROAD [] -synonym: "polymorphonuclear leukocyte" BROAD [] -synonym: "polymorphonuclear neutrophil" BROAD [] -synonym: "polynuclear neutrophilic leucocyte" BROAD [] -synonym: "polynuclear neutrophilic leukocyte" BROAD [] -xref: BTO:0000130 -xref: CALOHA:TS-0688 -xref: FMA:62860 -xref: MESH:D009504 -is_a: CL:0000094 {is_inferred="true"} ! granulocyte -intersection_of: CL:0000094 ! granulocyte -intersection_of: RO:0002104 PR:000001479 ! has plasma membrane part low affinity immunoglobulin gamma Fc region receptor II -intersection_of: RO:0002104 PR:000001879 ! has plasma membrane part leukosialin -relationship: RO:0002104 PR:000001479 ! has plasma membrane part low affinity immunoglobulin gamma Fc region receptor II -relationship: RO:0002104 PR:000001879 ! has plasma membrane part leukosialin -property_value: RO:0002175 NCBITaxon:9606 - [Term] id: CL:0000782 name: myeloid dendritic cell @@ -1523,8 +1516,8 @@ synonym: "NKP" EXACT [PMID:12457618, PMID:15032583, PMID:15766674] synonym: "null cell" RELATED [PMID:11532393] synonym: "preNK cell" RELATED [PMID:11532393] synonym: "pro-natural killer cell" EXACT [] +xref: ZFA:0009348 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000838 {is_inferred="true"} ! lymphoid lineage restricted progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000838 ! lymphoid lineage restricted progenitor cell intersection_of: CL:4030046 PR:000001874 ! lacks_plasma_membrane_part KLRB1-like protein intersection_of: CL:4030046 PR:000002065 ! lacks_plasma_membrane_part mast/stem cell growth factor receptor @@ -1557,8 +1550,8 @@ synonym: "progenitor B lymphocyte" EXACT [] synonym: "progenitor B-cell" EXACT [] synonym: "progenitor B-lymphocyte" EXACT [] xref: BTO:0003104 +xref: ZFA:0009349 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000838 {is_inferred="true"} ! lymphoid lineage restricted progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000838 ! lymphoid lineage restricted progenitor cell intersection_of: has_part PR:000001903 ! paired box protein PAX-5 intersection_of: has_part PR:000006611 ! DNA nucleotidylexotransferase @@ -1579,6 +1572,7 @@ synonym: "DN1 thymocyte" NARROW [] synonym: "pro-T lymphocyte" EXACT [] synonym: "progenitor T cell" EXACT [] synonym: "TN1 cell" NARROW [] +xref: ZFA:0009350 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000838 {is_inferred="true"} ! lymphoid lineage restricted progenitor cell intersection_of: CL:0000838 ! lymphoid lineage restricted progenitor cell intersection_of: capable_of GO:0030217 ! T cell differentiation @@ -1597,8 +1591,8 @@ synonym: "hemopoietic progenitor cell" EXACT [] synonym: "MPP" EXACT [] xref: BTO:0000725 xref: CALOHA:TS-0448 +xref: ZFA:0009354 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008001 ! hematopoietic precursor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000988 ! hematopoietic cell intersection_of: bearer_of PATO:0001402 ! multipotent intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -1644,6 +1638,7 @@ synonym: "lymphoid progenitor cell" BROAD [] xref: BTO:0004731 xref: CALOHA:TS-2025 xref: FMA:70338 +xref: ZFA:0009355 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002031 {is_inferred="true"} ! hematopoietic lineage restricted progenitor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0002031 ! hematopoietic lineage restricted progenitor cell @@ -1662,6 +1657,7 @@ synonym: "myeloid progenitor cell" BROAD [] xref: BTO:0004730 xref: CALOHA:TS-2099 xref: FMA:70339 +xref: ZFA:0009356 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002031 {is_inferred="true"} ! hematopoietic lineage restricted progenitor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0002031 ! hematopoietic lineage restricted progenitor cell @@ -1680,6 +1676,7 @@ synonym: "peripheral blood mononuclear cell" NARROW [] xref: BTO:0000878 xref: CALOHA:TS-0768 xref: FMA:86713 +xref: ZFA:0009357 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000226 ! single nucleate cell is_a: CL:0000738 {is_inferred="true"} ! leukocyte intersection_of: CL:0000738 ! leukocyte @@ -1707,6 +1704,7 @@ xref: BTO:0000574 xref: CALOHA:TS-2017 xref: FMA:70366 xref: FMA:83598 +xref: ZFA:0005830 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -1869,6 +1867,7 @@ id: CL:0002077 name: ecto-epithelial cell def: "An epithelial cell derived from ectoderm." [FMA:69074, GOC:tfm] xref: FMA:69074 +xref: ZFA:0009385 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: RO:0002202 CL:0000221 ! develops from ectodermal cell @@ -1938,6 +1937,7 @@ subset: cellxgene_subset xref: CALOHA:TS-2096 xref: FMA:63875 xref: MESH:D003239 +xref: ZFA:0009392 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0002384 ! connective tissue @@ -1952,6 +1952,7 @@ def: "A cell of the embryo." [FMA:0618947256] xref: CALOHA:TS-0263 xref: FMA:82840 xref: WBbt:0007028 +xref: ZFA:0007089 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 creation_date: 2010-09-15T03:39:21Z @@ -1962,7 +1963,7 @@ name: myotube def: "A transversely striated, synctial muscle cell, formed by the fusion of myoblasts." [GOC:dos, GOC:tfm, ISBN:0323052908, PMID:22274696] synonym: "myotubule" EXACT [] synonym: "single cell sarcomere" EXACT [] -xref: FBbt:00005812 +xref: FBbt:00005812 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000228 ! multinucleate cell is_a: CL:0000737 ! striated muscle cell intersection_of: CL:0000187 ! muscle cell @@ -2004,6 +2005,7 @@ creation_date: 2012-06-15T02:51:27Z id: CL:0007004 name: premigratory neural crest cell def: "Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells." [UBERONREF:0000002] +xref: ZFA:0007084 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0011012 ! neural crest cell relationship: part_of UBERON:0002342 ! neural crest relationship: RO:0002202 CL:0000133 ! develops from neurectodermal cell @@ -2042,7 +2044,7 @@ relationship: RO:0002202 CL:0000515 ! develops from skeletal muscle myoblast id: CL:0008007 name: visceral muscle cell def: "A muscle cell that is part of some visceral muscle." [GOC:dos] -xref: FBbt:00005070 +xref: FBbt:00005070 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000187 ! muscle cell intersection_of: CL:0000187 ! muscle cell intersection_of: part_of UBERON:8600004 ! visceral muscle tissue @@ -2082,6 +2084,7 @@ property_value: seeAlso https://github.com/obophenotype/cell-ontology/issues/786 [Term] id: CL:0010021 name: cardiac myoblast +def: "Any myoblast that develops into some cardiac muscle cell." [FBC:Autogenerated] xref: MESH:D032386 is_a: CL:0000056 ! myoblast intersection_of: CL:0000056 ! myoblast @@ -2153,22 +2156,6 @@ intersection_of: CL:0000988 ! hematopoietic cell intersection_of: part_of UBERON:0002371 ! bone marrow relationship: part_of UBERON:0012429 ! hematopoietic tissue -[Term] -id: GO:0000003 -name: reproduction -namespace: biological_process -alt_id: GO:0019952 -alt_id: GO:0050876 -def: "The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms." [GOC:go_curators, GOC:isa_complete, GOC:jl, ISBN:0198506732] -subset: goslim_agr -subset: goslim_chembl -subset: goslim_flybase_ribbon -subset: goslim_pir -subset: goslim_plant -synonym: "reproductive physiological process" EXACT [] -xref: Wikipedia:Reproduction -is_a: GO:0008150 ! biological_process - [Term] id: GO:0000323 name: lytic vacuole @@ -2667,7 +2654,6 @@ synonym: "cell or subcellular entity" EXACT [] synonym: "cellular component" EXACT [] synonym: "subcellular entity" RELATED [NIF_Subcellular:nlx_subcell_100315] xref: NIF_Subcellular:sao1337158144 -is_a: BFO:0000040 ! material entity disjoint_from: GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/17729" xsd:anyURI @@ -2680,13 +2666,16 @@ comment: Note that this term is intended to annotate gene products that are not subset: goslim_agr subset: goslim_candida subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "extracellular" EXACT [] xref: Wikipedia:Extracellular @@ -2753,12 +2742,14 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "cell nucleus" EXACT [] synonym: "horsetail nucleus" NARROW [GOC:al, GOC:mah, GOC:vw, PMID:15030757] @@ -2784,6 +2775,7 @@ subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "chromatid" RELATED [] synonym: "interphase chromosome" NARROW [] @@ -2818,7 +2810,9 @@ subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast xref: Wikipedia:Cytoplasm is_a: GO:0110165 ! cellular anatomical entity @@ -2855,11 +2849,13 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "vacuolar carboxypeptidase Y" RELATED [] xref: Wikipedia:Vacuole @@ -2877,11 +2873,14 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "bacterial inner membrane" NARROW [] synonym: "cell membrane" EXACT [] @@ -2923,9 +2922,11 @@ subset: goslim_flybase_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon +subset: goslim_prokaryote_ribbon synonym: "cellular DNA metabolism" EXACT [] synonym: "DNA metabolism" EXACT [] -is_a: GO:0043170 ! macromolecule metabolic process +is_a: GO:0008152 ! metabolic process [Term] id: GO:0006310 @@ -2933,6 +2934,7 @@ name: DNA recombination namespace: biological_process def: "Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Interchromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction." [ISBN:0198506732] subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pombe subset: goslim_prokaryote @@ -2954,7 +2956,9 @@ subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "single-organism transport" RELATED [] is_a: GO:0051234 ! establishment of localization property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20292" xsd:anyURI @@ -3079,6 +3083,8 @@ name: organelle organization namespace: biological_process alt_id: GO:1902589 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_candida subset: goslim_pir synonym: "organelle organisation" EXACT [] @@ -3089,6 +3095,7 @@ is_a: GO:0016043 ! cellular component organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0043226 ! organelle relationship: results_in_organization_of GO:0043226 ! organelle +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2013-12-19T15:25:51Z @@ -3258,7 +3265,6 @@ synonym: "physiological process" EXACT [] synonym: "single organism process" RELATED [] synonym: "single-organism process" RELATED [] xref: Wikipedia:Biological_process -is_a: BFO:0000015 ! process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24968" xsd:anyURI created_by: jl creation_date: 2012-09-19T15:05:24Z @@ -3271,11 +3277,13 @@ alt_id: GO:0044236 alt_id: GO:0044710 def: "The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation." [GOC:go_curators, ISBN:0198547684] comment: Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_prokaryote_ribbon synonym: "metabolic process resulting in cell growth" NARROW [] synonym: "metabolism" EXACT [] synonym: "metabolism resulting in cell growth" NARROW [] @@ -3284,6 +3292,7 @@ synonym: "single-organism metabolic process" RELATED [] xref: Wikipedia:Metabolism is_a: GO:0008150 ! biological_process disjoint_from: GO:0051179 ! localization +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI created_by: jl creation_date: 2012-10-17T15:46:40Z @@ -3297,6 +3306,7 @@ def: "The chemical reactions and pathways resulting in the formation of substanc subset: goslim_chembl subset: goslim_metagenomics subset: goslim_plant +subset: goslim_plant_ribbon synonym: "anabolism" EXACT [] synonym: "biosynthesis" EXACT [] synonym: "formation" BROAD [] @@ -3314,6 +3324,8 @@ name: macromolecule biosynthetic process namespace: biological_process alt_id: GO:0043284 def: "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "biopolymer biosynthetic process" EXACT [GOC:mtg_chebi_dec09] synonym: "macromolecule anabolism" EXACT [] @@ -3325,6 +3337,7 @@ is_a: GO:0044249 ! cellular biosynthetic process is_a: GO:1901576 ! organic substance biosynthetic process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/15249" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25418" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0009314 @@ -3387,7 +3400,7 @@ name: response to external stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an external stimulus." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_drosophila subset: goslim_plant synonym: "response to environmental stimulus" EXACT [] @@ -3399,7 +3412,7 @@ name: response to biotic stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a biotic stimulus, a stimulus caused or produced by a living organism." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_metagenomics subset: goslim_plant synonym: "response to biotic stress" NARROW [] @@ -3411,7 +3424,7 @@ name: response to abiotic stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an abiotic (not derived from living organisms) stimulus." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_metagenomics subset: goslim_plant synonym: "response to abiotic stress" NARROW [] @@ -3437,7 +3450,7 @@ name: embryo development namespace: biological_process alt_id: GO:0009795 def: "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant." [GOC:go_curators, GOC:isa_complete, GOC:mtg_sensu] -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_plant synonym: "embryogenesis" EXACT [] @@ -3604,10 +3617,12 @@ namespace: biological_process alt_id: GO:0044235 alt_id: GO:0071842 def: "A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:ai, GOC:jl, GOC:mah] +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cell organisation" EXACT [] synonym: "cell organization and biogenesis" RELATED [GOC:mah] synonym: "cellular component organisation at cellular level" EXACT [GOC:mah] @@ -3642,6 +3657,7 @@ def: "A cellular transport process in which transported substances are moved in subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pir subset: goslim_pombe @@ -3671,6 +3687,7 @@ name: somatic cell DNA recombination namespace: biological_process def: "Recombination occurring within or between DNA molecules in somatic cells." [GOC:ma] is_a: GO:0006310 ! DNA recombination +property_value: RO:0002161 NCBITaxon:4751 [Term] id: GO:0016445 @@ -3770,12 +3787,18 @@ name: reproductive process namespace: biological_process alt_id: GO:0044702 def: "A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." [GOC:dph, GOC:isa_complete] +subset: gocheck_do_not_annotate +subset: goslim_agr +subset: goslim_chembl +subset: goslim_flybase_ribbon subset: goslim_generic +subset: goslim_pir +subset: goslim_plant +subset: goslim_plant_ribbon synonym: "single organism reproductive process" RELATED [] +xref: Wikipedia:Reproduction is_a: GO:0008150 ! biological_process -intersection_of: GO:0008150 ! biological_process -intersection_of: part_of GO:0000003 ! reproduction -relationship: part_of GO:0000003 ! reproduction +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27054" xsd:anyURI created_by: jl creation_date: 2012-09-19T15:56:06Z @@ -3799,11 +3822,13 @@ alt_id: GO:0044700 def: "The entirety of a process in which information is transmitted within a biological system. This process begins with an active signal and ends when a cellular response has been triggered." [GOC:mtg_signal, GOC:mtg_signaling_feb11, GOC:signaling] comment: Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change. subset: goslim_agr +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pombe subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "biological signaling" EXACT [] synonym: "signaling process" EXACT [] @@ -3832,8 +3857,8 @@ name: myofibril namespace: cellular_component def: "The contractile element of skeletal and cardiac muscle; a long, highly organized bundle of actin, myosin, and other proteins that contracts by a sliding filament mechanism." [ISBN:0815316194] xref: Wikipedia:Myofibril -is_a: GO:0043292 ! contractile fiber -intersection_of: GO:0043292 ! contractile fiber +is_a: GO:0043292 ! contractile muscle fiber +intersection_of: GO:0043292 ! contractile muscle fiber intersection_of: part_of CL:0000737 ! striated muscle cell relationship: part_of CL:0000737 ! striated muscle cell @@ -3887,6 +3912,8 @@ is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000988 ! hematopoietic cell relationship: results_in_development_of CL:0000988 ! hematopoietic cell +relationship: RO:0002160 NCBITaxon:6072 ! only in taxon Eumetazoa +relationship: RO:0002162 NCBITaxon:6072 {all_only="true"} ! in taxon Eumetazoa property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22178" xsd:anyURI [Term] @@ -3952,6 +3979,7 @@ subset: goslim_drosophila subset: goslim_generic subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon xref: Wikipedia:Cellular_differentiation is_a: GO:0048869 ! cellular developmental process intersection_of: GO:0048869 ! cellular developmental process @@ -4046,6 +4074,7 @@ alt_id: GO:0005578 def: "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues." [GOC:BHF, GOC:mah, GOC:rph, NIF_Subcellular:nlx_subcell_20090513, PMID:21123617, PMID:28089324] subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote @@ -4154,6 +4183,7 @@ namespace: biological_process alt_id: GO:0044707 alt_id: GO:0050874 def: "Any biological process, occurring at the level of a multicellular organism, pertinent to its function." [GOC:curators, GOC:dph, GOC:isa_complete, GOC:tb] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate subset: goslim_pir synonym: "organismal physiological process" EXACT [] @@ -4163,6 +4193,7 @@ property_value: RO:0002161 NCBITaxon:2 property_value: RO:0002161 NCBITaxon:2157 property_value: RO:0002161 NCBITaxon:4896 property_value: RO:0002161 NCBITaxon:4932 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2012-09-19T16:07:47Z @@ -4215,6 +4246,7 @@ def: "A stable assembly of two or more macromolecules, i.e. proteins, nucleic ac comment: A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole. subset: goslim_agr subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir @@ -4224,8 +4256,8 @@ synonym: "protein complex" NARROW [] synonym: "protein containing complex" EXACT [] synonym: "protein-protein complex" NARROW [] is_a: GO:0005575 ! cellular_component -is_a: PR:000050567 ! protein-containing material entity disjoint_from: GO:0110165 ! cellular anatomical entity +relationship: has_part PR:000000001 ! protein [Term] id: GO:0032993 @@ -4348,7 +4380,6 @@ id: GO:0042391 name: regulation of membrane potential namespace: biological_process def: "Any process that modulates the establishment or extent of a membrane potential, the electric potential existing across any membrane arising from charges in the membrane itself and from the charges present in the media on either side of the membrane." [GOC:jl, GOC:mtg_cardio, GOC:tb, ISBN:0198506732] -is_a: BFO:0000003 ! occurrent relationship: has_part GO:0034220 ! monoatomic ion transmembrane transport [Term] @@ -4368,11 +4399,11 @@ property_value: RO:0002161 NCBITaxon:6237 {source="GOC:kmv"} id: GO:0042582 name: azurophil granule namespace: cellular_component -def: "Primary lysosomal granule found in neutrophil granulocytes. Contains a wide range of hydrolytic enzymes and is released into the extracellular fluid." [GOC:jl, PMID:17152095] +def: "Primary lysosomal granule readily stainable with a Romanowsky stain." [GOC:jl, PMID:17152095, PMID:28717070, PMID:5914694, WIKIPEDIA:Azurophilic_granule] synonym: "primary granule" EXACT [] is_a: GO:0005766 ! primary lysosome is_a: GO:0030141 ! secretory granule -relationship: part_of CL:0000775 ! neutrophil +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27231" xsd:anyURI [Term] id: GO:0042592 @@ -4414,10 +4445,12 @@ name: cell projection namespace: cellular_component def: "A prolongation or process extending from a cell, e.g. a flagellum or axon." [GOC:jl, http://www.cogsci.princeton.edu/~wn/] subset: goslim_agr +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "cell process" BROAD [] synonym: "cellular process" BROAD [] synonym: "cellular projection" EXACT [] @@ -4480,6 +4513,7 @@ subset: goslim_chembl subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon xref: NIF_Subcellular:sao1539965131 xref: Wikipedia:Organelle is_a: GO:0110165 ! cellular anatomical entity @@ -4557,7 +4591,7 @@ relationship: part_of GO:0043226 ! organelle [Term] id: GO:0043292 -name: contractile fiber +name: contractile muscle fiber namespace: cellular_component def: "Fibers, composed of actin, myosin, and associated proteins, found in cells of smooth or striated muscle." [GOC:go_curators, ISBN:0815316194] synonym: "contractile fibre" EXACT [] @@ -4565,6 +4599,9 @@ is_a: GO:0043232 ! intracellular non-membrane-bounded organelle is_a: GO:0099512 ! supramolecular fiber relationship: part_of CL:0000187 ! muscle cell relationship: part_of GO:0005737 ! cytoplasm +relationship: RO:0002160 NCBITaxon:6072 ! only in taxon Eumetazoa +relationship: RO:0002162 NCBITaxon:6072 {all_only="true"} ! in taxon Eumetazoa +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27281" xsd:anyURI [Term] id: GO:0044237 @@ -4583,12 +4620,15 @@ id: GO:0044249 name: cellular biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:jl] +comment: This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. +subset: gocheck_do_not_annotate synonym: "cellular anabolism" EXACT [] synonym: "cellular biosynthesis" EXACT [] synonym: "cellular formation" EXACT [] synonym: "cellular synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0044237 ! cellular metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27052" xsd:anyURI [Term] id: GO:0044419 @@ -4625,6 +4665,7 @@ namespace: cellular_component def: "The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane." [GOC:aruk, ISBN:0198506732, PMID:24619342, PMID:29383328, PMID:31998110] subset: goslim_agr subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir @@ -4804,7 +4845,7 @@ name: regulation of response to stimulus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus." [GOC:jid] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0050896 ! response to stimulus @@ -4879,6 +4920,7 @@ subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_generic subset: goslim_plant +subset: goslim_plant_ribbon synonym: "development of an anatomical structure" EXACT [] is_a: GO:0032502 ! developmental process intersection_of: GO:0032502 ! developmental process @@ -4901,12 +4943,14 @@ namespace: biological_process def: "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another." [GOC:dgh, GOC:dph, GOC:isa_complete, GOC:mlg] subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_prokaryote synonym: "cell locomotion" EXACT [] synonym: "cell movement" RELATED [] synonym: "movement of a cell" EXACT [] is_a: GO:0009987 ! cellular process +property_value: RO:0002161 NCBITaxon:4890 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19809" xsd:anyURI [Term] @@ -4989,6 +5033,7 @@ is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001775 ! cell activation relationship: regulates GO:0001775 ! cell activation +property_value: RO:0002161 NCBITaxon:4890 [Term] id: GO:0050877 @@ -5018,12 +5063,13 @@ namespace: biological_process alt_id: GO:0051869 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism." [GOC:ai, GOC:bf] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "physiological response to stimulus" EXACT [] is_a: GO:0008150 ! biological_process @@ -5072,6 +5118,7 @@ name: localization namespace: biological_process alt_id: GO:1902578 def: "Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation." [GOC:ai, GOC:dos] +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "establishment and maintenance of cellular component location" NARROW [] synonym: "establishment and maintenance of localization" EXACT [] @@ -5082,6 +5129,7 @@ synonym: "localisation" EXACT [GOC:mah] synonym: "single organism localization" RELATED [GOC:TermGenie] synonym: "single-organism localization" RELATED [] is_a: GO:0008150 ! biological_process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27052" xsd:anyURI created_by: jl creation_date: 2013-12-18T13:51:04Z @@ -5161,6 +5209,7 @@ def: "The process in which a solute is transported across a lipid bilayer, from comment: Transmembrane transport is the transport of a solute across a lipid bilayer. Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane and is not traversed. For transport through the nuclear pore, consider instead the term 'nucleocytoplasmic transport ; GO:0006913' and its children. Note also that this term is not intended for use in annotating lateral movement within membranes. subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pombe subset: goslim_yeast @@ -5341,12 +5390,15 @@ name: cellular component organization or biogenesis namespace: biological_process alt_id: GO:0071841 def: "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_flybase_ribbon subset: goslim_metagenomics synonym: "cellular component organisation or biogenesis" EXACT [GOC:mah] synonym: "cellular component organisation or biogenesis at cellular level" EXACT [GOC:mah] synonym: "cellular component organization or biogenesis at cellular level" EXACT [] is_a: GO:0009987 ! cellular process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: mah creation_date: 2010-09-10T01:39:16Z @@ -5447,7 +5499,7 @@ name: plasma membrane region namespace: cellular_component def: "A membrane that is a (regional) part of the plasma membrane." [GOC:dos] comment: Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "region of plasma membrane" EXACT [] is_a: GO:0016020 ! membrane intersection_of: GO:0016020 ! membrane @@ -5482,7 +5534,6 @@ def: "A complex of collagen trimers such as a fibril or collagen network." [GOC: synonym: "Supramolecular aggregate of collagen" EXACT [PMID:19693541] synonym: "Supramolecular collagen assembly" EXACT [PMID:21421911] is_a: GO:0099080 ! supramolecular complex -is_a: PR:000050567 ! protein-containing material entity relationship: has_part GO:0005581 ! collagen trimer relationship: part_of GO:0062023 ! collagen-containing extracellular matrix @@ -5728,6 +5779,7 @@ id: GO:1901576 name: organic substance biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon." [GOC:pr, GOC:TermGenie] +subset: gocheck_do_not_annotate synonym: "organic molecular entity anabolism" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthesis" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthetic process" EXACT [] @@ -5739,6 +5791,7 @@ synonym: "organic substance formation" EXACT [] synonym: "organic substance synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0071704 ! organic substance metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI created_by: pr creation_date: 2012-11-05T11:04:40Z @@ -6095,7 +6148,6 @@ name: quality namespace: quality alt_id: PATO:0000072 def: "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities" [PATOC:GVG] -is_a: BFO:0000020 ! specifically dependent continuant [Term] id: PATO:0000051 @@ -6769,15 +6821,6 @@ synonym: "CGM6" RELATED Gene-based [] synonym: "non-specific cross-reacting antigen NCA-95" EXACT [] is_a: PR:000000001 ! protein -[Term] -id: PR:000001355 -name: immunoglobulin gamma Fc receptor II/III/IV -namespace: protein -def: "A protein with a core domain architecture consisting of an extracellular domain containing two copies of the Immunoglobulin domain (Pfam:PF00047), followed by a single-pass transmembrane region and a small intracellular domain. The active protein is a low affinity receptor for immunoglobulin gamma chain Fc region. Human II-a, II-b, and II-c represent a recent gene expansion and are equally related to mouse II, III, and IV. Human III-A and III-B are closely related and closer to mouse IV than to mouse III." [PRO:WCB] -comment: Category=family. -xref: PIRSF:PIRSF001980 -is_a: PR:000000001 ! protein - [Term] id: PR:000001381 name: interleukin-2 receptor subunit beta @@ -6809,24 +6852,6 @@ synonym: "vascular endothelial cadherin" EXACT [] synonym: "VE-cadherin" EXACT [] is_a: PR:000001327 ! cadherin -[Term] -id: PR:000001479 -name: low affinity immunoglobulin gamma Fc region receptor II -namespace: protein -def: "An immunoglobulin gamma Fc receptor II/III/IV that is a translation product of the mouse Fcgr2 gene or a 1:1 ortholog thereof." [PRO:CNA] -comment: Category=gene. Requested by=CL. -synonym: "CD32" BROAD [PRO:DNx] -synonym: "Fc gamma receptor IIB" EXACT [] -synonym: "Fc-gamma RII" EXACT [] -synonym: "Fc-gamma-RIIB" EXACT [] -synonym: "Fcgr2" EXACT PRO-short-label [PRO:DNx] -synonym: "Fcgr2b" RELATED Gene-based [] -synonym: "FcRII" EXACT [] -synonym: "IgG Fc receptor II beta" EXACT [] -synonym: "ly-17" EXACT [] -synonym: "lymphocyte antigen 17" EXACT [] -is_a: PR:000001355 ! immunoglobulin gamma Fc receptor II/III/IV - [Term] id: PR:000001753 name: transcription factor NF-kappa-B subunit @@ -6919,24 +6944,6 @@ comment: Category=family. Requested by=CL. xref: PIRSF:PIRSF038804 is_a: PR:000000001 ! protein -[Term] -id: PR:000001879 -name: leukosialin -namespace: protein -def: "A protein that is a translation product of the human SPN gene or a 1:1 ortholog thereof." [PRO:WCB] -comment: Category=gene. Requested by=CL. -synonym: "B-cell differentiation antigen LP-3" EXACT [] -synonym: "CD43" RELATED Gene-based [] -synonym: "galactoglycoprotein" EXACT [] -synonym: "GALGP" EXACT [] -synonym: "leukocyte sialoglycoprotein" EXACT [] -synonym: "ly-48" EXACT [] -synonym: "lymphocyte antigen 48" EXACT [] -synonym: "sialophorin" EXACT [] -synonym: "SPN" EXACT PRO-short-label [PRO:DNx] -xref: PIRSF:PIRSF001994 -is_a: PR:000000001 ! protein - [Term] id: PR:000001889 name: CD14 molecule @@ -7299,21 +7306,6 @@ synonym: "CD45R" EXACT [] synonym: "PTPRC/iso:CD45R" EXACT PRO-short-label [PRO:DNx] is_a: PR:000001006 ! receptor-type tyrosine-protein phosphatase C -[Term] -id: PR:000050567 -name: protein-containing material entity -namespace: protein -def: "A material entity that minimally consists of a protein." [PRO:DAN] -comment: Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566). -synonym: "protein" NARROW [PRO:DAN] -synonym: "protein aggregate" NARROW [PRO:DAN] -synonym: "protein complex" NARROW [PRO:DAN] -synonym: "protein-containing complex" NARROW [PRO:DAN] -is_a: BFO:0000040 ! material entity -intersection_of: BFO:0000040 ! material entity -intersection_of: has_part PR:000000001 ! protein -relationship: has_part PR:000000001 ! protein - [Term] id: UBERON:0000000 name: processual entity @@ -7350,6 +7342,7 @@ xref: CALOHA:TS-2043 xref: EHDAA2:0001824 xref: EHDAA:500 xref: EMAPA:35955 +xref: FBbt:00005155 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: GAID:63 xref: HAO:0000930 xref: MA:0000017 @@ -7427,6 +7420,7 @@ synonym: "ducts" RELATED OMO:0003004 [XAO:0004000] synonym: "exocrine duct" NARROW [] synonym: "exocrine gland duct" NARROW [] xref: AAO:0011123 +xref: FBbt:00100314 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:30320 xref: galen:Duct xref: NCIT:C12948 @@ -7436,7 +7430,6 @@ xref: UMLS:C0687028 {source="ncithesaurus:Duct"} xref: Wikipedia:Duct_(anatomy) xref: XAO:0004000 xref: ZFA:0005171 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000063 ! organ subunit relationship: has_part UBERON:0034969 ! epithelial layer of duct relationship: RO:0000086 PATO:0002299 ! has quality tubular @@ -7473,6 +7466,7 @@ xref: BILA:0000003 xref: CARO:0000003 xref: EHDAA2:0003003 xref: EMAPA:0 +xref: FBbt:00007001 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:305751 xref: FMA:67135 xref: GAID:781 @@ -7575,7 +7569,6 @@ xref: EFO:0001272 xref: FBdv:00005369 xref: WBls:0000041 xref: XtroDO:0000084 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000092 ! post-embryonic stage relationship: preceded_by UBERON:0000111 ! organogenesis stage @@ -7602,7 +7595,6 @@ xref: WBls:0000003 xref: WBls:0000092 xref: WBls:0000102 xref: XAO:1000012 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage disjoint_from: UBERON:0000092 ! post-embryonic stage relationship: precedes UBERON:0000066 ! fully formed stage @@ -7618,7 +7610,6 @@ subset: common_anatomy synonym: "death" RELATED [] xref: XAO:0000437 xref: XtroDO:0000085 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: RO:0002229 UBERON:0000104 ! ends life cycle property_value: RO:0002175 NCBITaxon:33090 @@ -7659,7 +7650,6 @@ xref: OGES:000024 xref: WBls:0000022 xref: WBls:0000093 xref: WBls:0000103 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: preceded_by UBERON:0000068 ! embryo stage relationship: RO:0002082 GO:0009791 ! simultaneous with post-embryonic development @@ -7681,7 +7671,6 @@ xref: HsapDv:0000001 xref: MmusDv:0000001 xref: ncithesaurus:Life xref: OGES:000011 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000000 ! processual entity relationship: ends_with UBERON:0000071 ! death stage relationship: has_part UBERON:0000105 ! life cycle stage @@ -7745,7 +7734,6 @@ xref: VHOG:0000745 xref: Wikipedia:Zygote xref: XAO:1000001 xref: ZFS:0000001 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: RO:0002223 UBERON:0000104 ! starts life cycle @@ -7769,7 +7757,6 @@ xref: PdumDv:0000200 xref: Wikipedia:Cleavage_(embryo) xref: XAO:1000004 xref: ZFS:0000046 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage intersection_of: UBERON:0000105 ! life cycle stage intersection_of: RO:0002082 GO:0040016 ! simultaneous with embryonic cleavage @@ -7795,7 +7782,6 @@ xref: WBls:0000005 xref: Wikipedia:Blastula xref: XAO:1000003 xref: ZFS:0000045 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000107 ! cleavage stage @@ -7825,7 +7811,6 @@ xref: OGES:000019 xref: WBls:0000010 xref: XAO:1000005 xref: ZFS:0000047 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000108 {source="BILS"} ! blastula stage @@ -7842,7 +7827,6 @@ xref: BILS:0000110 xref: HsapDv:0000012 xref: MmusDv:0000017 xref: XAO:1000006 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000109 ! gastrula stage @@ -7864,7 +7848,6 @@ xref: MmusDv:0000018 xref: OGES:000005 xref: OGES:000032 xref: Wikipedia:Organogenesis -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: RO:0002082 GO:0048513 ! simultaneous with animal organ development @@ -7904,6 +7887,7 @@ xref: EFO:0000825 xref: EHDAA2:0001326 xref: EHDAA:542 xref: EMAPA:16262 +xref: FBbt:00003126 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:49184 xref: GAID:75 xref: galen:Mouth @@ -8010,6 +7994,7 @@ xref: CALOHA:TS-2101 xref: CARO:0000004 xref: EHDAA2:0003004 xref: EMAPA:35178 +xref: FBbt:00007019 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9669 xref: galen:BodySubstance xref: HAO:0000004 @@ -8044,6 +8029,7 @@ xref: AEO:0000005 xref: BILA:0000005 xref: CARO:0000005 xref: EHDAA2:0003005 +xref: FBbt:00007017 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:5897 xref: HAO:0000005 xref: NCIT:C94478 @@ -8071,12 +8057,12 @@ xref: AEO:0000006 xref: BILA:0000006 xref: CARO:0000006 xref: EHDAA2:0003006 +xref: FBbt:00007016 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67165 xref: HAO:0000006 xref: TAO:0001836 xref: TGMA:0001826 xref: VHOG:0001721 -is_a: BFO:0000040 ! material entity is_a: UBERON:0001062 ! anatomical entity disjoint_from: UBERON:0000466 ! immaterial anatomical entity property_value: RO:0002175 NCBITaxon:33090 @@ -8096,12 +8082,12 @@ xref: AEO:0000007 xref: BILA:0000007 xref: CARO:0000007 xref: EHDAA2:0003007 +xref: FBbt:00007015 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67112 xref: HAO:0000007 xref: TAO:0001835 xref: TGMA:0001827 xref: VHOG:0001727 -is_a: BFO:0000141 ! immaterial entity is_a: UBERON:0001062 ! anatomical entity property_value: RO:0002175 NCBITaxon:33090 property_value: RO:0002175 NCBITaxon:33208 @@ -8133,6 +8119,7 @@ xref: EHDAA2:0003011 xref: EHDAA:392 xref: EMAPA:16103 xref: EV:0100000 +xref: FBbt:00004856 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7149 xref: galen:AnatomicalSystem xref: HAO:0000011 @@ -8186,6 +8173,7 @@ xref: EHDAA2:0003191 xref: EHDAA:1 xref: EMAPA:25765 xref: EV:0100016 +xref: FBbt:00000001 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:256135 xref: galen:Organism xref: HAO:0000012 @@ -8229,6 +8217,7 @@ xref: CARO:0000032 xref: EFO:0000808 xref: EHDAA2:0003032 xref: EMAPA:36031 +xref: FBbt:00007009 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7153 xref: galen:BodyPart xref: HAO:0000032 @@ -8264,6 +8253,7 @@ xref: AEO:0000040 xref: BILA:0000040 xref: CARO:0000040 xref: EHDAA2:0003040 +xref: FBbt:00007013 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:63863 xref: HAO:0000040 xref: TAO:0000382 @@ -8283,6 +8273,7 @@ namespace: uberon def: "Anatomical group whose component anatomical structures lie in close proximity to each other." [FBbt:00007277] subset: common_anatomy subset: upper_level +xref: FBbt:00007277 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: VHOG:0001737 is_a: UBERON:0034923 ! disconnected anatomical group property_value: RO:0002175 NCBITaxon:33090 @@ -8308,6 +8299,7 @@ xref: CALOHA:TS-2119 xref: CARO:0000042 xref: EHDAA2:0003042 xref: EHDAA:46 +xref: FBbt:00005835 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:85537 xref: HAO:0000042 xref: NCIT:C34055 @@ -8343,6 +8335,7 @@ xref: CALOHA:TS-2090 xref: CARO:0000043 xref: EHDAA2:0003043 xref: EMAPA:35868 +xref: FBbt:00007003 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9637 xref: galen:Tissue xref: HAO:0000043 @@ -8377,6 +8370,7 @@ xref: AEO:0000055 xref: BILA:0000055 xref: CARO:0000055 xref: EHDAA2:0003055 +xref: FBbt:00007010 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: HAO:0000055 xref: TAO:0001488 xref: TGMA:0001847 @@ -8409,6 +8403,7 @@ xref: CALOHA:TS-0288 xref: CARO:0000066 xref: EHDAA2:0003066 xref: EMAPA:32738 +xref: FBbt:00007005 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9639 xref: GAID:402 xref: HAO:0000066 @@ -8422,7 +8417,6 @@ xref: VHOG:0000387 xref: Wikipedia:Epithelium xref: XAO:0003045 xref: ZFA:0001486 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000479 ! tissue intersection_of: UBERON:0000479 ! tissue intersection_of: RO:0002473 CL:0000066 ! composed primarily of epithelial cell @@ -8508,6 +8502,7 @@ xref: EHDAA2:0000002 xref: EHDAA2_RETIRED:0003236 xref: EHDAA:38 xref: EMAPA:16039 +xref: FBbt:00000052 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69068 xref: GAID:963 xref: http://neurolex.org/wiki/Category\:Embryonic_organism @@ -8548,6 +8543,7 @@ xref: AAO:0000480 xref: BILA:0000035 xref: BTO:0000556 xref: EMAPA:36033 +xref: FBbt:00000110 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69069 xref: GAID:1303 xref: MESH:D005855 @@ -8581,6 +8577,7 @@ xref: EFO:0000414 xref: EHDAA2:0000428 xref: EMAPA:16069 xref: EV:0100003 +xref: FBbt:00000111 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69070 xref: GAID:1304 xref: MAT:0000155 @@ -8618,6 +8615,7 @@ xref: EFO:0002545 xref: EHDAA2:0000436 xref: EMAPA:16062 xref: EV:0100005 +xref: FBbt:00000125 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69071 xref: GAID:1305 xref: MAT:0000175 @@ -8661,6 +8659,7 @@ xref: EHDAA:160 xref: EHDAA:183 xref: EMAPA:16083 xref: EV:0100006 +xref: FBbt:00000126 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69072 xref: GAID:522 xref: MAT:0000174 @@ -8700,6 +8699,7 @@ synonym: "stomodeal-hypophyseal primordium" BROAD [XAO:0000269] xref: BTO:0004224 xref: EHDAA2:0001929 xref: EMAPA:16263 +xref: FBbt:00000439 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:295846 xref: NCIT:C34306 xref: TAO:0001290 @@ -8733,6 +8733,7 @@ xref: EFO:0002969 xref: EHDAA2:0002224 xref: EMAPA:35306 xref: EV:0100128 +xref: FBbt:00005068 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9668 xref: GAID:439 xref: MA:0000012 @@ -8777,6 +8778,7 @@ xref: BTO:0000439 xref: CALOHA:TS-0309 xref: EFO:0000827 xref: EV:0100336 +xref: FBbt:00005162 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: GAID:69 xref: MAT:0000140 xref: MESH:D005123 @@ -8849,6 +8851,7 @@ xref: BILA:0000082 xref: BTO:0000058 xref: CALOHA:TS-1293 xref: EFO:0000793 +xref: FBbt:00005055 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7152 xref: GAID:278 xref: galen:DigestiveSystem @@ -8967,6 +8970,7 @@ xref: EHDAA2:0001246 xref: EHDAA:826 xref: EMAPA:16469 xref: EV:0100162 +xref: FBbt:00005093 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7157 xref: GAID:466 xref: MA:0000016 @@ -9028,6 +9032,7 @@ xref: EHDAA:828 xref: EMAPA:16470 xref: EMAPA:16754 xref: EV:0100163 +xref: FBbt:00005094 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:55675 xref: GAID:570 xref: MA:0000167 @@ -9073,6 +9078,7 @@ xref: BILA:0000099 xref: EFO:0000805 xref: EHDAA2:0003094 xref: EMAPA:16192 +xref: FBbt:00007692 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:75259 xref: MA:0002442 xref: MAT:0000031 @@ -9142,6 +9148,7 @@ xref: BILA:0000000 xref: BIRNLEX:6 xref: CARO:0000000 xref: EHDAA2:0002229 +xref: FBbt:10000000 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:62955 xref: HAO:0000000 xref: MA:0000001 @@ -9349,6 +9356,7 @@ xref: BTO:0000545 xref: EHDAA2:0000726 xref: EHDAA:518 xref: EMAPA:16247 +xref: FBbt:00003125 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45615 xref: galen:AlimentaryTract xref: MA:0000917 @@ -9439,6 +9447,7 @@ xref: BILA:0000034 xref: BTO:0000174 xref: CALOHA:TS-2110 xref: EFO:0000461 +xref: FBbt:00004208 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69067 xref: GAID:407 xref: MESH:D004628 @@ -9671,7 +9680,6 @@ xref: NCIT:C12957 xref: UMLS:C1516995 {source="ncithesaurus:Exocrine_System"} xref: Wikipedia:Exocrine_gland xref: WikipediaCategory:Exocrine_system -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system @@ -9743,6 +9751,7 @@ xref: EHDAA:1498 xref: EHDAA:255 xref: EMAPA:16073 xref: EV:0100004 +xref: FBbt:00001057 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:87657 xref: MAT:0000176 xref: MIAA:0000176 @@ -9780,7 +9789,6 @@ xref: NCIT:C12712 xref: SCTID:115976003 xref: UMLS:C0015282 {source="ncithesaurus:Exocrine_Gland"} xref: Wikipedia:Exocrine_gland -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0002530 ! gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0002330 ! exocrine system @@ -10062,6 +10070,7 @@ xref: EFO:0000797 xref: EHDAA2:0003096 xref: EHDAA:2161 xref: EMAPA:18425 +xref: FBbt:00100317 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7146 xref: FMA:86294 xref: galen:Gland @@ -10425,6 +10434,7 @@ def: "Epithelial tubes transport gases, liquids and cells from one site to anoth synonym: "epithelial or endothelial tube" EXACT [] xref: AEO:0000114 xref: EHDAA2:0003114 +xref: FBbt:00007474 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000025 ! tube is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium @@ -10588,6 +10598,7 @@ synonym: "trilaminar disk" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar germ" RELATED [https://orcid.org/0000-0002-6601-2165] xref: BILA:0000060 xref: BTO:0001403 +xref: FBbt:00005317 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:293108 xref: GAID:1302 xref: MESH:D005775 @@ -10685,6 +10696,7 @@ namespace: uberon def: "Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "joint" NARROW [] +xref: FBbt:00005811 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0034921 ! multi organ part structure relationship: part_of UBERON:0004770 ! articular system @@ -10700,6 +10712,7 @@ synonym: "gut section" RELATED [FBbt:00100315] synonym: "intestinal tract" RELATED [] synonym: "segment of intestinal tract" RELATED [] synonym: "subdivision of alimentary system" RELATED [FMA:71131] +xref: FBbt:00100315 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:71131 is_a: UBERON:0013522 ! subdivision of tube intersection_of: UBERON:0013522 ! subdivision of tube @@ -10835,6 +10848,7 @@ name: photoreceptor array namespace: uberon def: "An array of photoreceptors and any supporting cells found in an eye." [https://orcid.org/0000-0002-6601-2165] synonym: "light-sensitive tissue" EXACT [] +xref: FBbt:00004200 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: part_of UBERON:0000970 ! eye @@ -10854,6 +10868,7 @@ synonym: "developmental tissue" RELATED [MIAA:0000019] xref: AEO:0000125 xref: CALOHA:TS-2122 xref: EHDAA2:0003125 +xref: FBbt:00007006 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:292313 xref: MIAA:0000019 is_a: UBERON:0000465 ! material anatomical entity @@ -10892,7 +10907,6 @@ xref: NCIT:C13191 xref: SCTID:68989006 xref: UMLS:C0004799 {source="ncithesaurus:Basement_Membrane"} xref: Wikipedia:Basement_membrane -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0005764 {source="FMA"} ! acellular membrane relationship: adjacent_to CL:0000066 ! epithelial cell relationship: has_part GO:0005587 ! collagen type IV trimer @@ -11174,7 +11188,6 @@ name: regular connective tissue namespace: uberon def: "Connective tissue, which consists of fibroblasts, the intercellular matrix of which contains a regular network of collagen and elastic fiber bundles. Examples: bone (tissue), cartilage (tissue), dense regular connective tissue." [FMA:20103] xref: FMA:20103 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0002384 {source="FMA"} ! connective tissue disjoint_from: UBERON:0011821 ! irregular connective tissue relationship: has_part CL:0000057 ! fibroblast @@ -11240,6 +11253,7 @@ subset: common_anatomy subset: upper_level synonym: "multicellular structure" EXACT [FBbt:00100313] xref: CARO:0010000 +xref: FBbt:00100313 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: RO:0000086 PATO:0001993 ! has quality multicellular @@ -11309,6 +11323,7 @@ def: "A subdivision of an anatomical system." [http://orcid.org/0000-0002-6601-2 subset: common_anatomy subset: human_reference_atlas subset: upper_level +xref: FBbt:00007330 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67509 xref: SCTID:91690000 is_a: UBERON:0010000 {source="FBbt"} ! multicellular anatomical structure @@ -11366,7 +11381,6 @@ xref: AAO:0000121 xref: NCIT:C32450 xref: UMLS:C1511770 {source="ncithesaurus:Dense_Connective_Tissue"} xref: Wikipedia:Dense_connective_tissue -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: RO:0002473 UBERON:0011860 ! composed primarily of collection of collagen fibrils @@ -11381,7 +11395,6 @@ xref: FMA:63212 xref: MESH:D024022 xref: NCIT:C32339 xref: NIF_Subcellular:sao7547390221 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000476 {source="ZFA"} ! acellular anatomical structure relationship: RO:0002473 GO:0005581 ! composed primarily of collagen trimer relationship: RO:0002473 GO:0098643 ! composed primarily of banded collagen fibril @@ -11536,6 +11549,7 @@ name: non-connected functional system namespace: uberon def: "An anatomical group whose component structures share a common function." [AEO:0000093, AEO:JB, FBbt:00007278, FBC:DOS] xref: AEO:0000093 +xref: FBbt:00007278 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0034923 ! disconnected anatomical group [Term] @@ -11688,6 +11702,7 @@ namespace: uberon def: "Material anatomical entity consisting of multiple anatomical structures that are not connected to each other." [CARO:0020000] subset: common_anatomy xref: CARO:0020000 +xref: FBbt:00007276 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000465 {source="CARO"} ! material anatomical entity relationship: has_component UBERON:0000061 {minCardinality="2"} ! anatomical structure relationship: RO:0000086 PATO:0010001 ! has quality disconnected @@ -11787,15 +11802,6 @@ is_functional: true is_a: RO:0002314 ! characteristic of part of inverse_of: bearer_of ! bearer of -[Typedef] -id: RO:0000079 -name: function of -def: "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -property_value: IAO:0000116 "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." xsd:string -is_a: RO:0000052 ! characteristic of -inverse_of: RO:0000085 ! has function - [Typedef] id: RO:0000080 name: quality of @@ -11805,23 +11811,6 @@ property_value: IAO:0000116 "A quality inheres in its bearer at all times for wh is_a: RO:0000052 ! characteristic of inverse_of: RO:0000086 ! has quality -[Typedef] -id: RO:0000081 -name: role of -def: "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -property_value: IAO:0000116 "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." xsd:string -is_a: RO:0000052 ! characteristic of -inverse_of: RO:0000087 ! has role - -[Typedef] -id: RO:0000085 -name: has function -def: "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" [] -property_value: IAO:0000116 "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." xsd:string -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of - [Typedef] id: RO:0000086 name: has quality @@ -11829,30 +11818,6 @@ def: "a relation between an independent continuant (the bearer) and a quality, i property_value: IAO:0000116 "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." xsd:string is_a: bearer_of ! bearer of -[Typedef] -id: RO:0000087 -name: has role -def: "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" [] -property_value: IAO:0000116 "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." xsd:string -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of - -[Typedef] -id: RO:0000091 -name: has disposition -def: "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" [] -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of -inverse_of: RO:0000092 ! disposition of - -[Typedef] -id: RO:0000092 -name: disposition of -def: "inverse of has disposition" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -subset: RO:0002259 -is_a: RO:0000052 ! characteristic of - [Typedef] id: RO:0001000 name: derives from @@ -11884,8 +11849,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: IAO:0000116 "Location as a relation between instances: The primitive instance-level relation c located_in r at t reflects the fact that each continuant is at any given time associated with exactly one spatial region, namely its exact location. Following we can use this relation to define a further instance-level location relation - not between a continuant and the region which it exactly occupies, but rather between one continuant and another. c is located in c1, in this sense, whenever the spatial region occupied by c is part_of the spatial region occupied by c1. Note that this relation comprehends both the relation of exact location between one continuant and another which obtains when r and r1 are identical (for example, when a portion of fluid exactly fills a cavity), as well as those sorts of inexact location relations which obtain, for example, between brain and head or between ovum and uterus" xsd:string property_value: IAO:0000116 "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" xsd:string property_value: seeAlso "https://wiki.geneontology.org/Located_in" xsd:anyURI -domain: BFO:0000004 {IAO:0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant -range: BFO:0000004 {IAO:0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant is_transitive: true transitive_over: part_of ! part of @@ -11904,8 +11867,6 @@ name: has 2D boundary def: "a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity" [] property_value: IAO:0000116 "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." xsd:string property_value: IAO:0000116 "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." xsd:string -domain: BFO:0000040 ! material entity -range: BFO:0000141 ! immaterial entity is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -11920,34 +11881,6 @@ name: has synaptic terminal of is_a: overlaps ! overlaps inverse_of: RO:0002130 ! has synaptic terminal in -[Typedef] -id: RO:0002015 -name: has positive regulatory component activity -def: "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." [] -comment: By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'. -is_a: has_regulatory_component_activity ! has regulatory component activity -is_a: positively_regulated_by ! positively regulated by -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:31:17Z - -[Typedef] -id: RO:0002017 -name: has component activity -comment: A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B. -is_a: RO:0002018 ! has component process -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:44:33Z - -[Typedef] -id: RO:0002018 -name: has component process -def: "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." [] -domain: BFO:0000015 ! process -range: BFO:0000015 ! process -is_a: has_component ! has component -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:49:21Z - [Typedef] id: RO:0002021 name: occurs across @@ -11956,43 +11889,6 @@ is_a: RO:0002479 ! has part that occurs in created_by: https://orcid.org/0000-0002-7073-9172 creation_date: 2017-07-20T17:19:37Z -[Typedef] -id: RO:0002022 -name: directly regulated by -comment: Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. {xref="https://orcid.org/0000-0002-7073-9172"} -is_a: regulated_by ! regulated by -inverse_of: directly_regulates ! directly regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:24Z - -[Typedef] -id: RO:0002023 -name: directly negatively regulated by -def: "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1." [https://orcid.org/0000-0002-7073-9172] -is_a: RO:0002022 ! directly regulated by -inverse_of: directly_negatively_regulates ! directly negatively regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:38Z - -[Typedef] -id: RO:0002024 -name: directly positively regulated by -def: "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1." [https://orcid.org/0000-0002-7073-9172] -is_a: RO:0002022 ! directly regulated by -inverse_of: directly_positively_regulates ! directly positively regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:47Z - -[Typedef] -id: RO:0002025 -name: has effector activity -def: "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity." [https://orcid.org/0000-0002-7073-9172] -comment: This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations. -is_functional: true -is_a: RO:0002017 ! has component activity -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-22T14:14:36Z - [Typedef] id: RO:0002081 name: before or simultaneous with @@ -12116,8 +12012,6 @@ id: RO:0002150 name: continuous with def: "X continuous_with Y if and only if X and Y share a fiat boundary." [] property_value: seeAlso "FMA:85972" xsd:string -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_symmetric: true is_a: RO:0002323 ! mereotopologically related to @@ -12180,7 +12074,6 @@ name: connects def: "c connects a if and only if there exist some b such that a and b are similar parts of the same system, and c connects b, specifically, c connects a with b. When one structure connects two others it unites some aspect of the function or role they play within the system." [] property_value: seeAlso "https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern" xsd:anyURI property_value: seeAlso "https://github.com/obophenotype/uberon/wiki/Modeling-articulations-Design-Pattern" xsd:anyURI -domain: BFO:0000004 ! independent continuant is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -12211,8 +12104,6 @@ id: RO:0002202 name: develops from def: "x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y" [] comment: This is the transitive form of the develops from relation -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_transitive: true is_a: RO:0002254 ! has developmental contribution from is_a: RO:0002258 ! developmentally preceded by @@ -12232,7 +12123,6 @@ is_a: RO:0002388 ! has potential to directly develop into id: RO:0002206 name: expressed in def: "x expressed in y if and only if there is a gene expression process (GO:0010467) that occurs in y, and one of the following holds: (i) x is a gene, and x is transcribed into a transcript as part of the gene expression process (ii) x is a transcript, and the transcription of x is part of the gene expression process (iii) x is a mature gene product such as a protein, and x was translated or otherwise processes from a transcript that was transcribed as part of this gene expression process" [] -domain: BFO:0000002 ! continuant range: UBERON:0000465 ! material anatomical entity is_a: RO:0002330 ! genomically related to inverse_of: RO:0002292 ! expresses @@ -12273,8 +12163,6 @@ id: RO:0002222 name: temporally related to comment: A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. subset: ro-eco -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent [Typedef] id: RO:0002223 @@ -12366,8 +12254,6 @@ name: developmentally preceded by def: "Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p" [] comment: This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from property_value: IAO:0000116 "false" xsd:boolean -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant is_a: RO:0002324 ! developmentally related to inverse_of: RO:0002286 ! developmentally succeeded by @@ -12377,7 +12263,6 @@ name: acts upstream of def: "c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes." [] subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of -holds_over_chain: RO:0002327 causally_upstream_of is_a: RO:0002264 ! acts upstream of or within [Typedef] @@ -12387,7 +12272,6 @@ def: "c acts upstream of or within p if c is enables f, and f is causally upstre subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term synonym: "affects" RELATED [] property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of_or_within is_a: RO:0002500 ! causal agent in process [Typedef] @@ -12439,17 +12323,6 @@ id: RO:0002324 name: developmentally related to def: "A relationship that holds between entities participating in some developmental process (GO:0032502)" [] -[Typedef] -id: RO:0002327 -name: enables -def: "c enables p iff c is capable of p and c acts to execute p." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Enables" xsd:anyURI -is_a: capable_of ! capable of -inverse_of: RO:0002333 ! enabled by -transitive_over: has_part ! has part -transitive_over: RO:0002017 ! has component activity - [Typedef] id: RO:0002328 name: functionally related to @@ -12465,34 +12338,11 @@ is_a: RO:0002328 ! functionally related to id: RO:0002330 name: genomically related to def: "holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts." [] -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant - -[Typedef] -id: RO:0002331 -name: involved in -def: "c involved_in p if and only if c enables some process p', and p' is part of p" [] -property_value: seeAlso "https://wiki.geneontology.org/Involved_in" xsd:anyURI -holds_over_chain: RO:0002327 part_of -is_a: participates_in ! participates in -is_a: RO:0002431 ! involved in or involved in regulation of -transitive_over: part_of ! part of - -[Typedef] -id: RO:0002333 -name: enabled by -def: "inverse of enables" [] -subset: http://purl.obolibrary.org/obo/valid_for_gocam -property_value: seeAlso "https://wiki.geneontology.org/Enabled_by" xsd:anyURI -is_a: has_participant ! has participant -is_a: RO:0002328 ! functionally related to [Typedef] id: RO:0002337 name: related via localization to def: "A relationship that holds via some process of localization" [] -domain: BFO:0000015 ! process -range: BFO:0000002 ! continuant [Typedef] id: RO:0002350 @@ -12559,8 +12409,6 @@ name: in branching relationship with def: "A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network." [] property_value: seeAlso http://purl.obolibrary.org/obo/ro/docs/branching_part_of.png property_value: seeAlso "https://github.com/obophenotype/uberon/issues/170" xsd:anyURI -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -12622,31 +12470,6 @@ name: has potential to directly develop into def: "x has potential to directly develop into y iff x directly develops into y or x is capable of directly developing into y" [] is_a: RO:0002387 ! has potential to develop into -[Typedef] -id: RO:0002407 -name: indirectly positively regulates -def: "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." [] -property_value: seeAlso "https://wiki.geneontology.org/Indirectly_positively_regulates" xsd:anyURI -holds_over_chain: directly_positively_regulates directly_positively_regulates -holds_over_chain: directly_positively_regulates RO:0002407 -holds_over_chain: RO:0002409 RO:0002409 -is_transitive: true -is_a: positively_regulates ! positively regulates -is_a: RO:0012012 ! indirectly regulates -transitive_over: directly_positively_regulates ! directly positively regulates - -[Typedef] -id: RO:0002409 -name: indirectly negatively regulates -def: "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." [] -property_value: seeAlso "https://wiki.geneontology.org/Indirectly_negatively_regulates" xsd:anyURI -holds_over_chain: directly_negatively_regulates directly_negatively_regulates -holds_over_chain: directly_negatively_regulates RO:0002409 -is_transitive: true -is_a: negatively_regulates ! negatively regulates -is_a: RO:0012012 ! indirectly regulates -transitive_over: directly_negatively_regulates ! directly negatively regulates - [Typedef] id: RO:0002410 name: causally related to @@ -12657,28 +12480,9 @@ property_value: IAO:0000116 "This branch of the ontology deals with causal relat id: RO:0002428 name: involved in regulation of def: "c involved in regulation of p if c is involved in some p' and p' regulates some p" [] -holds_over_chain: RO:0002327 regulates -holds_over_chain: RO:0002331 regulates is_a: RO:0002263 ! acts upstream of is_a: RO:0002431 ! involved in or involved in regulation of -[Typedef] -id: RO:0002429 -name: involved in positive regulation of -def: "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" [] -holds_over_chain: RO:0002327 positively_regulates -holds_over_chain: RO:0002331 positively_regulates -is_a: RO:0002428 ! involved in regulation of - -[Typedef] -id: RO:0002430 -name: involved in negative regulation of -def: "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" [] -property_value: RO:0004050 RO:0002428 -holds_over_chain: RO:0002327 negatively_regulates -holds_over_chain: RO:0002331 negatively_regulates -is_a: RO:0002428 ! involved in regulation of - [Typedef] id: RO:0002431 name: involved in or involved in regulation of @@ -12688,87 +12492,17 @@ is_a: RO:0002264 ! acts upstream of or within is_a: RO:0002328 ! functionally related to is_a: RO:0002500 ! causal agent in process -[Typedef] -id: RO:0002432 -name: is active in -def: "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure." [https://orcid.org/0000-0002-6601-2165, https://orcid.org/0000-0002-7073-9172] -synonym: "enables activity in" EXACT [] -property_value: seeAlso "https://wiki.geneontology.org/Is_active_in" xsd:anyURI -is_a: overlaps ! overlaps -is_a: RO:0002328 ! functionally related to - [Typedef] id: RO:0002433 name: contributes to morphology of def: "p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm." [] is_a: overlaps ! overlaps -[Typedef] -id: RO:0002434 -name: interacts with -def: "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." [] -subset: ro-eco -synonym: "in pairwise interaction with" EXACT [] -property_value: IAO:0000116 "Considering relabeling as 'pairwise interacts with'" xsd:anyURI -property_value: IAO:0000116 "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." xsd:string -property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_symmetric: true - -[Typedef] -id: RO:0002436 -name: molecularly interacts with -def: "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." [] -property_value: seeAlso ECO:0000353 -is_symmetric: true -is_a: RO:0002434 ! interacts with - -[Typedef] -id: RO:0002447 -name: phosphorylates -property_value: IAO:0000116 "Axiomatization to GO to be added later" xsd:string -is_a: RO:0002436 ! molecularly interacts with - -[Typedef] -id: RO:0002448 -name: directly regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." [] -synonym: "molecularly controls" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002436 ! molecularly interacts with -is_a: RO:0011002 ! regulates activity of - -[Typedef] -id: RO:0002449 -name: directly negatively regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." [] -synonym: "molecularly decreases activity of" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002448 ! directly regulates activity of - -[Typedef] -id: RO:0002450 -name: directly positively regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." [] -synonym: "molecularly increases activity of" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002448 ! directly regulates activity of - -[Typedef] -id: RO:0002464 -name: helper property (not for use in curation) - [Typedef] id: RO:0002473 name: composed primarily of def: "x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y." [] subset: ro-eco -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: has_part ! has part [Typedef] @@ -12776,13 +12510,6 @@ id: RO:0002479 name: has part that occurs in def: "p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c." [] subset: ro-eco -domain: BFO:0000003 ! occurrent -range: BFO:0000004 ! independent continuant - -[Typedef] -id: RO:0002481 -name: is kinase activity -is_a: RO:0002564 ! molecular interaction relation helper property [Typedef] id: RO:0002485 @@ -12800,8 +12527,6 @@ is_a: RO:0002170 ! connected to [Typedef] id: RO:0002487 name: relation between physical entity and a process or stage -domain: BFO:0000004 ! independent continuant -range: BFO:0000003 ! occurrent [Typedef] id: RO:0002488 @@ -12898,8 +12623,6 @@ inverse_of: process_has_causal_agent ! process has causal agent id: RO:0002501 name: causal relation between processes def: "p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q." [] -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent is_a: RO:0002410 ! causally related to [Typedef] @@ -12907,14 +12630,6 @@ id: RO:0002502 name: depends on property_value: seeAlso BFO:0000169 -[Typedef] -id: RO:0002506 -name: causal relation between entities -property_value: IAO:0000116 "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" xsd:string -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant -is_a: RO:0002410 ! causally related to - [Typedef] id: RO:0002551 name: has skeleton @@ -12925,32 +12640,6 @@ is_a: has_part ! has part inverse_of: RO:0002576 ! skeleton of is_asymmetric: true -[Typedef] -id: RO:0002559 -name: causally influenced by -is_a: RO:0002506 ! causal relation between entities -inverse_of: RO:0002566 ! causally influences - -[Typedef] -id: RO:0002563 -name: interaction relation helper property -property_value: seeAlso http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29 -property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI -is_a: RO:0002464 ! helper property (not for use in curation) - -[Typedef] -id: RO:0002564 -name: molecular interaction relation helper property -is_a: RO:0002563 ! interaction relation helper property - -[Typedef] -id: RO:0002566 -name: causally influences -def: "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." [] -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant -is_a: RO:0002506 ! causal relation between entities - [Typedef] id: RO:0002567 name: biomechanically related to @@ -12980,8 +12669,6 @@ id: RO:0002570 name: conduit for def: "x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x." [] subset: ro-eco -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: overlaps ! overlaps [Typedef] @@ -12989,7 +12676,6 @@ id: RO:0002571 name: lumen of def: "x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull." [] subset: ro-eco -range: BFO:0000040 ! material entity is_a: part_of ! part of [Typedef] @@ -12997,7 +12683,6 @@ id: RO:0002572 name: luminal space of def: "s is luminal space of x iff s is lumen_of x and s is an immaterial entity" [] subset: ro-eco -domain: BFO:0000141 ! immaterial entity is_a: RO:0002571 ! lumen of [Typedef] @@ -13028,8 +12713,6 @@ id: RO:0002595 name: causal relation between material entity and a process def: "A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity." [] property_value: IAO:0000116 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string -domain: BFO:0000040 ! material entity -range: BFO:0000015 ! process is_a: RO:0002410 ! causally related to [Typedef] @@ -13053,61 +12736,6 @@ def: "Holds between c and p if and only if c is capable of some activity a, and holds_over_chain: capable_of positively_regulates is_a: RO:0002596 ! capable of regulating -[Typedef] -id: RO:0004031 -name: enables subfunction -def: "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." [] -holds_over_chain: RO:0002327 has_part -is_a: RO:0002328 ! functionally related to -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-25T23:20:13Z - -[Typedef] -id: RO:0004032 -name: acts upstream of or within, positive effect -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect" xsd:anyURI -holds_over_chain: RO:0002327 RO:0004047 -is_a: RO:0002264 ! acts upstream of or within -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:49:30Z - -[Typedef] -id: RO:0004033 -name: acts upstream of or within, negative effect -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: RO:0004050 RO:0002264 -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect" xsd:anyURI -holds_over_chain: RO:0002327 RO:0004046 -is_a: RO:0002264 ! acts upstream of or within -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:49:51Z - -[Typedef] -id: RO:0004034 -name: acts upstream of, positive effect -def: "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of,_positive_effect -is_a: RO:0002263 ! acts upstream of -is_a: RO:0004032 ! acts upstream of or within, positive effect -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:53:14Z - -[Typedef] -id: RO:0004035 -name: acts upstream of, negative effect -def: "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: RO:0004050 RO:0002263 -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of,_negative_effect -is_a: RO:0002263 ! acts upstream of -is_a: RO:0004033 ! acts upstream of or within, negative effect -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:53:22Z - [Typedef] id: RO:0004046 name: causally upstream of or within, negative effect @@ -13125,14 +12753,6 @@ is_a: causally_upstream_of_or_within ! causally upstream of or within created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-03-13T23:55:19Z -[Typedef] -id: RO:0011002 -name: regulates activity of -def: "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002566 ! causally influences - [Typedef] id: RO:0012000 name: has small molecule regulator @@ -13160,23 +12780,6 @@ is_a: RO:0012004 ! is small molecule regulator of created_by: https://orcid.org/0000-0003-1813-6857 creation_date: 2020-06-24T13:15:26Z -[Typedef] -id: RO:0012011 -name: indirectly causally upstream of -def: "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." [] -is_a: causally_upstream_of ! causally upstream of -created_by: https://orcid.org/0000-0003-1813-6857 -creation_date: 2022-09-26T06:07:17Z - -[Typedef] -id: RO:0012012 -name: indirectly regulates -def: "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." [] -is_a: regulates ! regulates -is_a: RO:0012011 ! indirectly causally upstream of -created_by: https://orcid.org/0000-0003-1813-6857 -creation_date: 2022-09-26T06:08:01Z - [Typedef] id: RO:0013001 name: has synaptic IO in region @@ -13258,6 +12861,8 @@ id: RO:0017001 name: device utilizes material def: "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y." [] synonym: "utilizes" BROAD [] +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-9625-1899 +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-2620-0345 holds_over_chain: capable_of has_input creation_date: 2021-11-08T12:00:00Z @@ -13284,8 +12889,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002220 property_value: IAO:0000116 "This relation acts as a join point with BSPO" xsd:string -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_a: RO:0002163 ! spatially disjoint from [Typedef] @@ -13304,7 +12907,6 @@ namespace: external def: "Inverse of characteristic_of" [] xref: RO:0000053 property_value: IAO:0000116 "A bearer can have many dependents, and its dependents can exist for different periods of time, but none of its dependents can exist when the bearer does not exist." xsd:string -range: BFO:0000020 ! specifically dependent continuant is_inverse_functional: true [Typedef] @@ -13315,7 +12917,6 @@ def: "X outer_layer_of Y iff:\n. X :continuant that bearer_of some PATO:laminar\ comment: A relationship that applies between a continuant and its outer, bounding layer. Examples include the relationship between a multicellular organism and its integument, between an animal cell and its plasma membrane, and between a membrane bound organelle and its outer/bounding membrane. subset: ro-eco xref: RO:0002007 -range: BFO:0000040 ! material entity is_a: part_of ! part of [Typedef] @@ -13325,8 +12926,6 @@ namespace: external def: "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. " [] subset: ro-eco xref: RO:0002215 -domain: BFO:0000004 ! independent continuant -range: BFO:0000015 ! process is_a: capable_of_part_of ! capable of part of [Typedef] @@ -13425,45 +13024,6 @@ id: channels_into name: channels_into namespace: uberon -[Typedef] -id: directly_negatively_regulates -name: directly negatively regulates -namespace: external -def: "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002630 -property_value: RO:0004050 RO:0002578 -property_value: seeAlso "https://wiki.geneontology.org/Directly_negatively_regulates" xsd:anyURI -is_a: directly_regulates ! directly regulates -is_a: negatively_regulates ! negatively regulates - -[Typedef] -id: directly_positively_regulates -name: directly positively regulates -namespace: external -def: "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002629 -property_value: seeAlso "https://wiki.geneontology.org/Directly_positively_regulates" xsd:anyURI -is_a: directly_regulates ! directly regulates -is_a: positively_regulates ! positively regulates - -[Typedef] -id: directly_regulates -name: directly regulates -namespace: external -def: "p directly regulates q iff p is immediately causally upstream of q and p regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002578 -is_a: immediately_causally_upstream_of ! immediately causally upstream of -is_a: regulates ! regulates - [Typedef] id: distally_connected_to name: distally connected to @@ -13515,8 +13075,6 @@ namespace: external def: "x 'has end location' y if and only if there exists some process z such that x 'ends with' z and z 'occurs in' y" [] subset: ro-eco xref: RO:0002232 -domain: BFO:0000015 ! process -range: BFO:0000004 ! independent continuant holds_over_chain: ends_with occurs_in is_a: RO:0002479 ! has part that occurs in @@ -13539,7 +13097,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_gocam subset: ro-eco xref: RO:0002233 property_value: seeAlso "https://wiki.geneontology.org/Has_input" xsd:anyURI -domain: BFO:0000015 ! process holds_over_chain: starts_with has_input is_a: has_participant ! has participant inverse_of: RO:0002352 ! input of @@ -13552,18 +13109,6 @@ property_value: term_tracker_item https://github.com/obophenotype/cell-ontology/ is_obsolete: true replaced_by: RO:0015016 -[Typedef] -id: has_negative_regulatory_component_activity -name: has negative regulatory component activity -namespace: external -def: "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." [] -comment: By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'. -xref: RO:0002014 -is_a: has_regulatory_component_activity ! has regulatory component activity -is_a: negatively_regulated_by ! negatively regulated by -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:31:01Z - [Typedef] id: has_ontology_root_term name: has ontology root term @@ -13612,8 +13157,6 @@ namespace: external def: "a relation between a process and a continuant, in which the continuant is somehow involved in the process" [] xref: RO:0000057 property_value: IAO:0000116 "Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time." xsd:string -domain: BFO:0000003 ! occurrent -range: BFO:0000002 ! continuant holds_over_chain: has_part has_participant [Typedef] @@ -13651,17 +13194,6 @@ is_a: has_primary_input_or_output ! has primary input or output created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-12-13T11:26:32Z -[Typedef] -id: has_regulatory_component_activity -name: has regulatory component activity -namespace: external -def: "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." [] -xref: RO:0002013 -is_a: regulated_by ! regulated by -is_a: RO:0002017 ! has component activity -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:30:46Z - [Typedef] id: has_small_molecule_activator name: has small molecule activator @@ -13680,8 +13212,6 @@ namespace: external def: "x 'has starts location' y if and only if there exists some process z such that x 'starts with' z and z 'occurs in' y" [] subset: ro-eco xref: RO:0002231 -domain: BFO:0000015 ! process -range: BFO:0000004 ! independent continuant holds_over_chain: starts_with occurs_in is_a: RO:0002479 ! has part that occurs in @@ -13709,24 +13239,6 @@ xref: RO:0002338 is_a: results_in_transport_to_from_or_in ! results in transport to from or in transitive_over: part_of ! part of -[Typedef] -id: immediately_causally_downstream_of -name: immediately causally downstream of -namespace: external -xref: RO:0002405 -is_a: causally_downstream_of ! causally downstream of -is_a: immediately_preceded_by ! immediately preceded by -inverse_of: immediately_causally_upstream_of ! immediately causally upstream of - -[Typedef] -id: immediately_causally_upstream_of -name: immediately causally upstream of -namespace: external -def: "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." [] -xref: RO:0002412 -is_a: causally_upstream_of ! causally upstream of -is_a: immediately_precedes ! immediately precedes - [Typedef] id: immediately_preceded_by name: immediately preceded by @@ -13785,17 +13297,6 @@ is_a: causally_upstream_of,_negative_effect ! causally upstream of, negative eff is_a: regulates ! regulates inverse_of: negatively_regulated_by ! negatively regulated by -[Typedef] -id: negatively_regulates_characteristic -name: negatively regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." [] -xref: RO:0019002 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -holds_over_chain: negatively_regulates positively_regulates_characteristic -holds_over_chain: positively_regulates negatively_regulates_characteristic -is_a: regulates_characteristic ! regulates characteristic - [Typedef] id: occurs_in name: occurs in @@ -13807,8 +13308,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: BFO:0000066 property_value: seeAlso "https://wiki.geneontology.org/Occurs_in" xsd:anyURI -domain: BFO:0000003 ! occurrent -range: BFO:0000004 ! independent continuant holds_over_chain: part_of occurs_in inverse_of: BFO:0000067 ! contains process transitive_over: part_of ! part of @@ -13869,8 +13368,6 @@ name: participates in namespace: external def: "a relation between a continuant and a process, in which the continuant is somehow involved in the process" [] xref: RO:0000056 -domain: BFO:0000002 ! continuant -range: BFO:0000003 ! occurrent inverse_of: has_participant ! has participant [Typedef] @@ -13898,16 +13395,6 @@ is_a: causally_upstream_of,_positive_effect ! causally upstream of, positive eff is_a: regulates ! regulates inverse_of: positively_regulated_by ! positively regulated by -[Typedef] -id: positively_regulates_characteristic -name: positively regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." [] -xref: RO:0019001 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -holds_over_chain: positively_regulates positively_regulates_characteristic -is_a: regulates_characteristic ! regulates characteristic - [Typedef] id: posteriorly_connected_to name: posteriorly connected to @@ -13923,8 +13410,6 @@ def: "x is preceded by y if and only if the time point at which y ends is before subset: ro-eco xref: BFO:0000062 property_value: IAO:0000116 "An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other." xsd:string -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent holds_over_chain: part_of preceded_by is_transitive: true is_a: RO:0002086 ! ends after @@ -13937,8 +13422,6 @@ namespace: external def: "x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." [] subset: ro-eco xref: BFO:0000063 -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent holds_over_chain: part_of precedes is_transitive: true is_a: RO:0002222 ! temporally related to @@ -13958,8 +13441,6 @@ namespace: external def: "a produced_by b iff some process that occurs_in b has_output a." [] subset: ro-eco xref: RO:0003001 -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity [Typedef] id: produces @@ -13969,8 +13450,6 @@ def: "a produces b if some process that occurs_in a has_output b, where a and b comment: Note that this definition doesn't quite distinguish the output of a transformation process from a production process, which is related to the identity/granularity issue. subset: ro-eco xref: RO:0003000 -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity inverse_of: produced_by ! produced by [Typedef] @@ -13993,8 +13472,6 @@ namespace: external def: "inverse of regulates" [] subset: RO:0002259 xref: RO:0002334 -domain: BFO:0000015 ! process -range: BFO:0000015 ! process is_transitive: true is_a: causally_downstream_of_or_within ! causally downstream of or within @@ -14007,26 +13484,10 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002211 -domain: BFO:0000015 ! process -range: BFO:0000015 ! process -holds_over_chain: directly_regulates directly_regulates holds_over_chain: ends_with regulates is_transitive: true is_a: causally_upstream_of ! causally upstream of inverse_of: regulated_by ! regulated by -transitive_over: RO:0002025 ! has effector activity - -[Typedef] -id: regulates_characteristic -name: regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." [] -xref: RO:0019000 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -domain: BFO:0000015 ! process -range: PATO:0000001 ! quality -holds_over_chain: regulates regulates_characteristic -is_a: RO:0002410 ! causally related to [Typedef] id: regulates_levels_of @@ -14034,8 +13495,6 @@ name: regulates levels of namespace: external def: "p regulates levels of c if p regulates some amount (PATO:0000070) of c" [] xref: RO:0002332 -domain: BFO:0000015 ! process -range: BFO:0000040 ! material entity is_a: RO:0002328 ! functionally related to [Typedef] diff --git a/subsets/general_cell_types_upper_slim.owl b/subsets/general_cell_types_upper_slim.owl index 8532201d2..7d5d68045 100644 --- a/subsets/general_cell_types_upper_slim.owl +++ b/subsets/general_cell_types_upper_slim.owl @@ -14,8 +14,7 @@ xmlns:foaf="http://xmlns.com/foaf/0.1/" xmlns:pato="http://purl.obolibrary.org/obo/pato#" xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#" - xmlns:swrl="http://www.w3.org/2003/11/swrl#" - xmlns:swrlb="http://www.w3.org/2003/11/swrlb#" + xmlns:sssom="https://w3id.org/sssom/" xmlns:terms="http://purl.org/dc/terms/" xmlns:uberon="http://purl.obolibrary.org/obo/uberon#" xmlns:ubprop="http://purl.obolibrary.org/obo/ubprop#" @@ -23,8 +22,8 @@ xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#" xmlns:ncbitaxon="http://purl.obolibrary.org/obo/ncbitaxon#"> - - 2024-04-05 + + 2024-05-15 @@ -393,14 +392,6 @@ WHERE { - - - - - - - - @@ -433,6 +424,14 @@ WHERE { + + + + + + + + @@ -481,6 +480,14 @@ WHERE { + + + + + + + + @@ -497,6 +504,14 @@ WHERE { + + + + + + + + @@ -1029,12 +1044,6 @@ WHERE { - - - - - - @@ -1237,6 +1246,12 @@ WHERE { + + + + + + - - @@ -1515,19 +1519,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence - A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists. - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - function of - - - - @@ -1541,31 +1532,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence - A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists. - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - role of - - - - - - - - - - a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence - A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists. - has function - - - - @@ -1577,42 +1543,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence - A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists. - has role - - - - - - - - - - - a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence - has disposition - - - - - - - - - inverse of has disposition - - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - disposition of - - - - @@ -1652,8 +1582,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - @@ -1665,18 +1593,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. located in https://wiki.geneontology.org/Located_in - - - - - This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation. - - - - - - This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation. - @@ -1697,8 +1613,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts. Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape. @@ -1731,7 +1645,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - X outer_layer_of Y iff: . X :continuant that bearer_of some PATO:laminar . X part_of Y @@ -1753,81 +1666,6 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 - - - - - - A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B. - - 2017-05-24T09:30:46Z - RO:0002013 - external - has_regulatory_component_activity - has_regulatory_component_activity - has regulatory component activity - - - - - - - - - - A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B. - - 2017-05-24T09:31:01Z - RO:0002014 - external - has_negative_regulatory_component_activity - has_negative_regulatory_component_activity - By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'. - has negative regulatory component activity - - - - - - - - - - A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B. - - 2017-05-24T09:31:17Z - By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'. - has positive regulatory component activity - - - - - - - - - - 2017-05-24T09:44:33Z - A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B. - has component activity - - - - - - - - - - - w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type. - - 2017-05-24T09:49:21Z - has component process - - - - @@ -1840,83 +1678,6 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 - - - - - - - 2017-09-17T13:52:24Z - Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. - directly regulated by - - - - - Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. - - - - - - - - - - - Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1. - - 2017-09-17T13:52:38Z - directly negatively regulated by - - - - - Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1. - - - - - - - - - - - Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1. - - 2017-09-17T13:52:47Z - directly positively regulated by - - - - - Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1. - - - - - - - - - - - A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity. - - 2017-09-22T14:14:36Z - This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations. - has effector activity - - - - - A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity. - - - - - @@ -2235,8 +1996,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - X continuous_with Y if and only if X and Y share a fiat boundary. continuous with FMA:85972 @@ -2356,7 +2115,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - c connects a if and only if there exist some b such that a and b are similar parts of the same system, and c connects b, specifically, c connects a with b. When one structure connects two others it unites some aspect of the function or role they play within the system. connects https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern @@ -2425,8 +2183,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y This is the transitive form of the develops from relation develops from @@ -2453,7 +2209,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - @@ -2511,20 +2266,10 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - - - - - p regulates q iff p is causally upstream of q, the execution of p is not constant and varies according to specific conditions, and p influences the rate or magnitude of execution of q due to an effect either on some enabler of q or some enabler of a part of q. RO:0002211 external @@ -2597,8 +2342,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. RO:0002215 external @@ -2643,8 +2386,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - x adjacent to y if and only if x and y share a boundary. This relation acts as a join point with BSPO RO:0002220 @@ -2674,8 +2415,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. temporally related to @@ -2778,8 +2517,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - @@ -2800,8 +2537,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - @@ -2823,7 +2558,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - @@ -2955,8 +2689,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p false This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from @@ -2969,10 +2701,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes. acts upstream of @@ -2985,10 +2713,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - c acts upstream of or within p if c is enables f, and f is causally upstream of or within p. c is a material entity and p is an process. affects @@ -3238,27 +2962,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - - - - - - - - c enables p iff c is capable of p and c acts to execute p. - - enables - https://wiki.geneontology.org/Enables - - - - @@ -3281,40 +2984,16 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts. genomically related to - - - - - - - - - - - - - - c involved_in p if and only if c enables some process p', and p' is part of p - involved in - https://wiki.geneontology.org/Involved_in - - - - - - p regulates levels of c if p regulates some amount (PATO:0000070) of c RO:0002332 external @@ -3326,26 +3005,11 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - inverse of enables - - enabled by - https://wiki.geneontology.org/Enabled_by - - - - - - inverse of regulates RO:0002334 external @@ -3393,8 +3057,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relationship that holds via some process of localization related via localization to @@ -3521,7 +3183,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - has member is a mereological relation between a collection and an item. has member @@ -3632,8 +3293,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network. in branching relationship with @@ -3756,76 +3415,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - RO:0002405 - external - immediately_causally_downstream_of - immediately_causally_downstream_of - immediately causally downstream of - immediately causally downstream of - - - - - - - - - - - - - - - - - - - - - - - - - - - p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q. - indirectly positively regulates - https://wiki.geneontology.org/Indirectly_positively_regulates - - - - - - - - - - - - - - - - - - - - - - - p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q. - indirectly negatively regulates - https://wiki.geneontology.org/Indirectly_negatively_regulates - - - - @@ -3875,22 +3464,6 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q. - RO:0002412 - external - immediately_causally_upstream_of - immediately_causally_upstream_of - immediately causally upstream of - immediately causally upstream of - - - - @@ -3930,57 +3503,12 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - - - c involved in regulation of p if c is involved in some p' and p' regulates some p involved in regulation of - - - - - - - - - - - - - c involved in regulation of p if c is involved in some p' and p' positively regulates some p - involved in positive regulation of - - - - - - - - - - - - - - - - - c involved in regulation of p if c is involved in some p' and p' negatively regulates some p - - involved in negative regulation of - - - - @@ -3994,27 +3522,6 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure. - enables activity in - - is active in - https://wiki.geneontology.org/Is_active_in - - - - - c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure. - - - - - - @@ -4025,118 +3532,10 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - - A relationship that holds between two entities in which the processes executed by the two entities are causally connected. - This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact. - Considering relabeling as 'pairwise interacts with' - in pairwise interaction with - - interacts with - http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ - - - - - - - - - - An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other. - molecularly interacts with - - - - - - - - - - Axiomatization to GO to be added later - phosphorylates - - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B. - -A and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B. - molecularly controls - directly regulates activity of - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. -For example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B. - molecularly decreases activity of - directly negatively regulates activity of - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. -For example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B. - molecularly increases activity of - directly positively regulates activity of - - - - - - - - helper property (not for use in curation) - - - - - - x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y. composed primarily of @@ -4147,8 +3546,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c. has part that occurs in @@ -4156,15 +3553,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - is kinase activity - - - - @@ -4189,8 +3577,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - relation between physical entity and a process or stage @@ -4371,8 +3757,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q. causal relation between processes @@ -4388,25 +3772,12 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch - causal relation between entities - - - - - A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision. @@ -4421,36 +3792,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - causally influenced by - - - - - - - - - interaction relation helper property - - http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ - - - - - - - - - molecular interaction relation helper property - - - - @@ -4468,28 +3809,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size). - causally influences - - - - @@ -4530,8 +3849,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x. conduit for @@ -4543,7 +3860,6 @@ For example, A and B may be gene products and binding of B by A positively regul - x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull. lumen of @@ -4555,7 +3871,6 @@ For example, A and B may be gene products and binding of B by A positively regul - s is luminal space of x iff s is lumen_of x and s is an immaterial entity luminal space of @@ -4576,24 +3891,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - p directly regulates q iff p is immediately causally upstream of q and p regulates q. - RO:0002578 - external - directly_regulates - - - - directly_regulates - directly regulates - - - - @@ -4669,8 +3966,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity. Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect. causal relation between material entity and a process @@ -4734,51 +4029,10 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q. - RO:0002629 - external - directly_positively_regulates - - - - directly_positively_regulates - directly positively regulates - https://wiki.geneontology.org/Directly_positively_regulates - - - - - - - - - - p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q. - - RO:0002630 - external - directly_negatively_regulates - - - - directly_negatively_regulates - directly negatively regulates - https://wiki.geneontology.org/Directly_negatively_regulates - - - - - - @@ -4801,8 +4055,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - a produced_by b iff some process that occurs_in b has_output a. RO:0003001 external @@ -4888,96 +4140,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P. - - 2018-01-25T23:20:13Z - enables subfunction - - - - - - - - - - - - - - 2018-01-26T23:49:30Z - - acts upstream of or within, positive effect - https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect - - - - - - - - - - - - - - - 2018-01-26T23:49:51Z - - acts upstream of or within, negative effect - https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect - - - - - - - - - - - - - - c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive - - 2018-01-26T23:53:14Z - - acts upstream of, positive effect - https://wiki.geneontology.org/Acts_upstream_of,_positive_effect - - - - - - - - - - - - - - c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative - - - 2018-01-26T23:53:22Z - - acts upstream of, negative effect - https://wiki.geneontology.org/Acts_upstream_of,_negative_effect - - - - @@ -5003,18 +4165,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B. - regulates activity of - - - - @@ -5111,31 +4261,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q. - - 2022-09-26T06:07:17Z - indirectly causally upstream of - - - - - - - - - - p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q. - - 2022-09-26T06:08:01Z - indirectly regulates - - - - @@ -5298,6 +4423,8 @@ For example, A and B may be gene products and binding of B by A positively regul X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y. + + 2021-11-08T12:00:00Z utilizes device utilizes material @@ -5305,69 +4432,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C. - - RO:0019000 - gene_ontology - regulates_characteristic - regulates_characteristic - regulates characteristic - - - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C. - - RO:0019001 - gene_ontology - positively_regulates_characteristic - positively_regulates_characteristic - positively regulates characteristic - - - - - - - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C. - - RO:0019002 - gene_ontology - negatively_regulates_characteristic - negatively_regulates_characteristic - negatively regulates characteristic - - - - @@ -5682,127 +4746,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts. - continuant - - - - - - - - - - - - - - - - - - - - An entity that has temporal parts and that happens, unfolds or develops through time. - occurrent - - - - - - - - - - - - - - - - b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002]) - A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. - independent continuant - - - - - - - - - p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003]) - An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. - process - - - - - - - - - - - - - - - b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003]) - A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. - specifically dependent continuant - - - - - - - - - - - - - - - - An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time. - material entity - - - - - - - - - - - - - - - immaterial entity - - - - @@ -5826,6 +4769,7 @@ For example, A and B may be gene products and binding of B by A positively regul VHOG:0001533 WBbt:0004017 XAO:0003012 + ZFA:0009000 The definition of cell is intended to represent all cells, and thus a cell is defined as a material entity and not an anatomical structure, which implies that it is part of an organism (or the entirety of one). @@ -5837,6 +4781,18 @@ For example, A and B may be gene products and binding of B by A positively regul A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane. CARO:mah + + + + FBbt:00007002 + + + + + + ZFA:0009000 + + @@ -5857,10 +4813,24 @@ For example, A and B may be gene products and binding of B by A positively regul + Any sensory receptor cell that is a(n) neuron and is capable of some detection of stimulus involved in sensory perception. + ZFA:0009001 neuronal receptor cell (sensu Animalia) neuronal receptor cell + + + + Any sensory receptor cell that is a(n) neuron and is capable of some detection of stimulus involved in sensory perception. + FBC:Autogenerated + + + + + ZFA:0009001 + + @@ -5869,6 +4839,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found in the embryo before the formation of all the gem layers is complete. + ZFA:0009002 early embryonic cell (metazoa) @@ -5877,6 +4848,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found in the embryo before the formation of all the gem layers is complete. GOC:tfm + + + + ZFA:0009002 + + @@ -5911,6 +4888,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-2086 FMA:63368 + ZFA:0005957 animal stem cell @@ -5925,6 +4903,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D013234 + + + + ZFA:0005957 + + @@ -6088,6 +5072,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:86475 MESH:D006412 VHOG:0001485 + ZFA:0009014 blood forming stem cell hemopoietic stem cell HSC @@ -6108,6 +5093,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:19022770 http://en.wikipedia.org/wiki/Hematopoietic_stem_cell + + + + ZFA:0009014 + + @@ -6128,6 +5119,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that is within the developmental lineage of gametes and is able to pass along its genetic material to offspring. + ZFA:0009016 Originally this term had some plant germ line cell children. @@ -6140,6 +5132,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721662544 + + + + ZFA:0009016 + + @@ -6175,7 +5173,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -6209,6 +5206,7 @@ For example, A and B may be gene products and binding of B by A positively regul A myeloid progenitor cell committed to the monocyte lineage. This cell is CD11b-positive, has basophilic cytoplasm, euchromatin, and the presence of a nucleolus. CALOHA:TS-1195 FMA:83553 + ZFA:0009017 CFU-M colony forming unit macrophage colony forming unit monocyte @@ -6231,6 +5229,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://en.wikipedia.org/wiki/Monoblast http://www.copewithcytokines.de + + + + ZFA:0009017 + + @@ -6267,6 +5271,7 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to multiple lineages of cells. FMA:84789 + ZFA:0009020 multi-fate stem cell multifate stem cell multipotent cell @@ -6279,6 +5284,12 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to multiple lineages of cells. GOC:add + + + + ZFA:0009020 + + @@ -6291,6 +5302,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell committed to myeloid lineage, including the megakaryocyte and erythroid lineages. BTO:0004730 + ZFA:0009021 common myeloid precursor CFU-GEMM CFU-S @@ -6318,6 +5330,12 @@ For example, A and B may be gene products and binding of B by A positively regul ISBN:0878932437 MESH:D023461 + + + + ZFA:0009021 + + @@ -6390,6 +5408,7 @@ For example, A and B may be gene products and binding of B by A positively regul A oligopotent progenitor cell committed to the lymphoid lineage. + ZFA:0009023 common lymphocyte precursor common lymphocyte progenitor common lymphoid precursor @@ -6420,6 +5439,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:10407577 PMID:16551251 + + + + ZFA:0009023 + + @@ -6442,6 +5467,7 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell from which all cells of the body can form. FMA:84790 MESH:D039901 + ZFA:0009024 totipotential stem cell totipotent stem cell @@ -6452,6 +5478,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009024 + + @@ -6486,6 +5518,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005083 FMA:70335 VHOG:0001529 + ZFA:0009025 myoblast @@ -6496,6 +5529,18 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D032446 PMID:21849021 + + + + FBbt:00005083 + + + + + + ZFA:0009025 + + @@ -6516,6 +5561,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:63877 NCIT:C12482 VHOG:0001482 + ZFA:0009026 @@ -6530,6 +5576,12 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D005347 http://en.wikipedia.org/wiki/Fibroblast + + + + ZFA:0009026 + + @@ -6552,6 +5604,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00000124 FMA:66768 WBbt:0003672 + ZFA:0009034 epitheliocyte @@ -6567,6 +5620,18 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D004847 + + + + FBbt:00000124 + + + + + + ZFA:0009034 + + @@ -6576,6 +5641,7 @@ For example, A and B may be gene products and binding of B by A positively regul A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube. + ZFA:0009038 columnar/cuboidal epithelial cell @@ -6587,6 +5653,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0002065 https://orcid.org/0000-0001-5208-3432 + + + + ZFA:0009038 + + @@ -6614,6 +5686,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found predominately in the blood. FMA:62844 MESH:D001773 + ZFA:0009044 blood cell @@ -6631,6 +5704,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009044 + + @@ -6669,6 +5748,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62870 MESH:D013601 VHOG:0001479 + ZFA:0009046 T lymphocyte T-cell T-lymphocyte @@ -6693,6 +5773,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0781735149 + + + + ZFA:0009046 + + @@ -6745,7 +5831,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -6805,6 +5890,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0721 FMA:66781 MESH:D010010 + ZFA:0009047 chondroclast Morphology: Highly vesicular; markers: Surface: RANK, cFMS (MCSF receptor); Secreted: cathepsin K and TRAP (tartate resistant acid phosphatase); transcription factors: PU.1, cFOS, MITF, NFkB (p52); role or process: tissue remodelling: bone resorption; lineage: hematopoietic, myeloid. @@ -6834,6 +5920,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:15055519 PMID:17380158 + + + + ZFA:0009047 + + @@ -6885,7 +5977,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -6940,6 +6031,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001026 CALOHA:TS-0422 FMA:62854 + ZFA:0009048 granular leucocyte granular leukocyte polymorphonuclear leukocyte @@ -6962,6 +6054,12 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D006098 http://en.wikipedia.org/wiki/Granulocyte + + + + ZFA:0009048 + + @@ -6991,6 +6089,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005123 FMA:83617 WBbt:0005409 + ZFA:0009052 motoneuron @@ -7003,6 +6102,18 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D009046 PMID:16875686 + + + + FBbt:00005123 + + + + + + ZFA:0009052 + + @@ -7028,11 +6139,14 @@ For example, A and B may be gene products and binding of B by A positively regul Any neuron having a sensory function; an afferent neuron conveying sensory impulses. + BTO:0001037 FBbt:00005124 FMA:84649 MESH:D011984 WBbt:0005759 + ZFA:0009053 + sensory neuron @@ -7041,6 +6155,18 @@ For example, A and B may be gene products and binding of B by A positively regul Any neuron having a sensory function; an afferent neuron conveying sensory impulses. ISBN:0721662544 + + + + FBbt:00005124 + + + + + + ZFA:0009053 + + @@ -7063,6 +6189,7 @@ For example, A and B may be gene products and binding of B by A positively regul A vertebrate phagocyte with a single nucleus. BTO:0001433 + ZFA:0009064 mononuclear phagocyte @@ -7081,6 +6208,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0781735149 + + + + ZFA:0009064 + + @@ -7089,14 +6222,17 @@ For example, A and B may be gene products and binding of B by A positively regul A non-neuronal cell of the nervous system. They not only provide physical support, but also respond to injury, regulate the ionic and chemical composition of the extracellular milieu. Guide neuronal migration during development, and exchange metabolites with neurons. + BTO:0002606 CALOHA:TS-0415 FBbt:00005144 FMA:54536 + ZFA:0009073 neuroglial cell neuroglia + Not all glial cells develop from glioblasts, with microglia developing from the mesoderm instead. See https://github.com/obophenotype/cell-ontology/issues/1571 glial cell @@ -7106,6 +6242,18 @@ For example, A and B may be gene products and binding of B by A positively regul A non-neuronal cell of the nervous system. They not only provide physical support, but also respond to injury, regulate the ionic and chemical composition of the extracellular milieu. Guide neuronal migration during development, and exchange metabolites with neurons. MESH:D009457 + + + + FBbt:00005144 + + + + + + ZFA:0009073 + + @@ -7114,6 +6262,7 @@ For example, A and B may be gene products and binding of B by A positively regul Ectoderm destined to be nervous tissue. + ZFA:0009080 neurectoderm cell neurectodermal cell @@ -7124,6 +6273,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:068340007X + + + + ZFA:0009080 + + @@ -7136,6 +6291,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0002625 BTO:0003298 FMA:70546 + ZFA:0009081 bone marrow stromal cells colony-forming unit-fibroblast marrow stromal cells @@ -7173,6 +6329,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://en.wikipedia.org/wiki/Mesenchymal_stem_cell http://www.copewithcytokines.de/cope.cgi?key=mesenchymal%20stem%20cells + + + + ZFA:0009081 + + @@ -7237,6 +6399,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000443 CALOHA:TS-0012 FMA:63880 + ZFA:0009082 adipose cell fat cell @@ -7250,6 +6413,12 @@ For example, A and B may be gene products and binding of B by A positively regul A fat-storing cell found mostly in the abdominal cavity and subcutaneous tissue of mammals. Fat is usually stored in the form of triglycerides. MESH:D017667 + + + + ZFA:0009082 + + @@ -7275,6 +6444,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell capable of processing and presenting lipid and protein antigens to T cells in order to initiate an immune response. + ZFA:0009088 APC @@ -7288,6 +6458,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0781735149 + + + + ZFA:0009088 + + @@ -7303,6 +6479,7 @@ For example, A and B may be gene products and binding of B by A positively regul A pigment cell is a cell that contains pigment granules. VHOG:0001678 + ZFA:0009090 chromatocyte chromatophore pigment cell @@ -7313,6 +6490,12 @@ For example, A and B may be gene products and binding of B by A positively regul A pigment cell is a cell that contains pigment granules. GOC:tfm + + + + ZFA:0009090 + + @@ -7354,6 +6537,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:70545 MESH:D008544 VHOG:0001679 + ZFA:0009091 melanophore @@ -7366,6 +6550,12 @@ For example, A and B may be gene products and binding of B by A positively regul A pigment cell derived from the neural crest. Contains melanin-filled pigment granules, which gives a brown to black appearance. SANBI:mhl + + + + ZFA:0009091 + + @@ -7439,6 +6629,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of an exocrine gland; i.e. a gland that discharges its secretion via a duct. FMA:16014 + ZFA:0009092 exocrine cell @@ -7448,6 +6639,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of an exocrine gland; i.e. a gland that discharges its secretion via a duct. ISBN:0198547684 + + + + ZFA:0009092 + + @@ -7501,6 +6698,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of an endocrine gland, ductless glands that secrete substances which are released directly into the circulation and which influence metabolism and other body functions. FMA:83809 + ZFA:0009096 endocrinocyte @@ -7513,6 +6711,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of an endocrine gland, ductless glands that secrete substances which are released directly into the circulation and which influence metabolism and other body functions. MESH:D055098 + + + + ZFA:0009096 + + @@ -7551,6 +6755,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005074 FMA:67328 WBbt:0003675 + ZFA:0009114 muscle fiber myocyte @@ -7563,6 +6768,18 @@ For example, A and B may be gene products and binding of B by A positively regul A mature contractile cell, commonly known as a myocyte. This cell has as part of its cytoplasm myofibrils organized in various patterns. MESH:D032342 + + + + FBbt:00005074 + + + + + + ZFA:0009114 + + @@ -7592,6 +6809,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004392 CALOHA:TS-2158 FMA:9727 + ZFA:0009115 skeletal muscle cell @@ -7604,6 +6822,12 @@ For example, A and B may be gene products and binding of B by A positively regul A somatic cell located in skeletal muscle. GOC:tfm + + + + ZFA:0009115 + + @@ -7624,6 +6848,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004576 CALOHA:TS-2159 FMA:14072 + ZFA:0009118 SMCs myocytes, smooth muscle smooth muscle fiber @@ -7640,6 +6865,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:9315361 http://en.wikipedia.org/wiki/Smooth_muscle_cell + + + + ZFA:0009118 + + @@ -7718,7 +6949,9 @@ For example, A and B may be gene products and binding of B by A positively regul A cell specialized to detect and transduce light. BTO:0001060 CALOHA:TS-0868 + FBbt:00004211 FMA:86740 + ZFA:0009127 photoreceptor cell https://www.swissbiopics.org/api/image/Photoreceptor_cell.svg @@ -7735,6 +6968,18 @@ For example, A and B may be gene products and binding of B by A positively regul A cell specialized to detect and transduce light. MESH:D010786 + + + + FBbt:00004211 + + + + + + ZFA:0009127 + + @@ -7743,6 +6988,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by the generation or the reception of an electric signal. + ZFA:0009128 electrically active cell @@ -7751,6 +6997,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by the generation or the reception of an electric signal. FB:ma + + + + ZFA:0009128 + + @@ -7776,6 +7028,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that moves by its own activities. + ZFA:0009136 motile cell @@ -7784,6 +7037,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that moves by its own activities. FB:ma + + + + ZFA:0009136 + + @@ -7799,6 +7058,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the outer of the three germ layers of the embryo. FMA:72549 + ZFA:0009137 ectoderm cell ectodermal cell @@ -7808,6 +7068,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the outer of the three germ layers of the embryo. MESH:D004475 + + + + ZFA:0009137 + + @@ -7823,6 +7089,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the middle germ layer of the embryo. FMA:72554 + ZFA:0009138 mesoblast mesoderm cell @@ -7834,6 +7101,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the middle germ layer of the embryo. MESH:D008648 + + + + ZFA:0009138 + + @@ -7849,6 +7122,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the inner of the three germ layers of the embryo. FMA:72555 + ZFA:0009139 endoderm cell endodermal cell @@ -7858,6 +7132,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the inner of the three germ layers of the embryo. MESH:D004707 + + + + ZFA:0009139 + + @@ -7960,6 +7240,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001044 FMA:83806 MESH:D010586 + ZFA:0009140 phagocyte @@ -7970,6 +7251,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0721601464 + + + + ZFA:0009140 + + @@ -8017,6 +7304,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:63261 FMA:83585 MESH:D008264 + ZFA:0009141 histiocyte @@ -8041,6 +7329,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:16213494 PMID:1919437 + + + + ZFA:0009141 + + @@ -8072,6 +7366,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62869 MESH:D001402 VHOG:0001480 + ZFA:0009142 B lymphocyte B-cell B-lymphocyte @@ -8096,6 +7391,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO_REF:0000031 ISBN:0781735149 + + + + ZFA:0009142 + + @@ -8120,10 +7421,17 @@ For example, A and B may be gene products and binding of B by A positively regul + Any cell that only exists in Eukaryota. MESH:D005057 eukaryotic cell + + + + Any cell that only exists in Eukaryota. + FBC:Autogenerated + @@ -8148,8 +7456,15 @@ For example, A and B may be gene products and binding of B by A positively regul + ZFA:0009162 extracellular matrix secreting cell + + + + ZFA:0009162 + + @@ -8167,6 +7482,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body. FMA:86667 + ZFA:0007086 migratory neural crest cell @@ -8175,6 +7491,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body. doi:10.1016/j.stem.2015.02.017 + + + + ZFA:0007086 + + @@ -8199,9 +7521,23 @@ For example, A and B may be gene products and binding of B by A positively regul + Any cell that is part of some extraembryonic structure. + ZFA:0009176 extraembryonic cell + + + + Any cell that is part of some extraembryonic structure. + FBC:Autogenerated + + + + + ZFA:0009176 + + @@ -8240,6 +7576,7 @@ For example, A and B may be gene products and binding of B by A positively regul A multifate stem cell found in skeletal muscle than can differentiate into many different cell types, including muscle. Distinct cell type from satellite cell. FMA:86767 + ZFA:0009179 Multi-potency demonstrated ex vivo. At the time of writing, it is unclear whether the endogenous population differentiates into multiple cell types in vivo. multi-potent skeletal muscle stem cell @@ -8255,6 +7592,12 @@ For example, A and B may be gene products and binding of B by A positively regul A multifate stem cell found in skeletal muscle than can differentiate into many different cell types, including muscle. Distinct cell type from satellite cell. PMID:18282570 + + + + ZFA:0009179 + + @@ -8302,6 +7645,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by its response to an electric signal. + ZFA:0009190 electrically responsive cell @@ -8310,6 +7654,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by its response to an electric signal. FB:ma + + + + ZFA:0009190 + + @@ -8318,6 +7668,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that initiates an electrical signal and passes that signal to another cell. + ZFA:0009193 electrically signaling cell @@ -8326,6 +7677,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that initiates an electrical signal and passes that signal to another cell. FB:ma + + + + ZFA:0009193 + + @@ -8385,7 +7742,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8441,6 +7797,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0194 FMA:83036 MESH:D003713 + ZFA:0009209 interdigitating cell veiled cell @@ -8455,6 +7812,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0781735149 + + + + ZFA:0009209 + + @@ -8488,6 +7851,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0002064 FMA:83624 + ZFA:0009226 @@ -8500,6 +7864,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D017154 + + + + ZFA:0009226 + + @@ -8531,6 +7901,7 @@ For example, A and B may be gene products and binding of B by A positively regul A precursor cell destined to differentiate into cardiac muscle cell. FMA:84797 + ZFA:0009234 cardiac muscle progenitor cell cardiomyocyte progenitor cell @@ -8543,6 +7914,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D032386 + + + + ZFA:0009234 + + @@ -8569,6 +7946,7 @@ For example, A and B may be gene products and binding of B by A positively regul A precursor cell destined to differentiate into smooth muscle myocytes. FMA:84798 + ZFA:0009235 myoblast, smooth muscle satellite cell @@ -8581,6 +7959,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D032390 + + + + ZFA:0009235 + + @@ -8620,6 +8004,7 @@ For example, A and B may be gene products and binding of B by A positively regul A myoblast that differentiates into skeletal muscle fibers. FMA:84799 + ZFA:0009236 skeletal myoblast skeletal muscle myoblast @@ -8629,6 +8014,12 @@ For example, A and B may be gene products and binding of B by A positively regul A myoblast that differentiates into skeletal muscle fibers. SANBI:mhl + + + + ZFA:0009236 + + @@ -8662,6 +8053,7 @@ For example, A and B may be gene products and binding of B by A positively regul A neuron which conveys sensory information centrally from the periphery. FMA:87653 + ZFA:0009238 input neuron afferent neuron @@ -8673,6 +8065,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D009475 + + + + ZFA:0009238 + + @@ -8681,6 +8079,7 @@ For example, A and B may be gene products and binding of B by A positively regul A neuron which sends impulses peripherally to activate muscles or secretory cells. + ZFA:0009239 output neuron efferent neuron @@ -8690,6 +8089,12 @@ For example, A and B may be gene products and binding of B by A positively regul A neuron which sends impulses peripherally to activate muscles or secretory cells. MESH:D009476 + + + + ZFA:0009239 + + @@ -8713,6 +8118,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:54527 VHOG:0001483 WBbt:0003679 + ZFA:0009248 nerve cell @@ -8728,6 +8134,18 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D009474 http://en.wikipedia.org/wiki/Neuron + + + + FBbt:00005106 + + + + + + ZFA:0009248 + + @@ -8745,6 +8163,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that originates from the neural crest and differentiates into a pigment cell. BTO:0003217 FMA:83377 + ZFA:0009249 Derived from UBERON:0002342 neural crest. melanoblast @@ -8755,6 +8174,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm SANBI:mhl + + + + ZFA:0009249 + + @@ -8785,7 +8210,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8818,6 +8242,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62863 MESH:D008214 VHOG:0001535 + ZFA:0009250 Editors note: consider adding taxon constraint to vertebrata (PMID:18025161) @@ -8831,6 +8256,12 @@ For example, A and B may be gene products and binding of B by A positively regul ISBN:0683073696 ISBN:0781735149 + + + + ZFA:0009250 + + @@ -8880,7 +8311,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8926,6 +8356,7 @@ For example, A and B may be gene products and binding of B by A positively regul A hematopoietic progenitor cell that is committed to the granulocyte and monocyte lineages. These cells are CD123-positive, and do not express Gata1 or Gata2 but do express C/EBPa, and Pu.1. CFU-C , Colony forming unit in culture + ZFA:0009251 colony forming unit granulocyte macrophage granulocyte-macrophage progenitor granulocyte/monocyte precursor @@ -8960,6 +8391,12 @@ For example, A and B may be gene products and binding of B by A positively regul CFU-C , Colony forming unit in culture http://www.copewithcytokines.de + + + + ZFA:0009251 + + @@ -9021,7 +8458,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9044,6 +8480,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004657 FMA:83551 + ZFA:0009253 Morphology: Mononuclear cell, diameter 14-18 _M, fine azurophilic granules; markers: CD11b (shared with many other myeloid cells); location: Adult: bone marrow; Fetal: Liver, Yolk Sac; role or process: hematopoiesis, monocyte development; lineage: hematopoietic, myeloid. @@ -9062,6 +8499,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721601464 + + + + ZFA:0009253 + + @@ -9089,7 +8532,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9115,6 +8557,7 @@ For example, A and B may be gene products and binding of B by A positively regul A mesenchymal stem cell capable of developing into blood vessel endothelium. + ZFA:0009258 angioblast chondroplast These cells are reportedly CD31-positive, CD34-positive, CD144-positive, CD309-positive, and TAL1-positive. @@ -9134,6 +8577,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:12768659 + + + + ZFA:0009258 + + @@ -9195,6 +8644,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000876 CALOHA:TS-0638 FMA:62864 + ZFA:0009265 @@ -9215,6 +8665,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO_REF:0000031 MESH:D009000 + + + + ZFA:0009265 + + @@ -9294,6 +8750,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:83601 MESH:D007694 VHOG:0001697 + ZFA:0009278 NK cell @@ -9308,6 +8765,12 @@ For example, A and B may be gene products and binding of B by A positively regul ISBN:0781735149 PMID:15771571 + + + + ZFA:0009278 + + @@ -9339,6 +8802,7 @@ For example, A and B may be gene products and binding of B by A positively regul A non-terminally differentiated cell that is capable of developing into a muscle cell. + ZFA:0009291 muscle precursor cell @@ -9348,6 +8812,12 @@ For example, A and B may be gene products and binding of B by A positively regul A non-terminally differentiated cell that is capable of developing into a muscle cell. GOC:add + + + + ZFA:0009291 + + @@ -9375,6 +8845,7 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to cell types of the body other than those of the germ-line. CALOHA:TS-2086 MESH:D053687 + ZFA:0009307 somatic stem cell @@ -9383,6 +8854,12 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to cell types of the body other than those of the germ-line. GO:0048103 + + + + ZFA:0009307 + + @@ -9422,6 +8899,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0002916 CALOHA:TS-2157 FMA:86936 + ZFA:0005784 striated muscle cell @@ -9431,6 +8909,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721662544 + + + + ZFA:0005784 + + @@ -9487,6 +8971,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62852 MESH:D007962 NCIT:C12529 + ZFA:0009309 leucocyte white blood cell immune cell @@ -9508,6 +8993,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:978-0-323-05290-0 + + + + ZFA:0009309 + + @@ -9565,6 +9056,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0115 FMA:14067 MESH:D032383 + ZFA:0009316 cardiac muscle fiber cardiac myocyte cardiomyocyte @@ -9585,6 +9077,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:22426062 PMID:4711263 + + + + ZFA:0009316 + + @@ -9619,6 +9117,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001441 CALOHA:TS-0647 MESH:D022423 + ZFA:0009324 myeloid cell @@ -9634,6 +9133,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the monocyte, granulocyte, mast cell, megakaryocyte, or erythroid lineage. GOC:add + + + + ZFA:0009324 + + @@ -9654,6 +9159,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the monocyte, granulocyte, or mast cell lineage. + ZFA:0009326 myeloid leukocyte @@ -9669,77 +9175,11 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the monocyte, granulocyte, or mast cell lineage. GOC:add - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Any of the immature or mature forms of a granular leukocyte that in its mature form has a nucleus with three to five lobes connected by slender threads of chromatin, and cytoplasm containing fine inconspicuous granules and stainable by neutral dyes. - - PMN - poly - polymorphonuclear leucocyte - polymorphonuclear leukocyte - polymorphonuclear neutrophil - polynuclear neutrophilic leucocyte - polynuclear neutrophilic leukocyte - BTO:0000130 - CALOHA:TS-0688 - FMA:62860 - MESH:D009504 - neutrocyte - neutrophil leucocyte - neutrophil leukocyte - neutrophilic leucocyte - neutrophilic leukocyte - - - - neutrophil - - - - - true - - - - - Any of the immature or mature forms of a granular leukocyte that in its mature form has a nucleus with three to five lobes connected by slender threads of chromatin, and cytoplasm containing fine inconspicuous granules and stainable by neutral dyes. - GOC:add - GOC:amm - GOC:tfm - ISBN:0721601464 + + + ZFA:0009326 + @@ -9839,7 +9279,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9883,6 +9322,7 @@ For example, A and B may be gene products and binding of B by A positively regul A lymphoid progenitor cell that is committed to the natural killer cell lineage, expressing CD122 (IL-15) receptor, but lacking many of the phenotypic characteristics of later stages of natural killer cell development such as expression of NK activating and inhibitory molecules. In human this cell has the phenotype CD34-positive, CD45RA-positive, CD10-positive, CD117-negative, and CD161 negative. + ZFA:0009348 NKP natural killer cell progenitor pro-natural killer cell @@ -9909,6 +9349,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:15032583 PMID:15766674 + + + + ZFA:0009348 + + @@ -9955,7 +9401,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9984,6 +9429,7 @@ For example, A and B may be gene products and binding of B by A positively regul pre-pro B cell BTO:0003104 + ZFA:0009349 pro-B lymphocyte pro-B-cell pro-B-lymphocyte @@ -10020,6 +9466,12 @@ For example, A and B may be gene products and binding of B by A positively regul pre-pro B cell PMID:17582343 + + + + ZFA:0009349 + + @@ -10057,6 +9509,7 @@ For example, A and B may be gene products and binding of B by A positively regul A lymphoid progenitor cell of the T cell lineage, with some lineage specific marker expression, but not yet fully committed to the T cell lineage. + ZFA:0009350 pro-T lymphocyte progenitor T cell DN1 cell @@ -10078,6 +9531,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0781735149 + + + + ZFA:0009350 + + @@ -10152,7 +9611,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -10254,6 +9712,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000725 CALOHA:TS-0448 + ZFA:0009354 MPP hemopoietic progenitor cell @@ -10270,6 +9729,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:19022770 + + + + ZFA:0009354 + + @@ -10301,6 +9766,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004731 CALOHA:TS-2025 FMA:70338 + ZFA:0009355 Note that this is a class of cell types, not an identified single cell type. lymphoid lineage restricted progenitor cell @@ -10318,6 +9784,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009355 + + @@ -10349,6 +9821,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004730 CALOHA:TS-2099 FMA:70339 + ZFA:0009356 Note that this is a class of cell types, not an identified single cell type. @@ -10368,6 +9841,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:19022770 + + + + ZFA:0009356 + + @@ -10391,6 +9870,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000878 CALOHA:TS-0768 FMA:86713 + ZFA:0009357 mononuclear leukocyte peripheral blood mononuclear cell @@ -10409,6 +9889,12 @@ For example, A and B may be gene products and binding of B by A positively regul A leukocyte with a single non-segmented nucleus in the mature form. GOC:add + + + + ZFA:0009357 + + @@ -10456,6 +9942,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-2017 FMA:70366 FMA:83598 + ZFA:0005830 haematopoietic cell haemopoietic cell hemopoietic cell @@ -10469,6 +9956,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GO_REF:0000031 + + + + ZFA:0005830 + + @@ -11011,6 +10504,7 @@ For example, A and B may be gene products and binding of B by A positively regul 2010-06-29T03:38:22Z FMA:69074 + ZFA:0009385 ecto-epithelial cell @@ -11020,6 +10514,12 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:69074 GOC:tfm + + + + ZFA:0009385 + + @@ -11214,6 +10714,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-2096 FMA:63875 MESH:D003239 + ZFA:0009392 connective tissue cell @@ -11224,6 +10725,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0618947256 + + + + ZFA:0009392 + + @@ -11237,6 +10744,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0263 FMA:82840 WBbt:0007028 + ZFA:0007089 embryonic cell (metazoa) @@ -11245,6 +10753,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the embryo. FMA:0618947256 + + + + ZFA:0007089 + + @@ -11295,6 +10809,12 @@ For example, A and B may be gene products and binding of B by A positively regul ISBN:0323052908 PMID:22274696 + + + + FBbt:00005812 + + @@ -11384,6 +10904,7 @@ For example, A and B may be gene products and binding of B by A positively regul Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells. 2012-06-27T08:27:35Z + ZFA:0007084 premigratory neural crest cell @@ -11392,6 +10913,12 @@ For example, A and B may be gene products and binding of B by A positively regul Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells. UBERONREF:0000002 + + + + ZFA:0007084 + + @@ -11508,6 +11035,12 @@ For example, A and B may be gene products and binding of B by A positively regul A muscle cell that is part of some visceral muscle. GOC:dos + + + + FBbt:00005070 + + @@ -11605,9 +11138,16 @@ For example, A and B may be gene products and binding of B by A positively regul + Any myoblast that develops into some cardiac muscle cell. MESH:D032386 cardiac myoblast + + + + Any myoblast that develops into some cardiac muscle cell. + FBC:Autogenerated + @@ -11820,36 +11360,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms. - GO:0019952 - GO:0050876 - Wikipedia:Reproduction - reproductive physiological process - biological_process - GO:0000003 - - - - - - reproduction - - - - - The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms. - GOC:go_curators - GOC:isa_complete - GOC:jl - ISBN:0198506732 - - - - @@ -13238,7 +12748,6 @@ For example, A and B may be gene products and binding of B by A positively regul - A location, relative to cellular compartments and structures, occupied by a macromolecular machine. There are three types of cellular components described in the gene ontology: (1) the cellular anatomical entity where a gene product carries out a molecular function (e.g., plasma membrane, cytoskeleton) or membrane-enclosed compartments (e.g., mitochondrion); (2) virion components, where viral proteins act, and (3) the stable macromolecular complexes of which gene product are parts (e.g., the clathrin complex). https://github.com/geneontology/go-ontology/issues/17729 @@ -13285,13 +12794,16 @@ For example, A and B may be gene products and binding of B by A positively regul + + + Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'. extracellular region @@ -13309,32 +12821,32 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + A protein complex consisting of three collagen chains assembled into a left-handed triple helix. These trimers typically assemble into higher order structures. Wikipedia:Collagen cellular_component GO:0005581 collagen trimer - + - + - + PMID:12382326 - + PMID:12382326 @@ -13479,12 +12991,14 @@ For example, A and B may be gene products and binding of B by A positively regul + + nucleus @@ -13526,6 +13040,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore. chromosome @@ -13592,7 +13107,9 @@ For example, A and B may be gene products and binding of B by A positively regul + + cytoplasm @@ -13669,11 +13186,13 @@ For example, A and B may be gene products and binding of B by A positively regul + + vacuole @@ -13718,11 +13237,14 @@ For example, A and B may be gene products and binding of B by A positively regul + + + plasma membrane @@ -13785,7 +13307,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides. GO:0055132 DNA metabolism @@ -13799,6 +13321,8 @@ For example, A and B may be gene products and binding of B by A positively regul + + DNA metabolic process @@ -13818,6 +13342,7 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process GO:0006310 + @@ -13853,7 +13378,9 @@ For example, A and B may be gene products and binding of B by A positively regul + + Note that this term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term, for e.g. to transmembrane transport, to microtubule-based transport or to vesicle-mediated transport. transport @@ -14169,6 +13696,7 @@ For example, A and B may be gene products and binding of B by A positively regul A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane. + https://github.com/geneontology/go-ontology/issues/27189 jl 2013-12-19T15:25:51Z GO:1902589 @@ -14178,8 +13706,10 @@ For example, A and B may be gene products and binding of B by A positively regul organelle organization and biogenesis single-organism organelle organization GO:0006996 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. organelle organization @@ -14604,7 +14134,6 @@ For example, A and B may be gene products and binding of B by A positively regul - A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence. https://github.com/geneontology/go-ontology/issues/24968 jl @@ -14644,6 +14173,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation. + https://github.com/geneontology/go-ontology/issues/26424 jl 2012-10-17T15:46:40Z GO:0044236 @@ -14656,11 +14186,13 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process single-organism metabolic process GO:0008152 - + + + Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions. metabolic process @@ -14695,6 +14227,7 @@ For example, A and B may be gene products and binding of B by A positively regul + biosynthetic process @@ -14716,6 +14249,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass. https://github.com/geneontology/go-ontology/issues/15249 https://github.com/geneontology/go-ontology/issues/25418 + https://github.com/geneontology/go-ontology/issues/27189 GO:0043284 biopolymer biosynthetic process macromolecule anabolism @@ -14724,7 +14258,9 @@ For example, A and B may be gene products and binding of B by A positively regul macromolecule synthesis biological_process GO:0009059 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. macromolecule biosynthetic process @@ -14874,7 +14410,7 @@ For example, A and B may be gene products and binding of B by A positively regul response to environmental stimulus biological_process GO:0009605 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. @@ -14897,7 +14433,7 @@ For example, A and B may be gene products and binding of B by A positively regul response to biotic stress biological_process GO:0009607 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. @@ -14921,7 +14457,7 @@ For example, A and B may be gene products and binding of B by A positively regul response to abiotic stress biological_process GO:0009628 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. @@ -14995,7 +14531,7 @@ For example, A and B may be gene products and binding of B by A positively regul embryonal development biological_process GO:0009790 - + embryo development @@ -15396,10 +14932,12 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process cell organization and biogenesis GO:0016043 + + cellular component organization @@ -15511,6 +15049,7 @@ For example, A and B may be gene products and binding of B by A positively regul + @@ -15557,6 +15096,7 @@ For example, A and B may be gene products and binding of B by A positively regul Recombination occurring within or between DNA molecules in somatic cells. + biological_process GO:0016444 somatic cell DNA recombination @@ -15850,32 +15390,24 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents. + https://github.com/geneontology/go-ontology/issues/27054 jl 2012-09-19T15:56:06Z GO:0044702 + Wikipedia:Reproduction biological_process single organism reproductive process GO:0022414 + + + + + + + reproductive process @@ -15943,11 +15475,13 @@ For example, A and B may be gene products and binding of B by A positively regul single organism signaling GO:0023052 + + Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change. signaling @@ -16171,12 +15705,24 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + The process whose specific outcome is the progression of the myeloid and lymphoid derived organ/tissue systems of the blood and other parts of the body over time, from formation to the mature structure. The site of hemopoiesis is variable during development, but occurs primarily in bone marrow or kidney in many adult vertebrates. https://github.com/geneontology/go-ontology/issues/22178 Wikipedia:Haematopoiesis @@ -16379,6 +15925,7 @@ For example, A and B may be gene products and binding of B by A positively regul + cell differentiation @@ -16644,6 +16191,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0031012 + @@ -16901,6 +16449,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any biological process, occurring at the level of a multicellular organism, pertinent to its function. + https://github.com/geneontology/go-ontology/issues/27189 @@ -16915,6 +16464,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0032501 + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. multicellular organismal process @@ -17020,7 +16570,12 @@ For example, A and B may be gene products and binding of B by A positively regul - + + + + + + A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together. GO:0043234 @@ -17033,6 +16588,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0032991 + @@ -17417,7 +16973,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -17492,13 +17047,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - Primary lysosomal granule found in neutrophil granulocytes. Contains a wide range of hydrolytic enzymes and is released into the extracellular fluid. + Primary lysosomal granule readily stainable with a Romanowsky stain. + https://github.com/geneontology/go-ontology/issues/27231 primary granule cellular_component GO:0042582 @@ -17507,9 +17057,12 @@ For example, A and B may be gene products and binding of B by A positively regul - Primary lysosomal granule found in neutrophil granulocytes. Contains a wide range of hydrolytic enzymes and is released into the extracellular fluid. + Primary lysosomal granule readily stainable with a Romanowsky stain. GOC:jl PMID:17152095 + PMID:28717070 + PMID:5914694 + WIKIPEDIA:Azurophilic_granule @@ -17606,10 +17159,12 @@ For example, A and B may be gene products and binding of B by A positively regul cellular_component GO:0042995 + + cell projection @@ -17757,6 +17312,7 @@ For example, A and B may be gene products and binding of B by A positively regul + organelle @@ -17983,11 +17539,24 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + Fibers, composed of actin, myosin, and associated proteins, found in cells of smooth or striated muscle. + https://github.com/geneontology/go-ontology/issues/27281 contractile fibre cellular_component GO:0043292 - contractile fiber + contractile muscle fiber @@ -18034,12 +17603,15 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells. + https://github.com/geneontology/go-ontology/issues/27052 cellular anabolism cellular biosynthesis cellular formation cellular synthesis biological_process GO:0044249 + + This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. cellular biosynthetic process @@ -18136,6 +17708,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0045202 + @@ -18679,7 +18252,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process that modulates the frequency, rate or extent of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. biological_process GO:0048583 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. regulation of response to stimulus @@ -18916,6 +18489,7 @@ For example, A and B may be gene products and binding of B by A positively regul + anatomical structure development @@ -18952,6 +18526,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another. https://github.com/geneontology/go-ontology/issues/19809 + cell locomotion movement of a cell biological_process @@ -18959,6 +18534,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0048870 + cell motility @@ -19205,6 +18781,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process that modulates the frequency, rate or extent of cell activation, the change in the morphology or behavior of a cell resulting from exposure to an activating factor such as a cellular or soluble ligand. + biological_process GO:0050865 regulation of cell activation @@ -19284,12 +18861,13 @@ For example, A and B may be gene products and binding of B by A positively regul physiological response to stimulus biological_process GO:0050896 - + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. response to stimulus @@ -19411,6 +18989,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation. + https://github.com/geneontology/go-ontology/issues/27052 jl 2013-12-18T13:51:04Z GO:1902578 @@ -19424,6 +19003,7 @@ For example, A and B may be gene products and binding of B by A positively regul single organism localization single-organism localization GO:0051179 + localization @@ -19656,6 +19236,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0055085 + @@ -20130,6 +19711,7 @@ For example, A and B may be gene products and binding of B by A positively regul A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component. + https://github.com/geneontology/go-ontology/issues/27189 mah 2010-09-10T01:39:16Z GO:0071841 @@ -20138,8 +19720,10 @@ For example, A and B may be gene products and binding of B by A positively regul cellular component organization or biogenesis at cellular level biological_process GO:0071840 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular component organization or biogenesis @@ -20436,7 +20020,7 @@ For example, A and B may be gene products and binding of B by A positively regul region of plasma membrane cellular_component GO:0098590 - + Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass. plasma membrane region @@ -20508,7 +20092,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -21275,6 +20858,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon. + https://github.com/geneontology/go-ontology/issues/26424 pr 2012-11-05T11:04:40Z organic molecular entity anabolism @@ -21288,6 +20872,7 @@ For example, A and B may be gene products and binding of B by A positively regul organic substance synthesis biological_process GO:1901576 + organic substance biosynthetic process @@ -22260,7 +21845,6 @@ For example, A and B may be gene products and binding of B by A positively regul - A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities PATO:0000072 quality @@ -23815,26 +23399,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - A protein with a core domain architecture consisting of an extracellular domain containing two copies of the Immunoglobulin domain (Pfam:PF00047), followed by a single-pass transmembrane region and a small intracellular domain. The active protein is a low affinity receptor for immunoglobulin gamma chain Fc region. Human II-a, II-b, and II-c represent a recent gene expansion and are equally related to mouse II, III, and IV. Human III-A and III-B are closely related and closer to mouse IV than to mouse III. - PIRSF:PIRSF001980 - protein - PR:000001355 - Category=family. - immunoglobulin gamma Fc receptor II/III/IV - - - - - A protein with a core domain architecture consisting of an extracellular domain containing two copies of the Immunoglobulin domain (Pfam:PF00047), followed by a single-pass transmembrane region and a small intracellular domain. The active protein is a low affinity receptor for immunoglobulin gamma chain Fc region. Human II-a, II-b, and II-c represent a recent gene expansion and are equally related to mouse II, III, and IV. Human III-A and III-B are closely related and closer to mouse IV than to mouse III. - PRO:WCB - - - - @@ -23914,54 +23478,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - An immunoglobulin gamma Fc receptor II/III/IV that is a translation product of the mouse Fcgr2 gene or a 1:1 ortholog thereof. - CD32 - Fc gamma receptor IIB - Fc-gamma RII - Fc-gamma-RIIB - FcRII - Fcgr2 - IgG Fc receptor II beta - ly-17 - lymphocyte antigen 17 - protein - Fcgr2b - PR:000001479 - Category=gene. Requested by=CL. - low affinity immunoglobulin gamma Fc region receptor II - - - - - An immunoglobulin gamma Fc receptor II/III/IV that is a translation product of the mouse Fcgr2 gene or a 1:1 ortholog thereof. - PRO:CNA - - - - - CD32 - PRO:DNx - - - - - Fcgr2 - PRO:DNx - - - - - - Fcgr2b - - - - - @@ -24190,48 +23706,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - A protein that is a translation product of the human SPN gene or a 1:1 ortholog thereof. - PIRSF:PIRSF001994 - B-cell differentiation antigen LP-3 - GALGP - SPN - galactoglycoprotein - leukocyte sialoglycoprotein - ly-48 - lymphocyte antigen 48 - sialophorin - protein - CD43 - PR:000001879 - Category=gene. Requested by=CL. - leukosialin - - - - - A protein that is a translation product of the human SPN gene or a 1:1 ortholog thereof. - PRO:WCB - - - - - SPN - PRO:DNx - - - - - - CD43 - - - - - @@ -25250,70 +24724,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - - - - - - A material entity that minimally consists of a protein. - protein - protein aggregate - protein complex - protein-containing complex - protein - PR:000050567 - Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566). - protein-containing material entity - - - - - A material entity that minimally consists of a protein. - PRO:DAN - - - - - protein - PRO:DAN - - - - - protein aggregate - PRO:DAN - - - - - protein complex - PRO:DAN - - - - - protein-containing complex - PRO:DAN - - - - @@ -25373,6 +24783,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0001824 EHDAA:500 EMAPA:35955 + FBbt:00005155 GAID:63 HAO:0000930 MA:0000017 @@ -25405,6 +24816,12 @@ For example, A and B may be gene products and binding of B by A positively regul https://github.com/obophenotype/uberon/issues/549 https://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005155 + + @@ -25510,8 +24927,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + @@ -25559,11 +24976,11 @@ For example, A and B may be gene products and binding of B by A positively regul tendon http://upload.wikimedia.org/wikipedia/commons/3/3c/Achilles-tendon.jpg - + - + @@ -25576,13 +24993,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + OG - + AEO @@ -25619,7 +25036,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -25641,6 +25057,7 @@ For example, A and B may be gene products and binding of B by A positively regul A tubular structure that transports secreted or excreted substances. AAO:0011123 + FBbt:00100314 FMA:30320 NCIT:C12948 SCTID:91726008 @@ -25666,6 +25083,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://orcid.org/0000-0002-6601-2165 http://www.siumed.edu/~dking2/intro/glands.htm#ducts + + + + FBbt:00100314 + + @@ -25751,6 +25174,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000003 EHDAA2:0003003 EMAPA:0 + FBbt:00007001 FMA:305751 FMA:67135 GAID:781 @@ -25778,6 +25202,12 @@ For example, A and B may be gene products and binding of B by A positively regul Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome. CARO:0000003 + + + + FBbt:00007001 + + @@ -25959,7 +25389,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26007,7 +25436,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26060,7 +25488,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26156,7 +25583,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26198,7 +25624,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26291,7 +25716,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26378,7 +25802,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26429,7 +25852,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26475,7 +25897,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26483,7 +25904,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -26519,14 +25940,14 @@ For example, A and B may be gene products and binding of B by A positively regul gastrula stage - + - + BILS @@ -26577,7 +25998,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26627,7 +26047,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26696,6 +26115,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0001326 EHDAA:542 EMAPA:16262 + FBbt:00003126 FMA:49184 GAID:75 MA:0000341 @@ -26748,6 +26168,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Mouth https://github.com/obophenotype/uberon/wiki/The-digestive-tract + + + + FBbt:00003126 + + @@ -27027,6 +26453,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000004 EHDAA2:0003004 EMAPA:35178 + FBbt:00007019 FMA:9669 HAO:0000004 MA:0002450 @@ -27056,6 +26483,12 @@ For example, A and B may be gene products and binding of B by A positively regul Material anatomical entity in a gaseous, liquid, semisolid or solid state; produced by anatomical structures or derived from inhaled and ingested substances that have been modified by anatomical structures as they pass through the body. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007019 + + @@ -27110,6 +26543,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000005 CARO:0000005 EHDAA2:0003005 + FBbt:00007017 FMA:5897 HAO:0000005 NCIT:C94478 @@ -27133,6 +26567,12 @@ For example, A and B may be gene products and binding of B by A positively regul Non-material anatomical entity of three dimensions, that is generated by morphogenetic or other physiologic processes; is surrounded by one or more anatomical structures; contains one or more organism substances or anatomical structures. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007017 + + @@ -27152,7 +26592,6 @@ For example, A and B may be gene products and binding of B by A positively regul - Anatomical entity that has mass. @@ -27164,6 +26603,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000006 CARO:0000006 EHDAA2:0003006 + FBbt:00007016 FMA:67165 HAO:0000006 TAO:0001836 @@ -27181,13 +26621,18 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical entity that has mass. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007016 + + - Anatomical entity that has no mass. @@ -27198,6 +26643,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000007 CARO:0000007 EHDAA2:0003007 + FBbt:00007015 FMA:67112 HAO:0000007 TAO:0001835 @@ -27216,6 +26662,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical entity that has no mass. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007015 + + @@ -27258,6 +26710,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:392 EMAPA:16103 EV:0100000 + FBbt:00004856 FMA:7149 HAO:0000011 MA:0000003 @@ -27299,6 +26752,12 @@ For example, A and B may be gene products and binding of B by A positively regul system GO:0048731 + + + + FBbt:00004856 + + @@ -27350,6 +26809,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:1 EMAPA:25765 EV:0100016 + FBbt:00000001 FMA:256135 HAO:0000012 NCIT:C13041 @@ -27394,6 +26854,12 @@ For example, A and B may be gene products and binding of B by A positively regul VHOG:0000671 WBbt:0007833 + + + + FBbt:00000001 + + @@ -27454,6 +26920,7 @@ For example, A and B may be gene products and binding of B by A positively regul EFO:0000808 EHDAA2:0003032 EMAPA:36031 + FBbt:00007009 FMA:7153 HAO:0000032 MA:0002433 @@ -27496,6 +26963,12 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:DOS http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007009 + + @@ -27537,6 +27010,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000040 CARO:0000040 EHDAA2:0003040 + FBbt:00007013 FMA:63863 HAO:0000040 TAO:0000382 @@ -27562,6 +27036,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical structure that consists of cell parts and cell substances and together does not constitute a cell or a tissue. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007013 + + @@ -27580,6 +27060,7 @@ For example, A and B may be gene products and binding of B by A positively regul + FBbt:00007277 VHOG:0001737 uberon UBERON:0000477 @@ -27593,6 +27074,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical group whose component anatomical structures lie in close proximity to each other. FBbt:00007277 + + + + FBbt:00007277 + + @@ -27625,6 +27112,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000042 EHDAA2:0003042 EHDAA:46 + FBbt:00005835 FMA:85537 HAO:0000042 NCIT:C34055 @@ -27654,6 +27142,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://orcid.org/0000-0001-9114-8737 https://cedar.bio.indiana.edu/trac/env/ontologies/ticket/279 + + + + FBbt:00005835 + + @@ -27700,6 +27194,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000043 EHDAA2:0003043 EMAPA:35868 + FBbt:00007003 FMA:9637 HAO:0000043 MA:0003002 @@ -27735,6 +27230,12 @@ For example, A and B may be gene products and binding of B by A positively regul Multicellular anatomical structure that consists of many cells of one or a few types, arranged in an extracellular matrix such that their long-range organisation is at least partly a repetition of their short-range organisation. CARO:0000043 + + + + FBbt:00007003 + + @@ -27775,6 +27276,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000055 CARO:0000055 EHDAA2:0003055 + FBbt:00007010 HAO:0000055 TAO:0001488 TGMA:0001847 @@ -27801,6 +27303,12 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000055 http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007010 + + @@ -27833,7 +27341,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -27847,7 +27354,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -27864,6 +27371,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000066 EHDAA2:0003066 EMAPA:32738 + FBbt:00007005 FMA:9639 GAID:402 HAO:0000066 @@ -27888,14 +27396,14 @@ For example, A and B may be gene products and binding of B by A positively regul epithelium https://upload.wikimedia.org/wikipedia/commons/8/8f/Illu_epithelium.jpg - + - + http://palaeos.com/metazoa/porifera/homoscleromorpha.html @@ -27905,6 +27413,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Epithelium http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007005 + + @@ -28070,6 +27584,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2_RETIRED:0003236 EHDAA:38 EMAPA:16039 + FBbt:00000052 FMA:69068 GAID:963 MAT:0000226 @@ -28107,6 +27622,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0009790 Wikipedia:Embryo + + + + FBbt:00000052 + + @@ -28144,6 +27665,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000035 BTO:0000556 EMAPA:36033 + FBbt:00000110 FMA:69069 GAID:1303 MESH:D005855 @@ -28180,6 +27702,12 @@ For example, A and B may be gene products and binding of B by A positively regul embryonic tissue FMA:69069 + + + + FBbt:00000110 + + @@ -28218,7 +27746,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue. AAO:0000137 BILA:0000036 @@ -28228,6 +27756,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000428 EMAPA:16069 EV:0100003 + FBbt:00000111 FMA:69070 GAID:1304 MAT:0000155 @@ -28252,14 +27781,14 @@ For example, A and B may be gene products and binding of B by A positively regul ectoderm http://upload.wikimedia.org/wikipedia/commons/1/19/Gray32.png - + - + Bgee:AN @@ -28268,6 +27797,12 @@ For example, A and B may be gene products and binding of B by A positively regul Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue. Wikipedia:Ectoderm + + + + FBbt:00000111 + + @@ -28293,7 +27828,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut. AAO:0000139 BILA:0000038 @@ -28303,6 +27838,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000436 EMAPA:16062 EV:0100005 + FBbt:00000125 FMA:69071 GAID:1305 MAT:0000175 @@ -28327,14 +27863,14 @@ For example, A and B may be gene products and binding of B by A positively regul http://upload.wikimedia.org/wikipedia/commons/c/c0/Endoderm2.png http://upload.wikimedia.org/wikipedia/commons/d/df/Gray10.png - + - + Bgee:AN @@ -28343,6 +27879,12 @@ For example, A and B may be gene products and binding of B by A positively regul Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut. Wikipedia:Endoderm + + + + FBbt:00000125 + + @@ -28369,7 +27911,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The middle germ layer of the embryo, between the endoderm and ectoderm. UBERON:0003263 @@ -28384,6 +27926,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:183 EMAPA:16083 EV:0100006 + FBbt:00000126 FMA:69072 GAID:522 MAT:0000174 @@ -28409,14 +27952,14 @@ For example, A and B may be gene products and binding of B by A positively regul mesoderm http://upload.wikimedia.org/wikipedia/commons/e/e8/Mesoderm.png - + - + Bgee:AN @@ -28425,6 +27968,12 @@ For example, A and B may be gene products and binding of B by A positively regul The middle germ layer of the embryo, between the endoderm and ectoderm. Wikipedia:Mesoderm + + + + FBbt:00000126 + + @@ -28475,6 +28024,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004224 EHDAA2:0001929 EMAPA:16263 + FBbt:00000439 FMA:295846 NCIT:C34306 TAO:0001290 @@ -28513,6 +28063,12 @@ For example, A and B may be gene products and binding of B by A positively regul stomodeal-hypophyseal primordium XAO:0000269 + + + + FBbt:00000439 + + @@ -28597,6 +28153,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0002224 EMAPA:35306 EV:0100128 + FBbt:00005068 FMA:9668 GAID:439 MA:0000012 @@ -28627,6 +28184,12 @@ For example, A and B may be gene products and binding of B by A positively regul NLM:endocrine+system Wikipedia:Endocrine_system + + + + FBbt:00005068 + + @@ -28652,8 +28215,8 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -28667,6 +28230,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0309 EFO:0000827 EV:0100336 + FBbt:00005162 GAID:69 MAT:0000140 MESH:D005123 @@ -28684,24 +28248,24 @@ For example, A and B may be gene products and binding of B by A positively regul eye - + - + - + PMID:21062451 - + PMID:21062451 @@ -28710,6 +28274,12 @@ For example, A and B may be gene products and binding of B by A positively regul An organ that detects light. https://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005162 + + @@ -28858,6 +28428,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000058 CALOHA:TS-1293 EFO:0000793 + FBbt:00005055 FMA:7152 GAID:278 MA:0002431 @@ -28894,6 +28465,12 @@ For example, A and B may be gene products and binding of B by A positively regul NLM:alimentary+system Wikipedia:Digestive_system + + + + FBbt:00005055 + + @@ -29082,7 +28659,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -29102,6 +28679,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:826 EMAPA:16469 EV:0100162 + FBbt:00005093 FMA:7157 GAID:466 MA:0000016 @@ -29133,14 +28711,14 @@ For example, A and B may be gene products and binding of B by A positively regul http://upload.wikimedia.org/wikipedia/commons/b/b2/TE-Nervous_system_diagram.svg http://upload.wikimedia.org/wikipedia/commons/b/ba/Nervous_system_diagram.png - + - + Bgee:AN @@ -29155,6 +28733,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Nervous_system ZFIN:curator + + + + FBbt:00005093 + + @@ -29200,7 +28784,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the neural tube derivatives: the brain and spinal cord. In invertebrates it includes central ganglia plus nerve cord. @@ -29216,6 +28800,7 @@ For example, A and B may be gene products and binding of B by A positively regul EMAPA:16470 EMAPA:16754 EV:0100163 + FBbt:00005094 FMA:55675 GAID:570 MA:0000167 @@ -29244,7 +28829,7 @@ For example, A and B may be gene products and binding of B by A positively regul central nervous system - + @@ -29258,7 +28843,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Bgee:AN @@ -29275,6 +28860,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Acoelomorpha + + + + FBbt:00005094 + + @@ -29340,6 +28931,7 @@ For example, A and B may be gene products and binding of B by A positively regul EFO:0000805 EHDAA2:0003094 EMAPA:16192 + FBbt:00007692 FMA:75259 MA:0002442 MAT:0000031 @@ -29373,6 +28965,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical system that overlaps the nervous system and is responsible for receiving and processing sensory information. Wikipedia:Sensory_system + + + + FBbt:00007692 + + @@ -29504,6 +29102,7 @@ For example, A and B may be gene products and binding of B by A positively regul BIRNLEX:6 CARO:0000000 EHDAA2:0002229 + FBbt:10000000 FMA:62955 HAO:0000000 MA:0000001 @@ -29527,6 +29126,12 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62955 http://orcid.org/0000-0001-9114-8737 + + + + FBbt:10000000 + + @@ -29958,7 +29563,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Skeletal element that is composed of bone tissue. @@ -30000,14 +29605,14 @@ For example, A and B may be gene products and binding of B by A positively regul bone element - + - + VSAO-modified @@ -30073,7 +29678,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A tube extending from the mouth to the anus. @@ -30086,6 +29691,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000726 EHDAA:518 EMAPA:16247 + FBbt:00003125 FMA:45615 MA:0000917 NCIT:C34082 @@ -30109,14 +29715,14 @@ For example, A and B may be gene products and binding of B by A positively regul digestive tract - + - + NCBIBook:NBK10107 @@ -30138,6 +29744,12 @@ For example, A and B may be gene products and binding of B by A positively regul DOI:10.1371/journal.pone.0016309 + + + + FBbt:00003125 + + @@ -30314,6 +29926,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000174 CALOHA:TS-2110 EFO:0000461 + FBbt:00004208 FMA:69067 GAID:407 MESH:D004628 @@ -30344,6 +29957,12 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000174 ZFIN:curator + + + + FBbt:00004208 + + @@ -30632,9 +30251,9 @@ For example, A and B may be gene products and binding of B by A positively regul - - - + + + @@ -30682,15 +30301,15 @@ For example, A and B may be gene products and binding of B by A positively regul notochord http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + - + @@ -30709,19 +30328,19 @@ For example, A and B may be gene products and binding of B by A positively regul - + http://tolweb.org/Chordata/2499 - + ZFA - + EHDAA2 @@ -30761,8 +30380,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + Somites are spheres of epithelial cells that form sequentially along the anterior-posterior axis of the embryo through mesenchymal to epithelial transition of the presomitic mesoderm. mesodermal cluster @@ -30800,11 +30419,11 @@ For example, A and B may be gene products and binding of B by A positively regul somite http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + @@ -30817,13 +30436,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + GOTAX:0000352 - + ZFA @@ -30882,7 +30501,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -30949,22 +30567,22 @@ For example, A and B may be gene products and binding of B by A positively regul - + - - + + - + A specialized region of ectoderm found between the neural ectoderm (neural plate) and non-neural ectoderm and composed of highly migratory pluripotent cells that delaminate in early embryonic development from the dorsal neural tube and give rise to an astounding variety of differentiated cell types[MP]. AAO:0010578 BTO:0001764 @@ -30997,45 +30615,45 @@ For example, A and B may be gene products and binding of B by A positively regul http://upload.wikimedia.org/wikipedia/commons/5/5f/Gray644.png https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png - + - + - + - + - + XAO https://github.com/obophenotype/uberon/wiki/The-neural-crest - + BTO - + PMID:11523831 - + PMID:11523831 @@ -31093,6 +30711,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:255 EMAPA:16073 EV:0100004 + FBbt:00001057 FMA:87657 MAT:0000176 MIAA:0000176 @@ -31121,6 +30740,12 @@ For example, A and B may be gene products and binding of B by A positively regul Embryonic ectoderm that gives rise to nervous tissue. Wikipedia:Neuroectoderm + + + + FBbt:00001057 + + @@ -31157,7 +30782,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -31336,7 +30960,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -31392,14 +31016,14 @@ For example, A and B may be gene products and binding of B by A positively regul bone marrow http://upload.wikimedia.org/wikipedia/commons/7/74/Gray72-en.svg - + - + FMA MA @@ -31611,7 +31235,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -31665,14 +31289,14 @@ For example, A and B may be gene products and binding of B by A positively regul hematopoietic system - + - + FMA @@ -31880,6 +31504,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0003096 EHDAA:2161 EMAPA:18425 + FBbt:00100317 FMA:7146 FMA:86294 HAO:0000375 @@ -31910,6 +31535,12 @@ For example, A and B may be gene products and binding of B by A positively regul MGI:csmith MP:0002163 + + + + FBbt:00100317 + + @@ -32075,7 +31706,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form. AAO:0011086 EFO:0001982 @@ -32098,14 +31729,14 @@ For example, A and B may be gene products and binding of B by A positively regul presomitic mesoderm - + - + Bgee:AN @@ -32259,9 +31890,9 @@ For example, A and B may be gene products and binding of B by A positively regul - - - + + + A region of embryonic ectodermal cells that lie directly above the notochord. During neurulation, they change shape and produce an infolding of the neural plate (the neural fold) that then seals to form the neural tube[XAO]. The earliest recognizable dorsal ectodermal primordium of the central nervous system present near the end of gastrulation before infolding to form the neural keel; consists of a thickened pseudostratified epithelium[ZFA]. AAO:0011072 BTO:0001765 @@ -32290,34 +31921,34 @@ For example, A and B may be gene products and binding of B by A positively regul neural plate https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png - + - + - + - + GOTAX:0000352 - + Wikipedia - + Bgee:AN @@ -32357,7 +31988,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The paraxial mesoderm is the mesoderm located bilaterally adjacent to the notochord and neural tube[GO]. AAO:0010568 EFO:0003515 @@ -32383,7 +32014,7 @@ For example, A and B may be gene products and binding of B by A positively regul paraxial mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + @@ -32396,7 +32027,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Bgee:AN @@ -32443,7 +32074,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -32483,7 +32114,7 @@ For example, A and B may be gene products and binding of B by A positively regul lateral plate mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + @@ -32496,7 +32127,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 VHOG @@ -32546,7 +32177,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -32587,7 +32218,7 @@ For example, A and B may be gene products and binding of B by A positively regul myotome http://upload.wikimedia.org/wikipedia/commons/9/96/Gray65.png - + @@ -32600,7 +32231,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2-abduced @@ -32760,7 +32391,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The part of the coelom in the embryo between the somatopleuric and splanchnopleuric mesoderm; the principal body cavities of the trunk (thoracic, abdominal, and pelvic) arise from this embryonic part of the coelom. consider merging with coelom. TODO - add spatial relationships to halves of LPM. Note the OG places XAO and ZFA coelem terms here. editor note: TODO check ZFA, which appears to be a structure present in adults EHDAA:251 @@ -32775,14 +32406,14 @@ For example, A and B may be gene products and binding of B by A positively regul intraembryonic coelom - + - + Wikipedia @@ -32826,6 +32457,7 @@ For example, A and B may be gene products and binding of B by A positively regul Epithelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues, with tube shape and organization varying from the single-celled excretory organ in Caenorhabditis elegans to the branching trees of the mammalian kidney and insect tracheal system. AEO:0000114 EHDAA2:0003114 + FBbt:00007474 epithelial or endothelial tube uberon UBERON:0003914 @@ -32838,6 +32470,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0060562 PMID:12526790 + + + + FBbt:00007474 + + @@ -33077,7 +32715,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The bilaminar epithelium formed from the myotome and dermatome. AAO:0010572 AEO:0000214 @@ -33095,7 +32733,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0004290 dermomyotome - + @@ -33114,7 +32752,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 ZFA @@ -33281,6 +32919,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0007012 BILA:0000060 BTO:0001403 + FBbt:00005317 FMA:293108 GAID:1302 MESH:D005775 @@ -33312,6 +32951,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Gastrula Wikipedia:Trilaminar_blastocyst + + + + FBbt:00005317 + + @@ -33438,7 +33083,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Organ consisting of skeletal tissue. Encompasses whole bones, fused bones, cartilaginious elements, teeth, dermal denticles. AAO:0011129 TAO:0001890 @@ -33452,14 +33097,14 @@ For example, A and B may be gene products and binding of B by A positively regul skeletal element - + - + VSAO @@ -33486,7 +33131,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -33525,14 +33170,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0004770 articular system - + - + FMA @@ -33631,6 +33276,7 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts. + FBbt:00005811 joint uberon UBERON:0004905 @@ -33643,6 +33289,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005811 + + @@ -33675,6 +33327,7 @@ For example, A and B may be gene products and binding of B by A positively regul A proximal-distal subdivision of the digestive tract. + FBbt:00100315 FMA:71131 uberon alimentary system subdivision @@ -33693,6 +33346,12 @@ For example, A and B may be gene products and binding of B by A positively regul A proximal-distal subdivision of the digestive tract. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00100315 + + @@ -33959,7 +33618,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Mesenchyme that is part of a developing trunk. EFO:0003485 EHDAA2:0002092 @@ -33975,14 +33634,14 @@ For example, A and B may be gene products and binding of B by A positively regul trunk mesenchyme - + - + EHDAA2 @@ -34084,6 +33743,7 @@ For example, A and B may be gene products and binding of B by A positively regul An array of photoreceptors and any supporting cells found in an eye. + FBbt:00004200 light-sensitive tissue uberon UBERON:0005388 @@ -34095,6 +33755,12 @@ For example, A and B may be gene products and binding of B by A positively regul An array of photoreceptors and any supporting cells found in an eye. https://orcid.org/0000-0002-6601-2165 + + + + FBbt:00004200 + + @@ -34114,6 +33780,7 @@ For example, A and B may be gene products and binding of B by A positively regul AEO:0000125 CALOHA:TS-2122 EHDAA2:0003125 + FBbt:00007006 FMA:292313 MIAA:0000019 uberon @@ -34124,6 +33791,12 @@ For example, A and B may be gene products and binding of B by A positively regul developing anatomical structure + + + + FBbt:00007006 + + @@ -34176,7 +33849,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -34278,7 +33950,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The notochordal plate is the dorsal part of the notochordal process when the ventral portion breaks down. It is continuous laterally with the endoderm that composes the roof of the primitive foregut and is in contact dorsally with the neural tube. The folding off of the notochordal plate gives rise to the notochord. TODO - check ordering; awaiting confirmation from JB EHDAA2:0001278 @@ -34292,7 +33964,7 @@ For example, A and B may be gene products and binding of B by A positively regul notochordal plate - + @@ -34305,7 +33977,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 @@ -34333,7 +34005,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A midline cellular cord formed from the migration of mesenchymal cells from the primitive knot. EHDAA2:0001279 EHDAA:224 @@ -34350,14 +34022,14 @@ For example, A and B may be gene products and binding of B by A positively regul The notochordal process grows cranially until it reaches the prechordal plate, the future site of the mouth. In this area the ectoderm is attached directly to the endoderm without intervening mesoderm. This area is known as the oropharyngeal membrane, and it will break down to become the mouth. At the other end of the primitive streak the ectoderm is also fused directly to the endoderm; this is known as the cloacal membrane (proctodeum), or primordial anus. notochordal process - + - + EHDAA2 @@ -34968,7 +34640,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -34994,7 +34666,7 @@ For example, A and B may be gene products and binding of B by A positively regul presumptive paraxial mesoderm - + @@ -35010,7 +34682,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + https://github.com/obophenotype/uberon/issues/1277 @@ -35059,7 +34731,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Mesenchyme with little extracellular matrix. AEO:0000146 EHDAA2:0003146 @@ -35067,7 +34739,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0007524 dense mesenchyme tissue - + @@ -35080,7 +34752,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + AEO @@ -35095,7 +34767,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35239,7 +34910,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -35256,14 +34927,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0009142 entire embryonic mesenchyme - + - + EHDAA2 @@ -35285,7 +34956,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2:0002094 trunk and cervical paraxial mesenchyme uberon @@ -35293,14 +34964,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0009618 trunk paraxial mesoderm - + - + EHDAA2 @@ -35350,6 +35021,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0010000 + FBbt:00100313 multicellular structure uberon UBERON:0010000 @@ -35363,6 +35035,12 @@ For example, A and B may be gene products and binding of B by A positively regul An anatomical structure that has more than one cell as a part. CARO:0010000 + + + + FBbt:00100313 + + @@ -35538,6 +35216,7 @@ For example, A and B may be gene products and binding of B by A positively regul + FBbt:00007330 FMA:67509 SCTID:91690000 uberon @@ -35559,6 +35238,12 @@ For example, A and B may be gene products and binding of B by A positively regul A subdivision of an anatomical system. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00007330 + + @@ -35695,7 +35380,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35731,7 +35415,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35768,7 +35451,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -35792,7 +35475,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0011899 epimysium - + @@ -35805,7 +35488,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + FMA @@ -35911,7 +35594,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -35932,7 +35615,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0012429 hematopoietic tissue - + @@ -35945,7 +35628,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + defitional @@ -36250,6 +35933,7 @@ For example, A and B may be gene products and binding of B by A positively regul An anatomical group whose component structures share a common function. AEO:0000093 + FBbt:00007278 uberon UBERON:0015203 non-connected functional system @@ -36263,6 +35947,12 @@ For example, A and B may be gene products and binding of B by A positively regul FBC:DOS FBbt:00007278 + + + + FBbt:00007278 + + @@ -36493,7 +36183,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -36516,7 +36206,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0016887 entire extraembryonic component - + @@ -36529,7 +36219,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + AEO @@ -36615,7 +36305,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -36632,14 +36322,14 @@ For example, A and B may be gene products and binding of B by A positively regul skeletal musculature - + - + MA @@ -36734,6 +36424,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0020000 + FBbt:00007276 uberon UBERON:0034923 @@ -36751,6 +36442,12 @@ For example, A and B may be gene products and binding of B by A positively regul Material anatomical entity consisting of multiple anatomical structures that are not connected to each other. CARO:0020000 + + + + FBbt:00007276 + + @@ -37181,781 +36878,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - If a molecular function (X) has a regulatory subfunction, then any gene product which is an input to that subfunction has an activity that directly_regulates X. Note: this is intended for cases where the regaultory subfunction is protein binding, so it could be tightened with an additional clause to specify this. - inferring direct reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - inferring direct neg reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - inferring direct positive reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - effector input is compound function input - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Input of effector is input of its parent MF - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly regulates X, its parent MF directly regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly positively regulates X, its parent MF directly positively regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly negatively regulates X, its parent MF directly negatively regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - 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+_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid774 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid795 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid803 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid810 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid820 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid833 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid849 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid857 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid864 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid874 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid901 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid918 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid927 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid977 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid985 +_:Bfac34fc2X2D25bfX2D4635X2Db891X2D94da1b8803a5genid993 "cell" "neuronal receptor cell" "early embryonic cell (metazoa)" @@ -360,7 +350,6 @@ _:Bbb97c441X2D333bX2D4751X2D87e4X2D8b4936c8b0dagenid997 "cardiac muscle cell" "myeloid cell" "myeloid leukocyte" - "neutrophil" "myeloid dendritic cell" "pro-NK cell" "pro-B cell" @@ -405,7 +394,6 @@ _:Bbb97c441X2D333bX2D4751X2D87e4X2D8b4936c8b0dagenid997 "neutrophillic cytoplasm" "basophilic cytoplasm" "bone marrow hematopoietic cell" - "reproduction" "lytic vacuole" "chromatin" "euchromatin" @@ -587,7 +575,7 @@ _:Bbb97c441X2D333bX2D4751X2D87e4X2D8b4936c8b0dagenid997 "intracellular membrane-bounded organelle" "intracellular non-membrane-bounded organelle" "organelle lumen" - "contractile fiber" + "contractile muscle fiber" "cellular metabolic process" "cellular biosynthetic process" "biological process involved in interspecies interaction between organisms" @@ -781,10 +769,8 @@ _:Bbb97c441X2D333bX2D4751X2D87e4X2D8b4936c8b0dagenid997 "membrane-spanning 4-domains subfamily A member 1" "cadherin" "carcinoembryonic antigen-related cell adhesion molecule 8" - "immunoglobulin gamma Fc receptor II/III/IV" "interleukin-2 receptor subunit beta" "cadherin-5" - "low affinity immunoglobulin gamma Fc region receptor II" "transcription factor NF-kappa-B subunit" "CSF-1/PDGF receptor-type tyrosine-protein kinase" "T-cell surface glycoprotein CD5" @@ -792,7 +778,6 @@ _:Bbb97c441X2D333bX2D4751X2D87e4X2D8b4936c8b0dagenid997 "interleukin-3 receptor class 2 alpha chain" "interleukin-7 receptor subunit alpha" "KLRB1-like protein" - "leukosialin" "CD14 molecule" "neprilysin" "paired box protein PAX-5" @@ -820,7 +805,6 @@ _:Bbb97c441X2D333bX2D4751X2D87e4X2D8b4936c8b0dagenid997 "eukaryotic protein" "cathepsin-like protease" "receptor-type tyrosine-protein phosphatase C isoform CD45R" - "protein-containing material entity" "processual entity" "sense organ" "tube" diff --git a/subsets/kidney_upper_slim.json b/subsets/kidney_upper_slim.json index f32433dec..083c32f0b 100644 --- a/subsets/kidney_upper_slim.json +++ b/subsets/kidney_upper_slim.json @@ -4,68 +4,11 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", - "val" : "2024-04-05" + "val" : "2024-05-15" } ], - "version" : "http://purl.obolibrary.org/obo/cl/releases/2024-04-05/subsets/kidney_upper_slim.owl" + "version" : "http://purl.obolibrary.org/obo/cl/releases/2024-05-15/subsets/kidney_upper_slim.owl" }, "nodes" : [ { - "id" : "http://purl.obolibrary.org/obo/BFO_0000002", - "lbl" : "continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000003", - "lbl" : "occurrent", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An entity that has temporal parts and that happens, unfolds or develops through time." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000004", - "lbl" : "independent continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" - }, - "comments" : [ "A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000015", - "lbl" : "process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" - }, - "comments" : [ "An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000020", - "lbl" : "specifically dependent continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" - }, - "comments" : [ "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000040", - "lbl" : "material entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." - } - } - }, { "id" : "http://purl.obolibrary.org/obo/BFO_0000050", "lbl" : "part_of", "type" : "PROPERTY", @@ -218,10 +161,6 @@ }, "comments" : [ "Paraphrase of definition: a relation between an independent continuant and a process, in which the process takes place entirely within the independent continuant" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000141", - "lbl" : "immaterial entity", - "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/CL_0000000", "lbl" : "cell", @@ -251,6 +190,8 @@ "val" : "WBbt:0004017" }, { "val" : "XAO:0003012" + }, { + "val" : "ZFA:0009000" } ] } }, { @@ -261,7 +202,10 @@ "definition" : { "val" : "A cell found in the embryo before the formation of all the gem layers is complete.", "xrefs" : [ "GOC:tfm" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009002" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000034", @@ -282,6 +226,8 @@ "val" : "CALOHA:TS-2086" }, { "val" : "FMA:63368" + }, { + "val" : "ZFA:0005957" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -323,6 +269,8 @@ "val" : "MESH:D006412" }, { "val" : "VHOG:0001485" + }, { + "val" : "ZFA:0009014" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -362,6 +310,8 @@ } ], "xrefs" : [ { "val" : "BTO:0004911" + }, { + "val" : "ZFA:0009015" } ] } }, { @@ -374,7 +324,10 @@ "xrefs" : [ "GOC:tfm", "ISBN:0721662544" ] }, "comments" : [ "Originally this term had some plant germ line cell children." ], - "subsets" : [ "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim", "http://purl.obolibrary.org/obo/ubprop#_upper_level" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#general_cell_types_upper_slim", "http://purl.obolibrary.org/obo/ubprop#_upper_level" ], + "xrefs" : [ { + "val" : "ZFA:0009016" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000048", @@ -400,6 +353,8 @@ } ], "xrefs" : [ { "val" : "FMA:84789" + }, { + "val" : "ZFA:0009020" } ] } }, { @@ -450,6 +405,8 @@ } ], "xrefs" : [ { "val" : "BTO:0004730" + }, { + "val" : "ZFA:0009021" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -489,6 +446,9 @@ "pred" : "hasExactSynonym", "val" : "megakaryocyte/erythroid progenitor cell" } ], + "xrefs" : [ { + "val" : "ZFA:0009022" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -511,6 +471,8 @@ "val" : "FMA:84790" }, { "val" : "MESH:D039901" + }, { + "val" : "ZFA:0009024" } ] } }, { @@ -553,6 +515,8 @@ "val" : "FMA:70335" }, { "val" : "VHOG:0001529" + }, { + "val" : "ZFA:0009025" } ] } }, { @@ -576,6 +540,8 @@ "val" : "NCIT:C12482" }, { "val" : "VHOG:0001482" + }, { + "val" : "ZFA:0009026" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -596,6 +562,8 @@ "val" : "VHOG:0001532" }, { "val" : "XAO:0000031" + }, { + "val" : "ZFA:0009032" } ] } }, { @@ -624,6 +592,8 @@ "val" : "FMA:66768" }, { "val" : "WBbt:0003672" + }, { + "val" : "ZFA:0009034" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -645,6 +615,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "FMA:70605" + }, { + "val" : "ZFA:0009035" } ] } }, { @@ -656,7 +628,10 @@ "val" : "An epithelial cell that is part of a duct.", "xrefs" : [ "https://orcid.org/0000-0001-5208-3432" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], + "xrefs" : [ { + "val" : "ZFA:0009372" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000071", @@ -672,6 +647,9 @@ "pred" : "hasExactSynonym", "val" : "cuboidal endothelial cell of vascular tree" } ], + "xrefs" : [ { + "val" : "ZFA:0009036" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -691,6 +669,9 @@ "xrefs" : [ "GO:0002065", "https://orcid.org/0000-0001-5208-3432" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], + "xrefs" : [ { + "val" : "ZFA:0009038" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -704,6 +685,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "CALOHA:TS-1249" + }, { + "val" : "ZFA:0009039" } ] } }, { @@ -720,6 +703,8 @@ "val" : "FMA:62844" }, { "val" : "MESH:D001773" + }, { + "val" : "ZFA:0009044" } ] } }, { @@ -743,6 +728,8 @@ "val" : "CALOHA:TS-0278" }, { "val" : "FMA:66772" + }, { + "val" : "ZFA:0009065" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -761,6 +748,9 @@ "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "neurectoderm cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009080" } ] } }, { @@ -827,6 +817,8 @@ "val" : "BTO:0003298" }, { "val" : "FMA:70546" + }, { + "val" : "ZFA:0009081" } ], "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", @@ -852,7 +844,13 @@ }, { "id" : "http://purl.obolibrary.org/obo/CL_0000154", "lbl" : "protein secreting cell", - "type" : "CLASS" + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any secretory cell that is capable of some protein secretion.", + "xrefs" : [ "FBC:Autogenerated" ] + } + } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000183", "lbl" : "contractile cell", @@ -893,6 +891,8 @@ "val" : "FMA:67328" }, { "val" : "WBbt:0003675" + }, { + "val" : "ZFA:0009114" } ], "basicPropertyValues" : [ { "pred" : "http://xmlns.com/foaf/0.1/depiction", @@ -930,6 +930,8 @@ "val" : "CALOHA:TS-2159" }, { "val" : "FMA:14072" + }, { + "val" : "ZFA:0009118" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -944,7 +946,10 @@ "definition" : { "val" : "A cell whose function is determined by the generation or the reception of an electric signal.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009128" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000213", @@ -958,6 +963,9 @@ "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "boundary cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009130" } ] } }, { @@ -968,7 +976,10 @@ "definition" : { "val" : "A cell whose primary function is to prevent the transport of stuff across compartments.", "xrefs" : [ "JB:jb" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009132" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000219", @@ -978,7 +989,10 @@ "definition" : { "val" : "A cell that moves by its own activities.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009136" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000221", @@ -995,6 +1009,8 @@ } ], "xrefs" : [ { "val" : "FMA:72549" + }, { + "val" : "ZFA:0009137" } ] } }, { @@ -1016,6 +1032,8 @@ } ], "xrefs" : [ { "val" : "FMA:72554" + }, { + "val" : "ZFA:0009138" } ] } }, { @@ -1033,6 +1051,8 @@ } ], "xrefs" : [ { "val" : "FMA:72555" + }, { + "val" : "ZFA:0009139" } ] } }, { @@ -1067,12 +1087,21 @@ }, { "id" : "http://purl.obolibrary.org/obo/CL_0000239", "lbl" : "brush border epithelial cell", - "type" : "CLASS" + "type" : "CLASS", + "meta" : { + "xrefs" : [ { + "val" : "ZFA:0009143" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000255", "lbl" : "eukaryotic cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any cell that only exists in Eukaryota.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "MESH:D005057" @@ -1081,7 +1110,16 @@ }, { "id" : "http://purl.obolibrary.org/obo/CL_0000329", "lbl" : "oxygen accumulating cell", - "type" : "CLASS" + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any cell that is capable of some oxygen transport.", + "xrefs" : [ "FBC:Autogenerated" ] + }, + "xrefs" : [ { + "val" : "ZFA:0009164" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000333", "lbl" : "migratory neural crest cell", @@ -1093,6 +1131,8 @@ }, "xrefs" : [ { "val" : "FMA:86667" + }, { + "val" : "ZFA:0007086" } ] } }, { @@ -1103,7 +1143,10 @@ "definition" : { "val" : "A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors.", "xrefs" : [ "GOC:tfm", "PMID:5025404" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009166" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000352", @@ -1144,7 +1187,10 @@ "definition" : { "val" : "A cell whose function is determined by its response to an electric signal.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009190" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000404", @@ -1154,7 +1200,10 @@ "definition" : { "val" : "A cell that initiates an electrical signal and passes that signal to another cell.", "xrefs" : [ "FB:ma" ] - } + }, + "xrefs" : [ { + "val" : "ZFA:0009193" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000514", @@ -1176,6 +1225,8 @@ } ], "xrefs" : [ { "val" : "FMA:84798" + }, { + "val" : "ZFA:0009235" } ] } }, { @@ -1205,6 +1256,8 @@ "val" : "VHOG:0001483" }, { "val" : "WBbt:0003679" + }, { + "val" : "ZFA:0009248" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1264,6 +1317,8 @@ } ], "xrefs" : [ { "val" : "FMA:83505" + }, { + "val" : "ZFA:0005236" } ] } }, { @@ -1302,6 +1357,8 @@ } ], "xrefs" : [ { "val" : "FMA:83506" + }, { + "val" : "ZFA:0005241" } ] } }, { @@ -1446,6 +1503,8 @@ "val" : "CALOHA:TS-0864" }, { "val" : "MESH:D012156" + }, { + "val" : "ZFA:0009252" } ] } }, { @@ -1464,6 +1523,9 @@ }, { "pred" : "hasExactSynonym", "val" : "chondroplast" + } ], + "xrefs" : [ { + "val" : "ZFA:0009258" } ] } }, { @@ -1502,6 +1564,8 @@ } ], "xrefs" : [ { "val" : "BTO:0002315" + }, { + "val" : "ZFA:0009387" } ] } }, { @@ -1526,6 +1590,8 @@ } ], "xrefs" : [ { "val" : "FMA:84138" + }, { + "val" : "ZFA:0005238" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1555,6 +1621,8 @@ "val" : "FMA:70972" }, { "val" : "MESH:D050527" + }, { + "val" : "ZFA:0009283" } ] } }, { @@ -1566,6 +1634,9 @@ "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "window cell" + } ], + "xrefs" : [ { + "val" : "ZFA:0009286" } ] } }, { @@ -1603,6 +1674,8 @@ "val" : "BTO:0002441" }, { "val" : "FMA:63174" + }, { + "val" : "ZFA:0009112" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1618,7 +1691,10 @@ "val" : "A non-terminally differentiated cell that is capable of developing into a muscle cell.", "xrefs" : [ "GOC:add" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], + "xrefs" : [ { + "val" : "ZFA:0009291" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000723", @@ -1633,6 +1709,8 @@ "val" : "CALOHA:TS-2086" }, { "val" : "MESH:D053687" + }, { + "val" : "ZFA:0009307" } ] } }, { @@ -1651,6 +1729,8 @@ "val" : "CALOHA:TS-0647" }, { "val" : "MESH:D022423" + }, { + "val" : "ZFA:0009324" } ] } }, { @@ -1674,6 +1754,8 @@ "val" : "FMA:62845" }, { "val" : "FMA:83516" + }, { + "val" : "ZFA:0009325" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1702,6 +1784,8 @@ "val" : "FMA:83504" }, { "val" : "MESH:D004900" + }, { + "val" : "ZFA:0005237" } ] } }, { @@ -1726,6 +1810,8 @@ "val" : "BTO:0000725" }, { "val" : "CALOHA:TS-0448" + }, { + "val" : "ZFA:0009354" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1753,6 +1839,8 @@ "val" : "CALOHA:TS-2099" }, { "val" : "FMA:70339" + }, { + "val" : "ZFA:0009356" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -1787,6 +1875,8 @@ "val" : "FMA:70366" }, { "val" : "FMA:83598" + }, { + "val" : "ZFA:0005830" } ] } }, { @@ -1837,6 +1927,8 @@ }, "xrefs" : [ { "val" : "FMA:69074" + }, { + "val" : "ZFA:0009385" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -1861,6 +1953,8 @@ } ], "xrefs" : [ { "val" : "FMA:69076" + }, { + "val" : "ZFA:0009388" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2061,6 +2155,8 @@ "val" : "FMA:63875" }, { "val" : "MESH:D003239" + }, { + "val" : "ZFA:0009392" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2085,6 +2181,8 @@ "val" : "FMA:82840" }, { "val" : "WBbt:0007028" + }, { + "val" : "ZFA:0007089" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2137,6 +2235,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "KUPO:0001019" + }, { + "val" : "ZFA:0009374" } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -2156,6 +2256,9 @@ "xrefs" : [ "GOC:tfm" ] }, "comments" : [ "See CL:0002619." ], + "xrefs" : [ { + "val" : "ZFA:0005773" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0003-1980-3228" @@ -2202,7 +2305,10 @@ "val" : "A cuboidal epithelial cell of the kidney which regulates sodium and potassium balance. The activity of sodium and potassium channels on the apical membrane of the cell is regulated by aldosterone and vasopressin. In mammals this cell type is located in the renal collecting duct system.", "xrefs" : [ "CL:CVS" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ] + "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], + "xrefs" : [ { + "val" : "ZFA:0005322" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0007004", @@ -2213,6 +2319,9 @@ "val" : "Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells.", "xrefs" : [ "UBERONREF:0000002" ] }, + "xrefs" : [ { + "val" : "ZFA:0007084" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0001-9114-8737" @@ -2283,6 +2392,9 @@ "xrefs" : [ "Wiki:Mural_cell&oldid=930603194" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#added_for_HCA", "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], + "xrefs" : [ { + "val" : "ZFA:0005944" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" @@ -2498,6 +2610,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "KUPO:0001010" + }, { + "val" : "ZFA:0009389" } ] } }, { @@ -2511,6 +2625,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/cl#kidney_upper_slim" ], "xrefs" : [ { "val" : "KUPO:0001013" + }, { + "val" : "ZFA:0009390" } ] } }, { @@ -2524,6 +2640,8 @@ }, "xrefs" : [ { "val" : "KUPO:0001017" + }, { + "val" : "ZFA:0009391" } ] } }, { @@ -2557,6 +2675,10 @@ "lbl" : "kidney glomerular epithelial cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any kidney epithelial cell that is part of some glomerular epithelium.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "KUPO:0001023" @@ -2580,6 +2702,10 @@ "lbl" : "kidney papillary duct principal epithelial cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any kidney cell that is part of some papillary duct.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#kidney_upper_slim" ], "xrefs" : [ { "val" : "KUPO:0001064" @@ -2590,6 +2716,10 @@ "lbl" : "kidney corpuscule cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any renal cortical epithelial cell that is part of some renal corpuscle.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#kidney_upper_slim" ], "xrefs" : [ { "val" : "KUPO:0001021" @@ -2600,6 +2730,10 @@ "lbl" : "kidney cortex tubule cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any kidney tubule cell that is part of some renal cortex tubule.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "KUPO:0001024" @@ -2610,6 +2744,10 @@ "lbl" : "juxtaglomerular complex cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any kidney cortical cell that is part of some juxtaglomerular apparatus.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#kidney_upper_slim" ], "synonyms" : [ { "pred" : "hasExactSynonym", @@ -2643,6 +2781,10 @@ "lbl" : "glomerular cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any kidney corpuscule cell that is part of some renal glomerulus.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "xrefs" : [ { "val" : "KUPO:0001036" } ] @@ -2652,6 +2794,10 @@ "lbl" : "kidney connecting tubule epithelial cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any nephron tubule epithelial cell that is part of some renal connecting tubule.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/cl#kidney_upper_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "xrefs" : [ { "val" : "KUPO:0001058" @@ -2666,6 +2812,10 @@ "lbl" : "kidney distal convoluted tubule epithelial cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any epithelial cell of distal tubule that is part of some distal convoluted tubule.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/cl#kidney_upper_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "xrefs" : [ { "val" : "KUPO:0001056" @@ -2693,6 +2843,10 @@ "lbl" : "kidney arterial blood vessel cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any kidney blood vessel cell that is part of some kidney arterial blood vessel.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#kidney_upper_slim" ], "xrefs" : [ { "val" : "KUPO:0001029" @@ -2703,6 +2857,10 @@ "lbl" : "kidney capillary endothelial cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any kidney blood vessel cell that is part of some kidney capillary.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/cl#kidney_upper_slim" ], "xrefs" : [ { "val" : "KUPO:0001030" @@ -2713,6 +2871,10 @@ "lbl" : "kidney venous blood vessel cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any kidney blood vessel cell that is part of some renal vein.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#kidney_upper_slim" ], "xrefs" : [ { "val" : "KUPO:0001031" @@ -2723,6 +2885,10 @@ "lbl" : "kidney loop of Henle epithelial cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any nephron tubule epithelial cell that is part of some loop of Henle.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset" ], "xrefs" : [ { "val" : "KUPO:0001047" @@ -2733,6 +2899,10 @@ "lbl" : "kidney loop of Henle ascending limb epithelial cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any kidney loop of Henle epithelial cell that is part of some ascending limb of loop of Henle.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#cellxgene_subset", "http://purl.obolibrary.org/obo/cl#kidney_upper_slim" ], "xrefs" : [ { "val" : "KUPO:0001048" @@ -2743,6 +2913,10 @@ "lbl" : "kidney loop of Henle descending limb epithelial cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Any kidney loop of Henle epithelial cell that is part of some descending limb of loop of Henle.", + "xrefs" : [ "FBC:Autogenerated" ] + }, "subsets" : [ "http://purl.obolibrary.org/obo/cl#kidney_upper_slim" ], "xrefs" : [ { "val" : "KUPO:0001053" @@ -2867,34 +3041,6 @@ "val" : "results_in_fission_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0000003", - "lbl" : "reproduction", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms.", - "xrefs" : [ "GOC:go_curators", "GOC:isa_complete", "GOC:jl", "ISBN:0198506732" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "reproductive physiological process" - } ], - "xrefs" : [ { - "val" : "Wikipedia:Reproduction" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0019952" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0050876" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000226", "lbl" : "microtubule cytoskeleton organization", @@ -3667,7 +3813,7 @@ "xrefs" : [ "GOC:go_curators" ] }, "comments" : [ "Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "extracellular" @@ -3785,7 +3931,7 @@ "xrefs" : [ "ISBN:0198547684" ] }, "comments" : [ "Note that for multicellular organisms, the extracellular space refers to everything outside a cell, but still within the organism (excluding the extracellular matrix). Gene products from a multi-cellular organism that are secreted from a cell into the interstitial fluid or blood can therefore be annotated to this term." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "intercellular space" @@ -3846,7 +3992,7 @@ "val" : "A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell nucleus" @@ -3875,7 +4021,7 @@ "xrefs" : [ "ISBN:0198547684" ] }, "comments" : [ "Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "interphase chromosome" @@ -3923,7 +4069,7 @@ "val" : "The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.", "xrefs" : [ "ISBN:0198547684" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "xrefs" : [ { "val" : "Wikipedia:Cytoplasm" } ], @@ -3944,7 +4090,7 @@ "val" : "A closed structure, found only in eukaryotic cells, that is completely surrounded by unit membrane and contains liquid material. Cells contain one or several vacuoles, that may have different functions from each other. Vacuoles have a diverse array of functions. They can act as a storage organelle for nutrients or waste products, as a degradative compartment, as a cost-effective way of increasing cell size, and as a homeostatic regulator controlling both turgor pressure and pH of the cytosol.", "xrefs" : [ "GOC:mtg_sensu", "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "vacuolar carboxypeptidase Y" @@ -3967,7 +4113,7 @@ "xrefs" : [ "ISBN:0198506732" ] }, "comments" : [ "Note that the Golgi apparatus can be located in various places in the cytoplasm. In plants and lower animal cells, the Golgi apparatus exists as many copies of discrete stacks dispersed throughout the cytoplasm, while the Golgi apparatus of interphase mammalian cells is a juxtanuclear, often pericentriolar reticulum, where the discrete Golgi stacks are stitched together to form a compact and interconnected ribbon, sometimes called the Golgi ribbon." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "Golgi" @@ -4023,7 +4169,7 @@ "val" : "An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "free ribosome", @@ -4058,7 +4204,7 @@ "val" : "A cellular structure that forms the internal framework of eukaryotic and prokaryotic cells. The cytoskeleton includes intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles.", "xrefs" : [ "GOC:mah", "PMID:16959967", "PMID:27419875" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "xrefs" : [ { "val" : "Wikipedia:Cytoskeleton" } ], @@ -4107,7 +4253,7 @@ "val" : "The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.", "xrefs" : [ "ISBN:0716731363" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "juxtamembrane" @@ -4292,7 +4438,7 @@ "val" : "The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "protein anabolism" @@ -4431,7 +4577,7 @@ "xrefs" : [ "GOC:dos", "GOC:dph", "GOC:jl", "GOC:mah" ] }, "comments" : [ "Note that this term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term, for e.g. to transmembrane transport, to microtubule-based transport or to vesicle-mediated transport." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "single-organism transport" @@ -4637,7 +4783,8 @@ "val" : "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "organelle organisation" @@ -4654,6 +4801,9 @@ "val" : "single-organism organelle organization" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -4739,7 +4889,7 @@ "val" : "The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.", "xrefs" : [ "GOC:go_curators", "GOC:mtg_cell_cycle" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell-division cycle" @@ -4802,20 +4952,8 @@ "xrefs" : [ "GOC:go_curators", "GOC:mtg_signaling_feb11" ] }, "comments" : [ "Note that signal transduction is defined broadly to include a ligand interacting with a receptor, downstream signaling steps and a response being triggered. A change in form of the signal in every step is not necessary. Note that in many cases the end of this process is regulation of the initiation of transcription. Note that specific transcription factors may be annotated to this term, but core/general transcription machinery such as RNA polymerase should not." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by cis-phosphorylation" - }, { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by conformational transition" - }, { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by protein phosphorylation" - }, { - "pred" : "hasNarrowSynonym", - "val" : "signal transduction by trans-phosphorylation" - }, { "pred" : "hasNarrowSynonym", "val" : "signaling cascade" }, { @@ -4826,8 +4964,7 @@ "val" : "signaling pathway" }, { "pred" : "hasRelatedSynonym", - "val" : "signalling pathway", - "xrefs" : [ "GOC:mah" ] + "val" : "signalling pathway" } ], "xrefs" : [ { "val" : "Wikipedia:Signal_transduction" @@ -5197,7 +5334,7 @@ "xrefs" : [ "GOC:go_curators", "ISBN:0198547684" ] }, "comments" : [ "Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "metabolism" @@ -5218,6 +5355,9 @@ "val" : "Wikipedia:Metabolism" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/26424" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -5296,7 +5436,7 @@ "val" : "The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.", "xrefs" : [ "GOC:curators", "ISBN:0198547684" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "formation" @@ -5345,7 +5485,8 @@ "val" : "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "biopolymer biosynthetic process", @@ -5369,6 +5510,9 @@ }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/25418" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0043284" @@ -5467,7 +5611,7 @@ "val" : "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant.", "xrefs" : [ "GOC:go_curators", "GOC:isa_complete", "GOC:mtg_sensu" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "embryogenesis and morphogenesis" @@ -5670,7 +5814,7 @@ "xrefs" : [ "GOC:lr", "GOC:mtg_apoptosis" ] }, "comments" : [ "Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "regulated cell death" @@ -5851,7 +5995,7 @@ "val" : "A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component.", "xrefs" : [ "GOC:ai", "GOC:jl", "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell organisation" @@ -5917,7 +6061,7 @@ "val" : "A cellular transport process in which transported substances are moved in membrane-bounded vesicles; transported substances are enclosed in the vesicle lumen or located in the vesicle membrane. The process begins with a step that directs a substance to the forming vesicle, and includes vesicle budding and coating. Vesicles are then targeted to, and fuse with, an acceptor membrane.", "xrefs" : [ "GOC:ai", "GOC:mah", "ISBN:08789310662000" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_pombe" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_pombe" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "vesicle transport" @@ -6032,7 +6176,8 @@ "val" : "The chemical reactions and pathways involving a protein. Includes protein modification.", "xrefs" : [ "GOC:ma" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular protein metabolic process" @@ -6058,6 +6203,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/23112" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0006411" @@ -6116,7 +6264,7 @@ "val" : "The cellular process that ensures successive accurate and complete genome replication and chromosome segregation.", "xrefs" : [ "GOC:isa_complete", "GOC:mtg_cell_cycle" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -6146,7 +6294,8 @@ "val" : "A cellular process that results in the breakdown of a cellular component.", "xrefs" : [ "GOC:isa_complete" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell structure disassembly" @@ -6155,6 +6304,9 @@ "val" : "cellular component disassembly at cellular level" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0071845" }, { @@ -6171,12 +6323,18 @@ "val" : "A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents.", "xrefs" : [ "GOC:dph", "GOC:isa_complete" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_generic" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "single organism reproductive process" } ], + "xrefs" : [ { + "val" : "Wikipedia:Reproduction" + } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27054" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -6214,7 +6372,7 @@ "val" : "The aggregation, arrangement and bonding together of a cellular component.", "xrefs" : [ "GOC:isa_complete" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell structure assembly" @@ -6288,7 +6446,7 @@ "xrefs" : [ "GOC:mtg_signal", "GOC:mtg_signaling_feb11", "GOC:signaling" ] }, "comments" : [ "Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "biological signaling" @@ -6474,7 +6632,7 @@ "val" : "The cellular developmental process in which a relatively unspecialized cell, e.g. embryonic or regenerative cell, acquires specialized structural and/or functional features that characterize a specific cell. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state.", "xrefs" : [ "ISBN:0198506732" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "xrefs" : [ { "val" : "Wikipedia:Cellular_differentiation" } ], @@ -6672,7 +6830,7 @@ "val" : "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues.", "xrefs" : [ "GOC:BHF", "GOC:mah", "GOC:rph", "NIF_Subcellular:nlx_subcell_20090513", "PMID:21123617", "PMID:28089324" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "proteinaceous extracellular matrix" @@ -6892,6 +7050,7 @@ "val" : "Any biological process, occurring at the level of a multicellular organism, pertinent to its function.", "xrefs" : [ "GOC:curators", "GOC:dph", "GOC:isa_complete", "GOC:tb" ] }, + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", @@ -6901,6 +7060,9 @@ "val" : "single-multicellular organism process" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://purl.obolibrary.org/obo/RO_0002161", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_2" }, { @@ -6960,21 +7122,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0032504", - "lbl" : "multicellular organism reproduction", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "The biological process in which new individuals are produced by one or two multicellular organisms. The new individuals inherit some proportion of their genetic material from the parent or parents.", - "xrefs" : [ "GOC:isa_complete", "GOC:jid" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0032838", "lbl" : "plasma membrane bounded cell projection cytoplasm", @@ -7059,7 +7206,7 @@ "xrefs" : [ "GOC:dos", "GOC:mah" ] }, "comments" : [ "A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "macromolecular complex" @@ -7553,7 +7700,7 @@ "val" : "A prolongation or process extending from a cell, e.g. a flagellum or axon.", "xrefs" : [ "GOC:jl", "http://www.cogsci.princeton.edu/~wn/" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "cell process" @@ -7651,7 +7798,7 @@ "val" : "Organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton, and prokaryotic structures such as anammoxosomes and pirellulosomes. Excludes the plasma membrane.", "xrefs" : [ "GOC:go_curators" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "xrefs" : [ { "val" : "NIF_Subcellular:sao1539965131" }, { @@ -7951,7 +8098,7 @@ "val" : "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism.", "xrefs" : [ "GOC:go_curators", "http://www.metacyc.org" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "primary metabolism" @@ -7973,6 +8120,8 @@ "val" : "The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells.", "xrefs" : [ "GOC:jl" ] }, + "comments" : [ "This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular anabolism" @@ -7987,6 +8136,9 @@ "val" : "cellular synthesis" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27052" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -8051,7 +8203,7 @@ "val" : "The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane.", "xrefs" : [ "GOC:aruk", "ISBN:0198506732", "PMID:24619342", "PMID:29383328", "PMID:31998110" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_synapse" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_synapse" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "synaptic junction" @@ -8291,6 +8443,7 @@ "val" : "The process, occurring above the cellular level, that is pertinent to the reproductive function of a multicellular organism. This includes the integrated processes at the level of tissues and organs.", "xrefs" : [ "GOC:dph", "GOC:jid", "GOC:tb" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_drosophila" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "organismal reproductive process" @@ -8299,6 +8452,9 @@ "val" : "reproductive process in a multicellular organism" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27054" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -8381,7 +8537,7 @@ "val" : "The biological process whose specific outcome is the progression of an anatomical structure from an initial condition to its mature state. This process begins with the formation of the structure and ends with the mature structure, whatever form that may be including its natural destruction. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome.", "xrefs" : [ "GO_REF:0000021" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "development of an anatomical structure" @@ -8417,7 +8573,7 @@ "val" : "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another.", "xrefs" : [ "GOC:dgh", "GOC:dph", "GOC:isa_complete", "GOC:mlg" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell locomotion" @@ -8431,6 +8587,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/19809" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002161", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_4890" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -8619,7 +8778,7 @@ "xrefs" : [ "GOC:ai", "GOC:bf" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "physiological response to stimulus" @@ -8641,7 +8800,7 @@ "val" : "Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation.", "xrefs" : [ "GOC:ai", "GOC:dos" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "establishment and maintenance of localization" @@ -8670,6 +8829,9 @@ "val" : "single-organism localization" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27052" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -8824,7 +8986,8 @@ "val" : "A cellular localization process whereby a substance or cellular entity, such as a protein complex or organelle, is transported to, and/or maintained in, a specific location within a cell including the localization of substances or cellular entities to the cell membrane.", "xrefs" : [ "GOC:tb", "GOC:vw" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular localisation", @@ -8850,6 +9013,9 @@ "val" : "single-organism cellular localization" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -8968,7 +9134,7 @@ "xrefs" : [ "GOC:bf", "GOC:jl" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -8984,7 +9150,7 @@ "xrefs" : [ "GOC:dph", "GOC:jid" ] }, "comments" : [ "Transmembrane transport is the transport of a solute across a lipid bilayer. Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane and is not traversed. For transport through the nuclear pore, consider instead the term 'nucleocytoplasmic transport ; GO:0006913' and its children. Note also that this term is not intended for use in annotating lateral movement within membranes." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "membrane transport" @@ -9592,7 +9758,8 @@ "val" : "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component.", "xrefs" : [ "GOC:mah" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics" ], + "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular component organisation or biogenesis", @@ -9606,6 +9773,9 @@ "val" : "cellular component organization or biogenesis at cellular level" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/27189" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "mah" }, { @@ -9980,7 +10150,7 @@ "xrefs" : [ "GOC:dos" ] }, "comments" : [ "Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "region of plasma membrane" @@ -10455,6 +10625,7 @@ "val" : "The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon.", "xrefs" : [ "GOC:TermGenie", "GOC:pr" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "organic molecular entity anabolism", @@ -10488,6 +10659,9 @@ "val" : "organic substance synthesis" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/26424" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "pr" }, { @@ -13661,38 +13835,6 @@ "val" : "protein" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/PR_000050567", - "lbl" : "protein-containing material entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A material entity that minimally consists of a protein.", - "xrefs" : [ "PRO:DAN" ] - }, - "comments" : [ "Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566)." ], - "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "protein", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein aggregate", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein complex", - "xrefs" : [ "PRO:DAN" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "protein-containing complex", - "xrefs" : [ "PRO:DAN" ] - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "protein" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000052", "lbl" : "characteristic of", @@ -13766,20 +13908,6 @@ "val" : "has_participant" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000079", - "lbl" : "function of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000080", "lbl" : "quality of", @@ -13794,33 +13922,6 @@ "val" : "A quality inheres in its bearer at all times for which the quality exists." } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000081", - "lbl" : "role of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000085", - "lbl" : "has function", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0000086", "lbl" : "has quality", @@ -13834,39 +13935,6 @@ "val" : "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000087", - "lbl" : "has role", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000091", - "lbl" : "has disposition", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000092", - "lbl" : "disposition of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "inverse of has disposition" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0001000", "lbl" : "derives from", @@ -13989,104 +14057,6 @@ "val" : "bounding_layer_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002013", - "lbl" : "has regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." - }, - "xrefs" : [ { - "val" : "RO:0002013" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:30:46Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "has_regulatory_component_activity" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002014", - "lbl" : "has negative regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." - }, - "comments" : [ "By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'." ], - "xrefs" : [ { - "val" : "RO:0002014" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:31:01Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "has_negative_regulatory_component_activity" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002015", - "lbl" : "has positive regulatory component activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." - }, - "comments" : [ "By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:31:17Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002017", - "lbl" : "has component activity", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:44:33Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002018", - "lbl" : "has component process", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:49:21Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002021", "lbl" : "occurs across", @@ -14103,72 +14073,6 @@ "val" : "2017-07-20T17:19:37Z" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002022", - "lbl" : "directly regulated by", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:24Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002023", - "lbl" : "directly negatively regulated by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:38Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002024", - "lbl" : "directly positively regulated by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:47Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002025", - "lbl" : "has effector activity", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] - }, - "comments" : [ "This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations." ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-22T14:14:36Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002081", "lbl" : "before or simultaneous with", @@ -15318,20 +15222,6 @@ "val" : "A relationship that holds between entities participating in some developmental process (GO:0032502)" } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002327", - "lbl" : "enables", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c enables p iff c is capable of p and c acts to execute p." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Enables" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002328", "lbl" : "functionally related to", @@ -15359,19 +15249,6 @@ "val" : "holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002331", - "lbl" : "involved in", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved_in p if and only if c enables some process p', and p' is part of p" - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Involved_in" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002332", "lbl" : "regulates levels of", @@ -15391,20 +15268,6 @@ "val" : "regulates_levels_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002333", - "lbl" : "enabled by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "inverse of enables" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Enabled_by" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002334", "lbl" : "regulated by", @@ -15800,48 +15663,6 @@ "val" : "causally_downstream_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002405", - "lbl" : "immediately causally downstream of", - "type" : "PROPERTY", - "meta" : { - "xrefs" : [ { - "val" : "RO:0002405" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "immediately_causally_downstream_of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002407", - "lbl" : "indirectly positively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Indirectly_positively_regulates" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002409", - "lbl" : "indirectly negatively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Indirectly_negatively_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002410", "lbl" : "causally related to", @@ -15876,25 +15697,6 @@ "val" : "causally_upstream_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002412", - "lbl" : "immediately causally upstream of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." - }, - "xrefs" : [ { - "val" : "RO:0002412" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "immediately_causally_upstream_of" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002418", "lbl" : "causally upstream of or within", @@ -15950,28 +15752,6 @@ "val" : "c involved in regulation of p if c is involved in some p' and p' regulates some p" } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002429", - "lbl" : "involved in positive regulation of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002430", - "lbl" : "involved in negative regulation of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002428" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002431", "lbl" : "involved in or involved in regulation of", @@ -15985,25 +15765,6 @@ "val" : "OWL does not allow defining object properties via a Union" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002432", - "lbl" : "is active in", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure.", - "xrefs" : [ "https://orcid.org/0000-0002-6601-2165", "https://orcid.org/0000-0002-7073-9172" ] - }, - "comments" : [ "" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "enables activity in" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Is_active_in" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002433", "lbl" : "contributes to morphology of", @@ -16013,96 +15774,6 @@ "val" : "p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002434", - "lbl" : "interacts with", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "in pairwise interaction with" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Considering relabeling as 'pairwise interacts with'" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002436", - "lbl" : "molecularly interacts with", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ECO_0000353" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002447", - "lbl" : "phosphorylates", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Axiomatization to GO to be added later" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002448", - "lbl" : "directly regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly controls" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002449", - "lbl" : "directly negatively regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly decreases activity of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002450", - "lbl" : "directly positively regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly increases activity of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002464", - "lbl" : "helper property (not for use in curation)", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002473", "lbl" : "composed primarily of", @@ -16123,10 +15794,6 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002481", - "lbl" : "is kinase activity", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002485", "lbl" : "receives input from", @@ -16279,16 +15946,6 @@ "val" : "http://purl.obolibrary.org/obo/BFO_0000169" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002506", - "lbl" : "causal relation between entities", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002551", "lbl" : "has skeleton", @@ -16298,27 +15955,6 @@ "val" : "A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision." } } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002559", - "lbl" : "causally influenced by", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002563", - "lbl" : "interaction relation helper property", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002564", - "lbl" : "molecular interaction relation helper property", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/RO_0002565", "lbl" : "results in movement of", @@ -16339,15 +15975,6 @@ "val" : "results_in_movement_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002566", - "lbl" : "causally influences", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." - } - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002567", "lbl" : "biomechanically related to", @@ -16416,26 +16043,6 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002578", - "lbl" : "directly regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly regulates q iff p is immediately causally upstream of q and p regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002578" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002584", "lbl" : "has part structure that is capable of", @@ -16565,55 +16172,6 @@ "val" : "process_has_causal_agent" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002629", - "lbl" : "directly positively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002629" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_positively_regulates" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Directly_positively_regulates" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002630", - "lbl" : "directly negatively regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "xrefs" : [ { - "val" : "RO:0002630" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "external" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "directly_negatively_regulates" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Directly_negatively_regulates" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0003000", "lbl" : "produces", @@ -16735,102 +16293,6 @@ "val" : "has_primary_input" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004031", - "lbl" : "enables subfunction", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-25T23:20:13Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004032", - "lbl" : "acts upstream of or within, positive effect", - "type" : "PROPERTY", - "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:49:30Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004033", - "lbl" : "acts upstream of or within, negative effect", - "type" : "PROPERTY", - "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:49:51Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004034", - "lbl" : "acts upstream of, positive effect", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:53:14Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004035", - "lbl" : "acts upstream of, negative effect", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:53:22Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0004046", "lbl" : "causally upstream of or within, negative effect", @@ -16879,15 +16341,6 @@ "val" : "2018-03-14T00:03:24Z" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0011002", - "lbl" : "regulates activity of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." - } - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0012000", "lbl" : "has small molecule regulator", @@ -17013,38 +16466,6 @@ "val" : "results_in_fusion_of" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0012011", - "lbl" : "indirectly causally upstream of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0003-1813-6857" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2022-09-26T06:07:17Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0012012", - "lbl" : "indirectly regulates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0003-1813-6857" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2022-09-26T06:08:01Z" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/RO_0013001", "lbl" : "has synaptic IO in region", @@ -17184,75 +16605,15 @@ "pred" : "hasBroadSynonym", "val" : "utilizes" } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2021-11-08T12:00:00Z" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019000", - "lbl" : "regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019000" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "regulates_characteristic" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019001", - "lbl" : "positively regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019001" - } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" + "val" : "https://orcid.org/0000-0001-9625-1899" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "positively_regulates_characteristic" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0019002", - "lbl" : "negatively regulates characteristic", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." - }, - "xrefs" : [ { - "val" : "RO:0019002" - } ], - "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8688-6599" + "val" : "https://orcid.org/0000-0003-2620-0345" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "gene_ontology" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", - "val" : "negatively_regulates_characteristic" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2021-11-08T12:00:00Z" } ] } }, { @@ -17374,6 +16735,8 @@ "val" : "EMAPA:37283" }, { "val" : "EV:0100155" + }, { + "val" : "FBbt:00007000" }, { "val" : "HAO:0000144" }, { @@ -17567,6 +16930,8 @@ } ], "xrefs" : [ { "val" : "AAO:0011123" + }, { + "val" : "FBbt:00100314" }, { "val" : "FMA:30320" }, { @@ -17656,6 +17021,8 @@ "val" : "EHDAA2:0003003" }, { "val" : "EMAPA:0" + }, { + "val" : "FBbt:00007001" }, { "val" : "FMA:305751" }, { @@ -19125,6 +18492,8 @@ "val" : "EHDAA:542" }, { "val" : "EMAPA:16262" + }, { + "val" : "FBbt:00003126" }, { "val" : "FMA:49184" }, { @@ -19651,6 +19020,8 @@ "val" : "EHDAA2:0003004" }, { "val" : "EMAPA:35178" + }, { + "val" : "FBbt:00007019" }, { "val" : "FMA:9669" }, { @@ -19723,6 +19094,8 @@ "val" : "CARO:0000005" }, { "val" : "EHDAA2:0003005" + }, { + "val" : "FBbt:00007017" }, { "val" : "FMA:5897" }, { @@ -19776,6 +19149,8 @@ "val" : "CARO:0000006" }, { "val" : "EHDAA2:0003006" + }, { + "val" : "FBbt:00007016" }, { "val" : "FMA:67165" }, { @@ -19826,6 +19201,8 @@ "val" : "CARO:0000007" }, { "val" : "EHDAA2:0003007" + }, { + "val" : "FBbt:00007015" }, { "val" : "FMA:67112" }, { @@ -19904,6 +19281,8 @@ "val" : "EMAPA:16103" }, { "val" : "EV:0100000" + }, { + "val" : "FBbt:00004856" }, { "val" : "FMA:7149" }, { @@ -20016,6 +19395,8 @@ "val" : "EMAPA:25765" }, { "val" : "EV:0100016" + }, { + "val" : "FBbt:00000001" }, { "val" : "FMA:256135" }, { @@ -20148,6 +19529,8 @@ "val" : "EHDAA2:0003032" }, { "val" : "EMAPA:36031" + }, { + "val" : "FBbt:00007009" }, { "val" : "FMA:7153" }, { @@ -20222,6 +19605,8 @@ "val" : "CARO:0000040" }, { "val" : "EHDAA2:0003040" + }, { + "val" : "FBbt:00007013" }, { "val" : "FMA:63863" }, { @@ -20260,6 +19645,8 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy", "http://purl.obolibrary.org/obo/uberon/core#upper_level" ], "xrefs" : [ { + "val" : "FBbt:00007277" + }, { "val" : "VHOG:0001737" } ], "basicPropertyValues" : [ { @@ -20316,6 +19703,8 @@ "val" : "EHDAA2:0003043" }, { "val" : "EMAPA:35868" + }, { + "val" : "FBbt:00007003" }, { "val" : "FMA:9637" }, { @@ -20386,6 +19775,8 @@ "val" : "CARO:0000055" }, { "val" : "EHDAA2:0003055" + }, { + "val" : "FBbt:00007010" }, { "val" : "HAO:0000055" }, { @@ -20450,6 +19841,8 @@ "val" : "EHDAA2:0003066" }, { "val" : "EMAPA:32738" + }, { + "val" : "FBbt:00007005" }, { "val" : "FMA:9639" }, { @@ -20525,6 +19918,8 @@ "val" : "CARO:0000068" }, { "val" : "EHDAA2_RETIRED:0003068" + }, { + "val" : "FBbt:00007027" }, { "val" : "FMA:45567" }, { @@ -20865,6 +20260,8 @@ "val" : "EHDAA:38" }, { "val" : "EMAPA:16039" + }, { + "val" : "FBbt:00000052" }, { "val" : "FMA:69068" }, { @@ -20943,6 +20340,8 @@ "val" : "BTO:0000556" }, { "val" : "EMAPA:36033" + }, { + "val" : "FBbt:00000110" }, { "val" : "FMA:69069" }, { @@ -21004,6 +20403,8 @@ "val" : "EMAPA:16069" }, { "val" : "EV:0100003" + }, { + "val" : "FBbt:00000111" }, { "val" : "FMA:69070" }, { @@ -21073,6 +20474,8 @@ "val" : "EMAPA:16062" }, { "val" : "EV:0100005" + }, { + "val" : "FBbt:00000125" }, { "val" : "FMA:69071" }, { @@ -21155,6 +20558,8 @@ "val" : "EMAPA:16083" }, { "val" : "EV:0100006" + }, { + "val" : "FBbt:00000126" }, { "val" : "FMA:69072" }, { @@ -21244,6 +20649,8 @@ "val" : "EHDAA2:0001929" }, { "val" : "EMAPA:16263" + }, { + "val" : "FBbt:00000439" }, { "val" : "FMA:295846" }, { @@ -21307,6 +20714,8 @@ "val" : "EHDAA2:0000121" }, { "val" : "EMAPA:25038" + }, { + "val" : "FBbt:00000123" }, { "val" : "NCIT:C34278" }, { @@ -21626,6 +21035,8 @@ "val" : "EMAPA:17381" }, { "val" : "EV:0100100" + }, { + "val" : "FBbt:00004857" }, { "val" : "FMA:7160" }, { @@ -21770,6 +21181,8 @@ "val" : "CALOHA:TS-1293" }, { "val" : "EFO:0000793" + }, { + "val" : "FBbt:00005055" }, { "val" : "FMA:7152" }, { @@ -21865,6 +21278,8 @@ "val" : "EMAPA:17366" }, { "val" : "EV:0100095" + }, { + "val" : "FBbt:00005056" }, { "val" : "FMA:7159" }, { @@ -22078,6 +21493,8 @@ "val" : "EMAPA:16469" }, { "val" : "EV:0100162" + }, { + "val" : "FBbt:00005093" }, { "val" : "FMA:7157" }, { @@ -22180,6 +21597,8 @@ "val" : "EMAPA:16754" }, { "val" : "EV:0100163" + }, { + "val" : "FBbt:00005094" }, { "val" : "FMA:55675" }, { @@ -22253,6 +21672,8 @@ "val" : "EHDAA:520" }, { "val" : "EMAPA:16548" + }, { + "val" : "FBbt:00005379" }, { "val" : "FMA:45616" }, { @@ -22311,6 +21732,8 @@ "val" : "EHDAA:983" }, { "val" : "EMAPA:16255" + }, { + "val" : "FBbt:00005383" }, { "val" : "FMA:45617" }, { @@ -22369,6 +21792,8 @@ "val" : "EHDAA:975" }, { "val" : "EMAPA:16715" + }, { + "val" : "FBbt:00005384" }, { "val" : "FMA:45618" }, { @@ -22436,6 +21861,8 @@ "val" : "EFO:0001652" }, { "val" : "EHDAA2:0003171" + }, { + "val" : "FBbt:00005495" }, { "val" : "FMA:86589" }, { @@ -22551,6 +21978,8 @@ "val" : "CARO:0000000" }, { "val" : "EHDAA2:0002229" + }, { + "val" : "FBbt:10000000" }, { "val" : "FMA:62955" }, { @@ -23265,6 +22694,8 @@ "val" : "CALOHA:TS-2005" }, { "val" : "EV:0100082" + }, { + "val" : "FBbt:00047153" }, { "val" : "FMA:15711" }, { @@ -24059,6 +23490,8 @@ "val" : "EHDAA:518" }, { "val" : "EMAPA:16247" + }, { + "val" : "FBbt:00003125" }, { "val" : "FMA:45615" }, { @@ -24812,6 +24245,8 @@ "val" : "CALOHA:TS-2110" }, { "val" : "EFO:0000461" + }, { + "val" : "FBbt:00004208" }, { "val" : "FMA:69067" }, { @@ -25737,6 +25172,8 @@ "val" : "BTO:0001707" }, { "val" : "EHDAA2:0000267" + }, { + "val" : "FBbt:00005060" }, { "val" : "FMA:85006" }, { @@ -26085,6 +25522,8 @@ "val" : "EMAPA:16073" }, { "val" : "EV:0100004" + }, { + "val" : "FBbt:00001057" }, { "val" : "FMA:87657" }, { @@ -27767,6 +27206,8 @@ "val" : "AEO:0000114" }, { "val" : "EHDAA2:0003114" + }, { + "val" : "FBbt:00007474" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -29405,6 +28846,8 @@ "val" : "BILA:0000060" }, { "val" : "BTO:0001403" + }, { + "val" : "FBbt:00005317" }, { "val" : "FMA:293108" }, { @@ -29826,6 +29269,9 @@ "pred" : "hasNarrowSynonym", "val" : "joint" } ], + "xrefs" : [ { + "val" : "FBbt:00005811" + } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -29861,6 +29307,8 @@ "xrefs" : [ "FMA:71131" ] } ], "xrefs" : [ { + "val" : "FBbt:00100315" + }, { "val" : "FMA:71131" } ], "basicPropertyValues" : [ { @@ -30683,6 +30131,8 @@ "val" : "CALOHA:TS-2122" }, { "val" : "EHDAA2:0003125" + }, { + "val" : "FBbt:00007006" }, { "val" : "FMA:292313" }, { @@ -31599,6 +31049,8 @@ "val" : "terminal section of digestive tract" } ], "xrefs" : [ { + "val" : "FBbt:00005756" + }, { "val" : "WBbt:0005773" } ], "basicPropertyValues" : [ { @@ -32195,6 +31647,8 @@ "val" : "EFO:0001649" }, { "val" : "EHDAA2:0003170" + }, { + "val" : "FBbt:00005426" }, { "val" : "Wikipedia:Anlage_(biology)" } ], @@ -32752,6 +32206,8 @@ } ], "xrefs" : [ { "val" : "CARO:0010000" + }, { + "val" : "FBbt:00100313" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -33194,6 +32650,8 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#upper_level" ], "xrefs" : [ { + "val" : "FBbt:00007330" + }, { "val" : "FMA:67509" }, { "val" : "SCTID:91690000" @@ -33961,6 +33419,8 @@ "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy" ], "xrefs" : [ { "val" : "CARO:0020000" + }, { + "val" : "FBbt:00007276" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", @@ -34711,26 +34171,6 @@ } } ], "edges" : [ { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000004", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000015", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000020", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000040", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000141", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000000", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" @@ -34916,10 +34356,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000064", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000000" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000064", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000064", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -35258,10 +34694,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000547", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0002242" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000547", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000547", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -35336,10 +34768,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000549", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000549", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -35362,10 +34790,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000550", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000550", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -35506,10 +34930,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000558", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000558", "pred" : "http://purl.obolibrary.org/obo/CL_4030046", @@ -35580,10 +35000,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000566", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0011026" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000566", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000566", "pred" : "http://purl.obolibrary.org/obo/RO_0002104", @@ -35778,10 +35194,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000837", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0008001" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000837", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000837", "pred" : "http://purl.obolibrary.org/obo/CL_4030046", @@ -36564,10 +35976,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_4033054", "pred" : "http://purl.obolibrary.org/obo/RO_0002220", "obj" : "http://purl.obolibrary.org/obo/UBERON_0002049" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0000003", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0008150" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0000226", "pred" : "is_a", @@ -36880,10 +36288,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0003097", "pred" : "http://purl.obolibrary.org/obo/BFO_0000066", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001008" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0005575", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005576", "pred" : "is_a", @@ -37000,8 +36404,8 @@ "obj" : "http://purl.obolibrary.org/obo/GO_0043232" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005840", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", + "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005840", "pred" : "http://purl.obolibrary.org/obo/RO_0002216", @@ -37038,10 +36442,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0005929", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0120025" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0005929", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005929", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -37338,10 +36738,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0008104", "pred" : "http://purl.obolibrary.org/obo/RO_0004009", "obj" : "http://purl.obolibrary.org/obo/PR_000000001" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0008150", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000015" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0008152", "pred" : "is_a", @@ -37593,7 +36989,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/GO_0019953", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0000003" + "obj" : "http://purl.obolibrary.org/obo/GO_0022414" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0021915", "pred" : "is_a", @@ -37638,10 +37034,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0022414", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0008150" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0022414", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/GO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0022600", "pred" : "is_a", @@ -37722,6 +37114,10 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0030097", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0048468" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0030097", + "pred" : "http://purl.obolibrary.org/obo/RO_0002160", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0030097", "pred" : "http://purl.obolibrary.org/obo/RO_0002296", @@ -37866,14 +37262,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0032502", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0008150" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0032504", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0000003" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0032504", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0032501" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0032838", "pred" : "is_a", @@ -37908,8 +37296,8 @@ "obj" : "http://purl.obolibrary.org/obo/GO_0005575" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0032991", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", + "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0032993", "pred" : "is_a", @@ -38054,10 +37442,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0042073", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_2759" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0042391", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0042391", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -38334,10 +37718,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0048609", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0022414" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0048609", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/GO_0032504" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0048646", "pred" : "is_a", @@ -38906,10 +38286,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0098644", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0099080" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0098644", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0098644", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -39274,10 +38650,6 @@ "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_9989", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_314147" - }, { - "sub" : "http://purl.obolibrary.org/obo/PATO_0000001", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000020" }, { "sub" : "http://purl.obolibrary.org/obo/PATO_0000051", "pred" : "is_a", @@ -39626,14 +38998,6 @@ "sub" : "http://purl.obolibrary.org/obo/PR_000050025", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/PR_000000001" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000050567", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" - }, { - "sub" : "http://purl.obolibrary.org/obo/PR_000050567", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", - "obj" : "http://purl.obolibrary.org/obo/PR_000000001" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000025", "pred" : "is_a", @@ -39750,10 +39114,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000057", "pred" : "http://purl.obolibrary.org/obo/uberon/core#channels_from", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001255" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000058", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000058", "pred" : "is_a", @@ -39818,10 +39178,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000064", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000062" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", "pred" : "is_a", @@ -39838,10 +39194,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000066", "pred" : "http://purl.obolibrary.org/obo/BFO_0000063", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000071" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", "pred" : "is_a", @@ -39858,10 +39210,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000068", "pred" : "http://purl.obolibrary.org/obo/RO_0002082", "obj" : "http://purl.obolibrary.org/obo/GO_0009790" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000071", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000071", "pred" : "is_a", @@ -40027,10 +39375,6 @@ "val" : "ISBN:9780878932504" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", "pred" : "is_a", @@ -40043,10 +39387,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000092", "pred" : "http://purl.obolibrary.org/obo/RO_0002082", "obj" : "http://purl.obolibrary.org/obo/GO_0009791" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", "pred" : "is_a", @@ -40067,10 +39407,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000105", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000104" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", "pred" : "is_a", @@ -40083,10 +39419,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000106", "pred" : "http://purl.obolibrary.org/obo/RO_0002223", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000104" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", "pred" : "is_a", @@ -40103,10 +39435,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000107", "pred" : "http://purl.obolibrary.org/obo/RO_0002087", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000106" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", "pred" : "is_a", @@ -40119,10 +39447,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000108", "pred" : "http://purl.obolibrary.org/obo/BFO_0000062", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000107" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", "pred" : "is_a", @@ -40149,10 +39473,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000109", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", "pred" : "is_a", @@ -40173,10 +39493,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000110", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000111", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000111", "pred" : "is_a", @@ -40323,10 +39639,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000174", "pred" : "http://purl.obolibrary.org/obo/RO_0002353", "obj" : "http://purl.obolibrary.org/obo/GO_0007588" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000178", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000178", "pred" : "is_a", @@ -40461,18 +39773,10 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000464", "pred" : "http://purl.obolibrary.org/obo/RO_0002219", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000465", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000465", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001062" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000466", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000141" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000466", "pred" : "is_a", @@ -40555,10 +39859,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000481", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000479" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000483", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000483", "pred" : "is_a", @@ -40860,7 +40160,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000990", "pred" : "http://purl.obolibrary.org/obo/RO_0002216", - "obj" : "http://purl.obolibrary.org/obo/GO_0000003" + "obj" : "http://purl.obolibrary.org/obo/GO_0022414" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000990", "pred" : "http://purl.obolibrary.org/obo/RO_0002492", @@ -41707,10 +41007,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0001851", "pred" : "http://purl.obolibrary.org/obo/RO_0002007", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000062" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0001969", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0001969", "pred" : "is_a", @@ -41769,10 +41065,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0001980", "pred" : "http://purl.obolibrary.org/obo/RO_0002433", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001637" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0001981", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0001981", "pred" : "is_a", @@ -42112,10 +41404,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0002224", "pred" : "http://purl.obolibrary.org/obo/RO_0002572", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000915" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0002303", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0002303", "pred" : "is_a", @@ -42917,7 +42205,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0003133", "pred" : "http://purl.obolibrary.org/obo/RO_0002216", - "obj" : "http://purl.obolibrary.org/obo/GO_0000003" + "obj" : "http://purl.obolibrary.org/obo/GO_0022414" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0003220", "pred" : "is_a", @@ -43480,10 +42768,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0004341", "pred" : "http://purl.obolibrary.org/obo/RO_0002387", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000926" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0004535", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0004535", "pred" : "is_a", @@ -43500,10 +42784,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0004535", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001981" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0004537", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0004537", "pred" : "is_a", @@ -43512,10 +42792,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0004537", "pred" : "http://purl.obolibrary.org/obo/RO_0002473", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001981" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0004572", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0004572", "pred" : "is_a", @@ -43530,10 +42806,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0004572", "pred" : "http://purl.obolibrary.org/obo/RO_0002351", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001637" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0004582", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0004582", "pred" : "is_a", @@ -44246,10 +43518,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0005764", "pred" : "http://purl.obolibrary.org/obo/RO_0002007", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0005769", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0005769", "pred" : "is_a", @@ -44597,10 +43865,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0006914", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/CL_0000076" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0006965", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0006965", "pred" : "is_a", @@ -45974,38 +45238,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0000052", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002314" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000079", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000080", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000052" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000081", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000085", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000086", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000087", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000091", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000053" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000092", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000052" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002000", "pred" : "subPropertyOf", @@ -46022,58 +45262,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002007", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000050" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002013", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002017" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002013", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002334" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002014", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002013" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002014", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002335" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002015", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002013" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002015", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002336" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002017", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002018" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002018", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002180" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002021", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002479" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002022", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002334" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002023", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002022" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002024", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002022" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002025", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002017" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002081", "pred" : "subPropertyOf", @@ -46446,34 +45638,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002315", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0040036" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002327", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002215" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002329", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002331", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000056" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002331", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002431" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002332", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002333", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000057" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002333", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002334", "pred" : "subPropertyOf", @@ -46626,30 +45798,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002404", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002427" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002087" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002404" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002407", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002213" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002407", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012012" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002409", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002212" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002409", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012012" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002411", "pred" : "subPropertyOf", @@ -46658,14 +45806,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002411", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002418" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002412", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002090" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002412", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002411" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002418", "pred" : "subPropertyOf", @@ -46682,14 +45822,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002428", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002431" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002429", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002428" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002430", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002428" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002431", "pred" : "subPropertyOf", @@ -46702,50 +45834,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002431", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002500" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002432", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002131" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002432", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002433", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002131" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002436", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002434" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002447", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002436" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002448", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002436" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002448", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0011002" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002449", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002448" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002450", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002448" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002473", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000051" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002481", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002564" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002485", "pred" : "subPropertyOf", @@ -46818,34 +45914,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002501", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002410" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002506", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002410" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002551", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000051" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002559", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002506" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002563", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002464" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002564", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002563" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002565", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0040036" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002566", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002506" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002567", "pred" : "subPropertyOf", @@ -46878,14 +45954,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002576", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/BFO_0000050" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002578", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002211" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002578", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002412" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002584", "pred" : "subPropertyOf", @@ -46942,22 +46010,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002608", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002410" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002629", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002213" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002629", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002630", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002212" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002630", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002578" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0004007", "pred" : "subPropertyOf", @@ -46978,34 +46030,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0004009", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0004007" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004031", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002328" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004032", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004033", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004034", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004034", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0004032" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004035", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0004035", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0004033" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0004046", "pred" : "subPropertyOf", @@ -47014,10 +46038,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0004047", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002418" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0011002", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002566" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0012000", "pred" : "subPropertyOf", @@ -47046,18 +46066,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0012008", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002592" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0012011", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002411" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0012012", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002211" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0012012", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0012011" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0013001", "pred" : "subPropertyOf", @@ -47082,18 +46090,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0015016", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002104" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0019000", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002410" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0019001", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0019000" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0019002", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0019000" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0040036", "pred" : "subPropertyOf", @@ -47162,22 +46158,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0000056", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000057" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000079", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000085" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0000080", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0000086" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000081", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000087" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0000091", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0000092" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0001000", "pred" : "inverseOf", @@ -47198,18 +46182,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002006", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002130" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002022", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002023", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002630" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002024", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002629" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002087", "pred" : "inverseOf", @@ -47290,10 +46262,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002297", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002354" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002327", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002333" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002350", "pred" : "inverseOf", @@ -47306,10 +46274,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002404", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002411" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002405", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002412" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002418", "pred" : "inverseOf", @@ -47326,10 +46290,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002551", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002576" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002559", - "pred" : "inverseOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002566" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0003000", "pred" : "inverseOf", @@ -48496,13 +47456,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002590", "fillerId" : "http://purl.obolibrary.org/obo/GO_0005575" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0022414", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0008150" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0000003" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0022600", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0003008" ], @@ -49175,13 +48128,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002160", "fillerId" : "http://purl.obolibrary.org/obo/NCBITaxon_2759" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/PR_000050567", - "genusIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000051", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000000001" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_0000025", "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0004111" ], @@ -49295,7 +48241,7 @@ "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000467" ], "restrictions" : [ { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002216", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0000003" + "fillerId" : "http://purl.obolibrary.org/obo/GO_0022414" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_0000991", @@ -49507,7 +48453,7 @@ "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000062" ], "restrictions" : [ { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002216", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0000003" + "fillerId" : "http://purl.obolibrary.org/obo/GO_0022414" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_0003220", @@ -50221,25 +49167,6 @@ } ] } ], "domainRangeAxioms" : [ { - "predicateId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "allValuesFromEdges" : [ { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000002", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000003", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000004", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { - "sub" : "http://purl.obolibrary.org/obo/BFO_0000020", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000020" - } ] - }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002162", "allValuesFromEdges" : [ { "sub" : "http://purl.obolibrary.org/obo/GO_0000278", @@ -50279,6 +49206,10 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0009888", "pred" : "http://purl.obolibrary.org/obo/RO_0002162", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_2759" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0030097", + "pred" : "http://purl.obolibrary.org/obo/RO_0002162", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6072" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0042073", "pred" : "http://purl.obolibrary.org/obo/RO_0002162", @@ -50324,50 +49255,9 @@ "pred" : "http://purl.obolibrary.org/obo/RO_0002162", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_33208" } ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/BFO_0000062", - 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"http://purl.obolibrary.org/obo/BFO_0000020" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002007", - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] + "predicateId" : "http://purl.obolibrary.org/obo/RO_0002206", + "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000465" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002315", "rangeClassIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000061" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002571", - "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] } ], "propertyChainAxioms" : [ { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002131", @@ -50680,24 +49431,9 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002226", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002207", "http://purl.obolibrary.org/obo/RO_0001025" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002211", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0002025" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019000", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0019000" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002213", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002212", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019002", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002212", "http://purl.obolibrary.org/obo/RO_0019001" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019001", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002213", "http://purl.obolibrary.org/obo/RO_0019001" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0019002", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002213", "http://purl.obolibrary.org/obo/RO_0019002" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002162", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002215", "http://purl.obolibrary.org/obo/RO_0002162" ] @@ -50758,87 +49494,12 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002314", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002314", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002331", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002327", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000051" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004031", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/BFO_0000051" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002327", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002017" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002428", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002211" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002448", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002211", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002430", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002429", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002213" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004034", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002304" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004035", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002305" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002263", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002566", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411", "http://purl.obolibrary.org/obo/RO_0002233" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002566", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002411", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002264", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002418" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002450", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002449", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002333" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004033", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0004046" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0004032", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002327", "http://purl.obolibrary.org/obo/RO_0004047" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002331", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002428", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002211" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002430", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002212" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002429", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002331", "http://purl.obolibrary.org/obo/RO_0002213" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002338", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002338", "http://purl.obolibrary.org/obo/BFO_0000050" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002339", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002339", "http://purl.obolibrary.org/obo/BFO_0000050" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002407", "http://purl.obolibrary.org/obo/RO_0002629" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002409", "http://purl.obolibrary.org/obo/RO_0002409" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002409", "http://purl.obolibrary.org/obo/RO_0002630" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002488", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002488", "http://purl.obolibrary.org/obo/BFO_0000050" ] @@ -50866,21 +49527,6 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/uberon/core#indirectly_supplies", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002569", "http://purl.obolibrary.org/obo/uberon/core#indirectly_supplies" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002211", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002578", "http://purl.obolibrary.org/obo/RO_0002578" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002407" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002407", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002629", "http://purl.obolibrary.org/obo/RO_0002629" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002409" ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/RO_0002409", - "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002630", "http://purl.obolibrary.org/obo/RO_0002630" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0013001", "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0013001", "http://purl.obolibrary.org/obo/BFO_0000050" ] diff --git a/subsets/kidney_upper_slim.obo b/subsets/kidney_upper_slim.obo index 39727a2fa..6bb9cf873 100644 --- a/subsets/kidney_upper_slim.obo +++ b/subsets/kidney_upper_slim.obo @@ -1,5 +1,5 @@ format-version: 1.2 -data-version: cl/releases/2024-04-05/subsets/kidney_upper_slim.owl +data-version: cl/releases/2024-05-15/subsets/kidney_upper_slim.owl subsetdef: abnormal_slim "" subsetdef: added_for_HCA "" subsetdef: attribute_slim "" @@ -19,19 +19,21 @@ subsetdef: eye_upper_slim "a subset of general classes related to specific cell subsetdef: functional_classification "" subsetdef: general_cell_types_upper_slim "a subset of general classes of cell types in the cell ontology." subsetdef: gocheck_do_not_annotate "" -subsetdef: gocheck_do_not_manually_annotate "" subsetdef: goslim_agr "" subsetdef: goslim_candida "" subsetdef: goslim_chembl "" subsetdef: goslim_drosophila "" +subsetdef: goslim_euk_cellular_processes_ribbon "" subsetdef: goslim_flybase_ribbon "" subsetdef: goslim_generic "" subsetdef: goslim_metagenomics "" subsetdef: goslim_mouse "" subsetdef: goslim_pir "" subsetdef: goslim_plant "" +subsetdef: goslim_plant_ribbon "" subsetdef: goslim_pombe "" subsetdef: goslim_prokaryote "" +subsetdef: goslim_prokaryote_ribbon "" subsetdef: goslim_synapse "" subsetdef: goslim_yeast "" subsetdef: grouping_class "" @@ -88,56 +90,7 @@ synonymtypedef: synonym "" synonymtypedef: SYSTEMATIC "" synonymtypedef: systematic_synonym "" ontology: cl/subsets/kidney_upper_slim -property_value: owl:versionInfo "2024-04-05" xsd:string - -[Term] -id: BFO:0000002 -name: continuant -def: "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." [] -disjoint_from: BFO:0000003 ! occurrent -relationship: part_of BFO:0000002 {all_only="true"} ! continuant - -[Term] -id: BFO:0000003 -name: occurrent -def: "An entity that has temporal parts and that happens, unfolds or develops through time." [] -relationship: part_of BFO:0000003 {all_only="true"} ! occurrent - -[Term] -id: BFO:0000004 -name: independent continuant -def: "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" [] -comment: A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. -is_a: BFO:0000002 ! continuant -disjoint_from: BFO:0000020 ! specifically dependent continuant -relationship: part_of BFO:0000004 {all_only="true"} ! independent continuant - -[Term] -id: BFO:0000015 -name: process -def: "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" [] -comment: An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. -is_a: BFO:0000003 ! occurrent - -[Term] -id: BFO:0000020 -name: specifically dependent continuant -def: "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" [] -comment: A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. -is_a: BFO:0000002 ! continuant -relationship: part_of BFO:0000020 {all_only="true"} ! specifically dependent continuant - -[Term] -id: BFO:0000040 -name: material entity -def: "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." [] -is_a: BFO:0000004 ! independent continuant -disjoint_from: BFO:0000141 ! immaterial entity - -[Term] -id: BFO:0000141 -name: immaterial entity -is_a: BFO:0000004 ! independent continuant +property_value: owl:versionInfo "2024-05-15" xsd:string [Term] id: CL:0000000 @@ -147,7 +100,7 @@ comment: The definition of cell is intended to represent all cells, and thus a c subset: cellxgene_subset subset: ubprop:upper_level xref: CALOHA:TS-2035 -xref: FBbt:00007002 +xref: FBbt:00007002 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:68646 xref: GO:0005623 xref: KUPO:0000002 @@ -155,6 +108,7 @@ xref: MESH:D002477 xref: VHOG:0001533 xref: WBbt:0004017 xref: XAO:0003012 +xref: ZFA:0009000 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: UBERON:0000061 ! anatomical structure disjoint_from: GO:0031012 ! extracellular matrix disjoint_from: GO:0032991 ! protein-containing complex @@ -165,6 +119,7 @@ relationship: RO:0002160 NCBITaxon:131567 ! only in taxon cellular organisms id: CL:0000007 name: early embryonic cell (metazoa) def: "A cell found in the embryo before the formation of all the gem layers is complete." [GOC:tfm] +xref: ZFA:0009002 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) [Term] @@ -178,6 +133,7 @@ subset: human_reference_atlas synonym: "animal stem cell" EXACT [] xref: CALOHA:TS-2086 xref: FMA:63368 +xref: ZFA:0005957 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0011115 ! precursor cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0017145 ! stem cell division @@ -202,6 +158,7 @@ xref: CALOHA:TS-0448 xref: FMA:86475 xref: MESH:D006412 xref: VHOG:0001485 +xref: ZFA:0009014 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000723 ! somatic stem cell is_a: CL:0008001 ! hematopoietic precursor cell is_a: CL:0011026 ! progenitor cell @@ -249,6 +206,7 @@ synonym: "CFU-E" RELATED OMO:0003000 [] synonym: "colony forming unit erythroid" RELATED [] synonym: "erythroid stem cell" RELATED [] xref: BTO:0004911 +xref: ZFA:0009015 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000764 ! erythroid lineage cell is_a: CL:0000839 {is_inferred="true"} ! myeloid lineage restricted progenitor cell relationship: RO:0002202 CL:0000050 ! develops from megakaryocyte-erythroid progenitor cell @@ -260,6 +218,7 @@ def: "A cell that is within the developmental lineage of gametes and is able to comment: Originally this term had some plant germ line cell children. subset: general_cell_types_upper_slim subset: ubprop:upper_level +xref: ZFA:0009016 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell relationship: capable_of GO:0022414 ! reproductive process @@ -272,6 +231,7 @@ synonym: "multifate stem cell" EXACT [] synonym: "multipotent cell" EXACT [] synonym: "multipotent stem cell" EXACT [] xref: FMA:84789 +xref: ZFA:0009020 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000034 ! stem cell intersection_of: CL:0000000 ! cell intersection_of: bearer_of PATO:0001402 ! multipotent @@ -294,6 +254,7 @@ synonym: "multipotential myeloid stem cell" RELATED [ISBN:0878932437] synonym: "myeloid stem cell" RELATED [ISBN:0878932437] synonym: "pluripotent stem cell (bone marrow)" RELATED [ISBN:0878932437] xref: BTO:0004730 +xref: ZFA:0009021 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell disjoint_from: CL:0000050 ! megakaryocyte-erythroid progenitor cell property_value: RO:0002175 NCBITaxon:9606 @@ -312,6 +273,7 @@ synonym: "Meg/E progenitor" EXACT [] synonym: "megakaryocyte/erythrocyte progenitor" EXACT [] synonym: "megakaryocyte/erythroid progenitor cell" EXACT [] synonym: "MEP" EXACT [] +xref: ZFA:0009022 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell is_a: CL:0011026 ! progenitor cell @@ -329,6 +291,7 @@ def: "A stem cell from which all cells of the body can form." [GOC:add, GOC:tfm] synonym: "totipotential stem cell" EXACT [] xref: FMA:84790 xref: MESH:D039901 +xref: ZFA:0009024 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000723 ! somatic stem cell [Term] @@ -348,9 +311,10 @@ name: myoblast def: "A cell that is commited to differentiating into a muscle cell. Embryonic myoblasts develop from the mesoderm. They undergo proliferation, migrate to their various sites, and then differentiate into the appropriate form of myocytes. Myoblasts also occur as transient populations of cells in muscles undergoing repair." [GOC:tfm, MESH:D032446, PMID:21849021] xref: BTO:0000222 xref: CALOHA:TS-0650 -xref: FBbt:00005083 +xref: FBbt:00005083 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:70335 xref: VHOG:0001529 +xref: ZFA:0009025 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000680 ! muscle precursor cell [Term] @@ -366,6 +330,7 @@ xref: CALOHA:TS-0362 xref: FMA:63877 xref: NCIT:C12482 xref: VHOG:0001482 +xref: ZFA:0009026 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002320 ! connective tissue cell relationship: RO:0002202 CL:0000134 ! develops from mesenchymal stem cell property_value: RO:0002175 NCBITaxon:9606 @@ -377,8 +342,8 @@ def: "A cell that has a filiform extrusion of the cell surface." [GOC:tfm] subset: cellxgene_subset xref: VHOG:0001532 xref: XAO:0000031 +xref: ZFA:0009032 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000000 ! cell intersection_of: has_part GO:0005929 ! cilium relationship: has_part GO:0005929 ! cilium @@ -394,9 +359,10 @@ synonym: "epitheliocyte" EXACT [] xref: BTO:0000414 xref: CALOHA:TS-2026 xref: CARO:0000077 -xref: FBbt:00000124 +xref: FBbt:00000124 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:66768 xref: WBbt:0003672 +xref: ZFA:0009034 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell relationship: part_of UBERON:0000483 ! epithelium property_value: http://xmlns.com/foaf/0.1/depiction "https://www.swissbiopics.org/api/image/Epithelial_cells.svg" xsd:anyURI @@ -408,6 +374,7 @@ name: ciliated epithelial cell def: "An epithelial cell that has a cilia." [GOC:tfm] subset: cellxgene_subset xref: FMA:70605 +xref: ZFA:0009035 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000064 ! ciliated cell is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell @@ -418,6 +385,7 @@ id: CL:0000068 name: duct epithelial cell def: "An epithelial cell that is part of a duct." [https://orcid.org/0000-0001-5208-3432] subset: cellxgene_subset +xref: ZFA:0009372 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0000058 ! duct @@ -430,6 +398,7 @@ def: "An endothelial cell that lines the vasculature." [GOC:tfm] subset: cellxgene_subset subset: human_reference_atlas synonym: "cuboidal endothelial cell of vascular tree" EXACT [] +xref: ZFA:0009036 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000076 {is_inferred="true"} ! squamous epithelial cell is_a: CL:0002139 ! endothelial cell of vascular tree intersection_of: CL:0000076 ! squamous epithelial cell @@ -450,6 +419,7 @@ name: columnar/cuboidal epithelial cell def: "A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube." [GO:0002065, https://orcid.org/0000-0001-5208-3432] subset: cellxgene_subset subset: human_reference_atlas +xref: ZFA:0009038 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell property_value: RO:0002175 NCBITaxon:9606 @@ -458,6 +428,7 @@ id: CL:0000076 name: squamous epithelial cell subset: cellxgene_subset xref: CALOHA:TS-1249 +xref: ZFA:0009039 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell [Term] @@ -468,6 +439,7 @@ subset: cellxgene_subset subset: general_cell_types_upper_slim xref: FMA:62844 xref: MESH:D001773 +xref: ZFA:0009044 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: capable_of GO:0008015 ! blood circulation @@ -484,6 +456,7 @@ synonym: "endotheliocyte" EXACT [] xref: BTO:0001176 xref: CALOHA:TS-0278 xref: FMA:66772 +xref: ZFA:0009065 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000213 ! lining cell is_a: CL:0002078 ! meso-epithelial cell property_value: RO:0002175 NCBITaxon:9606 @@ -493,6 +466,7 @@ id: CL:0000133 name: neurectodermal cell def: "Ectoderm destined to be nervous tissue." [GOC:tfm, ISBN:068340007X] synonym: "neurectoderm cell" EXACT [] +xref: ZFA:0009080 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000221 ! ectodermal cell [Term] @@ -516,6 +490,7 @@ synonym: "stem cells, mesenchymal" RELATED OMO:0003004 [MESH:D044982] xref: BTO:0002625 xref: BTO:0003298 xref: FMA:70546 +xref: ZFA:0009081 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000048 ! multi fate stem cell is_a: CL:0002320 {is_inferred="true"} ! connective tissue cell property_value: seeAlso "https://github.com/obophenotype/cell-ontology/issues/474" xsd:string @@ -535,6 +510,7 @@ relationship: capable_of GO:0032940 ! secretion by cell [Term] id: CL:0000154 name: protein secreting cell +def: "Any secretory cell that is capable of some protein secretion." [FBC:Autogenerated] is_a: CL:0000151 ! secretory cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0009306 ! protein secretion @@ -557,9 +533,10 @@ synonym: "myocyte" EXACT [] xref: BTO:0000888 xref: BTO:0000902 xref: CALOHA:TS-2032 -xref: FBbt:00005074 +xref: FBbt:00005074 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67328 xref: WBbt:0003675 +xref: ZFA:0009114 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000183 ! contractile cell is_a: CL:0000393 ! electrically responsive cell relationship: RO:0002202 CL:0000056 ! develops from myoblast @@ -579,6 +556,7 @@ synonym: "smooth muscle fiber" EXACT [] xref: BTO:0004576 xref: CALOHA:TS-2159 xref: FMA:14072 +xref: ZFA:0009118 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008000 ! non-striated muscle cell is_a: CL:0008007 ! visceral muscle cell relationship: RO:0002202 CL:0000514 ! develops from smooth muscle myoblast @@ -588,6 +566,7 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000211 name: electrically active cell def: "A cell whose function is determined by the generation or the reception of an electric signal." [FB:ma] +xref: ZFA:0009128 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -595,18 +574,21 @@ id: CL:0000213 name: lining cell def: "A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism." [JB:jb] synonym: "boundary cell" EXACT [] +xref: ZFA:0009130 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000215 ! barrier cell [Term] id: CL:0000215 name: barrier cell def: "A cell whose primary function is to prevent the transport of stuff across compartments." [JB:jb] +xref: ZFA:0009132 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] id: CL:0000219 name: motile cell def: "A cell that moves by its own activities." [FB:ma] +xref: ZFA:0009136 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0048870 ! cell motility @@ -618,6 +600,7 @@ name: ectodermal cell def: "A cell of the outer of the three germ layers of the embryo." [MESH:D004475] synonym: "ectoderm cell" EXACT [] xref: FMA:72549 +xref: ZFA:0009137 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000924 ! ectoderm @@ -629,6 +612,7 @@ subset: cellxgene_subset synonym: "mesoblast" EXACT [] synonym: "mesoderm cell" EXACT [] xref: FMA:72554 +xref: ZFA:0009138 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000926 ! mesoderm @@ -638,6 +622,7 @@ name: endodermal cell def: "A cell of the inner of the three germ layers of the embryo." [MESH:D004707] synonym: "endoderm cell" EXACT [] xref: FMA:72555 +xref: ZFA:0009139 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000925 ! endoderm @@ -671,12 +656,14 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000239 name: brush border epithelial cell +xref: ZFA:0009143 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000067 ! ciliated epithelial cell is_a: CL:0000075 ! columnar/cuboidal epithelial cell [Term] id: CL:0000255 name: eukaryotic cell +def: "Any cell that only exists in Eukaryota." [FBC:Autogenerated] subset: cellxgene_subset xref: MESH:D005057 is_a: CL:0000000 ! cell @@ -687,6 +674,8 @@ relationship: RO:0002160 NCBITaxon:2759 ! only in taxon Eukaryota [Term] id: CL:0000329 name: oxygen accumulating cell +def: "Any cell that is capable of some oxygen transport." [FBC:Autogenerated] +xref: ZFA:0009164 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0015671 ! oxygen transport @@ -697,6 +686,7 @@ id: CL:0000333 name: migratory neural crest cell def: "A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body." [doi:10.1016/j.stem.2015.02.017] xref: FMA:86667 +xref: ZFA:0007086 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000219 ! motile cell is_a: CL:0011012 ! neural crest cell is_a: CL:0011026 ! progenitor cell @@ -706,6 +696,7 @@ relationship: RO:0002202 CL:0007004 ! develops from premigratory neural crest ce id: CL:0000335 name: mesenchyme condensation cell def: "A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors." [GOC:tfm, PMID:5025404] +xref: ZFA:0009166 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008019 ! mesenchymal cell [Term] @@ -733,12 +724,14 @@ relationship: RO:0002160 NCBITaxon:33208 ! only in taxon Metazoa id: CL:0000393 name: electrically responsive cell def: "A cell whose function is determined by its response to an electric signal." [FB:ma] +xref: ZFA:0009190 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000211 ! electrically active cell [Term] id: CL:0000404 name: electrically signaling cell def: "A cell that initiates an electrical signal and passes that signal to another cell." [FB:ma] +xref: ZFA:0009193 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000211 ! electrically active cell [Term] @@ -749,6 +742,7 @@ subset: cellxgene_subset synonym: "myoblast, smooth muscle" EXACT [MESH:D032390] synonym: "satellite cell" RELATED [] xref: FMA:84798 +xref: ZFA:0009235 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000056 ! myoblast intersection_of: CL:0000056 ! myoblast intersection_of: RO:0002203 CL:0000192 ! develops into smooth muscle cell @@ -765,10 +759,11 @@ subset: human_reference_atlas synonym: "nerve cell" EXACT [] xref: BTO:0000938 xref: CALOHA:TS-0683 -xref: FBbt:00005106 +xref: FBbt:00005106 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:54527 xref: VHOG:0001483 xref: WBbt:0003679 +xref: ZFA:0009248 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000393 ! electrically responsive cell is_a: CL:0000404 ! electrically signaling cell is_a: CL:0002319 ! neural cell @@ -787,7 +782,6 @@ synonym: "rubriblast" EXACT [ISBN:0721601464] xref: FMA:83518 is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell is_a: CL:0002242 ! nucleate cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: bearer_of PATO:0002505 ! nucleated intersection_of: bearer_of PATO:0040072 ! high nuclear/cytoplasmic ratio @@ -831,8 +825,8 @@ synonym: "early erythroblast" EXACT [ISBN:0721601464] synonym: "early normoblast" EXACT [ISBN:0721601464] synonym: "prorubricyte" EXACT [ISBN:0721601464] xref: FMA:83505 +xref: ZFA:0005236 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000765 {is_inferred="true"} ! erythroblast -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000765 ! erythroblast intersection_of: has_part CL:0017503 ! basophilic cytoplasm intersection_of: has_part GO:0000792 ! heterochromatin @@ -852,8 +846,8 @@ synonym: "polychromatic normoblast" EXACT [ISBN:0721601464] synonym: "polychromatophilic normoblast" EXACT [ISBN:0721601464] synonym: "rubricyte" EXACT [ISBN:0721601464] xref: FMA:83506 +xref: ZFA:0005241 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000765 {is_inferred="true"} ! erythroblast -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000765 ! erythroblast intersection_of: has_part CL:0017504 ! polychromatophilic cytoplasm intersection_of: has_part GO:0000792 ! heterochromatin @@ -965,8 +959,8 @@ subset: cellxgene_subset xref: BTO:0001173 xref: CALOHA:TS-0864 xref: MESH:D012156 +xref: ZFA:0009252 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: capable_of GO:0071971 ! extracellular exosome assembly intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -1003,9 +997,9 @@ def: "A mesenchymal stem cell capable of developing into blood vessel endotheliu comment: These cells are reportedly CD31-positive, CD34-positive, CD144-positive, CD309-positive, and TAL1-positive. synonym: "angioblast" EXACT [] synonym: "chondroplast" EXACT [] +xref: ZFA:0009258 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000134 {is_inferred="true"} ! mesenchymal stem cell is_a: CL:0011026 ! progenitor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000134 ! mesenchymal stem cell intersection_of: RO:0002104 PR:000001444 ! has plasma membrane part cadherin-5 intersection_of: RO:0002104 PR:000002112 ! has plasma membrane part vascular endothelial growth factor receptor 2 @@ -1034,6 +1028,7 @@ def: "A cell whose primary function is to support other cell types." [FB:ma, GOC subset: cellxgene_subset synonym: "supportive cell" EXACT [] xref: BTO:0002315 +xref: ZFA:0009387 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -1045,6 +1040,7 @@ synonym: "JG cell" EXACT [] synonym: "juxtaglomerular cell" BROAD [] synonym: "renin secreting cell" EXACT [] xref: FMA:84138 +xref: ZFA:0005238 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000154 ! protein secreting cell is_a: CL:0000192 ! smooth muscle cell is_a: CL:1000618 ! juxtaglomerular complex cell @@ -1065,6 +1061,7 @@ xref: BTO:0000853 xref: CALOHA:TS-0617 xref: FMA:70972 xref: MESH:D050527 +xref: ZFA:0009283 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000669 ! pericyte relationship: RO:0002202 CL:0000134 ! develops from mesenchymal stem cell @@ -1073,6 +1070,7 @@ id: CL:0000666 name: fenestrated cell subset: cellxgene_subset synonym: "window cell" EXACT [] +xref: ZFA:0009286 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell [Term] @@ -1090,6 +1088,7 @@ synonym: "pericyte cell" EXACT [] synonym: "pericyte of Rouget" EXACT [] xref: BTO:0002441 xref: FMA:63174 +xref: ZFA:0009112 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000183 ! contractile cell is_a: CL:0000630 ! supporting cell is_a: CL:0002320 ! connective tissue cell @@ -1101,6 +1100,7 @@ id: CL:0000680 name: muscle precursor cell def: "A non-terminally differentiated cell that is capable of developing into a muscle cell." [GOC:add] subset: cellxgene_subset +xref: ZFA:0009291 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000055 ! non-terminally differentiated cell intersection_of: CL:0011115 ! precursor cell intersection_of: RO:0002203 CL:0000187 ! develops into muscle cell @@ -1113,6 +1113,7 @@ name: somatic stem cell def: "A stem cell that can give rise to cell types of the body other than those of the germ-line." [GO:0048103] xref: CALOHA:TS-2086 xref: MESH:D053687 +xref: ZFA:0009307 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000034 ! stem cell intersection_of: CL:0000034 ! stem cell intersection_of: capable_of GO:0048103 ! somatic stem cell division @@ -1126,6 +1127,7 @@ subset: cellxgene_subset xref: BTO:0001441 xref: CALOHA:TS-0647 xref: MESH:D022423 +xref: ZFA:0009324 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: RO:0002202 CL:0000049 ! develops from common myeloid progenitor @@ -1142,6 +1144,7 @@ synonym: "erythropoietic cell" EXACT [] xref: CALOHA:TS-0290 xref: FMA:62845 xref: FMA:83516 +xref: ZFA:0009325 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000763 ! myeloid cell property_value: RO:0002175 NCBITaxon:9606 @@ -1156,6 +1159,7 @@ xref: BTO:0001571 xref: CALOHA:TS-0289 xref: FMA:83504 xref: MESH:D004900 +xref: ZFA:0005237 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0000764 ! erythroid lineage cell @@ -1201,8 +1205,8 @@ synonym: "hemopoietic progenitor cell" EXACT [] synonym: "MPP" EXACT [] xref: BTO:0000725 xref: CALOHA:TS-0448 +xref: ZFA:0009354 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0008001 ! hematopoietic precursor cell -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000988 ! hematopoietic cell intersection_of: bearer_of PATO:0001402 ! multipotent intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule @@ -1249,6 +1253,7 @@ synonym: "myeloid progenitor cell" BROAD [] xref: BTO:0004730 xref: CALOHA:TS-2099 xref: FMA:70339 +xref: ZFA:0009356 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0002031 {is_inferred="true"} ! hematopoietic lineage restricted progenitor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0002031 ! hematopoietic lineage restricted progenitor cell @@ -1268,6 +1273,7 @@ xref: BTO:0000574 xref: CALOHA:TS-2017 xref: FMA:70366 xref: FMA:83598 +xref: ZFA:0005830 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell [Term] @@ -1303,6 +1309,7 @@ id: CL:0002077 name: ecto-epithelial cell def: "An epithelial cell derived from ectoderm." [FMA:69074, GOC:tfm] xref: FMA:69074 +xref: ZFA:0009385 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: RO:0002202 CL:0000221 ! develops from ectodermal cell @@ -1316,6 +1323,7 @@ name: meso-epithelial cell def: "Epithelial cell derived from mesoderm or mesenchyme." [FMA:69076, GOC:tfm] synonym: "epithelial mesenchymal cell" EXACT [] xref: FMA:69076 +xref: ZFA:0009388 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: RO:0002202 CL:0000222 ! develops from mesodermal cell @@ -1440,6 +1448,7 @@ subset: cellxgene_subset xref: CALOHA:TS-2096 xref: FMA:63875 xref: MESH:D003239 +xref: ZFA:0009392 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0002384 ! connective tissue @@ -1454,6 +1463,7 @@ def: "A cell of the embryo." [FMA:0618947256] xref: CALOHA:TS-0263 xref: FMA:82840 xref: WBbt:0007028 +xref: ZFA:0007089 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 creation_date: 2010-09-15T03:39:21Z @@ -1481,6 +1491,7 @@ name: kidney epithelial cell def: "An epithelial cell of the kidney." [GOC:tfm, KUPO:SJ] subset: cellxgene_subset xref: KUPO:0001019 +xref: ZFA:0009374 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000066 ! epithelial cell is_a: CL:1000497 {is_inferred="true"} ! kidney cell intersection_of: CL:0000066 ! epithelial cell @@ -1493,6 +1504,7 @@ id: CL:0002546 name: embryonic blood vessel endothelial progenitor cell def: "An endothelial progenitor cell that participates in angiogenesis during development." [GOC:tfm] comment: See CL:0002619. +xref: ZFA:0005773 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000222 ! mesodermal cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-1980-3228 creation_date: 2011-02-28T04:20:39Z @@ -1523,6 +1535,7 @@ id: CL:0005009 name: renal principal cell def: "A cuboidal epithelial cell of the kidney which regulates sodium and potassium balance. The activity of sodium and potassium channels on the apical membrane of the cell is regulated by aldosterone and vasopressin. In mammals this cell type is located in the renal collecting duct system." [CL:CVS] subset: cellxgene_subset +xref: ZFA:0005322 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000075 ! columnar/cuboidal epithelial cell is_a: CL:0002518 ! kidney epithelial cell @@ -1530,6 +1543,7 @@ is_a: CL:0002518 ! kidney epithelial cell id: CL:0007004 name: premigratory neural crest cell def: "Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells." [UBERONREF:0000002] +xref: ZFA:0007084 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0011012 ! neural crest cell relationship: part_of UBERON:0002342 ! neural crest relationship: RO:0002202 CL:0000133 ! develops from neurectodermal cell @@ -1553,7 +1567,7 @@ is_a: CL:0000988 ! hematopoietic cell id: CL:0008007 name: visceral muscle cell def: "A muscle cell that is part of some visceral muscle." [GOC:dos] -xref: FBbt:00005070 +xref: FBbt:00005070 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: CL:0000187 ! muscle cell intersection_of: CL:0000187 ! muscle cell intersection_of: part_of UBERON:8600004 ! visceral muscle tissue @@ -1578,6 +1592,7 @@ def: "Mural cells are pericytes and the vascular smooth muscle cells (vSMCs) of subset: added_for_HCA subset: cellxgene_subset subset: human_reference_atlas +xref: ZFA:0005944 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:4033054 ! perivascular cell property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-7073-9172 property_value: RO:0002175 NCBITaxon:9606 @@ -1719,6 +1734,7 @@ name: kidney cell def: "A cell that is part of a kidney." [] subset: cellxgene_subset xref: KUPO:0001010 +xref: ZFA:0009389 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:0000000 ! cell intersection_of: CL:0000000 ! cell intersection_of: part_of UBERON:0002113 ! kidney @@ -1731,6 +1747,7 @@ def: "A cell that is part of kidney interstitium." [] subset: cellxgene_subset subset: kidney_upper_slim xref: KUPO:0001013 +xref: ZFA:0009390 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:1000497 ! kidney cell is_a: CL:4030031 ! interstitial cell intersection_of: CL:1000497 ! kidney cell @@ -1742,6 +1759,7 @@ id: CL:1000504 name: kidney medulla cell def: "A cell that is part of a renal medulla." [PMID:22343825] xref: KUPO:0001017 +xref: ZFA:0009391 {mapping:justification="https://w3id.org/semapv/vocab/UnspecifiedMatching"} is_a: CL:1000497 ! kidney cell intersection_of: CL:1000497 ! kidney cell intersection_of: part_of UBERON:0000362 ! renal medulla @@ -1772,6 +1790,7 @@ relationship: part_of UBERON:0001231 ! nephron tubule [Term] id: CL:1000510 name: kidney glomerular epithelial cell +def: "Any kidney epithelial cell that is part of some glomerular epithelium." [FBC:Autogenerated] subset: cellxgene_subset xref: KUPO:0001023 is_a: CL:1000746 ! glomerular cell @@ -1794,6 +1813,7 @@ relationship: part_of UBERON:0005185 ! renal medulla collecting duct [Term] id: CL:1000550 name: kidney papillary duct principal epithelial cell +def: "Any kidney cell that is part of some papillary duct." [FBC:Autogenerated] subset: kidney_upper_slim xref: KUPO:0001064 is_a: CL:1001225 ! kidney collecting duct cell @@ -1804,6 +1824,7 @@ relationship: part_of UBERON:0005167 ! papillary duct [Term] id: CL:1000612 name: kidney corpuscule cell +def: "Any renal cortical epithelial cell that is part of some renal corpuscle." [FBC:Autogenerated] subset: kidney_upper_slim xref: KUPO:0001021 is_a: CL:0002584 {is_inferred="true"} ! renal cortical epithelial cell @@ -1815,6 +1836,7 @@ relationship: part_of UBERON:0001229 ! renal corpuscle [Term] id: CL:1000615 name: kidney cortex tubule cell +def: "Any kidney tubule cell that is part of some renal cortex tubule." [FBC:Autogenerated] subset: cellxgene_subset xref: KUPO:0001024 is_a: CL:0002584 ! renal cortical epithelial cell @@ -1827,6 +1849,7 @@ relationship: part_of UBERON:0006853 ! renal cortex tubule [Term] id: CL:1000618 name: juxtaglomerular complex cell +def: "Any kidney cortical cell that is part of some juxtaglomerular apparatus." [FBC:Autogenerated] subset: kidney_upper_slim synonym: "juxtaglomerulus cell" EXACT [GO:0072052] xref: KUPO:0001028 @@ -1851,6 +1874,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1000746 name: glomerular cell +def: "Any kidney corpuscule cell that is part of some renal glomerulus." [FBC:Autogenerated] xref: KUPO:0001036 is_a: CL:1000612 {is_inferred="true"} ! kidney corpuscule cell intersection_of: CL:1000612 ! kidney corpuscule cell @@ -1860,6 +1884,7 @@ relationship: part_of UBERON:0000074 ! renal glomerulus [Term] id: CL:1000768 name: kidney connecting tubule epithelial cell +def: "Any nephron tubule epithelial cell that is part of some renal connecting tubule." [FBC:Autogenerated] subset: cellxgene_subset subset: human_reference_atlas subset: kidney_upper_slim @@ -1874,6 +1899,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1000849 name: kidney distal convoluted tubule epithelial cell +def: "Any epithelial cell of distal tubule that is part of some distal convoluted tubule." [FBC:Autogenerated] subset: cellxgene_subset subset: human_reference_atlas subset: kidney_upper_slim @@ -1899,6 +1925,7 @@ relationship: participates_in GO:0008015 ! blood circulation [Term] id: CL:1000891 name: kidney arterial blood vessel cell +def: "Any kidney blood vessel cell that is part of some kidney arterial blood vessel." [FBC:Autogenerated] subset: kidney_upper_slim xref: KUPO:0001029 is_a: CL:1000854 {is_inferred="true"} ! kidney blood vessel cell @@ -1909,6 +1936,7 @@ relationship: part_of UBERON:0003644 ! kidney arterial blood vessel [Term] id: CL:1000892 name: kidney capillary endothelial cell +def: "Any kidney blood vessel cell that is part of some kidney capillary." [FBC:Autogenerated] subset: cellxgene_subset subset: kidney_upper_slim xref: KUPO:0001030 @@ -1921,6 +1949,7 @@ relationship: part_of UBERON:0003527 ! kidney capillary [Term] id: CL:1000893 name: kidney venous blood vessel cell +def: "Any kidney blood vessel cell that is part of some renal vein." [FBC:Autogenerated] subset: kidney_upper_slim xref: KUPO:0001031 is_a: CL:1000854 {is_inferred="true"} ! kidney blood vessel cell @@ -1931,6 +1960,7 @@ relationship: part_of UBERON:0001140 ! renal vein [Term] id: CL:1000909 name: kidney loop of Henle epithelial cell +def: "Any nephron tubule epithelial cell that is part of some loop of Henle." [FBC:Autogenerated] subset: cellxgene_subset xref: KUPO:0001047 is_a: CL:1000494 {is_inferred="true"} ! nephron tubule epithelial cell @@ -1941,6 +1971,7 @@ relationship: part_of UBERON:0001288 ! loop of Henle [Term] id: CL:1001016 name: kidney loop of Henle ascending limb epithelial cell +def: "Any kidney loop of Henle epithelial cell that is part of some ascending limb of loop of Henle." [FBC:Autogenerated] subset: cellxgene_subset subset: kidney_upper_slim xref: KUPO:0001048 @@ -1953,6 +1984,7 @@ relationship: part_of UBERON:0005164 ! ascending limb of loop of Henle [Term] id: CL:1001021 name: kidney loop of Henle descending limb epithelial cell +def: "Any kidney loop of Henle epithelial cell that is part of some descending limb of loop of Henle." [FBC:Autogenerated] subset: kidney_upper_slim xref: KUPO:0001053 is_a: CL:1000909 {is_inferred="true"} ! kidney loop of Henle epithelial cell @@ -2006,22 +2038,6 @@ relationship: adjacent_to UBERON:0002049 ! vasculature property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-6677-8489 property_value: http://purl.org/dc/terms/date "2023-08-22T13:40:28Z" xsd:dateTime -[Term] -id: GO:0000003 -name: reproduction -namespace: biological_process -alt_id: GO:0019952 -alt_id: GO:0050876 -def: "The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms." [GOC:go_curators, GOC:isa_complete, GOC:jl, ISBN:0198506732] -subset: goslim_agr -subset: goslim_chembl -subset: goslim_flybase_ribbon -subset: goslim_pir -subset: goslim_plant -synonym: "reproductive physiological process" EXACT [] -xref: Wikipedia:Reproduction -is_a: GO:0008150 ! biological_process - [Term] id: GO:0000226 name: microtubule cytoskeleton organization @@ -2450,7 +2466,6 @@ synonym: "cell or subcellular entity" EXACT [] synonym: "cellular component" EXACT [] synonym: "subcellular entity" RELATED [NIF_Subcellular:nlx_subcell_100315] xref: NIF_Subcellular:sao1337158144 -is_a: BFO:0000040 ! material entity disjoint_from: GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/17729" xsd:anyURI @@ -2463,13 +2478,16 @@ comment: Note that this term is intended to annotate gene products that are not subset: goslim_agr subset: goslim_candida subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "extracellular" EXACT [] xref: Wikipedia:Extracellular @@ -2529,7 +2547,6 @@ comment: Note that for multicellular organisms, the extracellular space refers t subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic -subset: goslim_prokaryote synonym: "intercellular space" RELATED [] xref: NIF_Subcellular:sao1425028079 is_a: GO:0110165 ! cellular anatomical entity @@ -2563,12 +2580,14 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "cell nucleus" EXACT [] synonym: "horsetail nucleus" NARROW [GOC:al, GOC:mah, GOC:vw, PMID:15030757] @@ -2594,6 +2613,7 @@ subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "chromatid" RELATED [] synonym: "interphase chromosome" NARROW [] @@ -2628,7 +2648,9 @@ subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast xref: Wikipedia:Cytoplasm is_a: GO:0110165 ! cellular anatomical entity @@ -2644,11 +2666,13 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "vacuolar carboxypeptidase Y" RELATED [] xref: Wikipedia:Vacuole @@ -2665,10 +2689,12 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_yeast synonym: "Golgi" BROAD [] synonym: "Golgi complex" EXACT [] @@ -2700,11 +2726,14 @@ alt_id: GO:0033279 def: "An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins." [ISBN:0198506732] subset: goslim_candida subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "free ribosome" NARROW [NIF_Subcellular:sao1139385046] synonym: "membrane bound ribosome" NARROW [NIF_Subcellular:sao1291545653] @@ -2712,8 +2741,8 @@ synonym: "ribosomal RNA" RELATED [] xref: NIF_Subcellular:sao1429207766 xref: Wikipedia:Ribosome is_a: GO:0043232 ! intracellular non-membrane-bounded organelle -is_a: PR:000050567 ! protein-containing material entity relationship: capable_of_part_of GO:0006412 ! translation +relationship: has_part PR:000000001 ! protein [Term] id: GO:0005856 @@ -2724,11 +2753,13 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote subset: goslim_yeast xref: Wikipedia:Cytoskeleton @@ -2759,11 +2790,14 @@ subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "bacterial inner membrane" NARROW [] synonym: "cell membrane" EXACT [] @@ -2812,7 +2846,6 @@ xref: NIF_Subcellular:sao787716553 xref: Wikipedia:Cilium is_a: GO:0043227 ! membrane-bounded organelle is_a: GO:0120025 ! plasma membrane bounded cell projection -is_a: PR:000050567 ! protein-containing material entity relationship: has_part GO:0030990 ! intraciliary transport particle relationship: RO:0002160 NCBITaxon:2759 ! only in taxon Eukaryota relationship: RO:0002162 NCBITaxon:2759 {all_only="true"} ! in taxon Eukaryota @@ -2853,10 +2886,12 @@ def: "The cellular metabolic process in which a protein is formed, using the seq subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "protein anabolism" EXACT [] synonym: "protein biosynthesis" EXACT [] synonym: "protein biosynthetic process" EXACT [] @@ -2928,7 +2963,9 @@ subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "single-organism transport" RELATED [] is_a: GO:0051234 ! establishment of localization property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20292" xsd:anyURI @@ -3023,6 +3060,8 @@ name: organelle organization namespace: biological_process alt_id: GO:1902589 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_candida subset: goslim_pir synonym: "organelle organisation" EXACT [] @@ -3033,6 +3072,7 @@ is_a: GO:0016043 ! cellular component organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0043226 ! organelle relationship: results_in_organization_of GO:0043226 ! organelle +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2013-12-19T15:25:51Z @@ -3082,13 +3122,14 @@ id: GO:0007049 name: cell cycle namespace: biological_process def: "The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division." [GOC:go_curators, GOC:mtg_cell_cycle] -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cell-division cycle" EXACT [] xref: Wikipedia:Cell_cycle is_a: GO:0009987 ! cellular process @@ -3128,14 +3169,11 @@ subset: goslim_candida subset: goslim_chembl subset: goslim_metagenomics subset: goslim_plant -synonym: "signal transduction by cis-phosphorylation" NARROW [] -synonym: "signal transduction by conformational transition" NARROW [] -synonym: "signal transduction by protein phosphorylation" NARROW [] -synonym: "signal transduction by trans-phosphorylation" NARROW [] +subset: goslim_plant_ribbon synonym: "signaling cascade" NARROW [] synonym: "signaling pathway" RELATED [] synonym: "signalling cascade" NARROW [] -synonym: "signalling pathway" RELATED [GOC:mah] +synonym: "signalling pathway" RELATED [] xref: Wikipedia:Signal_transduction is_a: GO:0009987 ! cellular process is_a: GO:0050794 ! regulation of cellular process @@ -3323,7 +3361,6 @@ synonym: "physiological process" EXACT [] synonym: "single organism process" RELATED [] synonym: "single-organism process" RELATED [] xref: Wikipedia:Biological_process -is_a: BFO:0000015 ! process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24968" xsd:anyURI created_by: jl creation_date: 2012-09-19T15:05:24Z @@ -3336,11 +3373,13 @@ alt_id: GO:0044236 alt_id: GO:0044710 def: "The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation." [GOC:go_curators, ISBN:0198547684] comment: Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant +subset: goslim_prokaryote_ribbon synonym: "metabolic process resulting in cell growth" NARROW [] synonym: "metabolism" EXACT [] synonym: "metabolism resulting in cell growth" NARROW [] @@ -3349,6 +3388,7 @@ synonym: "single-organism metabolic process" RELATED [] xref: Wikipedia:Metabolism is_a: GO:0008150 ! biological_process disjoint_from: GO:0051179 ! localization +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI created_by: jl creation_date: 2012-10-17T15:46:40Z @@ -3386,6 +3426,7 @@ def: "The chemical reactions and pathways resulting in the formation of substanc subset: goslim_chembl subset: goslim_metagenomics subset: goslim_plant +subset: goslim_plant_ribbon synonym: "anabolism" EXACT [] synonym: "biosynthesis" EXACT [] synonym: "formation" BROAD [] @@ -3403,6 +3444,8 @@ name: macromolecule biosynthetic process namespace: biological_process alt_id: GO:0043284 def: "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "biopolymer biosynthetic process" EXACT [GOC:mtg_chebi_dec09] synonym: "macromolecule anabolism" EXACT [] @@ -3414,6 +3457,7 @@ is_a: GO:0044249 ! cellular biosynthetic process is_a: GO:1901576 ! organic substance biosynthetic process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/15249" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25418" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0009306 @@ -3466,7 +3510,7 @@ name: embryo development namespace: biological_process alt_id: GO:0009795 def: "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant." [GOC:go_curators, GOC:isa_complete, GOC:mtg_sensu] -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_plant synonym: "embryogenesis" EXACT [] @@ -3574,9 +3618,11 @@ comment: Note that this term should be used to annotate gene products in the org subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon subset: goslim_prokaryote synonym: "caspase-independent apoptosis" RELATED [] synonym: "caspase-independent cell death" NARROW [] @@ -3677,10 +3723,12 @@ namespace: biological_process alt_id: GO:0044235 alt_id: GO:0071842 def: "A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:ai, GOC:jl, GOC:mah] +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cell organisation" EXACT [] synonym: "cell organization and biogenesis" RELATED [GOC:mah] synonym: "cellular component organisation at cellular level" EXACT [GOC:mah] @@ -3715,6 +3763,7 @@ def: "A cellular transport process in which transported substances are moved in subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pir subset: goslim_pombe @@ -3779,11 +3828,14 @@ alt_id: GO:0006411 alt_id: GO:0044267 alt_id: GO:0044268 def: "The chemical reactions and pathways involving a protein. Includes protein modification." [GOC:ma] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_plant +subset: goslim_plant_ribbon synonym: "cellular protein metabolic process" EXACT [] synonym: "cellular protein metabolism" EXACT [] synonym: "multicellular organismal protein metabolic process" NARROW [] @@ -3796,6 +3848,7 @@ intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output PR:000000001 ! protein relationship: has_primary_input_or_output PR:000000001 ! protein property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23112" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0019953 @@ -3804,7 +3857,7 @@ namespace: biological_process def: "A type of reproduction that combines the genetic material of two gametes (such as a sperm or egg cell or fungal spores). The gametes have an haploid genome (with a single set of chromosomes, the product of a meiotic division) and combines with one another to produce a zygote (diploid)." [Wikipedia:Sexual_reproduction] comment: Note that gametes may come from two organisms or from a single organism in the case of self-fertilizing hermaphrodites, e.g. C. elegans, or self-fertilization in plants. Note also that sexual reproduction may be seen as the regular alternation, in the life cycle of haplontic, diplontic and diplohaplontic organisms, of meiosis and fertilization which provides for the production offspring. In diplontic organisms there is a life cycle in which the products of meiosis behave directly as gametes, fusing to form a zygote from which the diploid, or sexually reproductive polyploid, adult organism will develop. In diplohaplontic organisms a haploid phase (gametophyte) exists in the life cycle between meiosis and fertilization (e.g. higher plants, many algae and Fungi); the products of meiosis are spores that develop as haploid individuals from which haploid gametes develop to form a diploid zygote; diplohaplontic organisms show an alternation of haploid and diploid generations. In haplontic organisms meiosis occurs in the zygote, giving rise to four haploid cells (e.g. many algae and protozoa), only the zygote is diploid and this may form a resistant spore, tiding organisms over hard times. xref: Wikipedia:Sexual_reproduction -is_a: GO:0000003 ! reproduction +is_a: GO:0022414 ! reproductive process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22929" xsd:anyURI [Term] @@ -3826,6 +3879,7 @@ name: cell cycle process namespace: biological_process def: "The cellular process that ensures successive accurate and complete genome replication and chromosome segregation." [GOC:isa_complete, GOC:mtg_cell_cycle] subset: gocheck_do_not_annotate +subset: goslim_euk_cellular_processes_ribbon is_a: GO:0009987 ! cellular process intersection_of: GO:0009987 ! cellular process intersection_of: part_of GO:0007049 ! cell cycle @@ -3845,6 +3899,8 @@ name: cellular component disassembly namespace: biological_process alt_id: GO:0071845 def: "A cellular process that results in the breakdown of a cellular component." [GOC:isa_complete] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "cell structure disassembly" EXACT [] synonym: "cellular component disassembly at cellular level" EXACT [] @@ -3853,6 +3909,7 @@ intersection_of: GO:0009987 ! cellular process intersection_of: results_in_disassembly_of GO:0005575 ! cellular_component disjoint_from: GO:0022607 ! cellular component assembly relationship: results_in_disassembly_of GO:0005575 ! cellular_component +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI [Term] id: GO:0022414 @@ -3860,12 +3917,18 @@ name: reproductive process namespace: biological_process alt_id: GO:0044702 def: "A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." [GOC:dph, GOC:isa_complete] +subset: gocheck_do_not_annotate +subset: goslim_agr +subset: goslim_chembl +subset: goslim_flybase_ribbon subset: goslim_generic +subset: goslim_pir +subset: goslim_plant +subset: goslim_plant_ribbon synonym: "single organism reproductive process" RELATED [] +xref: Wikipedia:Reproduction is_a: GO:0008150 ! biological_process -intersection_of: GO:0008150 ! biological_process -intersection_of: part_of GO:0000003 ! reproduction -relationship: part_of GO:0000003 ! reproduction +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27054" xsd:anyURI created_by: jl creation_date: 2012-09-19T15:56:06Z @@ -3887,6 +3950,7 @@ namespace: biological_process alt_id: GO:0071844 def: "The aggregation, arrangement and bonding together of a cellular component." [GOC:isa_complete] subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_pir synonym: "cell structure assembly" EXACT [] synonym: "cellular component assembly at cellular level" EXACT [] @@ -3930,11 +3994,13 @@ alt_id: GO:0044700 def: "The entirety of a process in which information is transmitted within a biological system. This process begins with an active signal and ends when a cellular response has been triggered." [GOC:mtg_signal, GOC:mtg_signaling_feb11, GOC:signaling] comment: Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change. subset: goslim_agr +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pombe subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "biological signaling" EXACT [] synonym: "signaling process" EXACT [] @@ -4011,6 +4077,8 @@ is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000988 ! hematopoietic cell relationship: results_in_development_of CL:0000988 ! hematopoietic cell +relationship: RO:0002160 NCBITaxon:6072 ! only in taxon Eumetazoa +relationship: RO:0002162 NCBITaxon:6072 {all_only="true"} ! in taxon Eumetazoa property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22178" xsd:anyURI [Term] @@ -4035,6 +4103,7 @@ subset: goslim_drosophila subset: goslim_generic subset: goslim_mouse subset: goslim_plant +subset: goslim_plant_ribbon xref: Wikipedia:Cellular_differentiation is_a: GO:0048869 ! cellular developmental process intersection_of: GO:0048869 ! cellular developmental process @@ -4146,6 +4215,7 @@ alt_id: GO:0005578 def: "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues." [GOC:BHF, GOC:mah, GOC:rph, NIF_Subcellular:nlx_subcell_20090513, PMID:21123617, PMID:28089324] subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote @@ -4258,6 +4328,7 @@ namespace: biological_process alt_id: GO:0044707 alt_id: GO:0050874 def: "Any biological process, occurring at the level of a multicellular organism, pertinent to its function." [GOC:curators, GOC:dph, GOC:isa_complete, GOC:tb] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate subset: goslim_pir synonym: "organismal physiological process" EXACT [] @@ -4267,6 +4338,7 @@ property_value: RO:0002161 NCBITaxon:2 property_value: RO:0002161 NCBITaxon:2157 property_value: RO:0002161 NCBITaxon:4896 property_value: RO:0002161 NCBITaxon:4932 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2012-09-19T16:07:47Z @@ -4285,15 +4357,6 @@ is_a: GO:0008150 ! biological_process created_by: jl creation_date: 2012-12-19T12:21:31Z -[Term] -id: GO:0032504 -name: multicellular organism reproduction -namespace: biological_process -def: "The biological process in which new individuals are produced by one or two multicellular organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." [GOC:isa_complete, GOC:jid] -subset: goslim_drosophila -is_a: GO:0000003 ! reproduction -is_a: GO:0032501 ! multicellular organismal process - [Term] id: GO:0032838 name: plasma membrane bounded cell projection cytoplasm @@ -4342,6 +4405,7 @@ def: "A stable assembly of two or more macromolecules, i.e. proteins, nucleic ac comment: A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole. subset: goslim_agr subset: goslim_chembl +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir @@ -4351,8 +4415,8 @@ synonym: "protein complex" NARROW [] synonym: "protein containing complex" EXACT [] synonym: "protein-protein complex" NARROW [] is_a: GO:0005575 ! cellular_component -is_a: PR:000050567 ! protein-containing material entity disjoint_from: GO:0110165 ! cellular anatomical entity +relationship: has_part PR:000000001 ! protein [Term] id: GO:0032993 @@ -4571,7 +4635,6 @@ id: GO:0042391 name: regulation of membrane potential namespace: biological_process def: "Any process that modulates the establishment or extent of a membrane potential, the electric potential existing across any membrane arising from charges in the membrane itself and from the charges present in the media on either side of the membrane." [GOC:jl, GOC:mtg_cardio, GOC:tb, ISBN:0198506732] -is_a: BFO:0000003 ! occurrent relationship: has_part GO:0034220 ! monoatomic ion transmembrane transport [Term] @@ -4599,10 +4662,12 @@ name: cell projection namespace: cellular_component def: "A prolongation or process extending from a cell, e.g. a flagellum or axon." [GOC:jl, http://www.cogsci.princeton.edu/~wn/] subset: goslim_agr +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "cell process" BROAD [] synonym: "cellular process" BROAD [] synonym: "cellular projection" EXACT [] @@ -4655,6 +4720,7 @@ subset: goslim_chembl subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon xref: NIF_Subcellular:sao1539965131 xref: Wikipedia:Organelle is_a: GO:0110165 ! cellular anatomical entity @@ -4817,7 +4883,10 @@ name: primary metabolic process namespace: biological_process def: "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism." [GOC:go_curators, http://www.metacyc.org] subset: gocheck_do_not_annotate +subset: goslim_euk_cellular_processes_ribbon subset: goslim_pir +subset: goslim_plant_ribbon +subset: goslim_prokaryote_ribbon synonym: "primary metabolism" EXACT [] is_a: GO:0008152 ! metabolic process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI @@ -4827,12 +4896,15 @@ id: GO:0044249 name: cellular biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:jl] +comment: This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. +subset: gocheck_do_not_annotate synonym: "cellular anabolism" EXACT [] synonym: "cellular biosynthesis" EXACT [] synonym: "cellular formation" EXACT [] synonym: "cellular synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0044237 ! cellular metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27052" xsd:anyURI [Term] id: GO:0044782 @@ -4871,6 +4943,7 @@ namespace: cellular_component def: "The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane." [GOC:aruk, ISBN:0198506732, PMID:24619342, PMID:29383328, PMID:31998110] subset: goslim_agr subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir @@ -5012,10 +5085,12 @@ id: GO:0048609 name: multicellular organismal reproductive process namespace: biological_process def: "The process, occurring above the cellular level, that is pertinent to the reproductive function of a multicellular organism. This includes the integrated processes at the level of tissues and organs." [GOC:dph, GOC:jid, GOC:tb] +subset: gocheck_do_not_annotate +subset: goslim_drosophila synonym: "organismal reproductive process" BROAD [] synonym: "reproductive process in a multicellular organism" EXACT [] is_a: GO:0022414 ! reproductive process -relationship: part_of GO:0032504 ! multicellular organism reproduction +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27054" xsd:anyURI [Term] id: GO:0048646 @@ -5072,6 +5147,7 @@ subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_generic subset: goslim_plant +subset: goslim_plant_ribbon synonym: "development of an anatomical structure" EXACT [] is_a: GO:0032502 ! developmental process intersection_of: GO:0032502 ! developmental process @@ -5094,12 +5170,14 @@ namespace: biological_process def: "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another." [GOC:dgh, GOC:dph, GOC:isa_complete, GOC:mlg] subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_prokaryote synonym: "cell locomotion" EXACT [] synonym: "cell movement" RELATED [] synonym: "movement of a cell" EXACT [] is_a: GO:0009987 ! cellular process +property_value: RO:0002161 NCBITaxon:4890 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19809" xsd:anyURI [Term] @@ -5205,12 +5283,13 @@ namespace: biological_process alt_id: GO:0051869 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism." [GOC:ai, GOC:bf] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_prokaryote +subset: goslim_prokaryote_ribbon synonym: "physiological response to stimulus" EXACT [] is_a: GO:0008150 ! biological_process @@ -5220,6 +5299,7 @@ name: localization namespace: biological_process alt_id: GO:1902578 def: "Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation." [GOC:ai, GOC:dos] +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "establishment and maintenance of cellular component location" NARROW [] synonym: "establishment and maintenance of localization" EXACT [] @@ -5230,6 +5310,7 @@ synonym: "localisation" EXACT [GOC:mah] synonym: "single organism localization" RELATED [GOC:TermGenie] synonym: "single-organism localization" RELATED [] is_a: GO:0008150 ! biological_process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27052" xsd:anyURI created_by: jl creation_date: 2013-12-18T13:51:04Z @@ -5315,6 +5396,8 @@ name: cellular localization namespace: biological_process alt_id: GO:1902580 def: "A cellular localization process whereby a substance or cellular entity, such as a protein complex or organelle, is transported to, and/or maintained in, a specific location within a cell including the localization of substances or cellular entities to the cell membrane." [GOC:tb, GOC:vw] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_pir synonym: "cellular localisation" EXACT [GOC:mah] synonym: "establishment and maintenance of cellular localization" EXACT [] @@ -5325,6 +5408,7 @@ synonym: "single organism cellular localization" EXACT [GOC:TermGenie] synonym: "single-organism cellular localization" RELATED [] is_a: GO:0009987 ! cellular process is_a: GO:0051179 ! localization +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: jl creation_date: 2013-12-18T14:04:32Z @@ -5388,7 +5472,7 @@ name: cellular response to stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus by a cell and ends with a change in state or activity or the cell." [GOC:bf, GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate is_a: GO:0009987 ! cellular process is_a: GO:0050896 ! response to stimulus @@ -5401,6 +5485,7 @@ def: "The process in which a solute is transported across a lipid bilayer, from comment: Transmembrane transport is the transport of a solute across a lipid bilayer. Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane and is not traversed. For transport through the nuclear pore, consider instead the term 'nucleocytoplasmic transport ; GO:0006913' and its children. Note also that this term is not intended for use in annotating lateral movement within membranes. subset: goslim_chembl subset: goslim_drosophila +subset: goslim_euk_cellular_processes_ribbon subset: goslim_generic subset: goslim_pombe subset: goslim_yeast @@ -5717,12 +5802,15 @@ name: cellular component organization or biogenesis namespace: biological_process alt_id: GO:0071841 def: "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:mah] +comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. +subset: gocheck_do_not_annotate subset: goslim_flybase_ribbon subset: goslim_metagenomics synonym: "cellular component organisation or biogenesis" EXACT [GOC:mah] synonym: "cellular component organisation or biogenesis at cellular level" EXACT [GOC:mah] synonym: "cellular component organization or biogenesis at cellular level" EXACT [] is_a: GO:0009987 ! cellular process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI created_by: mah creation_date: 2010-09-10T01:39:16Z @@ -5902,7 +5990,7 @@ name: plasma membrane region namespace: cellular_component def: "A membrane that is a (regional) part of the plasma membrane." [GOC:dos] comment: Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass. -subset: gocheck_do_not_manually_annotate +subset: gocheck_do_not_annotate synonym: "region of plasma membrane" EXACT [] is_a: GO:0016020 ! membrane intersection_of: GO:0016020 ! membrane @@ -5929,7 +6017,6 @@ def: "A complex of collagen trimers such as a fibril or collagen network." [GOC: synonym: "Supramolecular aggregate of collagen" EXACT [PMID:19693541] synonym: "Supramolecular collagen assembly" EXACT [PMID:21421911] is_a: GO:0099080 ! supramolecular complex -is_a: PR:000050567 ! protein-containing material entity relationship: has_part GO:0005581 ! collagen trimer relationship: part_of GO:0062023 ! collagen-containing extracellular matrix @@ -6192,6 +6279,7 @@ id: GO:1901576 name: organic substance biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon." [GOC:pr, GOC:TermGenie] +subset: gocheck_do_not_annotate synonym: "organic molecular entity anabolism" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthesis" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthetic process" EXACT [] @@ -6203,6 +6291,7 @@ synonym: "organic substance formation" EXACT [] synonym: "organic substance synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0071704 ! organic substance metabolic process +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI created_by: pr creation_date: 2012-11-05T11:04:40Z @@ -6563,7 +6652,6 @@ name: quality namespace: quality alt_id: PATO:0000072 def: "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities" [PATOC:GVG] -is_a: BFO:0000020 ! specifically dependent continuant [Term] id: PATO:0000051 @@ -7486,21 +7574,6 @@ comment: Category=family. synonym: "fam:angiotensinogenase" EXACT PRO-short-label [PRO:DAN] is_a: PR:000000001 ! protein -[Term] -id: PR:000050567 -name: protein-containing material entity -namespace: protein -def: "A material entity that minimally consists of a protein." [PRO:DAN] -comment: Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566). -synonym: "protein" NARROW [PRO:DAN] -synonym: "protein aggregate" NARROW [PRO:DAN] -synonym: "protein complex" NARROW [PRO:DAN] -synonym: "protein-containing complex" NARROW [PRO:DAN] -is_a: BFO:0000040 ! material entity -intersection_of: BFO:0000040 ! material entity -intersection_of: has_part PR:000000001 ! protein -relationship: has_part PR:000000001 ! protein - [Term] id: UBERON:0000000 name: processual entity @@ -7548,6 +7621,7 @@ xref: EFO:0000799 xref: EHDAA2:0003193 xref: EMAPA:37283 {source="MA:th"} xref: EV:0100155 +xref: FBbt:00007000 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: HAO:0000144 xref: MAT:0000023 xref: MESH:D005121 @@ -7668,6 +7742,7 @@ synonym: "ducts" RELATED OMO:0003004 [XAO:0004000] synonym: "exocrine duct" NARROW [] synonym: "exocrine gland duct" NARROW [] xref: AAO:0011123 +xref: FBbt:00100314 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:30320 xref: galen:Duct xref: NCIT:C12948 @@ -7677,7 +7752,6 @@ xref: UMLS:C0687028 {source="ncithesaurus:Duct"} xref: Wikipedia:Duct_(anatomy) xref: XAO:0004000 xref: ZFA:0005171 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000063 ! organ subunit relationship: has_part UBERON:0034969 ! epithelial layer of duct relationship: RO:0000086 PATO:0002299 ! has quality tubular @@ -7714,6 +7788,7 @@ xref: BILA:0000003 xref: CARO:0000003 xref: EHDAA2:0003003 xref: EMAPA:0 +xref: FBbt:00007001 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:305751 xref: FMA:67135 xref: GAID:781 @@ -7816,7 +7891,6 @@ xref: EFO:0001272 xref: FBdv:00005369 xref: WBls:0000041 xref: XtroDO:0000084 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000092 ! post-embryonic stage relationship: preceded_by UBERON:0000111 ! organogenesis stage @@ -7843,7 +7917,6 @@ xref: WBls:0000003 xref: WBls:0000092 xref: WBls:0000102 xref: XAO:1000012 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage disjoint_from: UBERON:0000092 ! post-embryonic stage relationship: precedes UBERON:0000066 ! fully formed stage @@ -7859,7 +7932,6 @@ subset: common_anatomy synonym: "death" RELATED [] xref: XAO:0000437 xref: XtroDO:0000085 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: RO:0002229 UBERON:0000104 ! ends life cycle property_value: RO:0002175 NCBITaxon:33090 @@ -8068,7 +8140,6 @@ xref: OGES:000024 xref: WBls:0000022 xref: WBls:0000093 xref: WBls:0000103 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: preceded_by UBERON:0000068 ! embryo stage relationship: RO:0002082 GO:0009791 ! simultaneous with post-embryonic development @@ -8090,7 +8161,6 @@ xref: HsapDv:0000001 xref: MmusDv:0000001 xref: ncithesaurus:Life xref: OGES:000011 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000000 ! processual entity relationship: ends_with UBERON:0000071 ! death stage relationship: has_part UBERON:0000105 ! life cycle stage @@ -8154,7 +8224,6 @@ xref: VHOG:0000745 xref: Wikipedia:Zygote xref: XAO:1000001 xref: ZFS:0000001 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: RO:0002223 UBERON:0000104 ! starts life cycle @@ -8178,7 +8247,6 @@ xref: PdumDv:0000200 xref: Wikipedia:Cleavage_(embryo) xref: XAO:1000004 xref: ZFS:0000046 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage intersection_of: UBERON:0000105 ! life cycle stage intersection_of: RO:0002082 GO:0040016 ! simultaneous with embryonic cleavage @@ -8204,7 +8272,6 @@ xref: WBls:0000005 xref: Wikipedia:Blastula xref: XAO:1000003 xref: ZFS:0000045 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000107 ! cleavage stage @@ -8234,7 +8301,6 @@ xref: OGES:000019 xref: WBls:0000010 xref: XAO:1000005 xref: ZFS:0000047 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000108 {source="BILS"} ! blastula stage @@ -8251,7 +8317,6 @@ xref: BILS:0000110 xref: HsapDv:0000012 xref: MmusDv:0000017 xref: XAO:1000006 -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000109 ! gastrula stage @@ -8273,7 +8338,6 @@ xref: MmusDv:0000018 xref: OGES:000005 xref: OGES:000032 xref: Wikipedia:Organogenesis -is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: RO:0002082 GO:0048513 ! simultaneous with animal organ development @@ -8427,6 +8491,7 @@ xref: EFO:0000825 xref: EHDAA2:0001326 xref: EHDAA:542 xref: EMAPA:16262 +xref: FBbt:00003126 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:49184 xref: GAID:75 xref: galen:Mouth @@ -8510,7 +8575,6 @@ xref: VHOG:0000224 xref: Wikipedia:Blood xref: XAO:0000124 xref: ZFA:0000007 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000179 ! haemolymphatic fluid relationship: has_part CL:0000232 {source="CL:tm"} ! erythrocyte relationship: has_part UBERON:0001969 ! blood plasma @@ -8684,6 +8748,7 @@ xref: CALOHA:TS-2101 xref: CARO:0000004 xref: EHDAA2:0003004 xref: EMAPA:35178 +xref: FBbt:00007019 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9669 xref: galen:BodySubstance xref: HAO:0000004 @@ -8718,6 +8783,7 @@ xref: AEO:0000005 xref: BILA:0000005 xref: CARO:0000005 xref: EHDAA2:0003005 +xref: FBbt:00007017 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:5897 xref: HAO:0000005 xref: NCIT:C94478 @@ -8745,12 +8811,12 @@ xref: AEO:0000006 xref: BILA:0000006 xref: CARO:0000006 xref: EHDAA2:0003006 +xref: FBbt:00007016 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67165 xref: HAO:0000006 xref: TAO:0001836 xref: TGMA:0001826 xref: VHOG:0001721 -is_a: BFO:0000040 ! material entity is_a: UBERON:0001062 ! anatomical entity disjoint_from: UBERON:0000466 ! immaterial anatomical entity property_value: RO:0002175 NCBITaxon:33090 @@ -8770,12 +8836,12 @@ xref: AEO:0000007 xref: BILA:0000007 xref: CARO:0000007 xref: EHDAA2:0003007 +xref: FBbt:00007015 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67112 xref: HAO:0000007 xref: TAO:0001835 xref: TGMA:0001827 xref: VHOG:0001727 -is_a: BFO:0000141 ! immaterial entity is_a: UBERON:0001062 ! anatomical entity property_value: RO:0002175 NCBITaxon:33090 property_value: RO:0002175 NCBITaxon:33208 @@ -8807,6 +8873,7 @@ xref: EHDAA2:0003011 xref: EHDAA:392 xref: EMAPA:16103 xref: EV:0100000 +xref: FBbt:00004856 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7149 xref: galen:AnatomicalSystem xref: HAO:0000011 @@ -8860,6 +8927,7 @@ xref: EHDAA2:0003191 xref: EHDAA:1 xref: EMAPA:25765 xref: EV:0100016 +xref: FBbt:00000001 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:256135 xref: galen:Organism xref: HAO:0000012 @@ -8923,6 +8991,7 @@ xref: CARO:0000032 xref: EFO:0000808 xref: EHDAA2:0003032 xref: EMAPA:36031 +xref: FBbt:00007009 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7153 xref: galen:BodyPart xref: HAO:0000032 @@ -8958,6 +9027,7 @@ xref: AEO:0000040 xref: BILA:0000040 xref: CARO:0000040 xref: EHDAA2:0003040 +xref: FBbt:00007013 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:63863 xref: HAO:0000040 xref: TAO:0000382 @@ -8977,6 +9047,7 @@ namespace: uberon def: "Anatomical group whose component anatomical structures lie in close proximity to each other." [FBbt:00007277] subset: common_anatomy subset: upper_level +xref: FBbt:00007277 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: VHOG:0001737 is_a: UBERON:0034923 ! disconnected anatomical group property_value: RO:0002175 NCBITaxon:33090 @@ -9003,6 +9074,7 @@ xref: CALOHA:TS-2090 xref: CARO:0000043 xref: EHDAA2:0003043 xref: EMAPA:35868 +xref: FBbt:00007003 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9637 xref: galen:Tissue xref: HAO:0000043 @@ -9037,6 +9109,7 @@ xref: AEO:0000055 xref: BILA:0000055 xref: CARO:0000055 xref: EHDAA2:0003055 +xref: FBbt:00007010 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: HAO:0000055 xref: TAO:0001488 xref: TGMA:0001847 @@ -9069,6 +9142,7 @@ xref: CALOHA:TS-0288 xref: CARO:0000066 xref: EHDAA2:0003066 xref: EMAPA:32738 +xref: FBbt:00007005 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:9639 xref: GAID:402 xref: HAO:0000066 @@ -9082,7 +9156,6 @@ xref: VHOG:0000387 xref: Wikipedia:Epithelium xref: XAO:0003045 xref: ZFA:0001486 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000479 ! tissue intersection_of: UBERON:0000479 ! tissue intersection_of: RO:0002473 CL:0000066 ! composed primarily of epithelial cell @@ -9109,6 +9182,7 @@ xref: AEO:0000068 xref: BILA:0000068 xref: CARO:0000068 xref: EHDAA2_RETIRED:0003068 +xref: FBbt:00007027 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45567 xref: HAO:0000068 xref: NCIT:C33552 @@ -9278,6 +9352,7 @@ xref: EHDAA2:0000002 xref: EHDAA2_RETIRED:0003236 xref: EHDAA:38 xref: EMAPA:16039 +xref: FBbt:00000052 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69068 xref: GAID:963 xref: http://neurolex.org/wiki/Category\:Embryonic_organism @@ -9318,6 +9393,7 @@ xref: AAO:0000480 xref: BILA:0000035 xref: BTO:0000556 xref: EMAPA:36033 +xref: FBbt:00000110 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69069 xref: GAID:1303 xref: MESH:D005855 @@ -9351,6 +9427,7 @@ xref: EFO:0000414 xref: EHDAA2:0000428 xref: EMAPA:16069 xref: EV:0100003 +xref: FBbt:00000111 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69070 xref: GAID:1304 xref: MAT:0000155 @@ -9388,6 +9465,7 @@ xref: EFO:0002545 xref: EHDAA2:0000436 xref: EMAPA:16062 xref: EV:0100005 +xref: FBbt:00000125 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69071 xref: GAID:1305 xref: MAT:0000175 @@ -9431,6 +9509,7 @@ xref: EHDAA:160 xref: EHDAA:183 xref: EMAPA:16083 xref: EV:0100006 +xref: FBbt:00000126 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69072 xref: GAID:522 xref: MAT:0000174 @@ -9470,6 +9549,7 @@ synonym: "stomodeal-hypophyseal primordium" BROAD [XAO:0000269] xref: BTO:0004224 xref: EHDAA2:0001929 xref: EMAPA:16263 +xref: FBbt:00000439 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:295846 xref: NCIT:C34306 xref: TAO:0001290 @@ -9499,6 +9579,7 @@ synonym: "proctodaeum" EXACT [] xref: AAO:0011087 xref: EHDAA2:0000121 xref: EMAPA:25038 +xref: FBbt:00000123 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: NCIT:C34278 xref: TAO:0000066 xref: UMLS:C0231054 {source="ncithesaurus:Proctodeum"} @@ -9673,6 +9754,7 @@ xref: EHDAA2:0001603 xref: EHDAA:5923 xref: EMAPA:17381 xref: EV:0100100 +xref: FBbt:00004857 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7160 xref: GAID:363 xref: HAO:0000374 @@ -9690,7 +9772,7 @@ xref: XAO:0000142 xref: ZFA:0000632 is_a: UBERON:0000467 ! anatomical system intersection_of: UBERON:0000467 ! anatomical system -intersection_of: capable_of_part_of GO:0000003 ! reproduction +intersection_of: capable_of_part_of GO:0022414 ! reproductive process disjoint_from: UBERON:0001007 ! digestive system disjoint_from: UBERON:0001009 ! circulatory system disjoint_from: UBERON:0001016 ! nervous system @@ -9698,7 +9780,7 @@ disjoint_from: UBERON:0001434 ! skeletal system disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:8450002 ! excretory system -relationship: capable_of_part_of GO:0000003 ! reproduction +relationship: capable_of_part_of GO:0022414 ! reproductive process relationship: has_part UBERON:0000991 ! gonad relationship: RO:0002492 UBERON:0000066 ! existence ends during fully formed stage property_value: http://purl.org/dc/terms/date "2022-06-10T18:22:34Z" xsd:dateTime @@ -9763,6 +9845,7 @@ xref: BILA:0000082 xref: BTO:0000058 xref: CALOHA:TS-1293 xref: EFO:0000793 +xref: FBbt:00005055 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7152 xref: GAID:278 xref: galen:DigestiveSystem @@ -9819,6 +9902,7 @@ xref: EHDAA2:0001601 xref: EHDAA:5901 xref: EMAPA:17366 xref: EV:0100095 +xref: FBbt:00005056 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7159 xref: GAID:391 xref: galen:UrinaryTract @@ -9932,6 +10016,7 @@ xref: EHDAA2:0001246 xref: EHDAA:826 xref: EMAPA:16469 xref: EV:0100162 +xref: FBbt:00005093 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:7157 xref: GAID:466 xref: MA:0000016 @@ -9991,6 +10076,7 @@ xref: EHDAA:828 xref: EMAPA:16470 xref: EMAPA:16754 xref: EV:0100163 +xref: FBbt:00005094 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:55675 xref: GAID:570 xref: MA:0000167 @@ -10029,6 +10115,7 @@ xref: BTO:0000507 xref: EHDAA2:0000557 xref: EHDAA:520 xref: EMAPA:16548 +xref: FBbt:00005379 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45616 xref: MA:0001526 xref: NCIT:C34180 @@ -10058,6 +10145,7 @@ xref: EFO:0001950 xref: EHDAA2:0001185 xref: EHDAA:983 xref: EMAPA:16255 +xref: FBbt:00005383 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45617 xref: MA:0001564 xref: NCIT:C34210 @@ -10087,6 +10175,7 @@ xref: BTO:0000510 xref: EHDAA2:0000779 xref: EHDAA:975 xref: EMAPA:16715 +xref: FBbt:00005384 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45618 xref: MA:0001527 xref: NCIT:C34188 @@ -10119,6 +10208,7 @@ xref: AEO:0000171 xref: BTO:0001886 xref: EFO:0001652 xref: EHDAA2:0003171 +xref: FBbt:00005495 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:86589 xref: MAT:0000482 xref: NCIT:C34275 @@ -10181,6 +10271,7 @@ xref: BILA:0000000 xref: BIRNLEX:6 xref: CARO:0000000 xref: EHDAA2:0002229 +xref: FBbt:10000000 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:62955 xref: HAO:0000000 xref: MA:0000001 @@ -10538,6 +10629,7 @@ synonym: "proctodeum" RELATED [] xref: BTO:0001680 xref: CALOHA:TS-2005 xref: EV:0100082 +xref: FBbt:00047153 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:15711 xref: GAID:312 xref: galen:Anus @@ -10956,6 +11048,7 @@ xref: BTO:0000545 xref: EHDAA2:0000726 xref: EHDAA:518 xref: EMAPA:16247 +xref: FBbt:00003125 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:45615 xref: galen:AlimentaryTract xref: MA:0000917 @@ -11151,7 +11244,6 @@ xref: MIAA:0000052 xref: NCIT:C13356 xref: UMLS:C0032105 {source="ncithesaurus:Plasma"} xref: Wikipedia:Blood_plasma -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000179 ! haemolymphatic fluid intersection_of: UBERON:0000463 ! organism substance intersection_of: has_part GO:0005577 ! fibrinogen complex @@ -11261,7 +11353,6 @@ xref: VHOG:0001250 xref: Wikipedia:Blood_vessel xref: XAO:0001011 xref: ZFA:0005314 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000055 ! vessel is_a: UBERON:0004120 ! mesoderm-derived structure relationship: capable_of_part_of GO:0008015 ! blood circulation @@ -11383,6 +11474,7 @@ xref: BILA:0000034 xref: BTO:0000174 xref: CALOHA:TS-2110 xref: EFO:0000461 +xref: FBbt:00004208 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:69067 xref: GAID:407 xref: MESH:D004628 @@ -11803,7 +11895,6 @@ xref: NCIT:C32891 xref: SCTID:362219002 xref: UMLS:C0022445 {source="ncithesaurus:Juxtaglomerular_Apparatus"} xref: Wikipedia:Juxtaglomerular_apparatus -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000061 ! anatomical structure relationship: capable_of GO:0003093 {source="GO"} ! regulation of glomerular filtration relationship: has_part CL:0000648 ! kidney granular cell @@ -11877,6 +11968,7 @@ synonym: "ventral body cavity" NARROW [NCBITaxon:7742] xref: AEO:0000186 xref: BTO:0001707 xref: EHDAA2:0000267 +xref: FBbt:00005060 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:85006 xref: galen:BodyCavity xref: NCIT:C25444 @@ -12061,6 +12153,7 @@ xref: EHDAA:1498 xref: EHDAA:255 xref: EMAPA:16073 xref: EV:0100004 +xref: FBbt:00001057 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:87657 xref: MAT:0000176 xref: MIAA:0000176 @@ -12680,8 +12773,8 @@ xref: WBbt:0008422 is_a: UBERON:0000062 ! organ is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0000062 ! organ -intersection_of: capable_of_part_of GO:0000003 ! reproduction -relationship: capable_of_part_of GO:0000003 ! reproduction +intersection_of: capable_of_part_of GO:0022414 ! reproductive process +relationship: capable_of_part_of GO:0022414 ! reproductive process [Term] id: UBERON:0003220 @@ -12921,6 +13014,7 @@ def: "Epithelial tubes transport gases, liquids and cells from one site to anoth synonym: "epithelial or endothelial tube" EXACT [] xref: AEO:0000114 xref: EHDAA2:0003114 +xref: FBbt:00007474 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000025 ! tube is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium @@ -13524,7 +13618,6 @@ xref: WikipediaCategory:Cardiovascular_system xref: XAO:0000100 xref: XAO:0001010 xref: ZFA:0000010 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0000467 ! anatomical system intersection_of: UBERON:0000467 ! anatomical system intersection_of: has_part UBERON:0000948 ! heart @@ -13548,7 +13641,6 @@ synonym: "blood vessels" RELATED [TAO:0001079] synonym: "set of blood vessels" EXACT [] xref: TAO:0001079 xref: ZFA:0001079 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: RO:0002473 UBERON:0001981 ! composed primarily of blood vessel @@ -13572,7 +13664,6 @@ xref: EMAPA:16371 xref: MA:0002719 xref: SCTID:362030008 xref: VHOG:0000273 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0007798 {source="MA"} ! vascular system relationship: RO:0002351 UBERON:0001637 ! has member artery property_value: RO:0002175 NCBITaxon:9606 @@ -13593,7 +13684,6 @@ xref: NCIT:C33858 xref: SCTID:362060003 xref: UMLS:C1267406 {source="ncithesaurus:Venous_System"} xref: VHOG:0000277 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0007798 {source="MA"} ! vascular system relationship: RO:0002473 UBERON:0001638 ! composed primarily of vein property_value: RO:0002175 NCBITaxon:9606 @@ -13720,6 +13810,7 @@ synonym: "trilaminar disk" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar germ" RELATED [https://orcid.org/0000-0002-6601-2165] xref: BILA:0000060 xref: BTO:0001403 +xref: FBbt:00005317 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:293108 xref: GAID:1302 xref: MESH:D005775 @@ -13936,6 +14027,7 @@ namespace: uberon def: "Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "joint" NARROW [] +xref: FBbt:00005811 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0034921 ! multi organ part structure relationship: part_of UBERON:0004770 ! articular system @@ -13951,6 +14043,7 @@ synonym: "gut section" RELATED [FBbt:00100315] synonym: "intestinal tract" RELATED [] synonym: "segment of intestinal tract" RELATED [] synonym: "subdivision of alimentary system" RELATED [FMA:71131] +xref: FBbt:00100315 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:71131 is_a: UBERON:0013522 ! subdivision of tube intersection_of: UBERON:0013522 ! subdivision of tube @@ -14386,6 +14479,7 @@ synonym: "developmental tissue" RELATED [MIAA:0000019] xref: AEO:0000125 xref: CALOHA:TS-2122 xref: EHDAA2:0003125 +xref: FBbt:00007006 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:292313 xref: MIAA:0000019 is_a: UBERON:0000465 ! material anatomical entity @@ -14532,7 +14626,6 @@ xref: NCIT:C13191 xref: SCTID:68989006 xref: UMLS:C0004799 {source="ncithesaurus:Basement_Membrane"} xref: Wikipedia:Basement_membrane -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0005764 {source="FMA"} ! acellular membrane relationship: adjacent_to CL:0000066 ! epithelial cell relationship: has_part GO:0005587 ! collagen type IV trimer @@ -14886,6 +14979,7 @@ def: "The distalmost portion of the digestive tract, derived from the hindgut, a synonym: "rectal part of digestive tract" RELATED [] synonym: "rectum" NARROW [FBbt:00005756] synonym: "terminal section of digestive tract" RELATED [] +xref: FBbt:00005756 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: WBbt:0005773 is_a: UBERON:0004921 ! subdivision of digestive tract relationship: RO:0002150 UBERON:0001245 ! continuous with anus @@ -14929,7 +15023,6 @@ subset: efo_slim xref: EFO:0003709 xref: TAO:0005077 xref: ZFA:0005077 -is_a: PR:000050567 ! protein-containing material entity is_a: UBERON:0005423 ! developing anatomical structure relationship: has_part CL:0000115 ! endothelial cell relationship: has_part CL:0000566 ! angioblastic mesenchymal cell @@ -15218,6 +15311,7 @@ synonym: "organ field" RELATED [] xref: AEO:0000170 xref: EFO:0001649 xref: EHDAA2:0003170 +xref: FBbt:00005426 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: Wikipedia:Anlage_(biology) is_a: UBERON:0000479 {source="FBbt"} ! tissue is_a: UBERON:0005423 {source="AEO", source="FBbt"} ! developing anatomical structure @@ -15500,6 +15594,7 @@ subset: common_anatomy subset: upper_level synonym: "multicellular structure" EXACT [FBbt:00100313] xref: CARO:0010000 +xref: FBbt:00100313 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: RO:0000086 PATO:0001993 ! has quality multicellular @@ -15741,6 +15836,7 @@ def: "A subdivision of an anatomical system." [http://orcid.org/0000-0002-6601-2 subset: common_anatomy subset: human_reference_atlas subset: upper_level +xref: FBbt:00007330 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} xref: FMA:67509 xref: SCTID:91690000 is_a: UBERON:0010000 {source="FBbt"} ! multicellular anatomical structure @@ -16133,6 +16229,7 @@ namespace: uberon def: "Material anatomical entity consisting of multiple anatomical structures that are not connected to each other." [CARO:0020000] subset: common_anatomy xref: CARO:0020000 +xref: FBbt:00007276 {mapping:justification="https://w3id.org/semapv/vocab/ManualMappingCuration"} is_a: UBERON:0000465 {source="CARO"} ! material anatomical entity relationship: has_component UBERON:0000061 {minCardinality="2"} ! anatomical structure relationship: RO:0000086 PATO:0010001 ! has quality disconnected @@ -16317,15 +16414,6 @@ is_functional: true is_a: RO:0002314 ! characteristic of part of inverse_of: bearer_of ! bearer of -[Typedef] -id: RO:0000079 -name: function of -def: "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -property_value: IAO:0000116 "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." xsd:string -is_a: RO:0000052 ! characteristic of -inverse_of: RO:0000085 ! has function - [Typedef] id: RO:0000080 name: quality of @@ -16335,23 +16423,6 @@ property_value: IAO:0000116 "A quality inheres in its bearer at all times for wh is_a: RO:0000052 ! characteristic of inverse_of: RO:0000086 ! has quality -[Typedef] -id: RO:0000081 -name: role of -def: "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -property_value: IAO:0000116 "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." xsd:string -is_a: RO:0000052 ! characteristic of -inverse_of: RO:0000087 ! has role - -[Typedef] -id: RO:0000085 -name: has function -def: "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" [] -property_value: IAO:0000116 "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." xsd:string -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of - [Typedef] id: RO:0000086 name: has quality @@ -16359,30 +16430,6 @@ def: "a relation between an independent continuant (the bearer) and a quality, i property_value: IAO:0000116 "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." xsd:string is_a: bearer_of ! bearer of -[Typedef] -id: RO:0000087 -name: has role -def: "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" [] -property_value: IAO:0000116 "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." xsd:string -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of - -[Typedef] -id: RO:0000091 -name: has disposition -def: "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" [] -domain: BFO:0000004 ! independent continuant -is_a: bearer_of ! bearer of -inverse_of: RO:0000092 ! disposition of - -[Typedef] -id: RO:0000092 -name: disposition of -def: "inverse of has disposition" [] -comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. -subset: RO:0002259 -is_a: RO:0000052 ! characteristic of - [Typedef] id: RO:0001000 name: derives from @@ -16414,8 +16461,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: IAO:0000116 "Location as a relation between instances: The primitive instance-level relation c located_in r at t reflects the fact that each continuant is at any given time associated with exactly one spatial region, namely its exact location. Following we can use this relation to define a further instance-level location relation - not between a continuant and the region which it exactly occupies, but rather between one continuant and another. c is located in c1, in this sense, whenever the spatial region occupied by c is part_of the spatial region occupied by c1. Note that this relation comprehends both the relation of exact location between one continuant and another which obtains when r and r1 are identical (for example, when a portion of fluid exactly fills a cavity), as well as those sorts of inexact location relations which obtain, for example, between brain and head or between ovum and uterus" xsd:string property_value: IAO:0000116 "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" xsd:string property_value: seeAlso "https://wiki.geneontology.org/Located_in" xsd:anyURI -domain: BFO:0000004 {IAO:0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant -range: BFO:0000004 {IAO:0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant is_transitive: true transitive_over: part_of ! part of @@ -16434,8 +16479,6 @@ name: has 2D boundary def: "a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity" [] property_value: IAO:0000116 "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." xsd:string property_value: IAO:0000116 "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." xsd:string -domain: BFO:0000040 ! material entity -range: BFO:0000141 ! immaterial entity is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -16450,34 +16493,6 @@ name: has synaptic terminal of is_a: overlaps ! overlaps inverse_of: RO:0002130 ! has synaptic terminal in -[Typedef] -id: RO:0002015 -name: has positive regulatory component activity -def: "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." [] -comment: By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'. -is_a: has_regulatory_component_activity ! has regulatory component activity -is_a: positively_regulated_by ! positively regulated by -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:31:17Z - -[Typedef] -id: RO:0002017 -name: has component activity -comment: A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B. -is_a: RO:0002018 ! has component process -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:44:33Z - -[Typedef] -id: RO:0002018 -name: has component process -def: "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." [] -domain: BFO:0000015 ! process -range: BFO:0000015 ! process -is_a: has_component ! has component -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:49:21Z - [Typedef] id: RO:0002021 name: occurs across @@ -16486,43 +16501,6 @@ is_a: RO:0002479 ! has part that occurs in created_by: https://orcid.org/0000-0002-7073-9172 creation_date: 2017-07-20T17:19:37Z -[Typedef] -id: RO:0002022 -name: directly regulated by -comment: Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. {xref="https://orcid.org/0000-0002-7073-9172"} -is_a: regulated_by ! regulated by -inverse_of: directly_regulates ! directly regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:24Z - -[Typedef] -id: RO:0002023 -name: directly negatively regulated by -def: "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1." [https://orcid.org/0000-0002-7073-9172] -is_a: RO:0002022 ! directly regulated by -inverse_of: directly_negatively_regulates ! directly negatively regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:38Z - -[Typedef] -id: RO:0002024 -name: directly positively regulated by -def: "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1." [https://orcid.org/0000-0002-7073-9172] -is_a: RO:0002022 ! directly regulated by -inverse_of: directly_positively_regulates ! directly positively regulates -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-17T13:52:47Z - -[Typedef] -id: RO:0002025 -name: has effector activity -def: "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity." [https://orcid.org/0000-0002-7073-9172] -comment: This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations. -is_functional: true -is_a: RO:0002017 ! has component activity -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-09-22T14:14:36Z - [Typedef] id: RO:0002081 name: before or simultaneous with @@ -16646,8 +16624,6 @@ id: RO:0002150 name: continuous with def: "X continuous_with Y if and only if X and Y share a fiat boundary." [] property_value: seeAlso "FMA:85972" xsd:string -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_symmetric: true is_a: RO:0002323 ! mereotopologically related to @@ -16710,7 +16686,6 @@ name: connects def: "c connects a if and only if there exist some b such that a and b are similar parts of the same system, and c connects b, specifically, c connects a with b. When one structure connects two others it unites some aspect of the function or role they play within the system." [] property_value: seeAlso "https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern" xsd:anyURI property_value: seeAlso "https://github.com/obophenotype/uberon/wiki/Modeling-articulations-Design-Pattern" xsd:anyURI -domain: BFO:0000004 ! independent continuant is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -16741,8 +16716,6 @@ id: RO:0002202 name: develops from def: "x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y" [] comment: This is the transitive form of the develops from relation -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_transitive: true is_a: RO:0002254 ! has developmental contribution from is_a: RO:0002258 ! developmentally preceded by @@ -16762,7 +16735,6 @@ is_a: RO:0002388 ! has potential to directly develop into id: RO:0002206 name: expressed in def: "x expressed in y if and only if there is a gene expression process (GO:0010467) that occurs in y, and one of the following holds: (i) x is a gene, and x is transcribed into a transcript as part of the gene expression process (ii) x is a transcript, and the transcription of x is part of the gene expression process (iii) x is a mature gene product such as a protein, and x was translated or otherwise processes from a transcript that was transcribed as part of this gene expression process" [] -domain: BFO:0000002 ! continuant range: UBERON:0000465 ! material anatomical entity is_a: RO:0002330 ! genomically related to inverse_of: RO:0002292 ! expresses @@ -16803,8 +16775,6 @@ id: RO:0002222 name: temporally related to comment: A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. subset: ro-eco -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent [Typedef] id: RO:0002223 @@ -16896,8 +16866,6 @@ name: developmentally preceded by def: "Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p" [] comment: This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from property_value: IAO:0000116 "false" xsd:boolean -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant is_a: RO:0002324 ! developmentally related to inverse_of: RO:0002286 ! developmentally succeeded by @@ -16907,7 +16875,6 @@ name: acts upstream of def: "c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes." [] subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of -holds_over_chain: RO:0002327 causally_upstream_of is_a: RO:0002264 ! acts upstream of or within [Typedef] @@ -16917,7 +16884,6 @@ def: "c acts upstream of or within p if c is enables f, and f is causally upstre subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term synonym: "affects" RELATED [] property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of_or_within is_a: RO:0002500 ! causal agent in process [Typedef] @@ -16969,17 +16935,6 @@ id: RO:0002324 name: developmentally related to def: "A relationship that holds between entities participating in some developmental process (GO:0032502)" [] -[Typedef] -id: RO:0002327 -name: enables -def: "c enables p iff c is capable of p and c acts to execute p." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Enables" xsd:anyURI -is_a: capable_of ! capable of -inverse_of: RO:0002333 ! enabled by -transitive_over: has_part ! has part -transitive_over: RO:0002017 ! has component activity - [Typedef] id: RO:0002328 name: functionally related to @@ -16995,34 +16950,11 @@ is_a: RO:0002328 ! functionally related to id: RO:0002330 name: genomically related to def: "holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts." [] -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant - -[Typedef] -id: RO:0002331 -name: involved in -def: "c involved_in p if and only if c enables some process p', and p' is part of p" [] -property_value: seeAlso "https://wiki.geneontology.org/Involved_in" xsd:anyURI -holds_over_chain: RO:0002327 part_of -is_a: participates_in ! participates in -is_a: RO:0002431 ! involved in or involved in regulation of -transitive_over: part_of ! part of - -[Typedef] -id: RO:0002333 -name: enabled by -def: "inverse of enables" [] -subset: http://purl.obolibrary.org/obo/valid_for_gocam -property_value: seeAlso "https://wiki.geneontology.org/Enabled_by" xsd:anyURI -is_a: has_participant ! has participant -is_a: RO:0002328 ! functionally related to [Typedef] id: RO:0002337 name: related via localization to def: "A relationship that holds via some process of localization" [] -domain: BFO:0000015 ! process -range: BFO:0000002 ! continuant [Typedef] id: RO:0002350 @@ -17089,8 +17021,6 @@ name: in branching relationship with def: "A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network." [] property_value: seeAlso http://purl.obolibrary.org/obo/ro/docs/branching_part_of.png property_value: seeAlso "https://github.com/obophenotype/uberon/issues/170" xsd:anyURI -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: RO:0002323 ! mereotopologically related to [Typedef] @@ -17152,31 +17082,6 @@ name: has potential to directly develop into def: "x has potential to directly develop into y iff x directly develops into y or x is capable of directly developing into y" [] is_a: RO:0002387 ! has potential to develop into -[Typedef] -id: RO:0002407 -name: indirectly positively regulates -def: "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." [] -property_value: seeAlso "https://wiki.geneontology.org/Indirectly_positively_regulates" xsd:anyURI -holds_over_chain: directly_positively_regulates directly_positively_regulates -holds_over_chain: directly_positively_regulates RO:0002407 -holds_over_chain: RO:0002409 RO:0002409 -is_transitive: true -is_a: positively_regulates ! positively regulates -is_a: RO:0012012 ! indirectly regulates -transitive_over: directly_positively_regulates ! directly positively regulates - -[Typedef] -id: RO:0002409 -name: indirectly negatively regulates -def: "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." [] -property_value: seeAlso "https://wiki.geneontology.org/Indirectly_negatively_regulates" xsd:anyURI -holds_over_chain: directly_negatively_regulates directly_negatively_regulates -holds_over_chain: directly_negatively_regulates RO:0002409 -is_transitive: true -is_a: negatively_regulates ! negatively regulates -is_a: RO:0012012 ! indirectly regulates -transitive_over: directly_negatively_regulates ! directly negatively regulates - [Typedef] id: RO:0002410 name: causally related to @@ -17187,28 +17092,9 @@ property_value: IAO:0000116 "This branch of the ontology deals with causal relat id: RO:0002428 name: involved in regulation of def: "c involved in regulation of p if c is involved in some p' and p' regulates some p" [] -holds_over_chain: RO:0002327 regulates -holds_over_chain: RO:0002331 regulates is_a: RO:0002263 ! acts upstream of is_a: RO:0002431 ! involved in or involved in regulation of -[Typedef] -id: RO:0002429 -name: involved in positive regulation of -def: "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" [] -holds_over_chain: RO:0002327 positively_regulates -holds_over_chain: RO:0002331 positively_regulates -is_a: RO:0002428 ! involved in regulation of - -[Typedef] -id: RO:0002430 -name: involved in negative regulation of -def: "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" [] -property_value: RO:0004050 RO:0002428 -holds_over_chain: RO:0002327 negatively_regulates -holds_over_chain: RO:0002331 negatively_regulates -is_a: RO:0002428 ! involved in regulation of - [Typedef] id: RO:0002431 name: involved in or involved in regulation of @@ -17218,87 +17104,17 @@ is_a: RO:0002264 ! acts upstream of or within is_a: RO:0002328 ! functionally related to is_a: RO:0002500 ! causal agent in process -[Typedef] -id: RO:0002432 -name: is active in -def: "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure." [https://orcid.org/0000-0002-6601-2165, https://orcid.org/0000-0002-7073-9172] -synonym: "enables activity in" EXACT [] -property_value: seeAlso "https://wiki.geneontology.org/Is_active_in" xsd:anyURI -is_a: overlaps ! overlaps -is_a: RO:0002328 ! functionally related to - [Typedef] id: RO:0002433 name: contributes to morphology of def: "p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm." [] is_a: overlaps ! overlaps -[Typedef] -id: RO:0002434 -name: interacts with -def: "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." [] -subset: ro-eco -synonym: "in pairwise interaction with" EXACT [] -property_value: IAO:0000116 "Considering relabeling as 'pairwise interacts with'" xsd:anyURI -property_value: IAO:0000116 "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." xsd:string -property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_symmetric: true - -[Typedef] -id: RO:0002436 -name: molecularly interacts with -def: "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." [] -property_value: seeAlso ECO:0000353 -is_symmetric: true -is_a: RO:0002434 ! interacts with - -[Typedef] -id: RO:0002447 -name: phosphorylates -property_value: IAO:0000116 "Axiomatization to GO to be added later" xsd:string -is_a: RO:0002436 ! molecularly interacts with - -[Typedef] -id: RO:0002448 -name: directly regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." [] -synonym: "molecularly controls" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002436 ! molecularly interacts with -is_a: RO:0011002 ! regulates activity of - -[Typedef] -id: RO:0002449 -name: directly negatively regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." [] -synonym: "molecularly decreases activity of" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002448 ! directly regulates activity of - -[Typedef] -id: RO:0002450 -name: directly positively regulates activity of -def: "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." [] -synonym: "molecularly increases activity of" EXACT [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002448 ! directly regulates activity of - -[Typedef] -id: RO:0002464 -name: helper property (not for use in curation) - [Typedef] id: RO:0002473 name: composed primarily of def: "x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y." [] subset: ro-eco -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: has_part ! has part [Typedef] @@ -17306,13 +17122,6 @@ id: RO:0002479 name: has part that occurs in def: "p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c." [] subset: ro-eco -domain: BFO:0000003 ! occurrent -range: BFO:0000004 ! independent continuant - -[Typedef] -id: RO:0002481 -name: is kinase activity -is_a: RO:0002564 ! molecular interaction relation helper property [Typedef] id: RO:0002485 @@ -17330,8 +17139,6 @@ is_a: RO:0002170 ! connected to [Typedef] id: RO:0002487 name: relation between physical entity and a process or stage -domain: BFO:0000004 ! independent continuant -range: BFO:0000003 ! occurrent [Typedef] id: RO:0002488 @@ -17428,8 +17235,6 @@ inverse_of: process_has_causal_agent ! process has causal agent id: RO:0002501 name: causal relation between processes def: "p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q." [] -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent is_a: RO:0002410 ! causally related to [Typedef] @@ -17437,14 +17242,6 @@ id: RO:0002502 name: depends on property_value: seeAlso BFO:0000169 -[Typedef] -id: RO:0002506 -name: causal relation between entities -property_value: IAO:0000116 "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" xsd:string -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant -is_a: RO:0002410 ! causally related to - [Typedef] id: RO:0002551 name: has skeleton @@ -17455,32 +17252,6 @@ is_a: has_part ! has part inverse_of: RO:0002576 ! skeleton of is_asymmetric: true -[Typedef] -id: RO:0002559 -name: causally influenced by -is_a: RO:0002506 ! causal relation between entities -inverse_of: RO:0002566 ! causally influences - -[Typedef] -id: RO:0002563 -name: interaction relation helper property -property_value: seeAlso http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29 -property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI -is_a: RO:0002464 ! helper property (not for use in curation) - -[Typedef] -id: RO:0002564 -name: molecular interaction relation helper property -is_a: RO:0002563 ! interaction relation helper property - -[Typedef] -id: RO:0002566 -name: causally influences -def: "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." [] -domain: BFO:0000002 ! continuant -range: BFO:0000002 ! continuant -is_a: RO:0002506 ! causal relation between entities - [Typedef] id: RO:0002567 name: biomechanically related to @@ -17510,8 +17281,6 @@ id: RO:0002570 name: conduit for def: "x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x." [] subset: ro-eco -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity is_a: overlaps ! overlaps [Typedef] @@ -17519,7 +17288,6 @@ id: RO:0002571 name: lumen of def: "x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull." [] subset: ro-eco -range: BFO:0000040 ! material entity is_a: part_of ! part of [Typedef] @@ -17527,7 +17295,6 @@ id: RO:0002572 name: luminal space of def: "s is luminal space of x iff s is lumen_of x and s is an immaterial entity" [] subset: ro-eco -domain: BFO:0000141 ! immaterial entity is_a: RO:0002571 ! lumen of [Typedef] @@ -17558,8 +17325,6 @@ id: RO:0002595 name: causal relation between material entity and a process def: "A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity." [] property_value: IAO:0000116 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string -domain: BFO:0000040 ! material entity -range: BFO:0000015 ! process is_a: RO:0002410 ! causally related to [Typedef] @@ -17583,61 +17348,6 @@ def: "Holds between c and p if and only if c is capable of some activity a, and holds_over_chain: capable_of positively_regulates is_a: RO:0002596 ! capable of regulating -[Typedef] -id: RO:0004031 -name: enables subfunction -def: "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." [] -holds_over_chain: RO:0002327 has_part -is_a: RO:0002328 ! functionally related to -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-25T23:20:13Z - -[Typedef] -id: RO:0004032 -name: acts upstream of or within, positive effect -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect" xsd:anyURI -holds_over_chain: RO:0002327 RO:0004047 -is_a: RO:0002264 ! acts upstream of or within -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:49:30Z - -[Typedef] -id: RO:0004033 -name: acts upstream of or within, negative effect -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: RO:0004050 RO:0002264 -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect" xsd:anyURI -holds_over_chain: RO:0002327 RO:0004046 -is_a: RO:0002264 ! acts upstream of or within -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:49:51Z - -[Typedef] -id: RO:0004034 -name: acts upstream of, positive effect -def: "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of,_positive_effect -is_a: RO:0002263 ! acts upstream of -is_a: RO:0004032 ! acts upstream of or within, positive effect -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:53:14Z - -[Typedef] -id: RO:0004035 -name: acts upstream of, negative effect -def: "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" [] -subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term -property_value: RO:0004050 RO:0002263 -property_value: seeAlso "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect" xsd:anyURI -holds_over_chain: RO:0002327 causally_upstream_of,_negative_effect -is_a: RO:0002263 ! acts upstream of -is_a: RO:0004033 ! acts upstream of or within, negative effect -created_by: https://orcid.org/0000-0002-6601-2165 -creation_date: 2018-01-26T23:53:22Z - [Typedef] id: RO:0004046 name: causally upstream of or within, negative effect @@ -17655,14 +17365,6 @@ is_a: causally_upstream_of_or_within ! causally upstream of or within created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-03-13T23:55:19Z -[Typedef] -id: RO:0011002 -name: regulates activity of -def: "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." [] -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity -is_a: RO:0002566 ! causally influences - [Typedef] id: RO:0012000 name: has small molecule regulator @@ -17690,23 +17392,6 @@ is_a: RO:0012004 ! is small molecule regulator of created_by: https://orcid.org/0000-0003-1813-6857 creation_date: 2020-06-24T13:15:26Z -[Typedef] -id: RO:0012011 -name: indirectly causally upstream of -def: "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." [] -is_a: causally_upstream_of ! causally upstream of -created_by: https://orcid.org/0000-0003-1813-6857 -creation_date: 2022-09-26T06:07:17Z - -[Typedef] -id: RO:0012012 -name: indirectly regulates -def: "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." [] -is_a: regulates ! regulates -is_a: RO:0012011 ! indirectly causally upstream of -created_by: https://orcid.org/0000-0003-1813-6857 -creation_date: 2022-09-26T06:08:01Z - [Typedef] id: RO:0013001 name: has synaptic IO in region @@ -17787,6 +17472,8 @@ id: RO:0017001 name: device utilizes material def: "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y." [] synonym: "utilizes" BROAD [] +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-9625-1899 +property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-2620-0345 holds_over_chain: capable_of has_input creation_date: 2021-11-08T12:00:00Z @@ -17813,8 +17500,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002220 property_value: IAO:0000116 "This relation acts as a join point with BSPO" xsd:string -domain: BFO:0000004 ! independent continuant -range: BFO:0000004 ! independent continuant is_a: RO:0002163 ! spatially disjoint from [Typedef] @@ -17833,7 +17518,6 @@ namespace: external def: "Inverse of characteristic_of" [] xref: RO:0000053 property_value: IAO:0000116 "A bearer can have many dependents, and its dependents can exist for different periods of time, but none of its dependents can exist when the bearer does not exist." xsd:string -range: BFO:0000020 ! specifically dependent continuant is_inverse_functional: true [Typedef] @@ -17844,7 +17528,6 @@ def: "X outer_layer_of Y iff:\n. X :continuant that bearer_of some PATO:laminar\ comment: A relationship that applies between a continuant and its outer, bounding layer. Examples include the relationship between a multicellular organism and its integument, between an animal cell and its plasma membrane, and between a membrane bound organelle and its outer/bounding membrane. subset: ro-eco xref: RO:0002007 -range: BFO:0000040 ! material entity is_a: part_of ! part of [Typedef] @@ -17854,8 +17537,6 @@ namespace: external def: "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. " [] subset: ro-eco xref: RO:0002215 -domain: BFO:0000004 ! independent continuant -range: BFO:0000015 ! process is_a: capable_of_part_of ! capable of part of [Typedef] @@ -17954,45 +17635,6 @@ id: channels_into name: channels_into namespace: uberon -[Typedef] -id: directly_negatively_regulates -name: directly negatively regulates -namespace: external -def: "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002630 -property_value: RO:0004050 RO:0002578 -property_value: seeAlso "https://wiki.geneontology.org/Directly_negatively_regulates" xsd:anyURI -is_a: directly_regulates ! directly regulates -is_a: negatively_regulates ! negatively regulates - -[Typedef] -id: directly_positively_regulates -name: directly positively regulates -namespace: external -def: "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002629 -property_value: seeAlso "https://wiki.geneontology.org/Directly_positively_regulates" xsd:anyURI -is_a: directly_regulates ! directly regulates -is_a: positively_regulates ! positively regulates - -[Typedef] -id: directly_regulates -name: directly regulates -namespace: external -def: "p directly regulates q iff p is immediately causally upstream of q and p regulates q." [] -subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -subset: http://purl.obolibrary.org/obo/valid_for_go_ontology -subset: http://purl.obolibrary.org/obo/valid_for_gocam -xref: RO:0002578 -is_a: immediately_causally_upstream_of ! immediately causally upstream of -is_a: regulates ! regulates - [Typedef] id: distally_connected_to name: distally connected to @@ -18044,8 +17686,6 @@ namespace: external def: "x 'has end location' y if and only if there exists some process z such that x 'ends with' z and z 'occurs in' y" [] subset: ro-eco xref: RO:0002232 -domain: BFO:0000015 ! process -range: BFO:0000004 ! independent continuant holds_over_chain: ends_with occurs_in is_a: RO:0002479 ! has part that occurs in @@ -18068,7 +17708,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_gocam subset: ro-eco xref: RO:0002233 property_value: seeAlso "https://wiki.geneontology.org/Has_input" xsd:anyURI -domain: BFO:0000015 ! process holds_over_chain: starts_with has_input is_a: has_participant ! has participant inverse_of: RO:0002352 ! input of @@ -18081,18 +17720,6 @@ property_value: term_tracker_item https://github.com/obophenotype/cell-ontology/ is_obsolete: true replaced_by: RO:0015016 -[Typedef] -id: has_negative_regulatory_component_activity -name: has negative regulatory component activity -namespace: external -def: "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." [] -comment: By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'. -xref: RO:0002014 -is_a: has_regulatory_component_activity ! has regulatory component activity -is_a: negatively_regulated_by ! negatively regulated by -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:31:01Z - [Typedef] id: has_ontology_root_term name: has ontology root term @@ -18141,8 +17768,6 @@ namespace: external def: "a relation between a process and a continuant, in which the continuant is somehow involved in the process" [] xref: RO:0000057 property_value: IAO:0000116 "Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time." xsd:string -domain: BFO:0000003 ! occurrent -range: BFO:0000002 ! continuant holds_over_chain: has_part has_participant [Typedef] @@ -18180,17 +17805,6 @@ is_a: has_primary_input_or_output ! has primary input or output created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-12-13T11:26:32Z -[Typedef] -id: has_regulatory_component_activity -name: has regulatory component activity -namespace: external -def: "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." [] -xref: RO:0002013 -is_a: regulated_by ! regulated by -is_a: RO:0002017 ! has component activity -created_by: https://orcid.org/0000-0002-7073-9172 -creation_date: 2017-05-24T09:30:46Z - [Typedef] id: has_small_molecule_activator name: has small molecule activator @@ -18209,8 +17823,6 @@ namespace: external def: "x 'has starts location' y if and only if there exists some process z such that x 'starts with' z and z 'occurs in' y" [] subset: ro-eco xref: RO:0002231 -domain: BFO:0000015 ! process -range: BFO:0000004 ! independent continuant holds_over_chain: starts_with occurs_in is_a: RO:0002479 ! has part that occurs in @@ -18238,24 +17850,6 @@ xref: RO:0002338 is_a: results_in_transport_to_from_or_in ! results in transport to from or in transitive_over: part_of ! part of -[Typedef] -id: immediately_causally_downstream_of -name: immediately causally downstream of -namespace: external -xref: RO:0002405 -is_a: causally_downstream_of ! causally downstream of -is_a: immediately_preceded_by ! immediately preceded by -inverse_of: immediately_causally_upstream_of ! immediately causally upstream of - -[Typedef] -id: immediately_causally_upstream_of -name: immediately causally upstream of -namespace: external -def: "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." [] -xref: RO:0002412 -is_a: causally_upstream_of ! causally upstream of -is_a: immediately_precedes ! immediately precedes - [Typedef] id: immediately_preceded_by name: immediately preceded by @@ -18314,17 +17908,6 @@ is_a: causally_upstream_of,_negative_effect ! causally upstream of, negative eff is_a: regulates ! regulates inverse_of: negatively_regulated_by ! negatively regulated by -[Typedef] -id: negatively_regulates_characteristic -name: negatively regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." [] -xref: RO:0019002 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -holds_over_chain: negatively_regulates positively_regulates_characteristic -holds_over_chain: positively_regulates negatively_regulates_characteristic -is_a: regulates_characteristic ! regulates characteristic - [Typedef] id: occurs_in name: occurs in @@ -18336,8 +17919,6 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: BFO:0000066 property_value: seeAlso "https://wiki.geneontology.org/Occurs_in" xsd:anyURI -domain: BFO:0000003 ! occurrent -range: BFO:0000004 ! independent continuant holds_over_chain: part_of occurs_in inverse_of: BFO:0000067 ! contains process transitive_over: part_of ! part of @@ -18398,8 +17979,6 @@ name: participates in namespace: external def: "a relation between a continuant and a process, in which the continuant is somehow involved in the process" [] xref: RO:0000056 -domain: BFO:0000002 ! continuant -range: BFO:0000003 ! occurrent inverse_of: has_participant ! has participant [Typedef] @@ -18427,16 +18006,6 @@ is_a: causally_upstream_of,_positive_effect ! causally upstream of, positive eff is_a: regulates ! regulates inverse_of: positively_regulated_by ! positively regulated by -[Typedef] -id: positively_regulates_characteristic -name: positively regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." [] -xref: RO:0019001 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -holds_over_chain: positively_regulates positively_regulates_characteristic -is_a: regulates_characteristic ! regulates characteristic - [Typedef] id: posteriorly_connected_to name: posteriorly connected to @@ -18452,8 +18021,6 @@ def: "x is preceded by y if and only if the time point at which y ends is before subset: ro-eco xref: BFO:0000062 property_value: IAO:0000116 "An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other." xsd:string -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent holds_over_chain: part_of preceded_by is_transitive: true is_a: RO:0002086 ! ends after @@ -18466,8 +18033,6 @@ namespace: external def: "x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." [] subset: ro-eco xref: BFO:0000063 -domain: BFO:0000003 ! occurrent -range: BFO:0000003 ! occurrent holds_over_chain: part_of precedes is_transitive: true is_a: RO:0002222 ! temporally related to @@ -18487,8 +18052,6 @@ namespace: external def: "a produced_by b iff some process that occurs_in b has_output a." [] subset: ro-eco xref: RO:0003001 -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity [Typedef] id: produces @@ -18498,8 +18061,6 @@ def: "a produces b if some process that occurs_in a has_output b, where a and b comment: Note that this definition doesn't quite distinguish the output of a transformation process from a production process, which is related to the identity/granularity issue. subset: ro-eco xref: RO:0003000 -domain: BFO:0000040 ! material entity -range: BFO:0000040 ! material entity inverse_of: produced_by ! produced by [Typedef] @@ -18522,8 +18083,6 @@ namespace: external def: "inverse of regulates" [] subset: RO:0002259 xref: RO:0002334 -domain: BFO:0000015 ! process -range: BFO:0000015 ! process is_transitive: true is_a: causally_downstream_of_or_within ! causally downstream of or within @@ -18536,26 +18095,10 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002211 -domain: BFO:0000015 ! process -range: BFO:0000015 ! process -holds_over_chain: directly_regulates directly_regulates holds_over_chain: ends_with regulates is_transitive: true is_a: causally_upstream_of ! causally upstream of inverse_of: regulated_by ! regulated by -transitive_over: RO:0002025 ! has effector activity - -[Typedef] -id: regulates_characteristic -name: regulates characteristic -namespace: gene_ontology -def: "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." [] -xref: RO:0019000 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 -domain: BFO:0000015 ! process -range: PATO:0000001 ! quality -holds_over_chain: regulates regulates_characteristic -is_a: RO:0002410 ! causally related to [Typedef] id: regulates_levels_of @@ -18563,8 +18106,6 @@ name: regulates levels of namespace: external def: "p regulates levels of c if p regulates some amount (PATO:0000070) of c" [] xref: RO:0002332 -domain: BFO:0000015 ! process -range: BFO:0000040 ! material entity is_a: RO:0002328 ! functionally related to [Typedef] diff --git a/subsets/kidney_upper_slim.owl b/subsets/kidney_upper_slim.owl index 4dc7611c9..d55f2848a 100644 --- a/subsets/kidney_upper_slim.owl +++ b/subsets/kidney_upper_slim.owl @@ -14,8 +14,7 @@ xmlns:foaf="http://xmlns.com/foaf/0.1/" xmlns:pato="http://purl.obolibrary.org/obo/pato#" xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#" - xmlns:swrl="http://www.w3.org/2003/11/swrl#" - xmlns:swrlb="http://www.w3.org/2003/11/swrlb#" + xmlns:sssom="https://w3id.org/sssom/" xmlns:terms="http://purl.org/dc/terms/" xmlns:uberon="http://purl.obolibrary.org/obo/uberon#" xmlns:ubprop="http://purl.obolibrary.org/obo/ubprop#" @@ -23,8 +22,8 @@ xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#" xmlns:ncbitaxon="http://purl.obolibrary.org/obo/ncbitaxon#"> - - 2024-04-05 + + 2024-05-15 @@ -393,14 +392,6 @@ WHERE { - - - - - - - - @@ -433,6 +424,14 @@ WHERE { + + + + + + + + @@ -481,6 +480,14 @@ WHERE { + + + + + + + + @@ -497,6 +504,14 @@ WHERE { + + + + + + + + @@ -1029,12 +1044,6 @@ WHERE { - - - - - - @@ -1237,6 +1246,12 @@ WHERE { + + + + + + - - @@ -1515,19 +1519,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence - A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists. - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - function of - - - - @@ -1541,31 +1532,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence - A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists. - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - role of - - - - - - - - - - a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence - A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists. - has function - - - - @@ -1577,42 +1543,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence - A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists. - has role - - - - - - - - - - - a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence - has disposition - - - - - - - - - inverse of has disposition - - This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. - disposition of - - - - @@ -1652,8 +1582,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - @@ -1665,18 +1593,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. located in https://wiki.geneontology.org/Located_in - - - - - This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation. - - - - - - This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation. - @@ -1697,8 +1613,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts. Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape. @@ -1731,18 +1645,6 @@ A continuant cannot have an occurrent as part: use 'participates in'. - - - - - - - - - - - - X outer_layer_of Y iff: . X :continuant that bearer_of some PATO:laminar . X part_of Y @@ -1764,81 +1666,6 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 - - - - - - A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B. - - 2017-05-24T09:30:46Z - RO:0002013 - external - has_regulatory_component_activity - has_regulatory_component_activity - has regulatory component activity - - - - - - - - - - A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B. - - 2017-05-24T09:31:01Z - RO:0002014 - external - has_negative_regulatory_component_activity - has_negative_regulatory_component_activity - By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'. - has negative regulatory component activity - - - - - - - - - - A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B. - - 2017-05-24T09:31:17Z - By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'. - has positive regulatory component activity - - - - - - - - - - 2017-05-24T09:44:33Z - A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B. - has component activity - - - - - - - - - - - w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type. - - 2017-05-24T09:49:21Z - has component process - - - - @@ -1851,83 +1678,6 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 - - - - - - - 2017-09-17T13:52:24Z - Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. - directly regulated by - - - - - Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. - - - - - - - - - - - Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1. - - 2017-09-17T13:52:38Z - directly negatively regulated by - - - - - Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1. - - - - - - - - - - - Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1. - - 2017-09-17T13:52:47Z - directly positively regulated by - - - - - Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1. - - - - - - - - - - - A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity. - - 2017-09-22T14:14:36Z - This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations. - has effector activity - - - - - A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity. - - - - - @@ -2246,8 +1996,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - X continuous_with Y if and only if X and Y share a fiat boundary. continuous with FMA:85972 @@ -2367,7 +2115,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - c connects a if and only if there exist some b such that a and b are similar parts of the same system, and c connects b, specifically, c connects a with b. When one structure connects two others it unites some aspect of the function or role they play within the system. connects https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern @@ -2436,8 +2183,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y This is the transitive form of the develops from relation develops from @@ -2464,7 +2209,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - @@ -2522,20 +2266,10 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - - - - - p regulates q iff p is causally upstream of q, the execution of p is not constant and varies according to specific conditions, and p influences the rate or magnitude of execution of q due to an effect either on some enabler of q or some enabler of a part of q. RO:0002211 external @@ -2608,8 +2342,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. RO:0002215 external @@ -2654,8 +2386,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - x adjacent to y if and only if x and y share a boundary. This relation acts as a join point with BSPO RO:0002220 @@ -2685,8 +2415,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. temporally related to @@ -2789,8 +2517,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - @@ -2811,8 +2537,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - @@ -2834,7 +2558,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - @@ -2966,8 +2689,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p false This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from @@ -2980,10 +2701,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes. acts upstream of @@ -2996,10 +2713,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - c acts upstream of or within p if c is enables f, and f is causally upstream of or within p. c is a material entity and p is an process. affects @@ -3249,27 +2962,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - - - - - - - - c enables p iff c is capable of p and c acts to execute p. - - enables - https://wiki.geneontology.org/Enables - - - - @@ -3292,40 +2984,16 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts. genomically related to - - - - - - - - - - - - - - c involved_in p if and only if c enables some process p', and p' is part of p - involved in - https://wiki.geneontology.org/Involved_in - - - - - - p regulates levels of c if p regulates some amount (PATO:0000070) of c RO:0002332 external @@ -3337,26 +3005,11 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - inverse of enables - - enabled by - https://wiki.geneontology.org/Enabled_by - - - - - - inverse of regulates RO:0002334 external @@ -3404,8 +3057,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relationship that holds via some process of localization related via localization to @@ -3532,7 +3183,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - has member is a mereological relation between a collection and an item. has member @@ -3643,8 +3293,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network. in branching relationship with @@ -3773,76 +3421,6 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - - - - - - RO:0002405 - external - immediately_causally_downstream_of - immediately_causally_downstream_of - immediately causally downstream of - immediately causally downstream of - - - - - - - - - - - - - - - - - - - - - - - - - - - p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q. - indirectly positively regulates - https://wiki.geneontology.org/Indirectly_positively_regulates - - - - - - - - - - - - - - - - - - - - - - - p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q. - indirectly negatively regulates - https://wiki.geneontology.org/Indirectly_negatively_regulates - - - - @@ -3892,22 +3470,6 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q. - RO:0002412 - external - immediately_causally_upstream_of - immediately_causally_upstream_of - immediately causally upstream of - immediately causally upstream of - - - - @@ -3947,57 +3509,12 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - - - c involved in regulation of p if c is involved in some p' and p' regulates some p involved in regulation of - - - - - - - - - - - - - c involved in regulation of p if c is involved in some p' and p' positively regulates some p - involved in positive regulation of - - - - - - - - - - - - - - - - - c involved in regulation of p if c is involved in some p' and p' negatively regulates some p - - involved in negative regulation of - - - - @@ -4011,27 +3528,6 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure. - enables activity in - - is active in - https://wiki.geneontology.org/Is_active_in - - - - - c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure. - - - - - - @@ -4042,118 +3538,10 @@ Each of these 3 primitives can be composed to yield a cross-product of different - - - - - - - A relationship that holds between two entities in which the processes executed by the two entities are causally connected. - This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact. - Considering relabeling as 'pairwise interacts with' - in pairwise interaction with - - interacts with - http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ - - - - - - - - - - An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other. - molecularly interacts with - - - - - - - - - - Axiomatization to GO to be added later - phosphorylates - - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B. - -A and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B. - molecularly controls - directly regulates activity of - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. -For example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B. - molecularly decreases activity of - directly negatively regulates activity of - - - - - - - - - - - - - - - - The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. -For example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B. - molecularly increases activity of - directly positively regulates activity of - - - - - - - - helper property (not for use in curation) - - - - - - x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y. composed primarily of @@ -4164,8 +3552,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c. has part that occurs in @@ -4173,15 +3559,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - is kinase activity - - - - @@ -4206,8 +3583,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - relation between physical entity and a process or stage @@ -4388,8 +3763,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q. causal relation between processes @@ -4405,25 +3778,12 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch - causal relation between entities - - - - - A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision. @@ -4438,36 +3798,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - causally influenced by - - - - - - - - - interaction relation helper property - - http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ - - - - - - - - - molecular interaction relation helper property - - - - @@ -4485,28 +3815,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size). - causally influences - - - - @@ -4547,8 +3855,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x. conduit for @@ -4560,7 +3866,6 @@ For example, A and B may be gene products and binding of B by A positively regul - x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull. lumen of @@ -4572,7 +3877,6 @@ For example, A and B may be gene products and binding of B by A positively regul - s is luminal space of x iff s is lumen_of x and s is an immaterial entity luminal space of @@ -4593,24 +3897,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - p directly regulates q iff p is immediately causally upstream of q and p regulates q. - RO:0002578 - external - directly_regulates - - - - directly_regulates - directly regulates - - - - @@ -4686,8 +3972,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity. Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect. causal relation between material entity and a process @@ -4751,51 +4035,10 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q. - RO:0002629 - external - directly_positively_regulates - - - - directly_positively_regulates - directly positively regulates - https://wiki.geneontology.org/Directly_positively_regulates - - - - - - - - - - p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q. - - RO:0002630 - external - directly_negatively_regulates - - - - directly_negatively_regulates - directly negatively regulates - https://wiki.geneontology.org/Directly_negatively_regulates - - - - - - @@ -4818,8 +4061,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - a produced_by b iff some process that occurs_in b has_output a. RO:0003001 external @@ -4905,96 +4146,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P. - - 2018-01-25T23:20:13Z - enables subfunction - - - - - - - - - - - - - - 2018-01-26T23:49:30Z - - acts upstream of or within, positive effect - https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect - - - - - - - - - - - - - - - 2018-01-26T23:49:51Z - - acts upstream of or within, negative effect - https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect - - - - - - - - - - - - - - c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive - - 2018-01-26T23:53:14Z - - acts upstream of, positive effect - https://wiki.geneontology.org/Acts_upstream_of,_positive_effect - - - - - - - - - - - - - - c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative - - - 2018-01-26T23:53:22Z - - acts upstream of, negative effect - https://wiki.geneontology.org/Acts_upstream_of,_negative_effect - - - - @@ -5020,18 +4171,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B. - regulates activity of - - - - @@ -5128,31 +4267,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q. - - 2022-09-26T06:07:17Z - indirectly causally upstream of - - - - - - - - - - p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q. - - 2022-09-26T06:08:01Z - indirectly regulates - - - - @@ -5314,6 +4428,8 @@ For example, A and B may be gene products and binding of B by A positively regul X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y. + + 2021-11-08T12:00:00Z utilizes device utilizes material @@ -5321,69 +4437,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C. - - RO:0019000 - gene_ontology - regulates_characteristic - regulates_characteristic - regulates characteristic - - - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C. - - RO:0019001 - gene_ontology - positively_regulates_characteristic - positively_regulates_characteristic - positively regulates characteristic - - - - - - - - - - - - - - - - - A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C. - - RO:0019002 - gene_ontology - negatively_regulates_characteristic - negatively_regulates_characteristic - negatively regulates characteristic - - - - @@ -5698,127 +4751,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts. - continuant - - - - - - - - - - - - - - - - - - - - An entity that has temporal parts and that happens, unfolds or develops through time. - occurrent - - - - - - - - - - - - - - - - b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002]) - A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. - independent continuant - - - - - - - - - p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003]) - An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. - process - - - - - - - - - - - - - - - b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003]) - A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. - specifically dependent continuant - - - - - - - - - - - - - - - - An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time. - material entity - - - - - - - - - - - - - - - immaterial entity - - - - @@ -5842,6 +4774,7 @@ For example, A and B may be gene products and binding of B by A positively regul VHOG:0001533 WBbt:0004017 XAO:0003012 + ZFA:0009000 The definition of cell is intended to represent all cells, and thus a cell is defined as a material entity and not an anatomical structure, which implies that it is part of an organism (or the entirety of one). @@ -5853,6 +4786,18 @@ For example, A and B may be gene products and binding of B by A positively regul A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane. CARO:mah + + + + FBbt:00007002 + + + + + + ZFA:0009000 + + @@ -5861,6 +4806,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found in the embryo before the formation of all the gem layers is complete. + ZFA:0009002 early embryonic cell (metazoa) @@ -5869,6 +4815,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found in the embryo before the formation of all the gem layers is complete. GOC:tfm + + + + ZFA:0009002 + + @@ -5903,6 +4855,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-2086 FMA:63368 + ZFA:0005957 animal stem cell @@ -5917,6 +4870,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D013234 + + + + ZFA:0005957 + + @@ -6080,6 +5039,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:86475 MESH:D006412 VHOG:0001485 + ZFA:0009014 blood forming stem cell hemopoietic stem cell HSC @@ -6100,6 +5060,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:19022770 http://en.wikipedia.org/wiki/Hematopoietic_stem_cell + + + + ZFA:0009014 + + @@ -6122,6 +5088,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell committed to the erythroid lineage. BTO:0004911 + ZFA:0009015 BFU-E CFU-E blast forming unit erythroid @@ -6145,6 +5112,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add ISBN:0721601464 + + + + ZFA:0009015 + + @@ -6171,6 +5144,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that is within the developmental lineage of gametes and is able to pass along its genetic material to offspring. + ZFA:0009016 Originally this term had some plant germ line cell children. @@ -6183,6 +5157,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721662544 + + + + ZFA:0009016 + + @@ -6213,6 +5193,7 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to multiple lineages of cells. FMA:84789 + ZFA:0009020 multi-fate stem cell multifate stem cell multipotent cell @@ -6225,6 +5206,12 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to multiple lineages of cells. GOC:add + + + + ZFA:0009020 + + @@ -6236,6 +5223,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell committed to myeloid lineage, including the megakaryocyte and erythroid lineages. BTO:0004730 + ZFA:0009021 common myeloid precursor CFU-GEMM CFU-S @@ -6263,6 +5251,12 @@ For example, A and B may be gene products and binding of B by A positively regul ISBN:0878932437 MESH:D023461 + + + + ZFA:0009021 + + @@ -6346,6 +5340,7 @@ For example, A and B may be gene products and binding of B by A positively regul A progenitor cell committed to the megakaryocyte and erythroid lineages. + ZFA:0009022 CFU-EM CFU-MegE MEP @@ -6375,6 +5370,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:16647566 http://en.wikipedia.org/wiki/Megakaryocyte-erythroid_progenitor_cell + + + + ZFA:0009022 + + @@ -6385,6 +5386,7 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell from which all cells of the body can form. FMA:84790 MESH:D039901 + ZFA:0009024 totipotential stem cell totipotent stem cell @@ -6395,6 +5397,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009024 + + @@ -6429,6 +5437,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005083 FMA:70335 VHOG:0001529 + ZFA:0009025 myoblast @@ -6439,6 +5448,18 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D032446 PMID:21849021 + + + + FBbt:00005083 + + + + + + ZFA:0009025 + + @@ -6459,6 +5480,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:63877 NCIT:C12482 VHOG:0001482 + ZFA:0009026 @@ -6473,6 +5495,12 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D005347 http://en.wikipedia.org/wiki/Fibroblast + + + + ZFA:0009026 + + @@ -6491,7 +5519,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -6501,6 +5528,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that has a filiform extrusion of the cell surface. VHOG:0001532 XAO:0000031 + ZFA:0009032 ciliated cell @@ -6510,6 +5538,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that has a filiform extrusion of the cell surface. GOC:tfm + + + + ZFA:0009032 + + @@ -6531,6 +5565,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00000124 FMA:66768 WBbt:0003672 + ZFA:0009034 epitheliocyte @@ -6546,6 +5581,18 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D004847 + + + + FBbt:00000124 + + + + + + ZFA:0009034 + + @@ -6567,6 +5614,7 @@ For example, A and B may be gene products and binding of B by A positively regul An epithelial cell that has a cilia. FMA:70605 + ZFA:0009035 ciliated epithelial cell @@ -6576,6 +5624,12 @@ For example, A and B may be gene products and binding of B by A positively regul An epithelial cell that has a cilia. GOC:tfm + + + + ZFA:0009035 + + @@ -6601,6 +5655,7 @@ For example, A and B may be gene products and binding of B by A positively regul An epithelial cell that is part of a duct. + ZFA:0009372 duct epithelial cell @@ -6610,6 +5665,12 @@ For example, A and B may be gene products and binding of B by A positively regul An epithelial cell that is part of a duct. https://orcid.org/0000-0001-5208-3432 + + + + ZFA:0009372 + + @@ -6643,6 +5704,7 @@ For example, A and B may be gene products and binding of B by A positively regul An endothelial cell that lines the vasculature. + ZFA:0009036 cuboidal endothelial cell of vascular tree @@ -6660,6 +5722,12 @@ For example, A and B may be gene products and binding of B by A positively regul An endothelial cell that lines the vasculature. GOC:tfm + + + + ZFA:0009036 + + @@ -6679,6 +5747,7 @@ For example, A and B may be gene products and binding of B by A positively regul A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube. + ZFA:0009038 columnar/cuboidal epithelial cell @@ -6690,6 +5759,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0002065 https://orcid.org/0000-0001-5208-3432 + + + + ZFA:0009038 + + @@ -6698,9 +5773,16 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-1249 + ZFA:0009039 squamous epithelial cell + + + + ZFA:0009039 + + @@ -6728,6 +5810,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell found predominately in the blood. FMA:62844 MESH:D001773 + ZFA:0009044 blood cell @@ -6745,6 +5828,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009044 + + @@ -6758,6 +5847,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001176 CALOHA:TS-0278 FMA:66772 + ZFA:0009065 endotheliocyte @@ -6774,6 +5864,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://en.wikipedia.org/wiki/Endothelial_cell https://sourceforge.net/tracker/?func=detail&atid=440764&aid=3364936&group_id=36855 + + + + ZFA:0009065 + + @@ -6782,6 +5878,7 @@ For example, A and B may be gene products and binding of B by A positively regul Ectoderm destined to be nervous tissue. + ZFA:0009080 neurectoderm cell neurectodermal cell @@ -6792,6 +5889,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:068340007X + + + + ZFA:0009080 + + @@ -6804,6 +5907,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0002625 BTO:0003298 FMA:70546 + ZFA:0009081 bone marrow stromal cells colony-forming unit-fibroblast marrow stromal cells @@ -6841,6 +5945,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://en.wikipedia.org/wiki/Mesenchymal_stem_cell http://www.copewithcytokines.de/cope.cgi?key=mesenchymal%20stem%20cells + + + + ZFA:0009081 + + @@ -6947,8 +6057,15 @@ For example, A and B may be gene products and binding of B by A positively regul + Any secretory cell that is capable of some protein secretion. protein secreting cell + + + + Any secretory cell that is capable of some protein secretion. + FBC:Autogenerated + @@ -6987,6 +6104,7 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005074 FMA:67328 WBbt:0003675 + ZFA:0009114 muscle fiber myocyte @@ -6999,6 +6117,18 @@ For example, A and B may be gene products and binding of B by A positively regul A mature contractile cell, commonly known as a myocyte. This cell has as part of its cytoplasm myofibrils organized in various patterns. MESH:D032342 + + + + FBbt:00005074 + + + + + + ZFA:0009114 + + @@ -7019,6 +6149,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004576 CALOHA:TS-2159 FMA:14072 + ZFA:0009118 SMCs myocytes, smooth muscle smooth muscle fiber @@ -7035,6 +6166,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:9315361 http://en.wikipedia.org/wiki/Smooth_muscle_cell + + + + ZFA:0009118 + + @@ -7055,6 +6192,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by the generation or the reception of an electric signal. + ZFA:0009128 electrically active cell @@ -7063,6 +6201,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by the generation or the reception of an electric signal. FB:ma + + + + ZFA:0009128 + + @@ -7071,6 +6215,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism. + ZFA:0009130 boundary cell lining cell @@ -7080,6 +6225,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism. JB:jb + + + + ZFA:0009130 + + @@ -7088,6 +6239,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose primary function is to prevent the transport of stuff across compartments. + ZFA:0009132 barrier cell @@ -7096,6 +6248,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose primary function is to prevent the transport of stuff across compartments. JB:jb + + + + ZFA:0009132 + + @@ -7121,6 +6279,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that moves by its own activities. + ZFA:0009136 motile cell @@ -7129,6 +6288,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that moves by its own activities. FB:ma + + + + ZFA:0009136 + + @@ -7144,6 +6309,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the outer of the three germ layers of the embryo. FMA:72549 + ZFA:0009137 ectoderm cell ectodermal cell @@ -7153,6 +6319,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the outer of the three germ layers of the embryo. MESH:D004475 + + + + ZFA:0009137 + + @@ -7168,6 +6340,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the middle germ layer of the embryo. FMA:72554 + ZFA:0009138 mesoblast mesoderm cell @@ -7179,6 +6352,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the middle germ layer of the embryo. MESH:D008648 + + + + ZFA:0009138 + + @@ -7194,6 +6373,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the inner of the three germ layers of the embryo. FMA:72555 + ZFA:0009139 endoderm cell endodermal cell @@ -7203,6 +6383,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the inner of the three germ layers of the embryo. MESH:D004707 + + + + ZFA:0009139 + + @@ -7296,8 +6482,15 @@ For example, A and B may be gene products and binding of B by A positively regul + ZFA:0009143 brush border epithelial cell + + + + ZFA:0009143 + + @@ -7322,10 +6515,17 @@ For example, A and B may be gene products and binding of B by A positively regul + Any cell that only exists in Eukaryota. MESH:D005057 eukaryotic cell + + + + Any cell that only exists in Eukaryota. + FBC:Autogenerated + @@ -7350,8 +6550,22 @@ For example, A and B may be gene products and binding of B by A positively regul + Any cell that is capable of some oxygen transport. + ZFA:0009164 oxygen accumulating cell + + + + Any cell that is capable of some oxygen transport. + FBC:Autogenerated + + + + + ZFA:0009164 + + @@ -7369,6 +6583,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body. FMA:86667 + ZFA:0007086 migratory neural crest cell @@ -7377,6 +6592,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body. doi:10.1016/j.stem.2015.02.017 + + + + ZFA:0007086 + + @@ -7385,6 +6606,7 @@ For example, A and B may be gene products and binding of B by A positively regul A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors. + ZFA:0009166 mesenchyme condensation cell @@ -7394,6 +6616,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:5025404 + + + + ZFA:0009166 + + @@ -7458,6 +6686,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by its response to an electric signal. + ZFA:0009190 electrically responsive cell @@ -7466,6 +6695,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose function is determined by its response to an electric signal. FB:ma + + + + ZFA:0009190 + + @@ -7474,6 +6709,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that initiates an electrical signal and passes that signal to another cell. + ZFA:0009193 electrically signaling cell @@ -7482,6 +6718,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that initiates an electrical signal and passes that signal to another cell. FB:ma + + + + ZFA:0009193 + + @@ -7508,6 +6750,7 @@ For example, A and B may be gene products and binding of B by A positively regul A precursor cell destined to differentiate into smooth muscle myocytes. FMA:84798 + ZFA:0009235 myoblast, smooth muscle satellite cell @@ -7520,6 +6763,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm MESH:D032390 + + + + ZFA:0009235 + + @@ -7549,6 +6798,7 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:54527 VHOG:0001483 WBbt:0003679 + ZFA:0009248 nerve cell @@ -7564,6 +6814,18 @@ For example, A and B may be gene products and binding of B by A positively regul MESH:D009474 http://en.wikipedia.org/wiki/Neuron + + + + FBbt:00005106 + + + + + + ZFA:0009248 + + @@ -7643,7 +6905,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -7793,7 +7054,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -7814,6 +7074,7 @@ For example, A and B may be gene products and binding of B by A positively regul A nucleated immature erythrocyte, having cytoplasm generally similar to that of the earlier proerythroblast but sometimes even more basophilic, and usually regular in outline. The nucleus is still relatively large, but the chromatin strands are thicker and more deeply staining, giving a coarser appearance; the nucleoli have disappeared. This cell is CD71-positive and lacks hematopoeitic lineage markers. FMA:83505 + ZFA:0005236 basophilic normoblast early erythroblast early normoblast @@ -7833,6 +7094,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0721601464 + + + + ZFA:0005236 + + @@ -7883,7 +7150,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -7910,6 +7176,7 @@ For example, A and B may be gene products and binding of B by A positively regul A nucleated, immature erythrocyte in which the nucleus occupies a relatively smaller part of the cell than in its precursor, the basophilic erythroblast. The cytoplasm is beginning to acquire hemoglobin and thus is no longer a purely basophilic, but takes on acidophilic aspects, which becomes progressively more marked as the cell matures. The chromatin of the nucleus is arranged in coarse, deeply staining clumps. This cell is CD71-positive and lacks hematopoeitic lineage markers. FMA:83506 + ZFA:0005241 intermediate erythroblast intermediate normoblast polychromatic erythroblast @@ -7930,6 +7197,12 @@ For example, A and B may be gene products and binding of B by A positively regul A nucleated, immature erythrocyte in which the nucleus occupies a relatively smaller part of the cell than in its precursor, the basophilic erythroblast. The cytoplasm is beginning to acquire hemoglobin and thus is no longer a purely basophilic, but takes on acidophilic aspects, which becomes progressively more marked as the cell matures. The chromatin of the nucleus is arranged in coarse, deeply staining clumps. This cell is CD71-positive and lacks hematopoeitic lineage markers. ISBN:0721601464 + + + + ZFA:0005241 + + @@ -8387,7 +7660,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8476,6 +7748,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001173 CALOHA:TS-0864 MESH:D012156 + ZFA:0009252 reticulocyte @@ -8495,6 +7768,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:15946868 PMID:2037622 + + + + ZFA:0009252 + + @@ -8522,7 +7801,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -8548,6 +7826,7 @@ For example, A and B may be gene products and binding of B by A positively regul A mesenchymal stem cell capable of developing into blood vessel endothelium. + ZFA:0009258 angioblast chondroplast These cells are reportedly CD31-positive, CD34-positive, CD144-positive, CD309-positive, and TAL1-positive. @@ -8567,6 +7846,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:12768659 + + + + ZFA:0009258 + + @@ -8609,6 +7894,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell whose primary function is to support other cell types. BTO:0002315 + ZFA:0009387 supportive cell supporting cell @@ -8620,6 +7906,12 @@ For example, A and B may be gene products and binding of B by A positively regul FB:ma GOC:tfm + + + + ZFA:0009387 + + @@ -8654,6 +7946,7 @@ For example, A and B may be gene products and binding of B by A positively regul juxtaglomerular cell FMA:84138 + ZFA:0005238 JG cell renin secreting cell @@ -8667,6 +7960,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:11457727 + + + + ZFA:0005238 + + @@ -8685,6 +7984,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0617 FMA:70972 MESH:D050527 + ZFA:0009283 kidney mesangial cell Do all of these cells really develop from some mesenchymal stem cell? @@ -8697,6 +7997,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm http://www.copewithcytokines.de/cope.cgi?key=mesangial%20cells + + + + ZFA:0009283 + + @@ -8704,10 +8010,17 @@ For example, A and B may be gene products and binding of B by A positively regul + ZFA:0009286 window cell fenestrated cell + + + + ZFA:0009286 + + @@ -8722,6 +8035,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0002441 FMA:63174 + ZFA:0009112 ARC adventitial reticular cell cell of Rouget @@ -8745,6 +8059,12 @@ For example, A and B may be gene products and binding of B by A positively regul PMID:17986482 PMID:20024907 + + + + ZFA:0009112 + + @@ -8782,6 +8102,7 @@ For example, A and B may be gene products and binding of B by A positively regul A non-terminally differentiated cell that is capable of developing into a muscle cell. + ZFA:0009291 muscle precursor cell @@ -8791,6 +8112,12 @@ For example, A and B may be gene products and binding of B by A positively regul A non-terminally differentiated cell that is capable of developing into a muscle cell. GOC:add + + + + ZFA:0009291 + + @@ -8818,6 +8145,7 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to cell types of the body other than those of the germ-line. CALOHA:TS-2086 MESH:D053687 + ZFA:0009307 somatic stem cell @@ -8826,6 +8154,12 @@ For example, A and B may be gene products and binding of B by A positively regul A stem cell that can give rise to cell types of the body other than those of the germ-line. GO:0048103 + + + + ZFA:0009307 + + @@ -8854,6 +8188,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001441 CALOHA:TS-0647 MESH:D022423 + ZFA:0009324 myeloid cell @@ -8869,6 +8204,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the monocyte, granulocyte, mast cell, megakaryocyte, or erythroid lineage. GOC:add + + + + ZFA:0009324 + + @@ -8881,6 +8222,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0290 FMA:62845 FMA:83516 + ZFA:0009325 erythropoietic cell @@ -8894,6 +8236,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GOC:tfm + + + + ZFA:0009325 + + @@ -9060,6 +8408,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0289 FMA:83504 MESH:D004900 + ZFA:0005237 normoblast @@ -9079,6 +8428,12 @@ For example, A and B may be gene products and binding of B by A positively regul ISBN:0721601464 PMID:18174176 + + + + ZFA:0005237 + + @@ -9153,7 +8508,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -9255,6 +8609,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000725 CALOHA:TS-0448 + ZFA:0009354 MPP hemopoietic progenitor cell @@ -9271,6 +8626,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:19022770 + + + + ZFA:0009354 + + @@ -9302,6 +8663,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004730 CALOHA:TS-2099 FMA:70339 + ZFA:0009356 Note that this is a class of cell types, not an identified single cell type. @@ -9321,6 +8683,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm PMID:19022770 + + + + ZFA:0009356 + + @@ -9333,6 +8701,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-2017 FMA:70366 FMA:83598 + ZFA:0005830 haematopoietic cell haemopoietic cell hemopoietic cell @@ -9346,6 +8715,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:add GO_REF:0000031 + + + + ZFA:0005830 + + @@ -9463,6 +8838,7 @@ For example, A and B may be gene products and binding of B by A positively regul 2010-06-29T03:38:22Z FMA:69074 + ZFA:0009385 ecto-epithelial cell @@ -9472,6 +8848,12 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:69074 GOC:tfm + + + + ZFA:0009385 + + @@ -9500,6 +8882,7 @@ For example, A and B may be gene products and binding of B by A positively regul 2010-06-29T03:49:14Z FMA:69076 + ZFA:0009388 epithelial mesenchymal cell meso-epithelial cell @@ -9510,6 +8893,12 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:69076 GOC:tfm + + + + ZFA:0009388 + + @@ -9830,6 +9219,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-2096 FMA:63875 MESH:D003239 + ZFA:0009392 connective tissue cell @@ -9840,6 +9230,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm ISBN:0618947256 + + + + ZFA:0009392 + + @@ -9853,6 +9249,7 @@ For example, A and B may be gene products and binding of B by A positively regul CALOHA:TS-0263 FMA:82840 WBbt:0007028 + ZFA:0007089 embryonic cell (metazoa) @@ -9861,6 +9258,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell of the embryo. FMA:0618947256 + + + + ZFA:0007089 + + @@ -9925,6 +9328,7 @@ For example, A and B may be gene products and binding of B by A positively regul 2011-02-08T10:46:34Z KUPO:0001019 + ZFA:0009374 kidney epithelial cell @@ -9941,6 +9345,12 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:tfm KUPO:SJ + + + + ZFA:0009374 + + @@ -9951,6 +9361,7 @@ For example, A and B may be gene products and binding of B by A positively regul An endothelial progenitor cell that participates in angiogenesis during development. 2011-02-28T04:20:39Z + ZFA:0005773 See CL:0002619. embryonic blood vessel endothelial progenitor cell @@ -9960,6 +9371,12 @@ For example, A and B may be gene products and binding of B by A positively regul An endothelial progenitor cell that participates in angiogenesis during development. GOC:tfm + + + + ZFA:0005773 + + @@ -10039,6 +9456,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cuboidal epithelial cell of the kidney which regulates sodium and potassium balance. The activity of sodium and potassium channels on the apical membrane of the cell is regulated by aldosterone and vasopressin. In mammals this cell type is located in the renal collecting duct system. + ZFA:0005322 renal principal cell @@ -10048,6 +9466,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cuboidal epithelial cell of the kidney which regulates sodium and potassium balance. The activity of sodium and potassium channels on the apical membrane of the cell is regulated by aldosterone and vasopressin. In mammals this cell type is located in the renal collecting duct system. CL:CVS + + + + ZFA:0005322 + + @@ -10070,6 +9494,7 @@ For example, A and B may be gene products and binding of B by A positively regul Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells. 2012-06-27T08:27:35Z + ZFA:0007084 premigratory neural crest cell @@ -10078,6 +9503,12 @@ For example, A and B may be gene products and binding of B by A positively regul Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells. UBERONREF:0000002 + + + + ZFA:0007084 + + @@ -10145,6 +9576,12 @@ For example, A and B may be gene products and binding of B by A positively regul A muscle cell that is part of some visceral muscle. GOC:dos + + + + FBbt:00005070 + + @@ -10182,6 +9619,7 @@ For example, A and B may be gene products and binding of B by A positively regul 2020-02-29T17:33:55Z + ZFA:0005944 @@ -10193,6 +9631,12 @@ For example, A and B may be gene products and binding of B by A positively regul Mural cells are pericytes and the vascular smooth muscle cells (vSMCs) of the microcirculation. Wiki:Mural_cell&oldid=930603194 + + + + ZFA:0005944 + + @@ -10600,9 +10044,16 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that is part of a kidney. KUPO:0001010 + ZFA:0009389 kidney cell + + + + ZFA:0009389 + + @@ -10630,10 +10081,17 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that is part of kidney interstitium. KUPO:0001013 + ZFA:0009390 kidney interstitial cell + + + + ZFA:0009390 + + @@ -10660,6 +10118,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that is part of a renal medulla. KUPO:0001017 + ZFA:0009391 kidney medulla cell @@ -10668,6 +10127,12 @@ For example, A and B may be gene products and binding of B by A positively regul A cell that is part of a renal medulla. PMID:22343825 + + + + ZFA:0009391 + + @@ -10750,10 +10215,17 @@ For example, A and B may be gene products and binding of B by A positively regul + Any kidney epithelial cell that is part of some glomerular epithelium. KUPO:0001023 kidney glomerular epithelial cell + + + + Any kidney epithelial cell that is part of some glomerular epithelium. + FBC:Autogenerated + @@ -10808,10 +10280,17 @@ For example, A and B may be gene products and binding of B by A positively regul + Any kidney cell that is part of some papillary duct. KUPO:0001064 kidney papillary duct principal epithelial cell + + + + Any kidney cell that is part of some papillary duct. + FBC:Autogenerated + @@ -10837,6 +10316,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any renal cortical epithelial cell that is part of some renal corpuscle. KUPO:0001021 kidney corpuscule cell @@ -10847,6 +10327,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any renal cortical epithelial cell that is part of some renal corpuscle. + FBC:Autogenerated + @@ -10873,6 +10359,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any kidney tubule cell that is part of some renal cortex tubule. KUPO:0001024 kidney cortex tubule cell @@ -10883,6 +10370,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any kidney tubule cell that is part of some renal cortex tubule. + FBC:Autogenerated + @@ -10907,6 +10400,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any kidney cortical cell that is part of some juxtaglomerular apparatus. KUPO:0001028 juxtaglomerulus cell @@ -10918,6 +10412,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any kidney cortical cell that is part of some juxtaglomerular apparatus. + FBC:Autogenerated + @@ -10980,6 +10480,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any kidney corpuscule cell that is part of some renal glomerulus. KUPO:0001036 glomerular cell @@ -10989,6 +10490,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any kidney corpuscule cell that is part of some renal glomerulus. + FBC:Autogenerated + @@ -11014,6 +10521,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any nephron tubule epithelial cell that is part of some renal connecting tubule. KUPO:0001058 @@ -11027,6 +10535,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any nephron tubule epithelial cell that is part of some renal connecting tubule. + FBC:Autogenerated + @@ -11051,6 +10565,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any epithelial cell of distal tubule that is part of some distal convoluted tubule. KUPO:0001056 @@ -11064,6 +10579,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any epithelial cell of distal tubule that is part of some distal convoluted tubule. + FBC:Autogenerated + @@ -11135,6 +10656,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any kidney blood vessel cell that is part of some kidney arterial blood vessel. KUPO:0001029 kidney arterial blood vessel cell @@ -11145,6 +10667,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any kidney blood vessel cell that is part of some kidney arterial blood vessel. + FBC:Autogenerated + @@ -11170,11 +10698,18 @@ For example, A and B may be gene products and binding of B by A positively regul + Any kidney blood vessel cell that is part of some kidney capillary. KUPO:0001030 kidney capillary endothelial cell + + + + Any kidney blood vessel cell that is part of some kidney capillary. + FBC:Autogenerated + @@ -11199,6 +10734,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any kidney blood vessel cell that is part of some renal vein. KUPO:0001031 kidney venous blood vessel cell @@ -11209,6 +10745,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any kidney blood vessel cell that is part of some renal vein. + FBC:Autogenerated + @@ -11233,6 +10775,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any nephron tubule epithelial cell that is part of some loop of Henle. KUPO:0001047 kidney loop of Henle epithelial cell @@ -11243,6 +10786,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any nephron tubule epithelial cell that is part of some loop of Henle. + FBC:Autogenerated + @@ -11268,6 +10817,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any kidney loop of Henle epithelial cell that is part of some ascending limb of loop of Henle. KUPO:0001048 @@ -11279,6 +10829,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any kidney loop of Henle epithelial cell that is part of some ascending limb of loop of Henle. + FBC:Autogenerated + @@ -11303,6 +10859,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any kidney loop of Henle epithelial cell that is part of some descending limb of loop of Henle. KUPO:0001053 kidney loop of Henle descending limb epithelial cell @@ -11313,6 +10870,12 @@ For example, A and B may be gene products and binding of B by A positively regul true + + + + Any kidney loop of Henle epithelial cell that is part of some descending limb of loop of Henle. + FBC:Autogenerated + @@ -11448,36 +11011,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms. - GO:0019952 - GO:0050876 - Wikipedia:Reproduction - reproductive physiological process - biological_process - GO:0000003 - - - - - - reproduction - - - - - The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms. - GOC:go_curators - GOC:isa_complete - GOC:jl - ISBN:0198506732 - - - - @@ -12687,7 +12220,6 @@ For example, A and B may be gene products and binding of B by A positively regul - A location, relative to cellular compartments and structures, occupied by a macromolecular machine. There are three types of cellular components described in the gene ontology: (1) the cellular anatomical entity where a gene product carries out a molecular function (e.g., plasma membrane, cytoskeleton) or membrane-enclosed compartments (e.g., mitochondrion); (2) virion components, where viral proteins act, and (3) the stable macromolecular complexes of which gene product are parts (e.g., the clathrin complex). https://github.com/geneontology/go-ontology/issues/17729 @@ -12734,13 +12266,16 @@ For example, A and B may be gene products and binding of B by A positively regul + + + Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'. extracellular region @@ -12786,32 +12321,32 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + A protein complex consisting of three collagen chains assembled into a left-handed triple helix. These trimers typically assemble into higher order structures. Wikipedia:Collagen cellular_component GO:0005581 collagen trimer - + - + - + PMID:12382326 - + PMID:12382326 @@ -12893,7 +12428,6 @@ For example, A and B may be gene products and binding of B by A positively regul - Note that for multicellular organisms, the extracellular space refers to everything outside a cell, but still within the organism (excluding the extracellular matrix). Gene products from a multi-cellular organism that are secreted from a cell into the interstitial fluid or blood can therefore be annotated to this term. extracellular space @@ -12987,12 +12521,14 @@ For example, A and B may be gene products and binding of B by A positively regul + + nucleus @@ -13034,6 +12570,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore. chromosome @@ -13100,7 +12637,9 @@ For example, A and B may be gene products and binding of B by A positively regul + + cytoplasm @@ -13132,11 +12671,13 @@ For example, A and B may be gene products and binding of B by A positively regul + + vacuole @@ -13190,10 +12731,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + Note that the Golgi apparatus can be located in various places in the cytoplasm. In plants and lower animal cells, the Golgi apparatus exists as many copies of discrete stacks dispersed throughout the cytoplasm, while the Golgi apparatus of interphase mammalian cells is a juxtanuclear, often pericentriolar reticulum, where the discrete Golgi stacks are stitched together to form a compact and interconnected ribbon, sometimes called the Golgi ribbon. Golgi apparatus @@ -13239,7 +12782,12 @@ For example, A and B may be gene products and binding of B by A positively regul - + + + + + + @@ -13257,11 +12805,14 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0005840 + + + ribosome @@ -13298,11 +12849,13 @@ For example, A and B may be gene products and binding of B by A positively regul + + cytoskeleton @@ -13385,11 +12938,14 @@ For example, A and B may be gene products and binding of B by A positively regul + + + plasma membrane @@ -13454,7 +13010,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -13605,10 +13160,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + translation @@ -13736,7 +13293,9 @@ For example, A and B may be gene products and binding of B by A positively regul + + Note that this term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term, for e.g. to transmembrane transport, to microtubule-based transport or to vesicle-mediated transport. transport @@ -13997,6 +13556,7 @@ For example, A and B may be gene products and binding of B by A positively regul A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane. + https://github.com/geneontology/go-ontology/issues/27189 jl 2013-12-19T15:25:51Z GO:1902589 @@ -14006,8 +13566,10 @@ For example, A and B may be gene products and binding of B by A positively regul organelle organization and biogenesis single-organism organelle organization GO:0006996 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. organelle organization @@ -14159,13 +13721,14 @@ For example, A and B may be gene products and binding of B by A positively regul cell-division cycle biological_process GO:0007049 - + + cell cycle @@ -14252,10 +13815,6 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0023033 GO:0023045 Wikipedia:Signal_transduction - signal transduction by cis-phosphorylation - signal transduction by conformational transition - signal transduction by protein phosphorylation - signal transduction by trans-phosphorylation signaling cascade signalling cascade biological_process @@ -14266,6 +13825,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Note that signal transduction is defined broadly to include a ligand interacting with a receptor, downstream signaling steps and a response being triggered. A change in form of the signal in every step is not necessary. Note that in many cases the end of this process is regulation of the initiation of transcription. Note that specific transcription factors may be annotated to this term, but core/general transcription machinery such as RNA polymerase should not. signal transduction @@ -14276,12 +13836,6 @@ For example, A and B may be gene products and binding of B by A positively regul GOC:go_curators GOC:mtg_signaling_feb11 - - - - signalling pathway - GOC:mah - @@ -14741,7 +14295,6 @@ For example, A and B may be gene products and binding of B by A positively regul - A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence. https://github.com/geneontology/go-ontology/issues/24968 jl @@ -14781,6 +14334,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation. + https://github.com/geneontology/go-ontology/issues/26424 jl 2012-10-17T15:46:40Z GO:0044236 @@ -14793,11 +14347,13 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process single-organism metabolic process GO:0008152 - + + + Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions. metabolic process @@ -14887,6 +14443,7 @@ For example, A and B may be gene products and binding of B by A positively regul + biosynthetic process @@ -14908,6 +14465,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass. https://github.com/geneontology/go-ontology/issues/15249 https://github.com/geneontology/go-ontology/issues/25418 + https://github.com/geneontology/go-ontology/issues/27189 GO:0043284 biopolymer biosynthetic process macromolecule anabolism @@ -14916,7 +14474,9 @@ For example, A and B may be gene products and binding of B by A positively regul macromolecule synthesis biological_process GO:0009059 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. macromolecule biosynthetic process @@ -15084,7 +14644,7 @@ For example, A and B may be gene products and binding of B by A positively regul embryonal development biological_process GO:0009790 - + embryo development @@ -15355,9 +14915,11 @@ For example, A and B may be gene products and binding of B by A positively regul + + Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children. programmed cell death @@ -15581,10 +15143,12 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process cell organization and biogenesis GO:0016043 + + cellular component organization @@ -15696,6 +15260,7 @@ For example, A and B may be gene products and binding of B by A positively regul + @@ -15867,6 +15432,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways involving a protein. Includes protein modification. https://github.com/geneontology/go-ontology/issues/23112 + https://github.com/geneontology/go-ontology/issues/27189 GO:0006411 GO:0044267 GO:0044268 @@ -15879,11 +15445,14 @@ For example, A and B may be gene products and binding of B by A positively regul multicellular organismal protein metabolic process biological_process GO:0019538 + + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. protein metabolic process @@ -15898,7 +15467,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A type of reproduction that combines the genetic material of two gametes (such as a sperm or egg cell or fungal spores). The gametes have an haploid genome (with a single set of chromosomes, the product of a meiotic division) and combines with one another to produce a zygote (diploid). https://github.com/geneontology/go-ontology/issues/22929 Wikipedia:Sexual_reproduction @@ -15993,6 +15562,7 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process GO:0022402 + cell cycle process @@ -16048,12 +15618,15 @@ For example, A and B may be gene products and binding of B by A positively regul A cellular process that results in the breakdown of a cellular component. + https://github.com/geneontology/go-ontology/issues/27189 GO:0071845 cell structure disassembly cellular component disassembly at cellular level biological_process GO:0022411 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular component disassembly @@ -16068,32 +15641,24 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents. + https://github.com/geneontology/go-ontology/issues/27054 jl 2012-09-19T15:56:06Z GO:0044702 + Wikipedia:Reproduction biological_process single organism reproductive process GO:0022414 + + + + + + + reproductive process @@ -16178,6 +15743,7 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process GO:0022607 + cellular component assembly @@ -16286,11 +15852,13 @@ For example, A and B may be gene products and binding of B by A positively regul single organism signaling GO:0023052 + + Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change. signaling @@ -16499,12 +16067,24 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + The process whose specific outcome is the progression of the myeloid and lymphoid derived organ/tissue systems of the blood and other parts of the body over time, from formation to the mature structure. The site of hemopoiesis is variable during development, but occurs primarily in bone marrow or kidney in many adult vertebrates. https://github.com/geneontology/go-ontology/issues/22178 Wikipedia:Haematopoiesis @@ -16600,6 +16180,7 @@ For example, A and B may be gene products and binding of B by A positively regul + cell differentiation @@ -16921,6 +16502,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0031012 + @@ -17218,6 +16800,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any biological process, occurring at the level of a multicellular organism, pertinent to its function. + https://github.com/geneontology/go-ontology/issues/27189 @@ -17232,6 +16815,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0032501 + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. multicellular organismal process @@ -17272,27 +16856,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - The biological process in which new individuals are produced by one or two multicellular organisms. The new individuals inherit some proportion of their genetic material from the parent or parents. - biological_process - GO:0032504 - - multicellular organism reproduction - - - - - The biological process in which new individuals are produced by one or two multicellular organisms. The new individuals inherit some proportion of their genetic material from the parent or parents. - GOC:isa_complete - GOC:jid - - - - @@ -17398,7 +16961,12 @@ For example, A and B may be gene products and binding of B by A positively regul - + + + + + + A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together. GO:0043234 @@ -17411,6 +16979,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0032991 + @@ -18082,7 +17651,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -18154,10 +17722,12 @@ For example, A and B may be gene products and binding of B by A positively regul cellular_component GO:0042995 + + cell projection @@ -18284,6 +17854,7 @@ For example, A and B may be gene products and binding of B by A positively regul + organelle @@ -18711,7 +18282,10 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process GO:0044238 + + + primary metabolic process @@ -18730,12 +18304,15 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells. + https://github.com/geneontology/go-ontology/issues/27052 cellular anabolism cellular biosynthesis cellular formation cellular synthesis biological_process GO:0044249 + + This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. cellular biosynthetic process @@ -18856,6 +18433,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0045202 + @@ -19278,17 +18856,14 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - The process, occurring above the cellular level, that is pertinent to the reproductive function of a multicellular organism. This includes the integrated processes at the level of tissues and organs. + https://github.com/geneontology/go-ontology/issues/27054 organismal reproductive process reproductive process in a multicellular organism biological_process GO:0048609 + + multicellular organismal reproductive process @@ -19499,6 +19074,7 @@ For example, A and B may be gene products and binding of B by A positively regul + anatomical structure development @@ -19535,6 +19111,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another. https://github.com/geneontology/go-ontology/issues/19809 + cell locomotion movement of a cell biological_process @@ -19542,6 +19119,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0048870 + cell motility @@ -19821,12 +19399,13 @@ For example, A and B may be gene products and binding of B by A positively regul physiological response to stimulus biological_process GO:0050896 - + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. response to stimulus @@ -19845,6 +19424,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation. + https://github.com/geneontology/go-ontology/issues/27052 jl 2013-12-18T13:51:04Z GO:1902578 @@ -19858,6 +19438,7 @@ For example, A and B may be gene products and binding of B by A positively regul single organism localization single-organism localization GO:0051179 + localization @@ -20098,6 +19679,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cellular localization process whereby a substance or cellular entity, such as a protein complex or organelle, is transported to, and/or maintained in, a specific location within a cell including the localization of substances or cellular entities to the cell membrane. + https://github.com/geneontology/go-ontology/issues/27189 jl 2013-12-18T14:04:32Z GO:1902580 @@ -20110,7 +19692,9 @@ For example, A and B may be gene products and binding of B by A positively regul biological_process single-organism cellular localization GO:0051641 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular localization @@ -20336,7 +19920,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus by a cell and ends with a change in state or activity or the cell. biological_process GO:0051716 - + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular response to stimulus @@ -20382,6 +19966,7 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0055085 + @@ -21252,6 +20837,7 @@ For example, A and B may be gene products and binding of B by A positively regul A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component. + https://github.com/geneontology/go-ontology/issues/27189 mah 2010-09-10T01:39:16Z GO:0071841 @@ -21260,8 +20846,10 @@ For example, A and B may be gene products and binding of B by A positively regul cellular component organization or biogenesis at cellular level biological_process GO:0071840 + + Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. cellular component organization or biogenesis @@ -21757,7 +21345,7 @@ For example, A and B may be gene products and binding of B by A positively regul region of plasma membrane cellular_component GO:0098590 - + Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass. plasma membrane region @@ -21809,7 +21397,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -22607,6 +22194,7 @@ For example, A and B may be gene products and binding of B by A positively regul The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon. + https://github.com/geneontology/go-ontology/issues/26424 pr 2012-11-05T11:04:40Z organic molecular entity anabolism @@ -22620,6 +22208,7 @@ For example, A and B may be gene products and binding of B by A positively regul organic substance synthesis biological_process GO:1901576 + organic substance biosynthetic process @@ -23587,7 +23176,6 @@ For example, A and B may be gene products and binding of B by A positively regul - A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities PATO:0000072 quality @@ -25769,70 +25357,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - - - - - - A material entity that minimally consists of a protein. - protein - protein aggregate - protein complex - protein-containing complex - protein - PR:000050567 - Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566). - protein-containing material entity - - - - - A material entity that minimally consists of a protein. - PRO:DAN - - - - - protein - PRO:DAN - - - - - protein aggregate - PRO:DAN - - - - - protein complex - PRO:DAN - - - - - protein-containing complex - PRO:DAN - - - - @@ -25920,6 +25444,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0003193 EMAPA:37283 EV:0100155 + FBbt:00007000 HAO:0000144 MAT:0000023 MESH:D005121 @@ -25952,6 +25477,12 @@ For example, A and B may be gene products and binding of B by A positively regul EMAPA:37283 MA:th + + + + FBbt:00007000 + + @@ -26021,7 +25552,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -26075,14 +25606,14 @@ For example, A and B may be gene products and binding of B by A positively regul ureter https://upload.wikimedia.org/wikipedia/commons/3/30/Urinary_system.svg - + - + GO @@ -26132,7 +25663,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -26180,14 +25711,14 @@ For example, A and B may be gene products and binding of B by A positively regul urethra https://upload.wikimedia.org/wikipedia/commons/c/cb/Female_anatomy.png - + - + Wikipedia @@ -26209,7 +25740,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26231,6 +25761,7 @@ For example, A and B may be gene products and binding of B by A positively regul A tubular structure that transports secreted or excreted substances. AAO:0011123 + FBbt:00100314 FMA:30320 NCIT:C12948 SCTID:91726008 @@ -26256,6 +25787,12 @@ For example, A and B may be gene products and binding of B by A positively regul http://orcid.org/0000-0002-6601-2165 http://www.siumed.edu/~dking2/intro/glands.htm#ducts + + + + FBbt:00100314 + + @@ -26341,6 +25878,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000003 EHDAA2:0003003 EMAPA:0 + FBbt:00007001 FMA:305751 FMA:67135 GAID:781 @@ -26368,6 +25906,12 @@ For example, A and B may be gene products and binding of B by A positively regul Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome. CARO:0000003 + + + + FBbt:00007001 + + @@ -26549,7 +26093,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26597,7 +26140,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26650,7 +26192,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -26684,7 +26225,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -26734,14 +26275,14 @@ For example, A and B may be gene products and binding of B by A positively regul http://upload.wikimedia.org/wikipedia/commons/3/30/Gray1130.svg https://upload.wikimedia.org/wikipedia/commons/2/22/Renal_corpuscle.svg - + - + FMA MA @@ -27004,14 +26545,14 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + @@ -27043,24 +26584,24 @@ For example, A and B may be gene products and binding of B by A positively regul metanephros - + - + - + GO - + ISBN:9780878932504 @@ -27175,8 +26716,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + An epithelial swelling on the Wolffian duct that elongates to invade the adjacent metanephric mesenchyme[MP]. BTO:0001646 EHDAA2:0002140 @@ -27200,11 +26741,11 @@ For example, A and B may be gene products and binding of B by A positively regul ureteric bud - + - + @@ -27217,13 +26758,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 - + ISBN:9780878932504 @@ -27283,7 +26824,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -27325,7 +26865,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -27418,7 +26957,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -27505,7 +27043,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -27556,7 +27093,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -27602,7 +27138,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -27610,7 +27145,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -27646,14 +27181,14 @@ For example, A and B may be gene products and binding of B by A positively regul gastrula stage - + - + BILS @@ -27704,7 +27239,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -27754,7 +27288,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -27915,8 +27448,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + @@ -27942,24 +27475,24 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0000162 cloaca - + - + - + ZFA - + AAO @@ -28000,8 +27533,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + @@ -28019,24 +27552,24 @@ For example, A and B may be gene products and binding of B by A positively regul embryonic cloaca - + - + - + EHDAA2 - + EHDAA2 @@ -28059,7 +27592,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -28098,14 +27631,14 @@ For example, A and B may be gene products and binding of B by A positively regul primitive urogenital sinus http://upload.wikimedia.org/wikipedia/commons/6/6d/Gray1109.png - + - + MP-def @@ -28173,6 +27706,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0001326 EHDAA:542 EMAPA:16262 + FBbt:00003126 FMA:49184 GAID:75 MA:0000341 @@ -28225,6 +27759,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Mouth https://github.com/obophenotype/uberon/wiki/The-digestive-tract + + + + FBbt:00003126 + + @@ -28373,7 +27913,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -28381,15 +27920,15 @@ For example, A and B may be gene products and binding of B by A positively regul - + - - + + A fluid that is composed of blood plasma and erythrocytes. AAO:0000046 @@ -28426,34 +27965,34 @@ For example, A and B may be gene products and binding of B by A positively regul blood - + - + - + - + CL:tm - + https://github.com/obophenotype/uberon/issues/1330 - + Bgee:AN @@ -28939,6 +28478,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000004 EHDAA2:0003004 EMAPA:35178 + FBbt:00007019 FMA:9669 HAO:0000004 MA:0002450 @@ -28968,6 +28508,12 @@ For example, A and B may be gene products and binding of B by A positively regul Material anatomical entity in a gaseous, liquid, semisolid or solid state; produced by anatomical structures or derived from inhaled and ingested substances that have been modified by anatomical structures as they pass through the body. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007019 + + @@ -29022,6 +28568,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000005 CARO:0000005 EHDAA2:0003005 + FBbt:00007017 FMA:5897 HAO:0000005 NCIT:C94478 @@ -29045,6 +28592,12 @@ For example, A and B may be gene products and binding of B by A positively regul Non-material anatomical entity of three dimensions, that is generated by morphogenetic or other physiologic processes; is surrounded by one or more anatomical structures; contains one or more organism substances or anatomical structures. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007017 + + @@ -29064,7 +28617,6 @@ For example, A and B may be gene products and binding of B by A positively regul - Anatomical entity that has mass. @@ -29076,6 +28628,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000006 CARO:0000006 EHDAA2:0003006 + FBbt:00007016 FMA:67165 HAO:0000006 TAO:0001836 @@ -29093,13 +28646,18 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical entity that has mass. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007016 + + - Anatomical entity that has no mass. @@ -29110,6 +28668,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000007 CARO:0000007 EHDAA2:0003007 + FBbt:00007015 FMA:67112 HAO:0000007 TAO:0001835 @@ -29128,6 +28687,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical entity that has no mass. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007015 + + @@ -29170,6 +28735,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:392 EMAPA:16103 EV:0100000 + FBbt:00004856 FMA:7149 HAO:0000011 MA:0000003 @@ -29211,6 +28777,12 @@ For example, A and B may be gene products and binding of B by A positively regul system GO:0048731 + + + + FBbt:00004856 + + @@ -29262,6 +28834,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:1 EMAPA:25765 EV:0100016 + FBbt:00000001 FMA:256135 HAO:0000012 NCIT:C13041 @@ -29306,6 +28879,12 @@ For example, A and B may be gene products and binding of B by A positively regul VHOG:0000671 WBbt:0007833 + + + + FBbt:00000001 + + @@ -29410,6 +28989,7 @@ For example, A and B may be gene products and binding of B by A positively regul EFO:0000808 EHDAA2:0003032 EMAPA:36031 + FBbt:00007009 FMA:7153 HAO:0000032 MA:0002433 @@ -29452,6 +29032,12 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:DOS http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007009 + + @@ -29493,6 +29079,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000040 CARO:0000040 EHDAA2:0003040 + FBbt:00007013 FMA:63863 HAO:0000040 TAO:0000382 @@ -29518,6 +29105,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical structure that consists of cell parts and cell substances and together does not constitute a cell or a tissue. http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007013 + + @@ -29536,6 +29129,7 @@ For example, A and B may be gene products and binding of B by A positively regul + FBbt:00007277 VHOG:0001737 uberon UBERON:0000477 @@ -29549,6 +29143,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical group whose component anatomical structures lie in close proximity to each other. FBbt:00007277 + + + + FBbt:00007277 + + @@ -29582,6 +29182,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000043 EHDAA2:0003043 EMAPA:35868 + FBbt:00007003 FMA:9637 HAO:0000043 MA:0003002 @@ -29617,6 +29218,12 @@ For example, A and B may be gene products and binding of B by A positively regul Multicellular anatomical structure that consists of many cells of one or a few types, arranged in an extracellular matrix such that their long-range organisation is at least partly a repetition of their short-range organisation. CARO:0000043 + + + + FBbt:00007003 + + @@ -29657,6 +29264,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000055 CARO:0000055 EHDAA2:0003055 + FBbt:00007010 HAO:0000055 TAO:0001488 TGMA:0001847 @@ -29683,6 +29291,12 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000055 http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007010 + + @@ -29707,7 +29321,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -29721,7 +29334,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -29738,6 +29351,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0000066 EHDAA2:0003066 EMAPA:32738 + FBbt:00007005 FMA:9639 GAID:402 HAO:0000066 @@ -29762,14 +29376,14 @@ For example, A and B may be gene products and binding of B by A positively regul epithelium https://upload.wikimedia.org/wikipedia/commons/8/8f/Illu_epithelium.jpg - + - + http://palaeos.com/metazoa/porifera/homoscleromorpha.html @@ -29779,6 +29393,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Epithelium http://orcid.org/0000-0001-9114-8737 + + + + FBbt:00007005 + + @@ -29807,6 +29427,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000068 CARO:0000068 EHDAA2_RETIRED:0003068 + FBbt:00007027 FMA:45567 HAO:0000068 NCIT:C33552 @@ -29846,6 +29467,12 @@ For example, A and B may be gene products and binding of B by A positively regul columnar epithlium AEO:0000068 + + + + FBbt:00007027 + + @@ -30223,6 +29850,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2_RETIRED:0003236 EHDAA:38 EMAPA:16039 + FBbt:00000052 FMA:69068 GAID:963 MAT:0000226 @@ -30260,6 +29888,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0009790 Wikipedia:Embryo + + + + FBbt:00000052 + + @@ -30297,6 +29931,7 @@ For example, A and B may be gene products and binding of B by A positively regul BILA:0000035 BTO:0000556 EMAPA:36033 + FBbt:00000110 FMA:69069 GAID:1303 MESH:D005855 @@ -30333,6 +29968,12 @@ For example, A and B may be gene products and binding of B by A positively regul embryonic tissue FMA:69069 + + + + FBbt:00000110 + + @@ -30371,7 +30012,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue. AAO:0000137 BILA:0000036 @@ -30381,6 +30022,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000428 EMAPA:16069 EV:0100003 + FBbt:00000111 FMA:69070 GAID:1304 MAT:0000155 @@ -30405,14 +30047,14 @@ For example, A and B may be gene products and binding of B by A positively regul ectoderm http://upload.wikimedia.org/wikipedia/commons/1/19/Gray32.png - + - + Bgee:AN @@ -30421,6 +30063,12 @@ For example, A and B may be gene products and binding of B by A positively regul Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue. Wikipedia:Ectoderm + + + + FBbt:00000111 + + @@ -30446,7 +30094,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut. AAO:0000139 BILA:0000038 @@ -30456,6 +30104,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000436 EMAPA:16062 EV:0100005 + FBbt:00000125 FMA:69071 GAID:1305 MAT:0000175 @@ -30480,14 +30129,14 @@ For example, A and B may be gene products and binding of B by A positively regul http://upload.wikimedia.org/wikipedia/commons/c/c0/Endoderm2.png http://upload.wikimedia.org/wikipedia/commons/d/df/Gray10.png - + - + Bgee:AN @@ -30496,6 +30145,12 @@ For example, A and B may be gene products and binding of B by A positively regul Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut. Wikipedia:Endoderm + + + + FBbt:00000125 + + @@ -30522,7 +30177,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The middle germ layer of the embryo, between the endoderm and ectoderm. UBERON:0003263 @@ -30537,6 +30192,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:183 EMAPA:16083 EV:0100006 + FBbt:00000126 FMA:69072 GAID:522 MAT:0000174 @@ -30562,14 +30218,14 @@ For example, A and B may be gene products and binding of B by A positively regul mesoderm http://upload.wikimedia.org/wikipedia/commons/e/e8/Mesoderm.png - + - + Bgee:AN @@ -30578,6 +30234,12 @@ For example, A and B may be gene products and binding of B by A positively regul The middle germ layer of the embryo, between the endoderm and ectoderm. Wikipedia:Mesoderm + + + + FBbt:00000126 + + @@ -30628,6 +30290,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0004224 EHDAA2:0001929 EMAPA:16263 + FBbt:00000439 FMA:295846 NCIT:C34306 TAO:0001290 @@ -30666,6 +30329,12 @@ For example, A and B may be gene products and binding of B by A positively regul stomodeal-hypophyseal primordium XAO:0000269 + + + + FBbt:00000439 + + @@ -30722,7 +30391,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -30746,6 +30415,7 @@ For example, A and B may be gene products and binding of B by A positively regul AAO:0011087 EHDAA2:0000121 EMAPA:25038 + FBbt:00000123 NCIT:C34278 TAO:0000066 UMLS:C0231054 @@ -30764,7 +30434,7 @@ For example, A and B may be gene products and binding of B by A positively regul proctodeum https://github.com/obophenotype/uberon/issues/685 - + @@ -30777,7 +30447,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 @@ -30788,6 +30458,12 @@ For example, A and B may be gene products and binding of B by A positively regul https://github.com/obophenotype/uberon/issues/685 https://sourceforge.net/p/fbbtdv/tickets/52 + + + + FBbt:00000123 + + @@ -30833,7 +30509,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -30905,14 +30581,14 @@ For example, A and B may be gene products and binding of B by A positively regul https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_F_Heart.glb https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_M_Heart.glb - + - + MA @@ -31136,7 +30812,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -31151,7 +30827,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -31180,6 +30856,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:5923 EMAPA:17381 EV:0100100 + FBbt:00004857 FMA:7160 GAID:363 HAO:0000374 @@ -31221,6 +30898,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical system that has as its parts the organs concerned with reproduction. Wikipedia:Reproductive_system + + + + FBbt:00004857 + + @@ -31396,6 +31079,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000058 CALOHA:TS-1293 EFO:0000793 + FBbt:00005055 FMA:7152 GAID:278 MA:0002431 @@ -31432,6 +31116,12 @@ For example, A and B may be gene products and binding of B by A positively regul NLM:alimentary+system Wikipedia:Digestive_system + + + + FBbt:00005055 + + @@ -31483,6 +31173,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:5901 EMAPA:17366 EV:0100095 + FBbt:00005056 FMA:7159 GAID:391 MA:0000325 @@ -31535,6 +31226,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Acoelomorpha + + + + FBbt:00005056 + + @@ -31745,7 +31442,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -31763,6 +31460,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:826 EMAPA:16469 EV:0100162 + FBbt:00005093 FMA:7157 GAID:466 MA:0000016 @@ -31794,14 +31492,14 @@ For example, A and B may be gene products and binding of B by A positively regul http://upload.wikimedia.org/wikipedia/commons/b/b2/TE-Nervous_system_diagram.svg http://upload.wikimedia.org/wikipedia/commons/b/ba/Nervous_system_diagram.png - + - + Bgee:AN @@ -31816,6 +31514,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Nervous_system ZFIN:curator + + + + FBbt:00005093 + + @@ -31861,7 +31565,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the neural tube derivatives: the brain and spinal cord. In invertebrates it includes central ganglia plus nerve cord. @@ -31877,6 +31581,7 @@ For example, A and B may be gene products and binding of B by A positively regul EMAPA:16470 EMAPA:16754 EV:0100163 + FBbt:00005094 FMA:55675 GAID:570 MA:0000167 @@ -31905,7 +31610,7 @@ For example, A and B may be gene products and binding of B by A positively regul central nervous system - + @@ -31919,7 +31624,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Bgee:AN @@ -31936,6 +31641,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Acoelomorpha + + + + FBbt:00005094 + + @@ -31984,6 +31695,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000557 EHDAA:520 EMAPA:16548 + FBbt:00005379 FMA:45616 MA:0001526 NCIT:C34180 @@ -32009,6 +31721,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anterior subdivision of a digestive tract. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005379 + + @@ -32050,6 +31768,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0001185 EHDAA:983 EMAPA:16255 + FBbt:00005383 FMA:45617 MA:0001564 NCIT:C34210 @@ -32076,6 +31795,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0007494 Wikipedia:Midgut + + + + FBbt:00005383 + + @@ -32096,7 +31821,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -32111,6 +31836,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000779 EHDAA:975 EMAPA:16715 + FBbt:00005384 FMA:45618 MA:0001527 NCIT:C34188 @@ -32129,14 +31855,14 @@ For example, A and B may be gene products and binding of B by A positively regul hindgut http://upload.wikimedia.org/wikipedia/commons/f/f7/Gray472.png - + - + Wikipedia @@ -32145,6 +31871,12 @@ For example, A and B may be gene products and binding of B by A positively regul The caudalmost subdivision of a digestive tract. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005384 + + @@ -32176,6 +31908,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001886 EFO:0001652 EHDAA2:0003171 + FBbt:00005495 FMA:86589 MAT:0000482 NCIT:C34275 @@ -32209,6 +31942,12 @@ For example, A and B may be gene products and binding of B by A positively regul FB:FBrf0089570 http://flybase.org/reports/FBrf0178740.html + + + + FBbt:00005495 + + @@ -32319,6 +32058,7 @@ For example, A and B may be gene products and binding of B by A positively regul BIRNLEX:6 CARO:0000000 EHDAA2:0002229 + FBbt:10000000 FMA:62955 HAO:0000000 MA:0000001 @@ -32342,6 +32082,12 @@ For example, A and B may be gene products and binding of B by A positively regul FMA:62955 http://orcid.org/0000-0001-9114-8737 + + + + FBbt:10000000 + + @@ -32614,14 +32360,14 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + @@ -32673,24 +32419,24 @@ For example, A and B may be gene products and binding of B by A positively regul renal pelvis https://upload.wikimedia.org/wikipedia/commons/c/c0/Illu_kidney2.jpg - + - + - + MA - + FMA @@ -32736,7 +32482,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -32772,14 +32518,14 @@ For example, A and B may be gene products and binding of B by A positively regul https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_M_Kidney_R.glb https://upload.wikimedia.org/wikipedia/commons/6/69/Illu_kidney.jpg - + - + FMA @@ -32815,7 +32561,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -32860,14 +32606,14 @@ For example, A and B may be gene products and binding of B by A positively regul renal corpuscle https://upload.wikimedia.org/wikipedia/commons/2/22/Renal_corpuscle.svg - + - + MA ZFA @@ -32941,7 +32687,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -32983,14 +32729,14 @@ For example, A and B may be gene products and binding of B by A positively regul glomerular capsule http://upload.wikimedia.org/wikipedia/commons/3/30/Gray1130.svg - + - + Wikipedia @@ -33080,10 +32826,10 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + @@ -33127,7 +32873,7 @@ For example, A and B may be gene products and binding of B by A positively regul nephron tubule - + @@ -33136,14 +32882,14 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + GO MA ZFA @@ -33157,7 +32903,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + ZFA @@ -33318,6 +33064,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0001680 CALOHA:TS-2005 EV:0100082 + FBbt:00047153 FMA:15711 GAID:312 MA:0000331 @@ -33349,6 +33096,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Anus ZFIN:curator + + + + FBbt:00047153 + + @@ -33364,7 +33117,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -33411,7 +33164,7 @@ For example, A and B may be gene products and binding of B by A positively regul https://ccf-ontology.hubmapconsortium.org/objects/v1.2/VH_M_Urinary_Bladder.glb https://upload.wikimedia.org/wikipedia/commons/3/30/Urinary_system.svg - + @@ -33424,7 +33177,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + FMA @@ -33554,7 +33307,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -33567,7 +33320,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The basic functional unit of the kidney. its chief function is to regulate the concentration of water and soluble substances like sodium salts by filtering the blood, reabsorbing what is needed and excreting the rest as urine. A nephron eliminates wastes from the body, regulates blood volume and blood pressure, controls levels of electrolytes and metabolites, and regulates blood pH. Its functions are vital to life and are regulated by the endocrine system by hormones such as antidiuretic hormone, aldosterone, and parathyroid hormone.[WP]. kidney terms require review for cross-vertebrate compatibility and developmental relationships. @@ -33598,24 +33351,24 @@ For example, A and B may be gene products and binding of B by A positively regul nephron http://upload.wikimedia.org/wikipedia/commons/0/02/Gray1128.png - + - + - + FMA - + Bgee:AN @@ -33666,14 +33419,14 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + @@ -33709,11 +33462,11 @@ For example, A and B may be gene products and binding of B by A positively regul proximal convoluted tubule http://upload.wikimedia.org/wikipedia/commons/0/02/Gray1128.png - + - + @@ -33726,13 +33479,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + GO - + Wikipedia @@ -33864,7 +33617,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -33891,7 +33644,7 @@ For example, A and B may be gene products and binding of B by A positively regul descending limb of loop of Henle http://upload.wikimedia.org/wikipedia/commons/0/02/Gray1128.png - + @@ -33904,7 +33657,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + FMA @@ -33928,14 +33681,14 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + @@ -33974,11 +33727,11 @@ For example, A and B may be gene products and binding of B by A positively regul proximal straight tubule - + - + @@ -33991,13 +33744,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + MA - + MA @@ -34039,7 +33792,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -34075,7 +33828,7 @@ For example, A and B may be gene products and binding of B by A positively regul distal convoluted tubule https://upload.wikimedia.org/wikipedia/commons/2/21/Kidney_nephron.png - + @@ -34088,7 +33841,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EMAPA GO MA-modified-from-isa @@ -34363,7 +34116,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -34386,14 +34139,14 @@ For example, A and B may be gene products and binding of B by A positively regul kidney arcuate artery https://upload.wikimedia.org/wikipedia/commons/8/87/2610_The_Kidney.jpg - + - + MA @@ -34434,7 +34187,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A tube extending from the mouth to the anus. @@ -34447,6 +34200,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA2:0000726 EHDAA:518 EMAPA:16247 + FBbt:00003125 FMA:45615 MA:0000917 NCIT:C34082 @@ -34470,14 +34224,14 @@ For example, A and B may be gene products and binding of B by A positively regul digestive tract - + - + NCBIBook:NBK10107 @@ -34499,6 +34253,12 @@ For example, A and B may be gene products and binding of B by A positively regul DOI:10.1371/journal.pone.0016309 + + + + FBbt:00003125 + + @@ -34872,7 +34632,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35100,7 +34859,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -35109,8 +34867,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + @@ -35123,7 +34881,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -35177,34 +34935,34 @@ For example, A and B may be gene products and binding of B by A positively regul blood vessel http://upload.wikimedia.org/wikipedia/commons/2/29/Circulatory_System_en.svg - + - + - + - + AEO - + EHDAA2 - + GO:0072360 @@ -35488,6 +35246,7 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000174 CALOHA:TS-2110 EFO:0000461 + FBbt:00004208 FMA:69067 GAID:407 MESH:D004628 @@ -35518,6 +35277,12 @@ For example, A and B may be gene products and binding of B by A positively regul BTO:0000174 ZFIN:curator + + + + FBbt:00004208 + + @@ -36054,7 +35819,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -36106,14 +35871,14 @@ For example, A and B may be gene products and binding of B by A positively regul kidney - + - + FMA @@ -36148,8 +35913,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + @@ -36187,11 +35952,11 @@ For example, A and B may be gene products and binding of B by A positively regul Once the more complex mesonephros forms the pronephros undergoes apoptosis in amphibians. In fishes the nephron degenerates but the organ remains and becomes a component of the immune system[Wikipedia:Pronephros]. // TODO - check developmental relationships. Note that we previously include the ZFA/XAO terms under the more specific 'pronephric kidney', but these are now merged. TODO GCI: relationship: capable_of GO:0030104 pronephros - + - + @@ -36204,13 +35969,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + OG - + ZFA @@ -36536,9 +36301,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + @@ -36557,7 +36321,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + An anatomical structure which consists of juxtaglomerular cells, extraglomerular mesangial cells and the macula densa. The juxtaglomerular apparatus lies adjacent to the glomerulus and regulates kidney function by maintaining the blood flow to the kidney and the filtration rate[GO]. a microscopic structure in the kidney, which regulates the function of each nephron. The juxtaglomerular apparatus is named for its proximity to the glomerulus: it is found between the vascular pole of the renal corpuscle and the returning distal convoluted tubule of the same nephron. This location is critical to its function in regulating renal blood flow and glomerular filtration rate. The three cellular components of the apparatus are the macula densa, extraglomerular mesangial cells, and juxtaglomerular cells (also known as granular cells)[WP]. BTO:0005157 @@ -36579,24 +36343,24 @@ For example, A and B may be gene products and binding of B by A positively regul juxtaglomerular apparatus - + - + - + MA - + GO @@ -36720,8 +36484,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + @@ -36738,24 +36502,24 @@ For example, A and B may be gene products and binding of B by A positively regul EDITOR_NOTE check MA part_ofs - should be spatially disjoint from renal glomerulus? extraglomerular mesangium - + - + - + MA - + MA @@ -36790,6 +36554,7 @@ For example, A and B may be gene products and binding of B by A positively regul AEO:0000186 BTO:0001707 EHDAA2:0000267 + FBbt:00005060 FMA:85006 NCIT:C25444 RETIRED_EHDAA2:0003186 @@ -36826,6 +36591,12 @@ For example, A and B may be gene products and binding of B by A positively regul body cavity BTO:0001707 + + + + FBbt:00005060 + + @@ -36890,9 +36661,9 @@ For example, A and B may be gene products and binding of B by A positively regul - - - + + + @@ -36940,15 +36711,15 @@ For example, A and B may be gene products and binding of B by A positively regul notochord http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + - + @@ -36967,19 +36738,19 @@ For example, A and B may be gene products and binding of B by A positively regul - + http://tolweb.org/Chordata/2499 - + ZFA - + EHDAA2 @@ -37019,8 +36790,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + Somites are spheres of epithelial cells that form sequentially along the anterior-posterior axis of the embryo through mesenchymal to epithelial transition of the presomitic mesoderm. mesodermal cluster @@ -37058,11 +36829,11 @@ For example, A and B may be gene products and binding of B by A positively regul somite http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + @@ -37075,13 +36846,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + GOTAX:0000352 - + ZFA @@ -37141,8 +36912,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + The macula densa is an area of specialized cells in the distal tubule that makes contact with the vascular pole of the glomerulus[GO]. BTO:0003940 @@ -37160,24 +36931,24 @@ For example, A and B may be gene products and binding of B by A positively regul macula densa - + - + - + MA - + GO @@ -37202,22 +36973,22 @@ For example, A and B may be gene products and binding of B by A positively regul - + - - + + - + A specialized region of ectoderm found between the neural ectoderm (neural plate) and non-neural ectoderm and composed of highly migratory pluripotent cells that delaminate in early embryonic development from the dorsal neural tube and give rise to an astounding variety of differentiated cell types[MP]. AAO:0010578 BTO:0001764 @@ -37250,45 +37021,45 @@ For example, A and B may be gene products and binding of B by A positively regul http://upload.wikimedia.org/wikipedia/commons/5/5f/Gray644.png https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png - + - + - + - + - + XAO https://github.com/obophenotype/uberon/wiki/The-neural-crest - + BTO - + PMID:11523831 - + PMID:11523831 @@ -37346,6 +37117,7 @@ For example, A and B may be gene products and binding of B by A positively regul EHDAA:255 EMAPA:16073 EV:0100004 + FBbt:00001057 FMA:87657 MAT:0000176 MIAA:0000176 @@ -37374,6 +37146,12 @@ For example, A and B may be gene products and binding of B by A positively regul Embryonic ectoderm that gives rise to nervous tissue. Wikipedia:Neuroectoderm + + + + FBbt:00001057 + + @@ -37645,7 +37423,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -37698,14 +37476,14 @@ For example, A and B may be gene products and binding of B by A positively regul hematopoietic system - + - + FMA @@ -37923,7 +37701,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form. AAO:0011086 EFO:0001982 @@ -37946,14 +37724,14 @@ For example, A and B may be gene products and binding of B by A positively regul presomitic mesoderm - + - + Bgee:AN @@ -37994,8 +37772,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + In mammals, the pronephric duct is the predecessor of the Wolffian duct[WP]. AAO:0011088 NCIT:C34279 @@ -38014,11 +37792,11 @@ For example, A and B may be gene products and binding of B by A positively regul The pronephric duct collects the filtrate from the pronephric tubules and opens to the exterior of the pronephric kidney[GOC:mtg_kidney_jan10, PMID:15647339, XAO:0000063, ZFA:0000150] pronephric duct - + - + @@ -38031,13 +37809,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + Wikipedia - + XAO @@ -38143,9 +37921,9 @@ For example, A and B may be gene products and binding of B by A positively regul - - - + + + @@ -38184,34 +37962,34 @@ For example, A and B may be gene products and binding of B by A positively regul intermediate mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + - + - + AAO - + EMAPA - + XAO @@ -38320,7 +38098,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Paired organ that connects the primitive kidney Wolffian body (or mesonephros) to the cloaca and serves as the anlage for certain male reproductive organs. the Wolffian duct is what remains of the pronephric duct after the atrophy of the pronephros[WP]. In Zebrafish: Duct of the adult kidney (mesonephros), present bilaterally ventral to the somites and leading to the cloacal chamber[ZFA]. Consider adding subclasses for male and female specific variants TODO - mesonephric portion of the nephric duct @@ -38349,7 +38127,7 @@ For example, A and B may be gene products and binding of B by A positively regul mesonephric duct http://upload.wikimedia.org/wikipedia/commons/6/6d/Gray1109.png - + @@ -38362,7 +38140,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 @@ -38416,9 +38194,9 @@ For example, A and B may be gene products and binding of B by A positively regul - - - + + + A region of embryonic ectodermal cells that lie directly above the notochord. During neurulation, they change shape and produce an infolding of the neural plate (the neural fold) that then seals to form the neural tube[XAO]. The earliest recognizable dorsal ectodermal primordium of the central nervous system present near the end of gastrulation before infolding to form the neural keel; consists of a thickened pseudostratified epithelium[ZFA]. AAO:0011072 BTO:0001765 @@ -38447,34 +38225,34 @@ For example, A and B may be gene products and binding of B by A positively regul neural plate https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png - + - + - + - + GOTAX:0000352 - + Wikipedia - + Bgee:AN @@ -38514,7 +38292,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The paraxial mesoderm is the mesoderm located bilaterally adjacent to the notochord and neural tube[GO]. AAO:0010568 EFO:0003515 @@ -38540,7 +38318,7 @@ For example, A and B may be gene products and binding of B by A positively regul paraxial mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + @@ -38553,7 +38331,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Bgee:AN @@ -38600,7 +38378,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -38640,7 +38418,7 @@ For example, A and B may be gene products and binding of B by A positively regul lateral plate mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + @@ -38653,7 +38431,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 VHOG @@ -38703,15 +38481,15 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + - + Bilateral groups of cells consisting of three rows: one row of endocardial precursors medially and two rows of myocardical precursors laterally. The two populations fuse at the midline to form the heart rudiment or cone. should probably be merged with heart rudiment. AAO:0011044 @@ -38728,15 +38506,15 @@ For example, A and B may be gene products and binding of B by A positively regul heart primordium - + - + - + @@ -38749,19 +38527,19 @@ For example, A and B may be gene products and binding of B by A positively regul - + ZFA - + ZFA - + XAO @@ -38790,8 +38568,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + Ventral somitic compartment that is a precursor of the axial skeleton[XAO]. Sclerotomes eventually differentiate into the vertebrae and most of the skull. The caudal (posterior) half of one sclerotome fuses with the rostral (anterior) half of the adjacent one to form each vertebra. From their initial location within the somite, the sclerotome cells migrate medially towards the notochord. These cells meet the sclerotome cells from the other side to form the vertebral body. From this vertebral body, sclerotome cells move dorsally and surround the developing spinal cord, forming the vertebral arch[WP]. AAO:0010571 AEO:0000212 @@ -38815,11 +38593,11 @@ For example, A and B may be gene products and binding of B by A positively regul sclerotome http://upload.wikimedia.org/wikipedia/commons/9/96/Gray65.png - + - + @@ -38838,13 +38616,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + VHOG:0000680 - + ZFA @@ -39005,7 +38783,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -39015,7 +38793,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + An organ involved in reproduction. @@ -39089,7 +38867,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -39115,14 +38893,14 @@ For example, A and B may be gene products and binding of B by A positively regul Genes: The positional specification of the metanephrogenic mesenchyme is negatively regulated by Foxc1 and Foxc2. Next the permanent kidney forming metanephrogenic mesenchyme is specified by Hox11 genes. The competence to respond to ureteric bud inducers is regulated by WT1. GDNF secretion restricted to posterior region by Robo2 and Sprouty1. The receptors for GDNF are synthesized in the nephric ducts and later in ureteric buds [ISBN:9780878932504 "Developmental Biology"] metanephric mesenchyme - + - + ISBN:9780878932504 @@ -39810,7 +39588,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The part of the coelom in the embryo between the somatopleuric and splanchnopleuric mesoderm; the principal body cavities of the trunk (thoracic, abdominal, and pelvic) arise from this embryonic part of the coelom. consider merging with coelom. TODO - add spatial relationships to halves of LPM. Note the OG places XAO and ZFA coelem terms here. editor note: TODO check ZFA, which appears to be a structure present in adults EHDAA:251 @@ -39825,14 +39603,14 @@ For example, A and B may be gene products and binding of B by A positively regul intraembryonic coelom - + - + Wikipedia @@ -39917,6 +39695,7 @@ For example, A and B may be gene products and binding of B by A positively regul Epithelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues, with tube shape and organization varying from the single-celled excretory organ in Caenorhabditis elegans to the branching trees of the mammalian kidney and insect tracheal system. AEO:0000114 EHDAA2:0003114 + FBbt:00007474 epithelial or endothelial tube uberon UBERON:0003914 @@ -39929,6 +39708,12 @@ For example, A and B may be gene products and binding of B by A positively regul GO:0060562 PMID:12526790 + + + + FBbt:00007474 + + @@ -40405,8 +40190,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + In mammals, the proximal tubule is a nephron tubule that connects Bowman's capsule to the loop of Henle. It has a brush border epithelial morphology[GO]. TODO - ensure definition works across species. @@ -40423,24 +40208,24 @@ For example, A and B may be gene products and binding of B by A positively regul proximal tubule - + - + - + GO - + GO @@ -40499,7 +40284,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The intermediate tubule is a nephron tubule that lies between the proximal and distal tubules. TODO - check for applicability across species FMA:17718 @@ -40509,14 +40294,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0004136 intermediate tubule - + - + FMA @@ -40592,8 +40377,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + A specific region of the lateral mesoderm that will form the primary beating heart tube. In mammals the primary heart field gives rise to the left ventricle. XAO:0004185 first heart field @@ -40605,24 +40390,24 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0004140 primary heart field - + - + - + GO:0003128 - + https://orcid.org/0000-0003-3308-6245 @@ -40675,7 +40460,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + An epithelial tube that will give rise to the mature heart. AAO:0010411 EFO:0003526 @@ -40694,14 +40479,14 @@ For example, A and B may be gene products and binding of B by A positively regul heart tube - + - + ZFA-modified @@ -40923,8 +40708,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + The comma-shaped body is the precursor structure to the S-shaped body that contributes to the morphogenesis of the nephron. EMAPA:27681 ZFA:0005588 @@ -40934,24 +40719,24 @@ For example, A and B may be gene products and binding of B by A positively regul comma-shaped body - + - + - + cjm - + ZFA @@ -40973,8 +40758,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + The S-shaped body is the successor of the comma-shaped body that contributes to the morphogenesis of the nephron. TODO EMAPA:27756 @@ -40986,24 +40771,24 @@ For example, A and B may be gene products and binding of B by A positively regul S-shaped body - + - + - + cjm - + GO @@ -41415,7 +41200,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -41453,14 +41238,14 @@ For example, A and B may be gene products and binding of B by A positively regul glomerular capillary - + - + https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -41706,7 +41491,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -41803,7 +41587,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -41845,7 +41628,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -41887,7 +41669,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -42004,7 +41785,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -42041,14 +41822,14 @@ For example, A and B may be gene products and binding of B by A positively regul renal afferent arteriole http://upload.wikimedia.org/wikipedia/commons/0/02/Gray1128.png - + - + Wikipedia @@ -42297,6 +42078,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0007012 BILA:0000060 BTO:0001403 + FBbt:00005317 FMA:293108 GAID:1302 MESH:D005775 @@ -42328,6 +42110,12 @@ For example, A and B may be gene products and binding of B by A positively regul Wikipedia:Gastrula Wikipedia:Trilaminar_blastocyst + + + + FBbt:00005317 + + @@ -42401,7 +42189,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Organ consisting of skeletal tissue. Encompasses whole bones, fused bones, cartilaginious elements, teeth, dermal denticles. AAO:0011129 TAO:0001890 @@ -42415,14 +42203,14 @@ For example, A and B may be gene products and binding of B by A positively regul skeletal element - + - + VSAO @@ -42449,7 +42237,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -42488,14 +42276,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0004770 articular system - + - + FMA @@ -42793,7 +42581,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -42814,14 +42602,14 @@ For example, A and B may be gene products and binding of B by A positively regul somatopleure http://upload.wikimedia.org/wikipedia/commons/2/28/Gray16.png - + - + EHDAA2 @@ -42887,9 +42675,9 @@ For example, A and B may be gene products and binding of B by A positively regul - - - + + + @@ -42909,34 +42697,34 @@ For example, A and B may be gene products and binding of B by A positively regul urogenital fold - + - + - + - + EHDAA2 - + Wikipedia - + EHDAA2 @@ -43039,6 +42827,7 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts. + FBbt:00005811 joint uberon UBERON:0004905 @@ -43051,6 +42840,12 @@ For example, A and B may be gene products and binding of B by A positively regul Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005811 + + @@ -43083,6 +42878,7 @@ For example, A and B may be gene products and binding of B by A positively regul A proximal-distal subdivision of the digestive tract. + FBbt:00100315 FMA:71131 uberon alimentary system subdivision @@ -43101,6 +42897,12 @@ For example, A and B may be gene products and binding of B by A positively regul A proximal-distal subdivision of the digestive tract. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00100315 + + @@ -43397,7 +43199,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Missing definition for term UBERON:0005095. Please replace it using linked reference. class added for consistency with GO - consider merging with kidney mesenchyme. uberon @@ -43405,14 +43207,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0005095 kidney rudiment - + - + GO @@ -43528,7 +43330,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The connecting tubule is a tubular segment of the nephron; it connects the distal convoluted tubule to the collecting duct[GO]. BTO:0004539 @@ -43546,14 +43348,14 @@ For example, A and B may be gene products and binding of B by A positively regul renal connecting tubule http://upload.wikimedia.org/wikipedia/commons/0/02/Gray1128.png - + - + Wikipedia @@ -44284,7 +44086,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Mesenchyme that is part of a developing trunk. EFO:0003485 EHDAA2:0002092 @@ -44300,14 +44102,14 @@ For example, A and B may be gene products and binding of B by A positively regul trunk mesenchyme - + - + EHDAA2 @@ -44387,6 +44189,7 @@ For example, A and B may be gene products and binding of B by A positively regul AEO:0000125 CALOHA:TS-2122 EHDAA2:0003125 + FBbt:00007006 FMA:292313 MIAA:0000019 uberon @@ -44397,6 +44200,12 @@ For example, A and B may be gene products and binding of B by A positively regul developing anatomical structure + + + + FBbt:00007006 + + @@ -44417,7 +44226,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Multi-tissue structure that arises from the heart rudiment and will become the heart tube. EHDAA2:0001512 EHDAA:424 @@ -44435,14 +44244,14 @@ For example, A and B may be gene products and binding of B by A positively regul primitive heart tube - + - + ZFA @@ -44470,7 +44279,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -44497,7 +44306,7 @@ For example, A and B may be gene products and binding of B by A positively regul gonad primordium - + @@ -44510,7 +44319,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + ZFA @@ -44569,14 +44378,14 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + A mesoderm that has the potential to develop into a pronephros. AAO:0011090 EFO:0003479 @@ -44594,24 +44403,24 @@ For example, A and B may be gene products and binding of B by A positively regul the intermediate mesoderm of the chick embryo acquires its ability to form kidneys through its interactions with the paraxial mesoderm [ISBN:9780878932504 "Developmental Biology", PMID:10720431 "Signals from trunk paraxial mesoderm induce pronephros formation in chick intermediate mesoderm"]. These interactions induce the expression of TFs including Lim1, Pax2 and Pax6 that cause the intermediate mesoderm to form the kidney pronephric mesoderm - + - + - + ZFA - + Bgee:AN @@ -44658,7 +44467,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -44675,14 +44484,14 @@ For example, A and B may be gene products and binding of B by A positively regul glomerular tuft - + - + Wikipedia @@ -44822,7 +44631,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -44933,7 +44741,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -44961,14 +44769,14 @@ For example, A and B may be gene products and binding of B by A positively regul glomerular basement membrane http://upload.wikimedia.org/wikipedia/commons/d/de/PhysiologieGlom%C3%A9rulaire.png - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -45053,7 +44861,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A delimited region of dense mesenchyme within looser mesenchyme. AEO:0000148 EHDAA2_RETIRED:0003148 @@ -45063,7 +44871,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0005856 developing mesenchymal condensation - + @@ -45082,7 +44890,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + AEO-modified-relation @@ -45179,7 +44987,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -45218,14 +45026,14 @@ For example, A and B may be gene products and binding of B by A positively regul cloacal membrane http://upload.wikimedia.org/wikipedia/commons/d/d2/Gray991.png - + - + Wikipedia @@ -45259,7 +45067,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The notochordal plate is the dorsal part of the notochordal process when the ventral portion breaks down. It is continuous laterally with the endoderm that composes the roof of the primitive foregut and is in contact dorsally with the neural tube. The folding off of the notochordal plate gives rise to the notochord. TODO - check ordering; awaiting confirmation from JB EHDAA2:0001278 @@ -45273,7 +45081,7 @@ For example, A and B may be gene products and binding of B by A positively regul notochordal plate - + @@ -45286,7 +45094,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 @@ -45314,7 +45122,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A midline cellular cord formed from the migration of mesenchymal cells from the primitive knot. EHDAA2:0001279 EHDAA:224 @@ -45331,14 +45139,14 @@ For example, A and B may be gene products and binding of B by A positively regul The notochordal process grows cranially until it reaches the prechordal plate, the future site of the mouth. In this area the ectoderm is attached directly to the endoderm without intervening mesoderm. This area is known as the oropharyngeal membrane, and it will break down to become the mouth. At the other end of the primitive streak the ectoderm is also fused directly to the endoderm; this is known as the cloacal membrane (proctodeum), or primordial anus. notochordal process - + - + EHDAA2 @@ -45882,7 +45690,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A region of nephron tubule that is part of a cortex of kidney. EMAPA:18976 MA:0002609 @@ -45892,14 +45700,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0006853 renal cortex tubule - + - + MA @@ -45940,6 +45748,7 @@ For example, A and B may be gene products and binding of B by A positively regul The distalmost portion of the digestive tract, derived from the hindgut, and terminating with the anus. + FBbt:00005756 WBbt:0005773 rectum uberon @@ -45954,6 +45763,12 @@ For example, A and B may be gene products and binding of B by A positively regul The distalmost portion of the digestive tract, derived from the hindgut, and terminating with the anus. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00005756 + + @@ -46063,7 +45878,6 @@ For example, A and B may be gene products and binding of B by A positively regul - @@ -46565,7 +46379,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -46591,7 +46405,7 @@ For example, A and B may be gene products and binding of B by A positively regul presumptive paraxial mesoderm - + @@ -46607,7 +46421,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + https://github.com/obophenotype/uberon/issues/1277 @@ -46768,7 +46582,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Mesenchyme with little extracellular matrix. AEO:0000146 EHDAA2:0003146 @@ -46776,7 +46590,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0007524 dense mesenchyme tissue - + @@ -46789,7 +46603,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + AEO @@ -46960,6 +46774,7 @@ For example, A and B may be gene products and binding of B by A positively regul AEO:0000170 EFO:0001649 EHDAA2:0003170 + FBbt:00005426 Wikipedia:Anlage_(biology) developmental field uberon @@ -46989,6 +46804,12 @@ For example, A and B may be gene products and binding of B by A positively regul FBbt:00005426 http://flybase.org/reports/FBrf0178740.html + + + + FBbt:00005426 + + @@ -46996,7 +46817,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Anatomical system that consists of all blood and lymph vessels. consider merging with vasculature @@ -47013,14 +46834,14 @@ For example, A and B may be gene products and binding of B by A positively regul vascular system - + - + MA @@ -47158,7 +46979,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -47196,14 +47017,14 @@ For example, A and B may be gene products and binding of B by A positively regul pelvic girdle skeleton http://upload.wikimedia.org/wikipedia/commons/f/fe/Gray242.png - + - + PMID:21455939 @@ -47256,7 +47077,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The functional tissue of the kidney, consisting of the nephrons. BTO:0003604 FMA:15574 @@ -47267,7 +47088,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0008987 renal parenchyma - + @@ -47280,7 +47101,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + FMA @@ -47350,7 +47171,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -47367,14 +47188,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0009142 entire embryonic mesenchyme - + - + EHDAA2 @@ -47493,7 +47314,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2:0002094 trunk and cervical paraxial mesenchyme uberon @@ -47501,14 +47322,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0009618 trunk paraxial mesoderm - + - + EHDAA2 @@ -47607,7 +47428,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EFO:0003704 TAO:0005041 ZFA:0005041 @@ -47617,14 +47438,14 @@ For example, A and B may be gene products and binding of B by A positively regul anterior lateral plate mesoderm - + - + ZFA @@ -47885,6 +47706,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0010000 + FBbt:00100313 multicellular structure uberon UBERON:0010000 @@ -47898,6 +47720,12 @@ For example, A and B may be gene products and binding of B by A positively regul An anatomical structure that has more than one cell as a part. CARO:0010000 + + + + FBbt:00100313 + + @@ -47938,7 +47766,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -47956,14 +47784,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0010227 future cardiac atrium - + - + ZFA @@ -48106,7 +47934,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -48120,7 +47948,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0010377 mesenchyme from somatopleure - + @@ -48133,7 +47961,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 @@ -48149,7 +47977,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + A vessel of the microcirculature, lying between the arterioles and venules; includes capillaries (blood and lymphatic), metarterioles and arteriovenous anastomoses. MESH:D055806 TAO:0005251 @@ -48159,14 +47987,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0010523 microcirculatory vessel - + - + ZFA @@ -48199,7 +48027,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -48215,7 +48043,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0010532 primitive nephron - + @@ -48228,7 +48056,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2 @@ -48244,7 +48072,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -48255,7 +48083,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0010536 nephron progenitor - + @@ -48268,7 +48096,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + cjm @@ -48511,8 +48339,8 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + Anatomical cluster consisting of the skeletal elements (i.e. bone elements, cartilage elements, cartilage condensations) that are part of an individual subdivision of the organism. Excludes joints. FMA:23879 SCTID:129140006 @@ -48524,11 +48352,11 @@ For example, A and B may be gene products and binding of B by A positively regul subdivision of skeleton - + - + @@ -48541,13 +48369,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + UBERONREF:0000003 - + VSAO @@ -48608,7 +48436,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + Subdivision of the skeletal system which consists of the postcranial axial skeleton plus associated joints. axial skeletal system FMA:302077 @@ -48618,7 +48446,7 @@ For example, A and B may be gene products and binding of B by A positively regul postcranial axial skeletal system http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton - + @@ -48631,7 +48459,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + cjm @@ -48655,7 +48483,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -48680,14 +48508,14 @@ For example, A and B may be gene products and binding of B by A positively regul upper urinary tract - + - + FMA @@ -48714,6 +48542,7 @@ For example, A and B may be gene products and binding of B by A positively regul + FBbt:00007330 FMA:67509 SCTID:91690000 uberon @@ -48735,6 +48564,12 @@ For example, A and B may be gene products and binding of B by A positively regul A subdivision of an anatomical system. http://orcid.org/0000-0002-6601-2165 + + + + FBbt:00007330 + + @@ -48998,7 +48833,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -49013,14 +48848,14 @@ For example, A and B may be gene products and binding of B by A positively regul We presume this is distinct from AAO:0001003, an external integumentary structure - check with amphibian anatomy ontology developers. AO notes: the text def states mesenchymal swelling, EHDAA2 splits into mesenchymal and epithelial parts embryonic cloacal fold - + - + EHDAA2 @@ -49043,20 +48878,20 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2:0004588 uberon UBERON:0012361 internal anal region - + - + EHDAA2 @@ -49066,20 +48901,20 @@ For example, A and B may be gene products and binding of B by A positively regul - + EHDAA2:0004589 uberon UBERON:0012469 external anal region - + - + EHDAA2 @@ -49106,7 +48941,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -49126,14 +48961,14 @@ For example, A and B may be gene products and binding of B by A positively regul skeleton of pelvic complex - + - + FMA @@ -49185,7 +49020,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The precursor of the urethra. SCTID:361531004 Wikipedia:Urethral_groove @@ -49196,14 +49031,14 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0013241 embryonic urethral groove - + - + Wikipedia @@ -49774,7 +49609,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -49797,7 +49632,7 @@ For example, A and B may be gene products and binding of B by A positively regul UBERON:0016887 entire extraembryonic component - + @@ -49810,7 +49645,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + AEO @@ -49938,6 +49773,7 @@ For example, A and B may be gene products and binding of B by A positively regul CARO:0020000 + FBbt:00007276 uberon UBERON:0034923 @@ -49955,6 +49791,12 @@ For example, A and B may be gene products and binding of B by A positively regul Material anatomical entity consisting of multiple anatomical structures that are not connected to each other. CARO:0020000 + + + + FBbt:00007276 + + @@ -50214,7 +50056,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + The upper tract of the renal system. The renal pelvis is the large cavity in the middle of each kidney. Urine drains from each kidney through a long tube called the ureter, into the bladder, where it is stored until it is passed from the body through the urethra. NCIT:C54419 @@ -50225,14 +50067,14 @@ For example, A and B may be gene products and binding of B by A positively regul renal pelvis/ureter - + - + NCIT @@ -50573,781 +50415,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - If a molecular function (X) has a regulatory subfunction, then any gene product which is an input to that subfunction has an activity that directly_regulates X. Note: this is intended for cases where the regaultory subfunction is protein binding, so it could be tightened with an additional clause to specify this. - inferring direct reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - inferring direct neg reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - inferring direct positive reg edge from input to regulatory subfunction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - effector input is compound function input - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Input of effector is input of its parent MF - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly regulates X, its parent MF directly regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly positively regulates X, its parent MF directly positively regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - if effector directly negatively regulates X, its parent MF directly negatively regulates X - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - 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_:B54f689ccX2D0367X2D4df3X2DaeacX2D9aa5d0817600genid994 "renal interstitial pericyte" "interstitial cell" "perivascular cell" - "reproduction" "microtubule cytoskeleton organization" "mitotic cell cycle" "nuclear division" @@ -660,7 +649,6 @@ _:B54f689ccX2D0367X2D4df3X2DaeacX2D9aa5d0817600genid994 "bleb assembly" "multicellular organismal process" "developmental process" - "multicellular organism reproduction" "plasma membrane bounded cell projection cytoplasm" "secretion by cell" "protein-containing complex disassembly" @@ -927,7 +915,6 @@ _:B54f689ccX2D0367X2D4df3X2DaeacX2D9aa5d0817600genid994 "Mus musculus protein" "eukaryotic protein" "angiotensinogenase" - "protein-containing material entity" "processual entity" "tube" "appendage"